[{"isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000577142600032"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1038/s41598-020-72848-0","publication_identifier":{"eissn":["20452322"]},"month":"10","department":[{"_id":"MaJö"}],"publisher":"Springer Nature","publication_status":"published","year":"2020","acknowledgement":"We thank Elisa Sentis and Solano Henriquez for their expert technical assistance. Dr. David Sterratt for his helpful advice in using the Retistruct package. Dr. Joao Botelho for his valuable assistance in scanning the retinas. To Mrs. Diane Greenstein for kindly reading and correcting our manuscript. Macarena Ruiz for her helpful comments during figures elaboration. Dr. Alexia Nunez-Parra for kindly providing us with the transgenic mouse line. Dr. Harald Luksch for granting us access to the confocal microscope at his lab. This study was supported by: FONDECYT 1151432 (to G.M.), FONDECYT 1170027 (to J.M.) and Doctoral fellowship CONICYT 21161599 (to A.D.).","volume":10,"date_created":"2020-10-11T22:01:14Z","date_updated":"2023-08-22T09:58:21Z","author":[{"full_name":"Deichler, Alfonso","first_name":"Alfonso","last_name":"Deichler"},{"full_name":"Carrasco, Denisse","first_name":"Denisse","last_name":"Carrasco"},{"last_name":"Lopez-Jury","first_name":"Luciana","full_name":"Lopez-Jury, Luciana"},{"full_name":"Vega Zuniga, Tomas A","first_name":"Tomas A","last_name":"Vega Zuniga","id":"2E7C4E78-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Marquez, Natalia","first_name":"Natalia","last_name":"Marquez"},{"last_name":"Mpodozis","first_name":"Jorge","full_name":"Mpodozis, Jorge"},{"full_name":"Marin, Gonzalo","first_name":"Gonzalo","last_name":"Marin"}],"article_number":"16220","license":"https://creativecommons.org/licenses/by/4.0/","file_date_updated":"2020-10-12T12:39:10Z","article_type":"original","citation":{"apa":"Deichler, A., Carrasco, D., Lopez-Jury, L., Vega Zuniga, T. A., Marquez, N., Mpodozis, J., & Marin, G. (2020). A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-020-72848-0","ieee":"A. Deichler et al., “A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents,” Scientific Reports, vol. 10. Springer Nature, 2020.","ista":"Deichler A, Carrasco D, Lopez-Jury L, Vega Zuniga TA, Marquez N, Mpodozis J, Marin G. 2020. A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents. Scientific Reports. 10, 16220.","ama":"Deichler A, Carrasco D, Lopez-Jury L, et al. A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents. Scientific Reports. 2020;10. doi:10.1038/s41598-020-72848-0","chicago":"Deichler, Alfonso, Denisse Carrasco, Luciana Lopez-Jury, Tomas A Vega Zuniga, Natalia Marquez, Jorge Mpodozis, and Gonzalo Marin. “A Specialized Reciprocal Connectivity Suggests a Link between the Mechanisms by Which the Superior Colliculus and Parabigeminal Nucleus Produce Defensive Behaviors in Rodents.” Scientific Reports. Springer Nature, 2020. https://doi.org/10.1038/s41598-020-72848-0.","short":"A. Deichler, D. Carrasco, L. Lopez-Jury, T.A. Vega Zuniga, N. Marquez, J. Mpodozis, G. Marin, Scientific Reports 10 (2020).","mla":"Deichler, Alfonso, et al. “A Specialized Reciprocal Connectivity Suggests a Link between the Mechanisms by Which the Superior Colliculus and Parabigeminal Nucleus Produce Defensive Behaviors in Rodents.” Scientific Reports, vol. 10, 16220, Springer Nature, 2020, doi:10.1038/s41598-020-72848-0."},"publication":"Scientific Reports","date_published":"2020-10-01T00:00:00Z","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"01","intvolume":" 10","status":"public","ddc":["570"],"title":"A specialized reciprocal connectivity suggests a link between the mechanisms by which the superior colliculus and parabigeminal nucleus produce defensive behaviors in rodents","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8643","file":[{"success":1,"checksum":"f6dd99954f1c0ffb4da5a1d2d739bf31","date_created":"2020-10-12T12:39:10Z","date_updated":"2020-10-12T12:39:10Z","file_id":"8651","relation":"main_file","creator":"dernst","file_size":3906744,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_ScientificReport_Deichler.pdf"}],"oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"The parabigeminal nucleus (PBG) is the mammalian homologue to the isthmic complex of other vertebrates. Optogenetic stimulation of the PBG induces freezing and escape in mice, a result thought to be caused by a PBG projection to the central nucleus of the amygdala. However, the isthmic complex, including the PBG, has been classically considered satellite nuclei of the Superior Colliculus (SC), which upon stimulation of its medial part also triggers fear and avoidance reactions. As the PBG-SC connectivity is not well characterized, we investigated whether the topology of the PBG projection to the SC could be related to the behavioral consequences of PBG stimulation. To that end, we performed immunohistochemistry, in situ hybridization and neural tracer injections in the SC and PBG in a diurnal rodent, the Octodon degus. We found that all PBG neurons expressed both glutamatergic and cholinergic markers and were distributed in clearly defined anterior (aPBG) and posterior (pPBG) subdivisions. The pPBG is connected reciprocally and topographically to the ipsilateral SC, whereas the aPBG receives afferent axons from the ipsilateral SC and projected exclusively to the contralateral SC. This contralateral projection forms a dense field of terminals that is restricted to the medial SC, in correspondence with the SC representation of the aerial binocular field which, we also found, in O. degus prompted escape reactions upon looming stimulation. Therefore, this specialized topography allows binocular interactions in the SC region controlling responses to aerial predators, suggesting a link between the mechanisms by which the SC and PBG produce defensive behaviors."}]},{"language":[{"iso":"eng"}],"doi":"10.1093/bioinformatics/btz841","project":[{"_id":"26120F5C-B435-11E9-9278-68D0E5697425","grant_number":"335980","name":"Systematic investigation of epistasis in molecular evolution","call_identifier":"FP7"}],"quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"external_id":{"isi":["000538696800054"],"pmid":["31742320"]},"oa":1,"publication_identifier":{"issn":["1367-4803"],"eissn":["1460-2059"]},"month":"03","volume":36,"date_updated":"2023-08-22T09:57:29Z","date_created":"2020-10-11T22:01:14Z","author":[{"first_name":"Laura A","last_name":"Esteban","full_name":"Esteban, Laura A"},{"first_name":"Lyubov R","last_name":"Lonishin","full_name":"Lonishin, Lyubov R"},{"last_name":"Bobrovskiy","first_name":"Daniil M","full_name":"Bobrovskiy, Daniil M"},{"last_name":"Leleytner","first_name":"Gregory","full_name":"Leleytner, Gregory"},{"first_name":"Natalya S","last_name":"Bogatyreva","full_name":"Bogatyreva, Natalya S"},{"id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8243-4694","first_name":"Fyodor","last_name":"Kondrashov","full_name":"Kondrashov, Fyodor"},{"last_name":"Ivankov","first_name":"Dmitry N ","full_name":"Ivankov, Dmitry N "}],"department":[{"_id":"FyKo"}],"publisher":"Oxford Academic","publication_status":"published","pmid":1,"acknowledgement":"This work was supported by the European Research Council under the European Union’s Seventh Framework Programme (FP7/2007-2013, ERC grant agreement 335980_EinME) and Startup package to the Ivankov laboratory at Skolkovo Institute of Science and Technology. The work was started at the School of Molecular and Theoretical Biology 2017 supported by the Zimin Foundation. N.S.B. was supported by the Woman Scientists Support Grant in Centre for Genomic Regulation (CRG). ","year":"2020","license":"https://creativecommons.org/licenses/by-nc/4.0/","ec_funded":1,"file_date_updated":"2020-10-12T12:02:09Z","date_published":"2020-03-15T00:00:00Z","page":"1960-1962","article_type":"original","citation":{"short":"L.A. Esteban, L.R. Lonishin, D.M. Bobrovskiy, G. Leleytner, N.S. Bogatyreva, F. Kondrashov, D.N. Ivankov, Bioinformatics 36 (2020) 1960–1962.","mla":"Esteban, Laura A., et al. “HypercubeME: Two Hundred Million Combinatorially Complete Datasets from a Single Experiment.” Bioinformatics, vol. 36, no. 6, Oxford Academic, 2020, pp. 1960–62, doi:10.1093/bioinformatics/btz841.","chicago":"Esteban, Laura A, Lyubov R Lonishin, Daniil M Bobrovskiy, Gregory Leleytner, Natalya S Bogatyreva, Fyodor Kondrashov, and Dmitry N Ivankov. “HypercubeME: Two Hundred Million Combinatorially Complete Datasets from a Single Experiment.” Bioinformatics. Oxford Academic, 2020. https://doi.org/10.1093/bioinformatics/btz841.","ama":"Esteban LA, Lonishin LR, Bobrovskiy DM, et al. HypercubeME: Two hundred million combinatorially complete datasets from a single experiment. Bioinformatics. 2020;36(6):1960-1962. doi:10.1093/bioinformatics/btz841","apa":"Esteban, L. A., Lonishin, L. R., Bobrovskiy, D. M., Leleytner, G., Bogatyreva, N. S., Kondrashov, F., & Ivankov, D. N. (2020). HypercubeME: Two hundred million combinatorially complete datasets from a single experiment. Bioinformatics. Oxford Academic. https://doi.org/10.1093/bioinformatics/btz841","ieee":"L. A. Esteban et al., “HypercubeME: Two hundred million combinatorially complete datasets from a single experiment,” Bioinformatics, vol. 36, no. 6. Oxford Academic, pp. 1960–1962, 2020.","ista":"Esteban LA, Lonishin LR, Bobrovskiy DM, Leleytner G, Bogatyreva NS, Kondrashov F, Ivankov DN. 2020. HypercubeME: Two hundred million combinatorially complete datasets from a single experiment. Bioinformatics. 36(6), 1960–1962."},"publication":"Bioinformatics","article_processing_charge":"No","has_accepted_license":"1","day":"15","scopus_import":"1","oa_version":"Published Version","file":[{"creator":"dernst","content_type":"application/pdf","file_size":308341,"access_level":"open_access","file_name":"2020_Bioinformatics_Esteban.pdf","success":1,"checksum":"21d6f71839deb3b83e4a356193f72767","date_updated":"2020-10-12T12:02:09Z","date_created":"2020-10-12T12:02:09Z","file_id":"8649","relation":"main_file"}],"intvolume":" 36","title":"HypercubeME: Two hundred million combinatorially complete datasets from a single experiment","ddc":["000","570"],"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8645","issue":"6","abstract":[{"lang":"eng","text":"Epistasis, the context-dependence of the contribution of an amino acid substitution to fitness, is common in evolution. To detect epistasis, fitness must be measured for at least four genotypes: the reference genotype, two different single mutants and a double mutant with both of the single mutations. For higher-order epistasis of the order n, fitness has to be measured for all 2n genotypes of an n-dimensional hypercube in genotype space forming a ‘combinatorially complete dataset’. So far, only a handful of such datasets have been produced by manual curation. Concurrently, random mutagenesis experiments have produced measurements of fitness and other phenotypes in a high-throughput manner, potentially containing a number of combinatorially complete datasets. We present an effective recursive algorithm for finding all hypercube structures in random mutagenesis experimental data. To test the algorithm, we applied it to the data from a recent HIS3 protein dataset and found all 199 847 053 unique combinatorially complete genotype combinations of dimensionality ranging from 2 to 12. The algorithm may be useful for researchers looking for higher-order epistasis in their high-throughput experimental data."}],"type":"journal_article"},{"scopus_import":"1","day":"23","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","publication":"Physical Biology","citation":{"ieee":"J. Merrin, “Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide,” Physical Biology, vol. 17, no. 6. IOP Publishing, 2020.","apa":"Merrin, J. (2020). Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide. Physical Biology. IOP Publishing. https://doi.org/10.1088/1478-3975/abb2db","ista":"Merrin J. 2020. Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide. Physical Biology. 17(6), 065005.","ama":"Merrin J. Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide. Physical Biology. 2020;17(6). doi:10.1088/1478-3975/abb2db","chicago":"Merrin, Jack. “Differences in Power Law Growth over Time and Indicators of COVID-19 Pandemic Progression Worldwide.” Physical Biology. IOP Publishing, 2020. https://doi.org/10.1088/1478-3975/abb2db.","short":"J. Merrin, Physical Biology 17 (2020).","mla":"Merrin, Jack. “Differences in Power Law Growth over Time and Indicators of COVID-19 Pandemic Progression Worldwide.” Physical Biology, vol. 17, no. 6, 065005, IOP Publishing, 2020, doi:10.1088/1478-3975/abb2db."},"article_type":"original","date_published":"2020-09-23T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Error analysis and data visualization of positive COVID-19 cases in 27 countries have been performed up to August 8, 2020. This survey generally observes a progression from early exponential growth transitioning to an intermediate power-law growth phase, as recently suggested by Ziff and Ziff. The occurrence of logistic growth after the power-law phase with lockdowns or social distancing may be described as an effect of avoidance. A visualization of the power-law growth exponent over short time windows is qualitatively similar to the Bhatia visualization for pandemic progression. Visualizations like these can indicate the onset of second waves and may influence social policy."}],"issue":"6","_id":"8597","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","ddc":["510","570"],"title":"Differences in power law growth over time and indicators of COVID-19 pandemic progression worldwide","intvolume":" 17","oa_version":"Published Version","file":[{"file_id":"8609","relation":"main_file","success":1,"checksum":"fec9bdd355ed349f09990faab20838a7","date_updated":"2020-10-05T13:53:59Z","date_created":"2020-10-05T13:53:59Z","access_level":"open_access","file_name":"2020_PhysBio_Merrin.pdf","creator":"dernst","content_type":"application/pdf","file_size":1667111}],"month":"09","publication_identifier":{"eissn":["14783975"]},"external_id":{"isi":["000575539700001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","isi":1,"doi":"10.1088/1478-3975/abb2db","language":[{"iso":"eng"}],"article_number":"065005","file_date_updated":"2020-10-05T13:53:59Z","year":"2020","acknowledgement":"I would especially like to thank Michael Sixt for encouraging me to think about these problems while working at home due to restrictions in place. I want to thank Nick Barton, Katka Bodova, Matthew Robinson, Simon Rella, Federico Sau, Ivan Prieto, and Pradeep Kumar for useful discussions.","publication_status":"published","publisher":"IOP Publishing","department":[{"_id":"NanoFab"}],"author":[{"full_name":"Merrin, Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","first_name":"Jack"}],"date_updated":"2023-08-22T09:53:29Z","date_created":"2020-10-04T22:01:35Z","volume":17},{"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000603428000010"],"pmid":["32976770"]},"isi":1,"quality_controlled":"1","doi":"10.1016/j.neuron.2020.08.030","language":[{"iso":"eng"}],"month":"12","publication_identifier":{"issn":["08966273"],"eissn":["10974199"]},"year":"2020","acknowledgement":"We thank J. Angibaud for organotypic cultures and R. Chereau and J. Tonnesen for help with the STED microscope; also D. Gonzales and the Neurocentre Magendie INSERM U1215 Genotyping Platform, for breeding management and genotyping. This work was supported by the Wellcome Trust Principal Fellowships 101896 and 212251, ERC Advanced Grant 323113, ERC Proof-of-Concept Grant 767372, EC FP7 ITN 606950, and EU CSA 811011 (D.A.R.); NRW-Rückkehrerpogramm, UCL Excellence Fellowship, German Research Foundation (DFG) SPP1757 and SFB1089 (C.H.); Human Frontiers Science Program (C.H., C.J.J., and H.J.); EMBO Long-Term Fellowship (L.B.); Marie Curie FP7 PIRG08-GA-2010-276995 (A.P.), ASTROMODULATION (S.R.); Equipe FRM DEQ 201 303 26519, Conseil Régional d’Aquitaine R12056GG, INSERM (S.H.R.O.); ANR SUPERTri, ANR Castro (ANR-17-CE16-0002), R-13-BSV4-0007-01, Université de Bordeaux, labex BRAIN (S.H.R.O. and U.V.N.); CNRS (A.P., S.H.R.O., and U.V.N.); HFSP, ANR CEXC, and France-BioImaging ANR-10-INSB-04 (U.V.N.); and FP7 MemStick Project No. 201600 (M.G.S.).","pmid":1,"publication_status":"published","department":[{"_id":"HaJa"}],"publisher":"Elsevier","author":[{"full_name":"Henneberger, Christian","first_name":"Christian","last_name":"Henneberger"},{"full_name":"Bard, Lucie","last_name":"Bard","first_name":"Lucie"},{"full_name":"Panatier, Aude","first_name":"Aude","last_name":"Panatier"},{"last_name":"Reynolds","first_name":"James P.","full_name":"Reynolds, James P."},{"first_name":"Olga","last_name":"Kopach","full_name":"Kopach, Olga"},{"last_name":"Medvedev","first_name":"Nikolay I.","full_name":"Medvedev, Nikolay I."},{"last_name":"Minge","first_name":"Daniel","full_name":"Minge, Daniel"},{"last_name":"Herde","first_name":"Michel K.","full_name":"Herde, Michel K."},{"full_name":"Anders, Stefanie","first_name":"Stefanie","last_name":"Anders"},{"first_name":"Igor","last_name":"Kraev","full_name":"Kraev, Igor"},{"full_name":"Heller, Janosch P.","first_name":"Janosch P.","last_name":"Heller"},{"full_name":"Rama, Sylvain","last_name":"Rama","first_name":"Sylvain"},{"first_name":"Kaiyu","last_name":"Zheng","full_name":"Zheng, Kaiyu"},{"full_name":"Jensen, Thomas P.","first_name":"Thomas P.","last_name":"Jensen"},{"first_name":"Inmaculada","last_name":"Sanchez-Romero","id":"3D9C5D30-F248-11E8-B48F-1D18A9856A87","full_name":"Sanchez-Romero, Inmaculada"},{"first_name":"Colin J.","last_name":"Jackson","full_name":"Jackson, Colin J."},{"full_name":"Janovjak, Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8023-9315","first_name":"Harald L","last_name":"Janovjak"},{"full_name":"Ottersen, Ole Petter","first_name":"Ole Petter","last_name":"Ottersen"},{"full_name":"Nagelhus, Erlend Arnulf","last_name":"Nagelhus","first_name":"Erlend Arnulf"},{"first_name":"Stephane H.R.","last_name":"Oliet","full_name":"Oliet, Stephane H.R."},{"full_name":"Stewart, Michael G.","first_name":"Michael G.","last_name":"Stewart"},{"first_name":"U. VAlentin","last_name":"Nägerl","full_name":"Nägerl, U. VAlentin"},{"last_name":"Rusakov","first_name":"Dmitri A. ","full_name":"Rusakov, Dmitri A. "}],"date_created":"2020-10-18T22:01:38Z","date_updated":"2023-08-22T09:59:29Z","volume":108,"file_date_updated":"2020-12-10T14:42:09Z","publication":"Neuron","citation":{"ieee":"C. Henneberger et al., “LTP induction boosts glutamate spillover by driving withdrawal of perisynaptic astroglia,” Neuron, vol. 108, no. 5. Elsevier, p. P919–936.E11, 2020.","apa":"Henneberger, C., Bard, L., Panatier, A., Reynolds, J. P., Kopach, O., Medvedev, N. I., … Rusakov, D. A. (2020). LTP induction boosts glutamate spillover by driving withdrawal of perisynaptic astroglia. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2020.08.030","ista":"Henneberger C, Bard L, Panatier A, Reynolds JP, Kopach O, Medvedev NI, Minge D, Herde MK, Anders S, Kraev I, Heller JP, Rama S, Zheng K, Jensen TP, Sanchez-Romero I, Jackson CJ, Janovjak HL, Ottersen OP, Nagelhus EA, Oliet SHR, Stewart MG, Nägerl UVa, Rusakov DA. 2020. LTP induction boosts glutamate spillover by driving withdrawal of perisynaptic astroglia. Neuron. 108(5), P919–936.E11.","ama":"Henneberger C, Bard L, Panatier A, et al. LTP induction boosts glutamate spillover by driving withdrawal of perisynaptic astroglia. Neuron. 2020;108(5):P919-936.E11. doi:10.1016/j.neuron.2020.08.030","chicago":"Henneberger, Christian, Lucie Bard, Aude Panatier, James P. Reynolds, Olga Kopach, Nikolay I. Medvedev, Daniel Minge, et al. “LTP Induction Boosts Glutamate Spillover by Driving Withdrawal of Perisynaptic Astroglia.” Neuron. Elsevier, 2020. https://doi.org/10.1016/j.neuron.2020.08.030.","short":"C. Henneberger, L. Bard, A. Panatier, J.P. Reynolds, O. Kopach, N.I. Medvedev, D. Minge, M.K. Herde, S. Anders, I. Kraev, J.P. Heller, S. Rama, K. Zheng, T.P. Jensen, I. Sanchez-Romero, C.J. Jackson, H.L. Janovjak, O.P. Ottersen, E.A. Nagelhus, S.H.R. Oliet, M.G. Stewart, U.Va. Nägerl, D.A. Rusakov, Neuron 108 (2020) P919–936.E11.","mla":"Henneberger, Christian, et al. “LTP Induction Boosts Glutamate Spillover by Driving Withdrawal of Perisynaptic Astroglia.” Neuron, vol. 108, no. 5, Elsevier, 2020, p. P919–936.E11, doi:10.1016/j.neuron.2020.08.030."},"article_type":"original","page":"P919-936.E11","date_published":"2020-12-09T00:00:00Z","scopus_import":"1","day":"09","has_accepted_license":"1","article_processing_charge":"No","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8674","title":"LTP induction boosts glutamate spillover by driving withdrawal of perisynaptic astroglia","ddc":["570"],"status":"public","intvolume":" 108","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"2020_Neuron_Henneberger.pdf","file_size":7518960,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"8939","checksum":"054562bb50165ef9a1f46631c1c5e36b","success":1,"date_updated":"2020-12-10T14:42:09Z","date_created":"2020-12-10T14:42:09Z"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Extrasynaptic actions of glutamate are limited by high-affinity transporters expressed by perisynaptic astroglial processes (PAPs): this helps maintain point-to-point transmission in excitatory circuits. Memory formation in the brain is associated with synaptic remodeling, but how this affects PAPs and therefore extrasynaptic glutamate actions is poorly understood. Here, we used advanced imaging methods, in situ and in vivo, to find that a classical synaptic memory mechanism, long-term potentiation (LTP), triggers withdrawal of PAPs from potentiated synapses. Optical glutamate sensors combined with patch-clamp and 3D molecular localization reveal that LTP induction thus prompts spatial retreat of astroglial glutamate transporters, boosting glutamate spillover and NMDA-receptor-mediated inter-synaptic cross-talk. The LTP-triggered PAP withdrawal involves NKCC1 transporters and the actin-controlling protein cofilin but does not depend on major Ca2+-dependent cascades in astrocytes. We have therefore uncovered a mechanism by which a memory trace at one synapse could alter signal handling by multiple neighboring connections."}],"issue":"5"},{"publication_identifier":{"issn":["2399-3650"]},"month":"10","external_id":{"isi":["000581681000001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"grant_number":"P29902","_id":"26031614-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Quantum rotations in the presence of a many-body environment"},{"name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020","_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770"}],"isi":1,"quality_controlled":"1","doi":"10.1038/s42005-020-00445-8","language":[{"iso":"eng"}],"article_number":"178","ec_funded":1,"file_date_updated":"2020-10-14T15:16:28Z","acknowledgement":"This work has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411 (A.G.V. and A.G.). M.L. acknowledges support by the Austrian Science Fund (FWF), under project No. P29902-N27, and by the European Research Council (ERC) Starting\r\nGrant No. 801770 (ANGULON).","year":"2020","department":[{"_id":"MiLe"}],"publisher":"Springer Nature","publication_status":"published","author":[{"orcid":"0000-0001-9666-3543","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","last_name":"Ghazaryan","first_name":"Areg","full_name":"Ghazaryan, Areg"},{"full_name":"Lemeshko, Mikhail","first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802"},{"first_name":"Artem","last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0393-5525","full_name":"Volosniev, Artem"}],"volume":3,"date_created":"2020-10-13T09:48:59Z","date_updated":"2023-08-22T09:58:46Z","scopus_import":"1","article_processing_charge":"Yes","has_accepted_license":"1","day":"09","citation":{"ama":"Ghazaryan A, Lemeshko M, Volosniev A. Filtering spins by scattering from a lattice of point magnets. Communications Physics. 2020;3. doi:10.1038/s42005-020-00445-8","ieee":"A. Ghazaryan, M. Lemeshko, and A. Volosniev, “Filtering spins by scattering from a lattice of point magnets,” Communications Physics, vol. 3. Springer Nature, 2020.","apa":"Ghazaryan, A., Lemeshko, M., & Volosniev, A. (2020). Filtering spins by scattering from a lattice of point magnets. Communications Physics. Springer Nature. https://doi.org/10.1038/s42005-020-00445-8","ista":"Ghazaryan A, Lemeshko M, Volosniev A. 2020. Filtering spins by scattering from a lattice of point magnets. Communications Physics. 3, 178.","short":"A. Ghazaryan, M. Lemeshko, A. Volosniev, Communications Physics 3 (2020).","mla":"Ghazaryan, Areg, et al. “Filtering Spins by Scattering from a Lattice of Point Magnets.” Communications Physics, vol. 3, 178, Springer Nature, 2020, doi:10.1038/s42005-020-00445-8.","chicago":"Ghazaryan, Areg, Mikhail Lemeshko, and Artem Volosniev. “Filtering Spins by Scattering from a Lattice of Point Magnets.” Communications Physics. Springer Nature, 2020. https://doi.org/10.1038/s42005-020-00445-8."},"publication":"Communications Physics","article_type":"original","date_published":"2020-10-09T00:00:00Z","type":"journal_article","abstract":[{"text":"Nature creates electrons with two values of the spin projection quantum number. In certain applications, it is important to filter electrons with one spin projection from the rest. Such filtering is not trivial, since spin-dependent interactions are often weak, and cannot lead to any substantial effect. Here we propose an efficient spin filter based upon scattering from a two-dimensional crystal, which is made of aligned point magnets. The polarization of the outgoing electron flux is controlled by the crystal, and reaches maximum at specific values of the parameters. In our scheme, polarization increase is accompanied by higher reflectivity of the crystal. High transmission is feasible in scattering from a quantum cavity made of two crystals. Our findings can be used for studies of low-energy spin-dependent scattering from two-dimensional ordered structures made of magnetic atoms or aligned chiral molecules.","lang":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8652","intvolume":" 3","ddc":["530"],"status":"public","title":"Filtering spins by scattering from a lattice of point magnets","file":[{"date_created":"2020-10-14T15:16:28Z","date_updated":"2020-10-14T15:16:28Z","checksum":"60cd35b99f0780acffc7b6060e49ec8b","success":1,"relation":"main_file","file_id":"8662","content_type":"application/pdf","file_size":1462934,"creator":"dernst","file_name":"2020_CommPhysics_Ghazaryan.pdf","access_level":"open_access"}],"oa_version":"Published Version"},{"file_date_updated":"2020-10-19T11:27:46Z","article_number":"5037","volume":11,"date_created":"2020-10-18T22:01:35Z","date_updated":"2023-08-22T10:18:17Z","author":[{"full_name":"Sznurkowska, Magdalena K.","first_name":"Magdalena K.","last_name":"Sznurkowska"},{"first_name":"Edouard B","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B"},{"first_name":"Roberta","last_name":"Azzarelli","full_name":"Azzarelli, Roberta"},{"full_name":"Chatzeli, Lemonia","last_name":"Chatzeli","first_name":"Lemonia"},{"first_name":"Tatsuro","last_name":"Ikeda","full_name":"Ikeda, Tatsuro"},{"full_name":"Yoshida, Shosei","first_name":"Shosei","last_name":"Yoshida"},{"full_name":"Philpott, Anna","first_name":"Anna","last_name":"Philpott"},{"full_name":"Simons, Benjamin D","last_name":"Simons","first_name":"Benjamin D"}],"department":[{"_id":"EdHa"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"year":"2020","publication_identifier":{"eissn":["20411723"]},"month":"10","language":[{"iso":"eng"}],"doi":"10.1038/s41467-020-18837-3","isi":1,"quality_controlled":"1","external_id":{"pmid":["33028844"],"isi":["000577244600003"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"abstract":[{"lang":"eng","text":"Pancreatic islets play an essential role in regulating blood glucose level. Although the molecular pathways underlying islet cell differentiation are beginning to be resolved, the cellular basis of islet morphogenesis and fate allocation remain unclear. By combining unbiased and targeted lineage tracing, we address the events leading to islet formation in the mouse. From the statistical analysis of clones induced at multiple embryonic timepoints, here we show that, during the secondary transition, islet formation involves the aggregation of multiple equipotent endocrine progenitors that transition from a phase of stochastic amplification by cell division into a phase of sublineage restriction and limited islet fission. Together, these results explain quantitatively the heterogeneous size distribution and degree of polyclonality of maturing islets, as well as dispersion of progenitors within and between islets. Further, our results show that, during the secondary transition, α- and β-cells are generated in a contemporary manner. Together, these findings provide insight into the cellular basis of islet development."}],"type":"journal_article","oa_version":"Published Version","file":[{"file_id":"8677","relation":"main_file","date_updated":"2020-10-19T11:27:46Z","date_created":"2020-10-19T11:27:46Z","success":1,"checksum":"0ecc0eab72d2d50694852579611a6624","file_name":"2020_NatureComm_Sznurkowska.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":5540540}],"intvolume":" 11","ddc":["570"],"status":"public","title":"Tracing the cellular basis of islet specification in mouse pancreas","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8669","has_accepted_license":"1","article_processing_charge":"No","day":"07","scopus_import":"1","date_published":"2020-10-07T00:00:00Z","article_type":"original","citation":{"short":"M.K. Sznurkowska, E.B. Hannezo, R. Azzarelli, L. Chatzeli, T. Ikeda, S. Yoshida, A. Philpott, B.D. Simons, Nature Communications 11 (2020).","mla":"Sznurkowska, Magdalena K., et al. “Tracing the Cellular Basis of Islet Specification in Mouse Pancreas.” Nature Communications, vol. 11, 5037, Springer Nature, 2020, doi:10.1038/s41467-020-18837-3.","chicago":"Sznurkowska, Magdalena K., Edouard B Hannezo, Roberta Azzarelli, Lemonia Chatzeli, Tatsuro Ikeda, Shosei Yoshida, Anna Philpott, and Benjamin D Simons. “Tracing the Cellular Basis of Islet Specification in Mouse Pancreas.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-18837-3.","ama":"Sznurkowska MK, Hannezo EB, Azzarelli R, et al. Tracing the cellular basis of islet specification in mouse pancreas. Nature Communications. 2020;11. doi:10.1038/s41467-020-18837-3","apa":"Sznurkowska, M. K., Hannezo, E. B., Azzarelli, R., Chatzeli, L., Ikeda, T., Yoshida, S., … Simons, B. D. (2020). Tracing the cellular basis of islet specification in mouse pancreas. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-18837-3","ieee":"M. K. Sznurkowska et al., “Tracing the cellular basis of islet specification in mouse pancreas,” Nature Communications, vol. 11. Springer Nature, 2020.","ista":"Sznurkowska MK, Hannezo EB, Azzarelli R, Chatzeli L, Ikeda T, Yoshida S, Philpott A, Simons BD. 2020. Tracing the cellular basis of islet specification in mouse pancreas. Nature Communications. 11, 5037."},"publication":"Nature Communications"},{"scopus_import":"1","day":"26","article_processing_charge":"No","has_accepted_license":"1","article_type":"original","page":"195-208","publication":"Developmental Cell","citation":{"short":"A. Chaigne, C. Labouesse, I.J. White, M. Agnew, E.B. Hannezo, K.J. Chalut, E.K. Paluch, Developmental Cell 55 (2020) 195–208.","mla":"Chaigne, Agathe, et al. “Abscission Couples Cell Division to Embryonic Stem Cell Fate.” Developmental Cell, vol. 55, no. 2, Elsevier, 2020, pp. 195–208, doi:10.1016/j.devcel.2020.09.001.","chicago":"Chaigne, Agathe, Céline Labouesse, Ian J. White, Meghan Agnew, Edouard B Hannezo, Kevin J. Chalut, and Ewa K. Paluch. “Abscission Couples Cell Division to Embryonic Stem Cell Fate.” Developmental Cell. Elsevier, 2020. https://doi.org/10.1016/j.devcel.2020.09.001.","ama":"Chaigne A, Labouesse C, White IJ, et al. Abscission couples cell division to embryonic stem cell fate. Developmental Cell. 2020;55(2):195-208. doi:10.1016/j.devcel.2020.09.001","apa":"Chaigne, A., Labouesse, C., White, I. J., Agnew, M., Hannezo, E. B., Chalut, K. J., & Paluch, E. K. (2020). Abscission couples cell division to embryonic stem cell fate. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2020.09.001","ieee":"A. Chaigne et al., “Abscission couples cell division to embryonic stem cell fate,” Developmental Cell, vol. 55, no. 2. Elsevier, pp. 195–208, 2020.","ista":"Chaigne A, Labouesse C, White IJ, Agnew M, Hannezo EB, Chalut KJ, Paluch EK. 2020. Abscission couples cell division to embryonic stem cell fate. Developmental Cell. 55(2), 195–208."},"date_published":"2020-10-26T00:00:00Z","type":"journal_article","abstract":[{"text":"Cell fate transitions are key to development and homeostasis. It is thus essential to understand the cellular mechanisms controlling fate transitions. Cell division has been implicated in fate decisions in many stem cell types, including neuronal and epithelial progenitors. In other stem cells, such as embryonic stem (ES) cells, the role of division remains unclear. Here, we show that exit from naive pluripotency in mouse ES cells generally occurs after a division. We further show that exit timing is strongly correlated between sister cells, which remain connected by cytoplasmic bridges long after division, and that bridge abscission progressively accelerates as cells exit naive pluripotency. Finally, interfering with abscission impairs naive pluripotency exit, and artificially inducing abscission accelerates it. Altogether, our data indicate that a switch in the division machinery leading to faster abscission regulates pluripotency exit. Our study identifies abscission as a key cellular process coupling cell division to fate transitions.","lang":"eng"}],"issue":"2","ddc":["570"],"status":"public","title":"Abscission couples cell division to embryonic stem cell fate","intvolume":" 55","_id":"8672","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"access_level":"open_access","file_name":"2020_DevelopmCell_Chaigne.pdf","content_type":"application/pdf","file_size":6929686,"creator":"dernst","relation":"main_file","file_id":"9086","checksum":"88e1a031a61689165d19a19c2f16d795","success":1,"date_updated":"2021-02-04T10:20:02Z","date_created":"2021-02-04T10:20:02Z"}],"oa_version":"Published Version","month":"10","publication_identifier":{"eissn":["18781551"],"issn":["15345807"]},"isi":1,"quality_controlled":"1","external_id":{"pmid":["32979313"],"isi":["000582501100012"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1016/j.devcel.2020.09.001","file_date_updated":"2021-02-04T10:20:02Z","publication_status":"published","department":[{"_id":"EdHa"}],"publisher":"Elsevier","acknowledgement":"This work was supported by the Medical Research Council UK (MRC Program award MC_UU_12018/5 ), the European Research Council (starting grant 311637 -MorphoCorDiv and consolidator grant 820188 -NanoMechShape to E.K.P.), and the Leverhulme Trust (Leverhulme Prize in Biological Sciences to E.K.P.). K.J.C. acknowledges support from the Royal Society (Royal Society Research Fellowship). A.C. acknowledges support from EMBO ( ALTF 2015-563 ), the Wellcome Trust ( 201334/Z/16/Z ), and the Fondation Bettencourt-Schueller (Prix Jeune Chercheur, 2015).","year":"2020","pmid":1,"date_created":"2020-10-18T22:01:37Z","date_updated":"2023-08-22T10:16:58Z","volume":55,"author":[{"first_name":"Agathe","last_name":"Chaigne","full_name":"Chaigne, Agathe"},{"first_name":"Céline","last_name":"Labouesse","full_name":"Labouesse, Céline"},{"full_name":"White, Ian J.","last_name":"White","first_name":"Ian J."},{"full_name":"Agnew, Meghan","last_name":"Agnew","first_name":"Meghan"},{"full_name":"Hannezo, Edouard B","first_name":"Edouard B","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561"},{"first_name":"Kevin J.","last_name":"Chalut","full_name":"Chalut, Kevin J."},{"full_name":"Paluch, Ewa K.","first_name":"Ewa K.","last_name":"Paluch"}]},{"language":[{"iso":"eng"}],"doi":"10.1088/1361-6544/ab9728","quality_controlled":"1","isi":1,"oa":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","short":"CC BY (3.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000576492700001"],"arxiv":["1906.12245"]},"publication_identifier":{"issn":["09517715"],"eissn":["13616544"]},"month":"11","volume":33,"date_created":"2020-10-25T23:01:16Z","date_updated":"2023-08-22T10:38:38Z","author":[{"orcid":"0000-0002-0479-558X","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","last_name":"Fischer","first_name":"Julian L","full_name":"Fischer, Julian L"},{"full_name":"Kniely, Michael","id":"2CA2C08C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5645-4333","first_name":"Michael","last_name":"Kniely"}],"publisher":"IOP Publishing","department":[{"_id":"JuFi"}],"publication_status":"published","year":"2020","license":"https://creativecommons.org/licenses/by/3.0/","file_date_updated":"2020-10-27T12:09:57Z","date_published":"2020-11-01T00:00:00Z","page":"5733-5772","article_type":"original","citation":{"short":"J.L. Fischer, M. Kniely, Nonlinearity 33 (2020) 5733–5772.","mla":"Fischer, Julian L., and Michael Kniely. “Variance Reduction for Effective Energies of Random Lattices in the Thomas-Fermi-von Weizsäcker Model.” Nonlinearity, vol. 33, no. 11, IOP Publishing, 2020, pp. 5733–72, doi:10.1088/1361-6544/ab9728.","chicago":"Fischer, Julian L, and Michael Kniely. “Variance Reduction for Effective Energies of Random Lattices in the Thomas-Fermi-von Weizsäcker Model.” Nonlinearity. IOP Publishing, 2020. https://doi.org/10.1088/1361-6544/ab9728.","ama":"Fischer JL, Kniely M. Variance reduction for effective energies of random lattices in the Thomas-Fermi-von Weizsäcker model. Nonlinearity. 2020;33(11):5733-5772. doi:10.1088/1361-6544/ab9728","apa":"Fischer, J. L., & Kniely, M. (2020). Variance reduction for effective energies of random lattices in the Thomas-Fermi-von Weizsäcker model. Nonlinearity. IOP Publishing. https://doi.org/10.1088/1361-6544/ab9728","ieee":"J. L. Fischer and M. Kniely, “Variance reduction for effective energies of random lattices in the Thomas-Fermi-von Weizsäcker model,” Nonlinearity, vol. 33, no. 11. IOP Publishing, pp. 5733–5772, 2020.","ista":"Fischer JL, Kniely M. 2020. Variance reduction for effective energies of random lattices in the Thomas-Fermi-von Weizsäcker model. Nonlinearity. 33(11), 5733–5772."},"publication":"Nonlinearity","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"01","scopus_import":"1","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"2020_Nonlinearity_Fischer.pdf","creator":"cziletti","content_type":"application/pdf","file_size":1223899,"file_id":"8710","relation":"main_file","success":1,"checksum":"ed90bc6eb5f32ee6157fef7f3aabc057","date_created":"2020-10-27T12:09:57Z","date_updated":"2020-10-27T12:09:57Z"}],"intvolume":" 33","status":"public","ddc":["510"],"title":"Variance reduction for effective energies of random lattices in the Thomas-Fermi-von Weizsäcker model","_id":"8697","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","issue":"11","abstract":[{"lang":"eng","text":"In the computation of the material properties of random alloys, the method of 'special quasirandom structures' attempts to approximate the properties of the alloy on a finite volume with higher accuracy by replicating certain statistics of the random atomic lattice in the finite volume as accurately as possible. In the present work, we provide a rigorous justification for a variant of this method in the framework of the Thomas–Fermi–von Weizsäcker (TFW) model. Our approach is based on a recent analysis of a related variance reduction method in stochastic homogenization of linear elliptic PDEs and the locality properties of the TFW model. Concerning the latter, we extend an exponential locality result by Nazar and Ortner to include point charges, a result that may be of independent interest."}],"type":"journal_article"},{"isi":1,"quality_controlled":"1","project":[{"_id":"260F1432-B435-11E9-9278-68D0E5697425","grant_number":"742573","call_identifier":"H2020","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation"}],"main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/10.1101/803635v1"}],"external_id":{"isi":["000579169000053"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1126/science.aba6637","month":"10","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"publication_status":"published","publisher":"American Association for the Advancement of Science","department":[{"_id":"CaHe"}],"year":"2020","acknowledgement":"We thank the members of the Megason and Heisenberg labs for critical discussions of and technical assistance during the work and B. Appel, S. Holley, J. Jontes, and D. Gilmour for transgenic fish. This work is supported by the Damon Runyon Cancer Foundation, a NICHD K99 fellowship (1K99HD092623), a Travelling Fellowship of the Company of Biologists, a Collaborative Research grant from the Burroughs Wellcome Foundation (T.Y.-C.T.), NIH grant 01GM107733 (T.Y.-C.T. and S.G.M.), NIH grant R01NS102322 (T.C.-C. and H.K.), and an ERC advanced grant\r\n(MECSPEC) (C.-P.H.).","date_updated":"2023-08-22T10:36:35Z","date_created":"2020-10-19T14:09:38Z","volume":370,"author":[{"full_name":"Tsai, Tony Y.-C.","first_name":"Tony Y.-C.","last_name":"Tsai"},{"first_name":"Mateusz K","last_name":"Sikora","id":"2F74BCDE-F248-11E8-B48F-1D18A9856A87","full_name":"Sikora, Mateusz K"},{"last_name":"Xia","first_name":"Peng","orcid":"0000-0002-5419-7756","id":"4AB6C7D0-F248-11E8-B48F-1D18A9856A87","full_name":"Xia, Peng"},{"full_name":"Colak-Champollion, Tugba","first_name":"Tugba","last_name":"Colak-Champollion"},{"last_name":"Knaut","first_name":"Holger","full_name":"Knaut, Holger"},{"full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566"},{"full_name":"Megason, Sean G.","last_name":"Megason","first_name":"Sean G."}],"related_material":{"link":[{"url":"https://ist.ac.at/en/news/sticking-together/","description":"News on IST Homepage","relation":"press_release"}]},"ec_funded":1,"article_type":"original","page":"113-116","publication":"Science","citation":{"ieee":"T. Y.-C. Tsai et al., “An adhesion code ensures robust pattern formation during tissue morphogenesis,” Science, vol. 370, no. 6512. American Association for the Advancement of Science, pp. 113–116, 2020.","apa":"Tsai, T. Y.-C., Sikora, M. K., Xia, P., Colak-Champollion, T., Knaut, H., Heisenberg, C.-P. J., & Megason, S. G. (2020). An adhesion code ensures robust pattern formation during tissue morphogenesis. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aba6637","ista":"Tsai TY-C, Sikora MK, Xia P, Colak-Champollion T, Knaut H, Heisenberg C-PJ, Megason SG. 2020. An adhesion code ensures robust pattern formation during tissue morphogenesis. Science. 370(6512), 113–116.","ama":"Tsai TY-C, Sikora MK, Xia P, et al. An adhesion code ensures robust pattern formation during tissue morphogenesis. Science. 2020;370(6512):113-116. doi:10.1126/science.aba6637","chicago":"Tsai, Tony Y.-C., Mateusz K Sikora, Peng Xia, Tugba Colak-Champollion, Holger Knaut, Carl-Philipp J Heisenberg, and Sean G. Megason. “An Adhesion Code Ensures Robust Pattern Formation during Tissue Morphogenesis.” Science. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/science.aba6637.","short":"T.Y.-C. Tsai, M.K. Sikora, P. Xia, T. Colak-Champollion, H. Knaut, C.-P.J. Heisenberg, S.G. Megason, Science 370 (2020) 113–116.","mla":"Tsai, Tony Y. C., et al. “An Adhesion Code Ensures Robust Pattern Formation during Tissue Morphogenesis.” Science, vol. 370, no. 6512, American Association for the Advancement of Science, 2020, pp. 113–16, doi:10.1126/science.aba6637."},"date_published":"2020-10-02T00:00:00Z","keyword":["Multidisciplinary"],"scopus_import":"1","day":"02","article_processing_charge":"No","status":"public","title":"An adhesion code ensures robust pattern formation during tissue morphogenesis","intvolume":" 370","_id":"8680","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Preprint","type":"journal_article","abstract":[{"lang":"eng","text":"Animal development entails the organization of specific cell types in space and time, and spatial patterns must form in a robust manner. In the zebrafish spinal cord, neural progenitors form stereotypic patterns despite noisy morphogen signaling and large-scale cellular rearrangements during morphogenesis and growth. By directly measuring adhesion forces and preferences for three types of endogenous neural progenitors, we provide evidence for the differential adhesion model in which differences in intercellular adhesion mediate cell sorting. Cell type–specific combinatorial expression of different classes of cadherins (N-cadherin, cadherin 11, and protocadherin 19) results in homotypic preference ex vivo and patterning robustness in vivo. Furthermore, the differential adhesion code is regulated by the sonic hedgehog morphogen gradient. We propose that robust patterning during tissue morphogenesis results from interplay between adhesion-based self-organization and morphogen-directed patterning."}],"issue":"6512"},{"author":[{"full_name":"Zhang, Haonan","id":"D8F41E38-9E66-11E9-A9E2-65C2E5697425","last_name":"Zhang","first_name":"Haonan"}],"date_created":"2020-10-18T22:01:36Z","date_updated":"2023-08-22T10:32:29Z","volume":61,"year":"2020","acknowledgement":"This research was supported by the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 754411. The author would like to thank Anna Vershynina and Sarah Chehade for their helpful comments.","publication_status":"published","publisher":"AIP Publishing","department":[{"_id":"JaMa"}],"ec_funded":1,"article_number":"102201","doi":"10.1063/5.0022787","language":[{"iso":"eng"}],"external_id":{"isi":["000578529200001"],"arxiv":["2007.06644"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2007.06644"}],"oa":1,"quality_controlled":"1","isi":1,"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"month":"10","publication_identifier":{"issn":["00222488"]},"oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8670","title":"Equality conditions of data processing inequality for α-z Rényi relative entropies","status":"public","intvolume":" 61","abstract":[{"lang":"eng","text":"The α–z Rényi relative entropies are a two-parameter family of Rényi relative entropies that are quantum generalizations of the classical α-Rényi relative entropies. In the work [Adv. Math. 365, 107053 (2020)], we decided the full range of (α, z) for which the data processing inequality (DPI) is valid. In this paper, we give algebraic conditions for the equality in DPI. For the full range of parameters (α, z), we give necessary conditions and sufficient conditions. For most parameters, we give equivalent conditions. This generalizes and strengthens the results of Leditzky et al. [Lett. Math. Phys. 107, 61–80 (2017)]."}],"issue":"10","type":"journal_article","date_published":"2020-10-01T00:00:00Z","publication":"Journal of Mathematical Physics","citation":{"chicago":"Zhang, Haonan. “Equality Conditions of Data Processing Inequality for α-z Rényi Relative Entropies.” Journal of Mathematical Physics. AIP Publishing, 2020. https://doi.org/10.1063/5.0022787.","short":"H. Zhang, Journal of Mathematical Physics 61 (2020).","mla":"Zhang, Haonan. “Equality Conditions of Data Processing Inequality for α-z Rényi Relative Entropies.” Journal of Mathematical Physics, vol. 61, no. 10, 102201, AIP Publishing, 2020, doi:10.1063/5.0022787.","ieee":"H. Zhang, “Equality conditions of data processing inequality for α-z Rényi relative entropies,” Journal of Mathematical Physics, vol. 61, no. 10. AIP Publishing, 2020.","apa":"Zhang, H. (2020). Equality conditions of data processing inequality for α-z Rényi relative entropies. Journal of Mathematical Physics. AIP Publishing. https://doi.org/10.1063/5.0022787","ista":"Zhang H. 2020. Equality conditions of data processing inequality for α-z Rényi relative entropies. Journal of Mathematical Physics. 61(10), 102201.","ama":"Zhang H. Equality conditions of data processing inequality for α-z Rényi relative entropies. Journal of Mathematical Physics. 2020;61(10). doi:10.1063/5.0022787"},"article_type":"original","day":"01","article_processing_charge":"No","scopus_import":"1"},{"scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"06","citation":{"chicago":"Maoz, Ori, Gašper Tkačik, Mohamad Saleh Esteki, Roozbeh Kiani, and Elad Schneidman. “Learning Probabilistic Neural Representations with Randomly Connected Circuits.” Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.1912804117.","mla":"Maoz, Ori, et al. “Learning Probabilistic Neural Representations with Randomly Connected Circuits.” Proceedings of the National Academy of Sciences of the United States of America, vol. 117, no. 40, National Academy of Sciences, 2020, pp. 25066–73, doi:10.1073/pnas.1912804117.","short":"O. Maoz, G. Tkačik, M.S. Esteki, R. Kiani, E. Schneidman, Proceedings of the National Academy of Sciences of the United States of America 117 (2020) 25066–25073.","ista":"Maoz O, Tkačik G, Esteki MS, Kiani R, Schneidman E. 2020. Learning probabilistic neural representations with randomly connected circuits. Proceedings of the National Academy of Sciences of the United States of America. 117(40), 25066–25073.","apa":"Maoz, O., Tkačik, G., Esteki, M. S., Kiani, R., & Schneidman, E. (2020). Learning probabilistic neural representations with randomly connected circuits. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.1912804117","ieee":"O. Maoz, G. Tkačik, M. S. Esteki, R. Kiani, and E. Schneidman, “Learning probabilistic neural representations with randomly connected circuits,” Proceedings of the National Academy of Sciences of the United States of America, vol. 117, no. 40. National Academy of Sciences, pp. 25066–25073, 2020.","ama":"Maoz O, Tkačik G, Esteki MS, Kiani R, Schneidman E. Learning probabilistic neural representations with randomly connected circuits. Proceedings of the National Academy of Sciences of the United States of America. 2020;117(40):25066-25073. doi:10.1073/pnas.1912804117"},"publication":"Proceedings of the National Academy of Sciences of the United States of America","page":"25066-25073","article_type":"original","date_published":"2020-10-06T00:00:00Z","type":"journal_article","issue":"40","abstract":[{"text":"The brain represents and reasons probabilistically about complex stimuli and motor actions using a noisy, spike-based neural code. A key building block for such neural computations, as well as the basis for supervised and unsupervised learning, is the ability to estimate the surprise or likelihood of incoming high-dimensional neural activity patterns. Despite progress in statistical modeling of neural responses and deep learning, current approaches either do not scale to large neural populations or cannot be implemented using biologically realistic mechanisms. Inspired by the sparse and random connectivity of real neuronal circuits, we present a model for neural codes that accurately estimates the likelihood of individual spiking patterns and has a straightforward, scalable, efficient, learnable, and realistic neural implementation. This model’s performance on simultaneously recorded spiking activity of >100 neurons in the monkey visual and prefrontal cortices is comparable with or better than that of state-of-the-art models. Importantly, the model can be learned using a small number of samples and using a local learning rule that utilizes noise intrinsic to neural circuits. Slower, structural changes in random connectivity, consistent with rewiring and pruning processes, further improve the efficiency and sparseness of the resulting neural representations. Our results merge insights from neuroanatomy, machine learning, and theoretical neuroscience to suggest random sparse connectivity as a key design principle for neuronal computation.","lang":"eng"}],"_id":"8698","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 117","ddc":["570"],"status":"public","title":"Learning probabilistic neural representations with randomly connected circuits","oa_version":"Published Version","file":[{"file_name":"2020_PNAS_Maoz.pdf","access_level":"open_access","content_type":"application/pdf","file_size":1755359,"creator":"cziletti","relation":"main_file","file_id":"8713","date_created":"2020-10-27T14:57:50Z","date_updated":"2020-10-27T14:57:50Z","checksum":"c6a24fdecf3f28faf447078e7a274a88","success":1}],"publication_identifier":{"eissn":["10916490"],"issn":["00278424"]},"month":"10","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"external_id":{"isi":["000579045200012"],"pmid":["32948691"]},"quality_controlled":"1","isi":1,"doi":"10.1073/pnas.1912804117","language":[{"iso":"eng"}],"file_date_updated":"2020-10-27T14:57:50Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","pmid":1,"acknowledgement":"We thank Udi Karpas, Roy Harpaz, Tal Tamir, Adam Haber, and Amir Bar for discussions and suggestions; and especially Oren Forkosh and Walter Senn for invaluable discussions of the learning rule. This work was supported by European Research Council Grant 311238 (to E.S.) and Israel Science Foundation Grant 1629/12 (to E.S.); as well as research support from Martin Kushner Schnur and Mr. and Mrs. Lawrence Feis (E.S.); National Institute of Mental Health Grant R01MH109180 (to R.K.); a Pew Scholarship in Biomedical Sciences (to R.K.); Simons Collaboration on the Global Brain Grant 542997 (to R.K. and E.S.); and a CRCNS (Collaborative Research in Computational Neuroscience) grant (to R.K. and E.S.).","year":"2020","department":[{"_id":"GaTk"}],"publisher":"National Academy of Sciences","publication_status":"published","author":[{"first_name":"Ori","last_name":"Maoz","full_name":"Maoz, Ori"},{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik","first_name":"Gašper"},{"first_name":"Mohamad Saleh","last_name":"Esteki","full_name":"Esteki, Mohamad Saleh"},{"first_name":"Roozbeh","last_name":"Kiani","full_name":"Kiani, Roozbeh"},{"full_name":"Schneidman, Elad","last_name":"Schneidman","first_name":"Elad"}],"volume":117,"date_updated":"2023-08-22T12:11:23Z","date_created":"2020-10-25T23:01:16Z"},{"date_published":"2020-05-01T00:00:00Z","publication":"Proceedings - IEEE International Conference on Robotics and Automation","citation":{"short":"M. Lechner, R. Hasani, D. Rus, R. Grosu, in:, Proceedings - IEEE International Conference on Robotics and Automation, IEEE, 2020, pp. 5446–5452.","mla":"Lechner, Mathias, et al. “Gershgorin Loss Stabilizes the Recurrent Neural Network Compartment of an End-to-End Robot Learning Scheme.” Proceedings - IEEE International Conference on Robotics and Automation, IEEE, 2020, pp. 5446–52, doi:10.1109/ICRA40945.2020.9196608.","chicago":"Lechner, Mathias, Ramin Hasani, Daniela Rus, and Radu Grosu. “Gershgorin Loss Stabilizes the Recurrent Neural Network Compartment of an End-to-End Robot Learning Scheme.” In Proceedings - IEEE International Conference on Robotics and Automation, 5446–52. IEEE, 2020. https://doi.org/10.1109/ICRA40945.2020.9196608.","ama":"Lechner M, Hasani R, Rus D, Grosu R. Gershgorin loss stabilizes the recurrent neural network compartment of an end-to-end robot learning scheme. In: Proceedings - IEEE International Conference on Robotics and Automation. IEEE; 2020:5446-5452. doi:10.1109/ICRA40945.2020.9196608","ieee":"M. Lechner, R. Hasani, D. Rus, and R. Grosu, “Gershgorin loss stabilizes the recurrent neural network compartment of an end-to-end robot learning scheme,” in Proceedings - IEEE International Conference on Robotics and Automation, Paris, France, 2020, pp. 5446–5452.","apa":"Lechner, M., Hasani, R., Rus, D., & Grosu, R. (2020). Gershgorin loss stabilizes the recurrent neural network compartment of an end-to-end robot learning scheme. In Proceedings - IEEE International Conference on Robotics and Automation (pp. 5446–5452). Paris, France: IEEE. https://doi.org/10.1109/ICRA40945.2020.9196608","ista":"Lechner M, Hasani R, Rus D, Grosu R. 2020. Gershgorin loss stabilizes the recurrent neural network compartment of an end-to-end robot learning scheme. Proceedings - IEEE International Conference on Robotics and Automation. ICRA: International Conference on Robotics and Automation, ICRA, , 5446–5452."},"page":"5446-5452","day":"01","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","oa_version":"Submitted Version","file":[{"access_level":"open_access","file_name":"2020_ICRA_Lechner.pdf","creator":"dernst","file_size":1070010,"content_type":"application/pdf","file_id":"8733","relation":"main_file","success":1,"checksum":"fccf7b986ac78046918a298cc6849a50","date_updated":"2020-11-06T10:58:49Z","date_created":"2020-11-06T10:58:49Z"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8704","status":"public","ddc":["000"],"title":"Gershgorin loss stabilizes the recurrent neural network compartment of an end-to-end robot learning scheme","abstract":[{"text":"Traditional robotic control suits require profound task-specific knowledge for designing, building and testing control software. The rise of Deep Learning has enabled end-to-end solutions to be learned entirely from data, requiring minimal knowledge about the application area. We design a learning scheme to train end-to-end linear dynamical systems (LDS)s by gradient descent in imitation learning robotic domains. We introduce a new regularization loss component together with a learning algorithm that improves the stability of the learned autonomous system, by forcing the eigenvalues of the internal state updates of an LDS to be negative reals. We evaluate our approach on a series of real-life and simulated robotic experiments, in comparison to linear and nonlinear Recurrent Neural Network (RNN) architectures. Our results show that our stabilizing method significantly improves test performance of LDS, enabling such linear models to match the performance of contemporary nonlinear RNN architectures. A video of the obstacle avoidance performance of our method on a mobile robot, in unseen environments, compared to other methods can be viewed at https://youtu.be/mhEsCoNao5E.","lang":"eng"}],"type":"conference","alternative_title":["ICRA"],"conference":{"location":"Paris, France","start_date":"2020-05-31","end_date":"2020-08-31","name":"ICRA: International Conference on Robotics and Automation"},"doi":"10.1109/ICRA40945.2020.9196608","language":[{"iso":"eng"}],"external_id":{"isi":["000712319503110"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"call_identifier":"FWF","name":"The Wittgenstein Prize","_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211"}],"month":"05","publication_identifier":{"issn":["10504729"],"isbn":["9781728173955"]},"author":[{"last_name":"Lechner","first_name":"Mathias","id":"3DC22916-F248-11E8-B48F-1D18A9856A87","full_name":"Lechner, Mathias"},{"last_name":"Hasani","first_name":"Ramin","full_name":"Hasani, Ramin"},{"last_name":"Rus","first_name":"Daniela","full_name":"Rus, Daniela"},{"first_name":"Radu","last_name":"Grosu","full_name":"Grosu, Radu"}],"date_updated":"2023-08-22T10:40:15Z","date_created":"2020-10-25T23:01:19Z","acknowledgement":"M.L. is supported in parts by the Austrian Science Fund (FWF) under grant Z211-N23 (Wittgenstein Award). R.H., and R.G. are partially supported by the Horizon-2020 ECSELProject grant No. 783163 (iDev40), and the Austrian Research Promotion Agency (FFG), Project No. 860424. R.H. and D.R. is partially supported by the Boeing Company.","year":"2020","publication_status":"published","department":[{"_id":"ToHe"}],"publisher":"IEEE","file_date_updated":"2020-11-06T10:58:49Z"},{"abstract":[{"text":"A binary neutron star merger has been observed in a multi-messenger detection of gravitational wave (GW) and electromagnetic (EM) radiation. Binary neutron stars that merge within a Hubble time, as well as many other compact binaries, are expected to form via common envelope evolution. Yet five decades of research on common envelope evolution have not yet resulted in a satisfactory understanding of the multi-spatial multi-timescale evolution for the systems that lead to compact binaries. In this paper, we report on the first successful simulations of common envelope ejection leading to binary neutron star formation in 3D hydrodynamics. We simulate the dynamical inspiral phase of the interaction between a 12M⊙ red supergiant and a 1.4M⊙ neutron star for different initial separations and initial conditions. For all of our simulations, we find complete envelope ejection and final orbital separations of af≈1.3-5.1R⊙ depending on the simulation and criterion, leading to binary neutron stars that can merge within a Hubble time. We find αCE-equivalent efficiencies of ≈0.1-2.7 depending on the simulation and criterion, but this may be specific for these extended progenitors. We fully resolve the core of the star to ≲0.005R⊙ and our 3D hydrodynamics simulations are informed by an adjusted 1D analytic energy formalism and a 2D kinematics study in order to overcome the prohibitive computational cost of simulating these systems. The framework we develop in this paper can be used to simulate a wide variety of interactions between stars, from stellar mergers to common envelope episodes leading to GW sources.","lang":"eng"}],"type":"preprint","article_number":"2011.06630","author":[{"first_name":"Jamie A. P. Law-Smith","last_name":"Jamie A. P. Law-Smith","full_name":"Jamie A. P. Law-Smith, Jamie A. P. Law-Smith"},{"first_name":"Rosa Wallace","last_name":"Everson","full_name":"Everson, Rosa Wallace"},{"full_name":"Enrico Ramirez-Ruiz, Enrico Ramirez-Ruiz","last_name":"Enrico Ramirez-Ruiz","first_name":"Enrico Ramirez-Ruiz"},{"last_name":"Mink","first_name":"Selma E. de","full_name":"Mink, Selma E. de"},{"full_name":"Son, Lieke A. C. van","last_name":"Son","first_name":"Lieke A. C. van"},{"full_name":"Götberg, Ylva Louise Linsdotter","first_name":"Ylva Louise Linsdotter","last_name":"Götberg","id":"d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d","orcid":"0000-0002-6960-6911"},{"full_name":"Zellmann, Stefan","first_name":"Stefan","last_name":"Zellmann"},{"first_name":"Alejandro Vigna-Gómez","last_name":"Alejandro Vigna-Gómez","full_name":"Alejandro Vigna-Gómez, Alejandro Vigna-Gómez"},{"full_name":"Renzo, Mathieu","last_name":"Renzo","first_name":"Mathieu"},{"last_name":"Wu","first_name":"Samantha","full_name":"Wu, Samantha"},{"full_name":"Schrøder, Sophie L.","first_name":"Sophie L.","last_name":"Schrøder"},{"first_name":"Ryan J.","last_name":"Foley","full_name":"Foley, Ryan J."},{"last_name":"Tenley Hutchinson-Smith","first_name":"Tenley Hutchinson-Smith","full_name":"Tenley Hutchinson-Smith, Tenley Hutchinson-Smith"}],"oa_version":"Preprint","date_updated":"2023-08-22T11:03:00Z","date_created":"2023-08-21T10:10:41Z","year":"2020","_id":"14096","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"submitted","title":"Successful common envelope ejection and binary neutron star formation in 3D hydrodynamics","status":"public","article_processing_charge":"No","day":"12","month":"11","date_published":"2020-11-12T00:00:00Z","doi":"10.48550/arXiv.2011.06630","language":[{"iso":"eng"}],"citation":{"ama":"Jamie A. P. Law-Smith JAPL-S, Everson RW, Enrico Ramirez-Ruiz ER-R, et al. Successful common envelope ejection and binary neutron star formation in 3D hydrodynamics. arXiv. doi:10.48550/arXiv.2011.06630","ieee":"J. A. P. L.-S. Jamie A. P. Law-Smith et al., “Successful common envelope ejection and binary neutron star formation in 3D hydrodynamics,” arXiv. .","apa":"Jamie A. P. Law-Smith, J. A. P. L.-S., Everson, R. W., Enrico Ramirez-Ruiz, E. R.-R., Mink, S. E. de, Son, L. A. C. van, Götberg, Y. L. L., … Tenley Hutchinson-Smith, T. H.-S. (n.d.). Successful common envelope ejection and binary neutron star formation in 3D hydrodynamics. arXiv. https://doi.org/10.48550/arXiv.2011.06630","ista":"Jamie A. P. Law-Smith JAPL-S, Everson RW, Enrico Ramirez-Ruiz ER-R, Mink SE de, Son LAC van, Götberg YLL, Zellmann S, Alejandro Vigna-Gómez AV-G, Renzo M, Wu S, Schrøder SL, Foley RJ, Tenley Hutchinson-Smith TH-S. Successful common envelope ejection and binary neutron star formation in 3D hydrodynamics. arXiv, 2011.06630.","short":"J.A.P.L.-S. Jamie A. P. Law-Smith, R.W. Everson, E.R.-R. Enrico Ramirez-Ruiz, S.E. de Mink, L.A.C. van Son, Y.L.L. Götberg, S. Zellmann, A.V.-G. Alejandro Vigna-Gómez, M. Renzo, S. Wu, S.L. Schrøder, R.J. Foley, T.H.-S. Tenley Hutchinson-Smith, ArXiv (n.d.).","mla":"Jamie A. P. Law-Smith, Jamie A. P. Law-Smith, et al. “Successful Common Envelope Ejection and Binary Neutron Star Formation in 3D Hydrodynamics.” ArXiv, 2011.06630, doi:10.48550/arXiv.2011.06630.","chicago":"Jamie A. P. Law-Smith, Jamie A. P. Law-Smith, Rosa Wallace Everson, Enrico Ramirez-Ruiz Enrico Ramirez-Ruiz, Selma E. de Mink, Lieke A. C. van Son, Ylva Louise Linsdotter Götberg, Stefan Zellmann, et al. “Successful Common Envelope Ejection and Binary Neutron Star Formation in 3D Hydrodynamics.” ArXiv, n.d. https://doi.org/10.48550/arXiv.2011.06630."},"external_id":{"arxiv":["2011.06630"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2011.06630"}],"oa":1,"publication":"arXiv"},{"file_date_updated":"2020-10-28T11:53:12Z","ec_funded":1,"publication_status":"published","department":[{"_id":"MiLe"}],"publisher":"National Academy of Sciences","year":"2020","acknowledgement":"We gratefully acknowledge C. Sahle for experimental support at the ID20 beamline of the ESRF. The soft X-ray experiments were carried out at the ADRESS beamline of the Swiss Light Source, Paul Scherrer Institut (PSI). E. Paris and T.S. thank X. Lu and C. Monney for valuable discussions. The work at PSI is supported by the Swiss National Science Foundation (SNSF) through Project 200021_178867, the NCCR (National Centre of Competence in Research) MARVEL (Materials’ Revolution: Computational Design and Discovery of Novel Materials) and the Sinergia network Mott Physics Beyond the Heisenberg Model (MPBH) (SNSF Research Grants CRSII2_160765/1 and CRSII2_141962). K.W. acknowledges support by the Narodowe Centrum Nauki Projects 2016/22/E/ST3/00560 and 2016/23/B/ST3/00839. E.M.P. and M.N. acknowledge funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie Grant Agreements 754411 and 701647, respectively. M.R. was supported by the Swiss National Science Foundation under Project 200021 – 182695. This research used resources of the APS, a U.S. Department of Energy (DOE) Office of Science User Facility operated for the DOE Office of Science by Argonne National Laboratory under Contract DE-AC02-06CH11357.","pmid":1,"date_updated":"2023-08-22T12:11:52Z","date_created":"2020-10-25T23:01:17Z","volume":117,"author":[{"first_name":"Eugenio","last_name":"Paris","full_name":"Paris, Eugenio"},{"first_name":"Yi","last_name":"Tseng","full_name":"Tseng, Yi"},{"full_name":"Paerschke, Ekaterina","first_name":"Ekaterina","last_name":"Paerschke","id":"8275014E-6063-11E9-9B7F-6338E6697425","orcid":"0000-0003-0853-8182"},{"last_name":"Zhang","first_name":"Wenliang","full_name":"Zhang, Wenliang"},{"full_name":"Upton, Mary H","last_name":"Upton","first_name":"Mary H"},{"full_name":"Efimenko, Anna","first_name":"Anna","last_name":"Efimenko"},{"first_name":"Katharina","last_name":"Rolfs","full_name":"Rolfs, Katharina"},{"first_name":"Daniel E","last_name":"McNally","full_name":"McNally, Daniel E"},{"first_name":"Laura","last_name":"Maurel","full_name":"Maurel, Laura"},{"full_name":"Naamneh, Muntaser","last_name":"Naamneh","first_name":"Muntaser"},{"full_name":"Caputo, Marco","last_name":"Caputo","first_name":"Marco"},{"first_name":"Vladimir N","last_name":"Strocov","full_name":"Strocov, Vladimir N"},{"full_name":"Wang, Zhiming","last_name":"Wang","first_name":"Zhiming"},{"full_name":"Casa, Diego","first_name":"Diego","last_name":"Casa"},{"full_name":"Schneider, Christof W","first_name":"Christof W","last_name":"Schneider"},{"first_name":"Ekaterina","last_name":"Pomjakushina","full_name":"Pomjakushina, Ekaterina"},{"last_name":"Wohlfeld","first_name":"Krzysztof","full_name":"Wohlfeld, Krzysztof"},{"last_name":"Radovic","first_name":"Milan","full_name":"Radovic, Milan"},{"full_name":"Schmitt, Thorsten","first_name":"Thorsten","last_name":"Schmitt"}],"month":"10","publication_identifier":{"issn":["00278424"],"eissn":["10916490"]},"isi":1,"quality_controlled":"1","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"external_id":{"arxiv":["2009.12262"],"pmid":["32958669"],"isi":["000579059100029"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1073/pnas.2012043117","type":"journal_article","abstract":[{"text":"In the high spin–orbit-coupled Sr2IrO4, the high sensitivity of the ground state to the details of the local lattice structure shows a large potential for the manipulation of the functional properties by inducing local lattice distortions. We use epitaxial strain to modify the Ir–O bond geometry in Sr2IrO4 and perform momentum-dependent resonant inelastic X-ray scattering (RIXS) at the metal and at the ligand sites to unveil the response of the low-energy elementary excitations. We observe that the pseudospin-wave dispersion for tensile-strained Sr2IrO4 films displays large softening along the [h,0] direction, while along the [h,h] direction it shows hardening. This evolution reveals a renormalization of the magnetic interactions caused by a strain-driven cross-over from anisotropic to isotropic interactions between the magnetic moments. Moreover, we detect dispersive electron–hole pair excitations which shift to lower (higher) energies upon compressive (tensile) strain, manifesting a reduction (increase) in the size of the charge gap. This behavior shows an intimate coupling between charge excitations and lattice distortions in Sr2IrO4, originating from the modified hopping elements between the t2g orbitals. Our work highlights the central role played by the lattice degrees of freedom in determining both the pseudospin and charge excitations of Sr2IrO4 and provides valuable information toward the control of the ground state of complex oxides in the presence of high spin–orbit coupling.","lang":"eng"}],"issue":"40","ddc":["530"],"status":"public","title":"Strain engineering of the charge and spin-orbital interactions in Sr2IrO4","intvolume":" 117","_id":"8699","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"date_updated":"2020-10-28T11:53:12Z","date_created":"2020-10-28T11:53:12Z","success":1,"checksum":"1638fa36b442e2868576c6dd7d6dc505","file_id":"8715","relation":"main_file","creator":"cziletti","file_size":1176522,"content_type":"application/pdf","file_name":"2020_PNAS_Paris.pdf","access_level":"open_access"}],"oa_version":"Published Version","scopus_import":"1","day":"06","has_accepted_license":"1","article_processing_charge":"No","article_type":"original","page":"24764-24770","publication":"Proceedings of the National Academy of Sciences of the United States of America","citation":{"chicago":"Paris, Eugenio, Yi Tseng, Ekaterina Paerschke, Wenliang Zhang, Mary H Upton, Anna Efimenko, Katharina Rolfs, et al. “Strain Engineering of the Charge and Spin-Orbital Interactions in Sr2IrO4.” Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.2012043117.","mla":"Paris, Eugenio, et al. “Strain Engineering of the Charge and Spin-Orbital Interactions in Sr2IrO4.” Proceedings of the National Academy of Sciences of the United States of America, vol. 117, no. 40, National Academy of Sciences, 2020, pp. 24764–70, doi:10.1073/pnas.2012043117.","short":"E. Paris, Y. Tseng, E. Paerschke, W. Zhang, M.H. Upton, A. Efimenko, K. Rolfs, D.E. McNally, L. Maurel, M. Naamneh, M. Caputo, V.N. Strocov, Z. Wang, D. Casa, C.W. Schneider, E. Pomjakushina, K. Wohlfeld, M. Radovic, T. Schmitt, Proceedings of the National Academy of Sciences of the United States of America 117 (2020) 24764–24770.","ista":"Paris E, Tseng Y, Paerschke E, Zhang W, Upton MH, Efimenko A, Rolfs K, McNally DE, Maurel L, Naamneh M, Caputo M, Strocov VN, Wang Z, Casa D, Schneider CW, Pomjakushina E, Wohlfeld K, Radovic M, Schmitt T. 2020. Strain engineering of the charge and spin-orbital interactions in Sr2IrO4. Proceedings of the National Academy of Sciences of the United States of America. 117(40), 24764–24770.","apa":"Paris, E., Tseng, Y., Paerschke, E., Zhang, W., Upton, M. H., Efimenko, A., … Schmitt, T. (2020). Strain engineering of the charge and spin-orbital interactions in Sr2IrO4. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.2012043117","ieee":"E. Paris et al., “Strain engineering of the charge and spin-orbital interactions in Sr2IrO4,” Proceedings of the National Academy of Sciences of the United States of America, vol. 117, no. 40. National Academy of Sciences, pp. 24764–24770, 2020.","ama":"Paris E, Tseng Y, Paerschke E, et al. Strain engineering of the charge and spin-orbital interactions in Sr2IrO4. Proceedings of the National Academy of Sciences of the United States of America. 2020;117(40):24764-24770. doi:10.1073/pnas.2012043117"},"date_published":"2020-10-06T00:00:00Z"},{"external_id":{"pmid":["32972993"],"isi":["000583031800004"]},"oa":1,"isi":1,"quality_controlled":"1","project":[{"grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"International IST Doctoral Program"}],"doi":"10.1126/science.abc4209","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"EM-Fac"}],"language":[{"iso":"eng"}],"month":"10","publication_identifier":{"eissn":["10959203"]},"acknowledgement":"We thank J. Novacek (CEITEC Brno) and V.-V. Hodirnau (IST Austria) for their help with collecting cryo-EM datasets. We thank the IST Life Science and Electron Microscopy Facilities for providing equipment. This work has been supported by iNEXT,project number 653706, funded by the Horizon 2020 program of the European Union. This article reflects only the authors’view,and the European Commission is not responsible for any use that may be made of the information it contains. CIISB research infrastructure project LM2015043 funded by MEYS CR is gratefully acknowledged for the financial support of the measurements at the CF Cryo-electron Microscopy and Tomography CEITEC MU.This project has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement no. 665385","year":"2020","pmid":1,"publication_status":"published","department":[{"_id":"LeSa"}],"publisher":"American Association for the Advancement of Science","author":[{"id":"37233050-F248-11E8-B48F-1D18A9856A87","first_name":"Domen","last_name":"Kampjut","full_name":"Kampjut, Domen"},{"full_name":"Sazanov, Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","first_name":"Leonid A","last_name":"Sazanov"}],"date_created":"2020-11-08T23:01:23Z","date_updated":"2023-08-22T12:35:38Z","volume":370,"article_number":"eabc4209","file_date_updated":"2020-11-26T18:47:58Z","ec_funded":1,"publication":"Science","citation":{"chicago":"Kampjut, Domen, and Leonid A Sazanov. “The Coupling Mechanism of Mammalian Respiratory Complex I.” Science. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/science.abc4209.","short":"D. Kampjut, L.A. Sazanov, Science 370 (2020).","mla":"Kampjut, Domen, and Leonid A. Sazanov. “The Coupling Mechanism of Mammalian Respiratory Complex I.” Science, vol. 370, no. 6516, eabc4209, American Association for the Advancement of Science, 2020, doi:10.1126/science.abc4209.","ieee":"D. Kampjut and L. A. Sazanov, “The coupling mechanism of mammalian respiratory complex I,” Science, vol. 370, no. 6516. American Association for the Advancement of Science, 2020.","apa":"Kampjut, D., & Sazanov, L. A. (2020). The coupling mechanism of mammalian respiratory complex I. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.abc4209","ista":"Kampjut D, Sazanov LA. 2020. The coupling mechanism of mammalian respiratory complex I. Science. 370(6516), eabc4209.","ama":"Kampjut D, Sazanov LA. The coupling mechanism of mammalian respiratory complex I. Science. 2020;370(6516). doi:10.1126/science.abc4209"},"article_type":"original","date_published":"2020-10-30T00:00:00Z","scopus_import":"1","day":"30","has_accepted_license":"1","article_processing_charge":"No","_id":"8737","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"The coupling mechanism of mammalian respiratory complex I","ddc":["572"],"status":"public","intvolume":" 370","file":[{"relation":"main_file","file_id":"8820","checksum":"658ba90979ca9528a2efdfac8547047a","success":1,"date_created":"2020-11-26T18:47:58Z","date_updated":"2020-11-26T18:47:58Z","access_level":"open_access","file_name":"Full_manuscript_with_SI_opt_red.pdf","content_type":"application/pdf","file_size":7618987,"creator":"lsazanov"}],"oa_version":"Submitted Version","type":"journal_article","abstract":[{"lang":"eng","text":"Mitochondrial complex I couples NADH:ubiquinone oxidoreduction to proton pumping by an unknown mechanism. Here, we present cryo-electron microscopy structures of ovine complex I in five different conditions, including turnover, at resolutions up to 2.3 to 2.5 angstroms. Resolved water molecules allowed us to experimentally define the proton translocation pathways. Quinone binds at three positions along the quinone cavity, as does the inhibitor rotenone that also binds within subunit ND4. Dramatic conformational changes around the quinone cavity couple the redox reaction to proton translocation during open-to-closed state transitions of the enzyme. In the induced deactive state, the open conformation is arrested by the ND6 subunit. We propose a detailed molecular coupling mechanism of complex I, which is an unexpected combination of conformational changes and electrostatic interactions."}],"issue":"6516"},{"month":"02","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1908.04207"}],"oa":1,"external_id":{"arxiv":["1908.04207"],"isi":["000564476500004"]},"isi":1,"quality_controlled":"1","project":[{"call_identifier":"H2020","name":"Elastic Coordination for Scalable Machine Learning","_id":"268A44D6-B435-11E9-9278-68D0E5697425","grant_number":"805223"}],"conference":{"name":"PPoPP: Sympopsium on Principles and Practice of Parallel Programming","end_date":"2020-02-26","start_date":"2020-02-22","location":"San Diego, CA, United States"},"doi":"10.1145/3332466.3374528","language":[{"iso":"eng"}],"ec_funded":1,"year":"2020","publication_status":"published","department":[{"_id":"DaAl"}],"publisher":"Association for Computing Machinery","author":[{"full_name":"Li, Shigang","last_name":"Li","first_name":"Shigang"},{"last_name":"Tal Ben-Nun","first_name":"Tal Ben-Nun","full_name":"Tal Ben-Nun, Tal Ben-Nun"},{"last_name":"Girolamo","first_name":"Salvatore Di","full_name":"Girolamo, Salvatore Di"},{"full_name":"Alistarh, Dan-Adrian","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3650-940X","first_name":"Dan-Adrian","last_name":"Alistarh"},{"last_name":"Hoefler","first_name":"Torsten","full_name":"Hoefler, Torsten"}],"date_created":"2020-11-05T15:25:30Z","date_updated":"2023-08-22T12:13:48Z","day":"01","article_processing_charge":"No","publication":"Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming","citation":{"ieee":"S. Li, T. B.-N. Tal Ben-Nun, S. D. Girolamo, D.-A. Alistarh, and T. Hoefler, “Taming unbalanced training workloads in deep learning with partial collective operations,” in Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming, San Diego, CA, United States, 2020, pp. 45–61.","apa":"Li, S., Tal Ben-Nun, T. B.-N., Girolamo, S. D., Alistarh, D.-A., & Hoefler, T. (2020). Taming unbalanced training workloads in deep learning with partial collective operations. In Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming (pp. 45–61). San Diego, CA, United States: Association for Computing Machinery. https://doi.org/10.1145/3332466.3374528","ista":"Li S, Tal Ben-Nun TB-N, Girolamo SD, Alistarh D-A, Hoefler T. 2020. Taming unbalanced training workloads in deep learning with partial collective operations. Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming. PPoPP: Sympopsium on Principles and Practice of Parallel Programming, 45–61.","ama":"Li S, Tal Ben-Nun TB-N, Girolamo SD, Alistarh D-A, Hoefler T. Taming unbalanced training workloads in deep learning with partial collective operations. In: Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming. Association for Computing Machinery; 2020:45-61. doi:10.1145/3332466.3374528","chicago":"Li, Shigang, Tal Ben-Nun Tal Ben-Nun, Salvatore Di Girolamo, Dan-Adrian Alistarh, and Torsten Hoefler. “Taming Unbalanced Training Workloads in Deep Learning with Partial Collective Operations.” In Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming, 45–61. Association for Computing Machinery, 2020. https://doi.org/10.1145/3332466.3374528.","short":"S. Li, T.B.-N. Tal Ben-Nun, S.D. Girolamo, D.-A. Alistarh, T. Hoefler, in:, Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming, Association for Computing Machinery, 2020, pp. 45–61.","mla":"Li, Shigang, et al. “Taming Unbalanced Training Workloads in Deep Learning with Partial Collective Operations.” Proceedings of the 25th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming, Association for Computing Machinery, 2020, pp. 45–61, doi:10.1145/3332466.3374528."},"page":"45-61","date_published":"2020-02-01T00:00:00Z","type":"conference","abstract":[{"lang":"eng","text":"Load imbalance pervasively exists in distributed deep learning training systems, either caused by the inherent imbalance in learned tasks or by the system itself. Traditional synchronous Stochastic Gradient Descent (SGD)\r\nachieves good accuracy for a wide variety of tasks, but relies on global synchronization to accumulate the gradients at every training step. In this paper, we propose eager-SGD, which relaxes the global synchronization for\r\ndecentralized accumulation. To implement eager-SGD, we propose to use two partial collectives: solo and majority. With solo allreduce, the faster processes contribute their gradients eagerly without waiting for the slower processes, whereas with majority allreduce, at least half of the participants must contribute gradients before continuing, all without using a central parameter server. We theoretically prove the convergence of the algorithms and describe the partial collectives in detail. Experimental results on load-imbalanced environments (CIFAR-10, ImageNet, and UCF101 datasets) show\r\nthat eager-SGD achieves 1.27x speedup over the state-of-the-art synchronous SGD, without losing accuracy."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8722","status":"public","title":"Taming unbalanced training workloads in deep learning with partial collective operations","oa_version":"Preprint"},{"date_published":"2020-11-04T00:00:00Z","citation":{"short":"L. Schulte, J. Mao, J. Reitz, S. Sreeramulu, D. Kudlinzki, V.-V. Hodirnau, J. Meier-Credo, K. Saxena, F. Buhr, J.D. Langer, M. Blackledge, A.S. Frangakis, C. Glaubitz, H. Schwalbe, Nature Communications 11 (2020).","mla":"Schulte, Linda, et al. “Cysteine Oxidation and Disulfide Formation in the Ribosomal Exit Tunnel.” Nature Communications, vol. 11, 5569, Springer Nature, 2020, doi:10.1038/s41467-020-19372-x.","chicago":"Schulte, Linda, Jiafei Mao, Julian Reitz, Sridhar Sreeramulu, Denis Kudlinzki, Victor-Valentin Hodirnau, Jakob Meier-Credo, et al. “Cysteine Oxidation and Disulfide Formation in the Ribosomal Exit Tunnel.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-19372-x.","ama":"Schulte L, Mao J, Reitz J, et al. Cysteine oxidation and disulfide formation in the ribosomal exit tunnel. Nature Communications. 2020;11. doi:10.1038/s41467-020-19372-x","ieee":"L. Schulte et al., “Cysteine oxidation and disulfide formation in the ribosomal exit tunnel,” Nature Communications, vol. 11. Springer Nature, 2020.","apa":"Schulte, L., Mao, J., Reitz, J., Sreeramulu, S., Kudlinzki, D., Hodirnau, V.-V., … Schwalbe, H. (2020). Cysteine oxidation and disulfide formation in the ribosomal exit tunnel. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-19372-x","ista":"Schulte L, Mao J, Reitz J, Sreeramulu S, Kudlinzki D, Hodirnau V-V, Meier-Credo J, Saxena K, Buhr F, Langer JD, Blackledge M, Frangakis AS, Glaubitz C, Schwalbe H. 2020. Cysteine oxidation and disulfide formation in the ribosomal exit tunnel. Nature Communications. 11, 5569."},"publication":"Nature Communications","article_type":"original","article_processing_charge":"No","has_accepted_license":"1","day":"04","scopus_import":"1","keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"file":[{"creator":"dernst","content_type":"application/pdf","file_size":1670898,"access_level":"open_access","file_name":"2020_NatureComm_Schulte.pdf","success":1,"checksum":"b2688f0347e69e6629bba582077278c5","date_created":"2020-11-09T07:56:24Z","date_updated":"2020-11-09T07:56:24Z","file_id":"8745","relation":"main_file"}],"oa_version":"Published Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8744","intvolume":" 11","ddc":["570"],"status":"public","title":"Cysteine oxidation and disulfide formation in the ribosomal exit tunnel","abstract":[{"text":"Understanding the conformational sampling of translation-arrested ribosome nascent chain complexes is key to understand co-translational folding. Up to now, coupling of cysteine oxidation, disulfide bond formation and structure formation in nascent chains has remained elusive. Here, we investigate the eye-lens protein γB-crystallin in the ribosomal exit tunnel. Using mass spectrometry, theoretical simulations, dynamic nuclear polarization-enhanced solid-state nuclear magnetic resonance and cryo-electron microscopy, we show that thiol groups of cysteine residues undergo S-glutathionylation and S-nitrosylation and form non-native disulfide bonds. Thus, covalent modification chemistry occurs already prior to nascent chain release as the ribosome exit tunnel provides sufficient space even for disulfide bond formation which can guide protein folding.","lang":"eng"}],"type":"journal_article","doi":"10.1038/s41467-020-19372-x","language":[{"iso":"eng"}],"external_id":{"isi":["000592028600001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","isi":1,"publication_identifier":{"issn":["2041-1723"]},"month":"11","author":[{"full_name":"Schulte, Linda","last_name":"Schulte","first_name":"Linda"},{"full_name":"Mao, Jiafei","first_name":"Jiafei","last_name":"Mao"},{"full_name":"Reitz, Julian","first_name":"Julian","last_name":"Reitz"},{"full_name":"Sreeramulu, Sridhar","last_name":"Sreeramulu","first_name":"Sridhar"},{"full_name":"Kudlinzki, Denis","first_name":"Denis","last_name":"Kudlinzki"},{"full_name":"Hodirnau, Victor-Valentin","id":"3661B498-F248-11E8-B48F-1D18A9856A87","first_name":"Victor-Valentin","last_name":"Hodirnau"},{"full_name":"Meier-Credo, Jakob","first_name":"Jakob","last_name":"Meier-Credo"},{"full_name":"Saxena, Krishna","last_name":"Saxena","first_name":"Krishna"},{"first_name":"Florian","last_name":"Buhr","full_name":"Buhr, Florian"},{"first_name":"Julian D.","last_name":"Langer","full_name":"Langer, Julian D."},{"first_name":"Martin","last_name":"Blackledge","full_name":"Blackledge, Martin"},{"full_name":"Frangakis, Achilleas S.","first_name":"Achilleas S.","last_name":"Frangakis"},{"full_name":"Glaubitz, Clemens","first_name":"Clemens","last_name":"Glaubitz"},{"full_name":"Schwalbe, Harald","first_name":"Harald","last_name":"Schwalbe"}],"volume":11,"date_updated":"2023-08-22T12:36:07Z","date_created":"2020-11-09T07:49:36Z","acknowledgement":"We acknowledge help from Anja Seybert, Margot Frangakis, Diana Grewe, Mikhail Eltsov, Utz Ermel, and Shintaro Aibara. The work was supported by Deutsche Forschungsgemeinschaft in the CLiC graduate school. Work at the Center for Biomolecular Magnetic Resonance (BMRZ) is supported by the German state of Hesse. The work at BMRZ has been supported by the state of Hesse. L.S. has been supported by the DFG graduate college: CLiC.","year":"2020","department":[{"_id":"EM-Fac"}],"publisher":"Springer Nature","publication_status":"published","file_date_updated":"2020-11-09T07:56:24Z","article_number":"5569"},{"date_published":"2020-11-05T00:00:00Z","article_type":"original","publication":"PLOS Computational Biology","citation":{"short":"K. Kaveh, A. McAvoy, K. Chatterjee, M.A. Nowak, PLOS Computational Biology 16 (2020).","mla":"Kaveh, Kamran, et al. “The Moran Process on 2-Chromatic Graphs.” PLOS Computational Biology, vol. 16, no. 11, e1008402, Public Library of Science, 2020, doi:10.1371/journal.pcbi.1008402.","chicago":"Kaveh, Kamran, Alex McAvoy, Krishnendu Chatterjee, and Martin A. Nowak. “The Moran Process on 2-Chromatic Graphs.” PLOS Computational Biology. Public Library of Science, 2020. https://doi.org/10.1371/journal.pcbi.1008402.","ama":"Kaveh K, McAvoy A, Chatterjee K, Nowak MA. The Moran process on 2-chromatic graphs. PLOS Computational Biology. 2020;16(11). doi:10.1371/journal.pcbi.1008402","apa":"Kaveh, K., McAvoy, A., Chatterjee, K., & Nowak, M. A. (2020). The Moran process on 2-chromatic graphs. PLOS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1008402","ieee":"K. Kaveh, A. McAvoy, K. Chatterjee, and M. A. Nowak, “The Moran process on 2-chromatic graphs,” PLOS Computational Biology, vol. 16, no. 11. Public Library of Science, 2020.","ista":"Kaveh K, McAvoy A, Chatterjee K, Nowak MA. 2020. The Moran process on 2-chromatic graphs. PLOS Computational Biology. 16(11), e1008402."},"day":"05","article_processing_charge":"No","has_accepted_license":"1","keyword":["Ecology","Modelling and Simulation","Computational Theory and Mathematics","Genetics","Ecology","Evolution","Behavior and Systematics","Molecular Biology","Cellular and Molecular Neuroscience"],"scopus_import":"1","oa_version":"Published Version","file":[{"checksum":"555456dd0e47bcf9e0994bcb95577e88","success":1,"date_updated":"2020-11-18T07:26:10Z","date_created":"2020-11-18T07:26:10Z","relation":"main_file","file_id":"8768","file_size":2498594,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2020_PlosCompBio_Kaveh.pdf"}],"title":"The Moran process on 2-chromatic graphs","ddc":["000"],"status":"public","intvolume":" 16","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8767","abstract":[{"lang":"eng","text":"Resources are rarely distributed uniformly within a population. Heterogeneity in the concentration of a drug, the quality of breeding sites, or wealth can all affect evolutionary dynamics. In this study, we represent a collection of properties affecting the fitness at a given location using a color. A green node is rich in resources while a red node is poorer. More colors can represent a broader spectrum of resource qualities. For a population evolving according to the birth-death Moran model, the first question we address is which structures, identified by graph connectivity and graph coloring, are evolutionarily equivalent. We prove that all properly two-colored, undirected, regular graphs are evolutionarily equivalent (where “properly colored” means that no two neighbors have the same color). We then compare the effects of background heterogeneity on properly two-colored graphs to those with alternative schemes in which the colors are permuted. Finally, we discuss dynamic coloring as a model for spatiotemporal resource fluctuations, and we illustrate that random dynamic colorings often diminish the effects of background heterogeneity relative to a proper two-coloring."}],"issue":"11","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1371/journal.pcbi.1008402","quality_controlled":"1","isi":1,"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000591317200004"]},"month":"11","publication_identifier":{"issn":["1553-734X"],"eissn":["1553-7358"]},"date_created":"2020-11-18T07:20:23Z","date_updated":"2023-08-22T12:49:18Z","volume":16,"author":[{"full_name":"Kaveh, Kamran","first_name":"Kamran","last_name":"Kaveh"},{"last_name":"McAvoy","first_name":"Alex","full_name":"McAvoy, Alex"},{"full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","last_name":"Chatterjee"},{"full_name":"Nowak, Martin A.","last_name":"Nowak","first_name":"Martin A."}],"publication_status":"published","department":[{"_id":"KrCh"}],"publisher":"Public Library of Science","acknowledgement":"We thank Igor Erovenko for many helpful comments on an earlier version of this paper. : Army Research Laboratory (grant W911NF-18-2-0265) (M.A.N.); the Bill & Melinda Gates Foundation (grant OPP1148627) (M.A.N.); the NVIDIA Corporation (A.M.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.","year":"2020","file_date_updated":"2020-11-18T07:26:10Z","article_number":"e1008402"},{"article_number":"9314994","ec_funded":1,"publisher":"IEEE","department":[{"_id":"ToHe"}],"publication_status":"published","year":"2020","date_created":"2020-11-10T07:04:57Z","date_updated":"2023-08-22T12:48:18Z","author":[{"full_name":"Forets, Marcelo","last_name":"Forets","first_name":"Marcelo"},{"first_name":"Daniel","last_name":"Freire","full_name":"Freire, Daniel"},{"full_name":"Schilling, Christian","orcid":"0000-0003-3658-1065","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","last_name":"Schilling","first_name":"Christian"}],"publication_identifier":{"isbn":["9781728191485"]},"month":"12","project":[{"name":"The Wittgenstein Prize","call_identifier":"FWF","_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211"},{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"isi":1,"quality_controlled":"1","oa":1,"external_id":{"isi":["000661920400013"],"arxiv":["2006.12325"]},"main_file_link":[{"url":"https://arxiv.org/abs/2006.12325","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1109/MEMOCODE51338.2020.9314994","conference":{"name":"MEMOCODE: Conference on Formal Methods and Models for System Design","location":"Virtual Conference","start_date":"2020-12-02","end_date":"2020-12-04"},"type":"conference","abstract":[{"lang":"eng","text":"Efficiently handling time-triggered and possibly nondeterministic switches\r\nfor hybrid systems reachability is a challenging task. In this paper we present\r\nan approach based on conservative set-based enclosure of the dynamics that can\r\nhandle systems with uncertain parameters and inputs, where the uncertainties\r\nare bound to given intervals. The method is evaluated on the plant model of an\r\nexperimental electro-mechanical braking system with periodic controller. In\r\nthis model, the fast-switching controller dynamics requires simulation time\r\nscales of the order of nanoseconds. Accurate set-based computations for\r\nrelatively large time horizons are known to be expensive. However, by\r\nappropriately decoupling the time variable with respect to the spatial\r\nvariables, and enclosing the uncertain parameters using interval matrix maps\r\nacting on zonotopes, we show that the computation time can be lowered to 5000\r\ntimes faster with respect to previous works. This is a step forward in formal\r\nverification of hybrid systems because reduced run-times allow engineers to\r\nintroduce more expressiveness in their models with a relatively inexpensive\r\ncomputational cost."}],"status":"public","title":"Efficient reachability analysis of parametric linear hybrid systems with time-triggered transitions","_id":"8750","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Preprint","scopus_import":"1","article_processing_charge":"No","day":"04","citation":{"ista":"Forets M, Freire D, Schilling C. 2020. Efficient reachability analysis of parametric linear hybrid systems with time-triggered transitions. 18th ACM-IEEE International Conference on Formal Methods and Models for System Design. MEMOCODE: Conference on Formal Methods and Models for System Design, 9314994.","ieee":"M. Forets, D. Freire, and C. Schilling, “Efficient reachability analysis of parametric linear hybrid systems with time-triggered transitions,” in 18th ACM-IEEE International Conference on Formal Methods and Models for System Design, Virtual Conference, 2020.","apa":"Forets, M., Freire, D., & Schilling, C. (2020). Efficient reachability analysis of parametric linear hybrid systems with time-triggered transitions. In 18th ACM-IEEE International Conference on Formal Methods and Models for System Design. Virtual Conference: IEEE. https://doi.org/10.1109/MEMOCODE51338.2020.9314994","ama":"Forets M, Freire D, Schilling C. Efficient reachability analysis of parametric linear hybrid systems with time-triggered transitions. In: 18th ACM-IEEE International Conference on Formal Methods and Models for System Design. IEEE; 2020. doi:10.1109/MEMOCODE51338.2020.9314994","chicago":"Forets, Marcelo, Daniel Freire, and Christian Schilling. “Efficient Reachability Analysis of Parametric Linear Hybrid Systems with Time-Triggered Transitions.” In 18th ACM-IEEE International Conference on Formal Methods and Models for System Design. IEEE, 2020. https://doi.org/10.1109/MEMOCODE51338.2020.9314994.","mla":"Forets, Marcelo, et al. “Efficient Reachability Analysis of Parametric Linear Hybrid Systems with Time-Triggered Transitions.” 18th ACM-IEEE International Conference on Formal Methods and Models for System Design, 9314994, IEEE, 2020, doi:10.1109/MEMOCODE51338.2020.9314994.","short":"M. Forets, D. Freire, C. Schilling, in:, 18th ACM-IEEE International Conference on Formal Methods and Models for System Design, IEEE, 2020."},"publication":"18th ACM-IEEE International Conference on Formal Methods and Models for System Design","date_published":"2020-12-04T00:00:00Z"},{"scopus_import":"1","day":"01","has_accepted_license":"1","article_processing_charge":"No","publication":"Journal of Statistical Physics","citation":{"apa":"Maas, J., & Mielke, A. (2020). Modeling of chemical reaction systems with detailed balance using gradient structures. Journal of Statistical Physics. Springer Nature. https://doi.org/10.1007/s10955-020-02663-4","ieee":"J. Maas and A. Mielke, “Modeling of chemical reaction systems with detailed balance using gradient structures,” Journal of Statistical Physics, vol. 181, no. 6. Springer Nature, pp. 2257–2303, 2020.","ista":"Maas J, Mielke A. 2020. Modeling of chemical reaction systems with detailed balance using gradient structures. Journal of Statistical Physics. 181(6), 2257–2303.","ama":"Maas J, Mielke A. Modeling of chemical reaction systems with detailed balance using gradient structures. Journal of Statistical Physics. 2020;181(6):2257-2303. doi:10.1007/s10955-020-02663-4","chicago":"Maas, Jan, and Alexander Mielke. “Modeling of Chemical Reaction Systems with Detailed Balance Using Gradient Structures.” Journal of Statistical Physics. Springer Nature, 2020. https://doi.org/10.1007/s10955-020-02663-4.","short":"J. Maas, A. Mielke, Journal of Statistical Physics 181 (2020) 2257–2303.","mla":"Maas, Jan, and Alexander Mielke. “Modeling of Chemical Reaction Systems with Detailed Balance Using Gradient Structures.” Journal of Statistical Physics, vol. 181, no. 6, Springer Nature, 2020, pp. 2257–303, doi:10.1007/s10955-020-02663-4."},"article_type":"original","page":"2257-2303","date_published":"2020-12-01T00:00:00Z","type":"journal_article","abstract":[{"text":"We consider various modeling levels for spatially homogeneous chemical reaction systems, namely the chemical master equation, the chemical Langevin dynamics, and the reaction-rate equation. Throughout we restrict our study to the case where the microscopic system satisfies the detailed-balance condition. The latter allows us to enrich the systems with a gradient structure, i.e. the evolution is given by a gradient-flow equation. We present the arising links between the associated gradient structures that are driven by the relative entropy of the detailed-balance steady state. The limit of large volumes is studied in the sense of evolutionary Γ-convergence of gradient flows. Moreover, we use the gradient structures to derive hybrid models for coupling different modeling levels.","lang":"eng"}],"issue":"6","_id":"8758","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","ddc":["510"],"title":"Modeling of chemical reaction systems with detailed balance using gradient structures","intvolume":" 181","oa_version":"Published Version","file":[{"file_name":"2020_JourStatPhysics_Maas.pdf","access_level":"open_access","file_size":753596,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"9087","date_updated":"2021-02-04T10:29:11Z","date_created":"2021-02-04T10:29:11Z","checksum":"bc2b63a90197b97cbc73eccada4639f5","success":1}],"month":"12","publication_identifier":{"eissn":["15729613"],"issn":["00224715"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"arxiv":["2004.02831"],"isi":["000587107200002"]},"quality_controlled":"1","isi":1,"project":[{"grant_number":"716117","_id":"256E75B8-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Optimal Transport and Stochastic Dynamics"},{"grant_number":" F06504","_id":"260482E2-B435-11E9-9278-68D0E5697425","name":"Taming Complexity in Partial Di erential Systems","call_identifier":"FWF"}],"doi":"10.1007/s10955-020-02663-4","language":[{"iso":"eng"}],"file_date_updated":"2021-02-04T10:29:11Z","ec_funded":1,"acknowledgement":"The research of A.M. was partially supported by the Deutsche Forschungsgemeinschaft (DFG) via the Collaborative Research Center SFB 1114 Scaling Cascades in Complex Systems (Project No. 235221301), through the Subproject C05 Effective models for materials and interfaces with multiple scales. J.M. gratefully acknowledges support by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 716117), and by the Austrian Science Fund (FWF), Project SFB F65. The authors thank Christof Schütte, Robert I. A. Patterson, and Stefanie Winkelmann for helpful and stimulating discussions. Open access funding provided by Austrian Science Fund (FWF).","year":"2020","publication_status":"published","department":[{"_id":"JaMa"}],"publisher":"Springer Nature","author":[{"id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0845-1338","first_name":"Jan","last_name":"Maas","full_name":"Maas, Jan"},{"last_name":"Mielke","first_name":"Alexander","full_name":"Mielke, Alexander"}],"date_created":"2020-11-15T23:01:18Z","date_updated":"2023-08-22T13:24:27Z","volume":181},{"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.4052883"}],"citation":{"ama":"Peruzzo M, Trioni A, Hassani F, Zemlicka M, Fink JM. Surpassing the resistance quantum with a geometric superinductor. 2020. doi:10.5281/ZENODO.4052882","ieee":"M. Peruzzo, A. Trioni, F. Hassani, M. Zemlicka, and J. M. Fink, “Surpassing the resistance quantum with a geometric superinductor.” Zenodo, 2020.","apa":"Peruzzo, M., Trioni, A., Hassani, F., Zemlicka, M., & Fink, J. M. (2020). Surpassing the resistance quantum with a geometric superinductor. Zenodo. https://doi.org/10.5281/ZENODO.4052882","ista":"Peruzzo M, Trioni A, Hassani F, Zemlicka M, Fink JM. 2020. Surpassing the resistance quantum with a geometric superinductor, Zenodo, 10.5281/ZENODO.4052882.","short":"M. Peruzzo, A. Trioni, F. Hassani, M. Zemlicka, J.M. Fink, (2020).","mla":"Peruzzo, Matilda, et al. Surpassing the Resistance Quantum with a Geometric Superinductor. Zenodo, 2020, doi:10.5281/ZENODO.4052882.","chicago":"Peruzzo, Matilda, Andrea Trioni, Farid Hassani, Martin Zemlicka, and Johannes M Fink. “Surpassing the Resistance Quantum with a Geometric Superinductor.” Zenodo, 2020. https://doi.org/10.5281/ZENODO.4052882."},"date_published":"2020-09-27T00:00:00Z","doi":"10.5281/ZENODO.4052882","article_processing_charge":"No","day":"27","month":"09","_id":"13070","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2020","publisher":"Zenodo","department":[{"_id":"JoFi"}],"title":"Surpassing the resistance quantum with a geometric superinductor","status":"public","ddc":["530"],"related_material":{"record":[{"id":"8755","relation":"used_in_publication","status":"public"}]},"author":[{"last_name":"Peruzzo","first_name":"Matilda","orcid":"0000-0002-3415-4628","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","full_name":"Peruzzo, Matilda"},{"id":"42F71B44-F248-11E8-B48F-1D18A9856A87","first_name":"Andrea","last_name":"Trioni","full_name":"Trioni, Andrea"},{"last_name":"Hassani","first_name":"Farid","orcid":"0000-0001-6937-5773","id":"2AED110C-F248-11E8-B48F-1D18A9856A87","full_name":"Hassani, Farid"},{"id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87","last_name":"Zemlicka","first_name":"Martin","full_name":"Zemlicka, Martin"},{"last_name":"Fink","first_name":"Johannes M","orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M"}],"oa_version":"Published Version","date_created":"2023-05-23T16:42:30Z","date_updated":"2023-08-22T13:23:57Z","type":"research_data_reference","abstract":[{"text":"This dataset comprises all data shown in the figures of the submitted article \"Surpassing the resistance quantum with a geometric superinductor\". Additional raw data are available from the corresponding author on reasonable request.","lang":"eng"}]},{"publication_identifier":{"eissn":["20411723"]},"month":"11","external_id":{"pmid":["33188196"],"isi":["000594648000014"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"call_identifier":"H2020","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","_id":"260AA4E2-B435-11E9-9278-68D0E5697425","grant_number":"747687"}],"isi":1,"quality_controlled":"1","doi":"10.1038/s41467-020-19515-0","language":[{"iso":"eng"}],"article_number":"5778","ec_funded":1,"file_date_updated":"2020-11-23T13:29:49Z","pmid":1,"acknowledgement":"We thank Sebastian Helmer, Nicole Blount, Christine Mann, and Beate Jantz for technical assistance; Hellen Ishikawa-Ankerhold for help and advice; Michael Sixt for critical\r\ndiscussions. This study was supported by the DFG SFB 914 (S.M. [B02 and Z01], K.Sch.\r\n[B02], B.W. [A02 and Z03], C.A.R. [B03], C.S. [A10], J.P. [Gerok position]), the DFG\r\nSFB 1123 (S.M. [B06]), the DFG FOR 2033 (S.M. and F.G.), the German Center for\r\nCardiovascular Research (DZHK) (Clinician Scientist Program [L.N.], MHA 1.4VD\r\n[S.M.], Postdoc Start-up Grant, 81×3600213 [F.G.]), FP7 program (project 260309,\r\nPRESTIGE [S.M.]), FöFoLe project 1015/1009 (L.N.), FöFoLe project 947 (F.G.), the\r\nFriedrich-Baur-Stiftung project 41/16 (F.G.), and LMUexcellence NFF (F.G.). This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no.\r\n833440) (S.M.). F.G. received funding from the European Union’s Horizon 2020 research\r\nand innovation program under the Marie Skłodowska-Curie grant agreement no.\r\n747687.","year":"2020","department":[{"_id":"MiSi"},{"_id":"EM-Fac"}],"publisher":"Springer Nature","publication_status":"published","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41467-022-31310-7"}]},"author":[{"full_name":"Nicolai, Leo","first_name":"Leo","last_name":"Nicolai"},{"full_name":"Schiefelbein, Karin","last_name":"Schiefelbein","first_name":"Karin"},{"last_name":"Lipsky","first_name":"Silvia","full_name":"Lipsky, Silvia"},{"last_name":"Leunig","first_name":"Alexander","full_name":"Leunig, Alexander"},{"first_name":"Marie","last_name":"Hoffknecht","full_name":"Hoffknecht, Marie"},{"full_name":"Pekayvaz, Kami","first_name":"Kami","last_name":"Pekayvaz"},{"first_name":"Ben","last_name":"Raude","full_name":"Raude, Ben"},{"first_name":"Charlotte","last_name":"Marx","full_name":"Marx, Charlotte"},{"full_name":"Ehrlich, Andreas","first_name":"Andreas","last_name":"Ehrlich"},{"full_name":"Pircher, Joachim","last_name":"Pircher","first_name":"Joachim"},{"full_name":"Zhang, Zhe","first_name":"Zhe","last_name":"Zhang"},{"full_name":"Saleh, Inas","first_name":"Inas","last_name":"Saleh"},{"first_name":"Anna-Kristina","last_name":"Marel","full_name":"Marel, Anna-Kristina"},{"first_name":"Achim","last_name":"Löf","full_name":"Löf, Achim"},{"first_name":"Tobias","last_name":"Petzold","full_name":"Petzold, Tobias"},{"last_name":"Lorenz","first_name":"Michael","full_name":"Lorenz, Michael"},{"full_name":"Stark, Konstantin","last_name":"Stark","first_name":"Konstantin"},{"full_name":"Pick, Robert","first_name":"Robert","last_name":"Pick"},{"full_name":"Rosenberger, Gerhild","first_name":"Gerhild","last_name":"Rosenberger"},{"full_name":"Weckbach, Ludwig","last_name":"Weckbach","first_name":"Ludwig"},{"first_name":"Bernd","last_name":"Uhl","full_name":"Uhl, Bernd"},{"first_name":"Sheng","last_name":"Xia","full_name":"Xia, Sheng"},{"full_name":"Reichel, Christoph Andreas","first_name":"Christoph Andreas","last_name":"Reichel"},{"full_name":"Walzog, Barbara","first_name":"Barbara","last_name":"Walzog"},{"first_name":"Christian","last_name":"Schulz","full_name":"Schulz, Christian"},{"first_name":"Vanessa","last_name":"Zheden","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9438-4783","full_name":"Zheden, Vanessa"},{"full_name":"Bender, Markus","last_name":"Bender","first_name":"Markus"},{"first_name":"Rong","last_name":"Li","full_name":"Li, Rong"},{"first_name":"Steffen","last_name":"Massberg","full_name":"Massberg, Steffen"},{"id":"397A88EE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6120-3723","first_name":"Florian R","last_name":"Gärtner","full_name":"Gärtner, Florian R"}],"volume":11,"date_created":"2020-11-22T23:01:23Z","date_updated":"2023-08-22T13:26:26Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"13","citation":{"ama":"Nicolai L, Schiefelbein K, Lipsky S, et al. Vascular surveillance by haptotactic blood platelets in inflammation and infection. Nature Communications. 2020;11. doi:10.1038/s41467-020-19515-0","ista":"Nicolai L, Schiefelbein K, Lipsky S, Leunig A, Hoffknecht M, Pekayvaz K, Raude B, Marx C, Ehrlich A, Pircher J, Zhang Z, Saleh I, Marel A-K, Löf A, Petzold T, Lorenz M, Stark K, Pick R, Rosenberger G, Weckbach L, Uhl B, Xia S, Reichel CA, Walzog B, Schulz C, Zheden V, Bender M, Li R, Massberg S, Gärtner FR. 2020. Vascular surveillance by haptotactic blood platelets in inflammation and infection. Nature Communications. 11, 5778.","ieee":"L. Nicolai et al., “Vascular surveillance by haptotactic blood platelets in inflammation and infection,” Nature Communications, vol. 11. Springer Nature, 2020.","apa":"Nicolai, L., Schiefelbein, K., Lipsky, S., Leunig, A., Hoffknecht, M., Pekayvaz, K., … Gärtner, F. R. (2020). Vascular surveillance by haptotactic blood platelets in inflammation and infection. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-19515-0","mla":"Nicolai, Leo, et al. “Vascular Surveillance by Haptotactic Blood Platelets in Inflammation and Infection.” Nature Communications, vol. 11, 5778, Springer Nature, 2020, doi:10.1038/s41467-020-19515-0.","short":"L. Nicolai, K. Schiefelbein, S. Lipsky, A. Leunig, M. Hoffknecht, K. Pekayvaz, B. Raude, C. Marx, A. Ehrlich, J. Pircher, Z. Zhang, I. Saleh, A.-K. Marel, A. Löf, T. Petzold, M. Lorenz, K. Stark, R. Pick, G. Rosenberger, L. Weckbach, B. Uhl, S. Xia, C.A. Reichel, B. Walzog, C. Schulz, V. Zheden, M. Bender, R. Li, S. Massberg, F.R. Gärtner, Nature Communications 11 (2020).","chicago":"Nicolai, Leo, Karin Schiefelbein, Silvia Lipsky, Alexander Leunig, Marie Hoffknecht, Kami Pekayvaz, Ben Raude, et al. “Vascular Surveillance by Haptotactic Blood Platelets in Inflammation and Infection.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-19515-0."},"publication":"Nature Communications","article_type":"original","date_published":"2020-11-13T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Breakdown of vascular barriers is a major complication of inflammatory diseases. Anucleate platelets form blood-clots during thrombosis, but also play a crucial role in inflammation. While spatio-temporal dynamics of clot formation are well characterized, the cell-biological mechanisms of platelet recruitment to inflammatory micro-environments remain incompletely understood. Here we identify Arp2/3-dependent lamellipodia formation as a prominent morphological feature of immune-responsive platelets. Platelets use lamellipodia to scan for fibrin(ogen) deposited on the inflamed vasculature and to directionally spread, to polarize and to govern haptotactic migration along gradients of the adhesive ligand. Platelet-specific abrogation of Arp2/3 interferes with haptotactic repositioning of platelets to microlesions, thus impairing vascular sealing and provoking inflammatory microbleeding. During infection, haptotaxis promotes capture of bacteria and prevents hematogenic dissemination, rendering platelets gate-keepers of the inflamed microvasculature. Consequently, these findings identify haptotaxis as a key effector function of immune-responsive platelets."}],"_id":"8787","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 11","ddc":["570"],"status":"public","title":"Vascular surveillance by haptotactic blood platelets in inflammation and infection","file":[{"file_name":"2020_NatureComm_Nicolai.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":7035340,"file_id":"8798","relation":"main_file","date_updated":"2020-11-23T13:29:49Z","date_created":"2020-11-23T13:29:49Z","success":1,"checksum":"485b7b6cf30198ba0ce126491a28f125"}],"oa_version":"Published Version"},{"article_number":"1945","ec_funded":1,"file_date_updated":"2020-11-23T13:06:30Z","publisher":"MDPI","department":[{"_id":"KrCh"}],"publication_status":"published","year":"2020","acknowledgement":"This work was supported by the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant Agreement #754411, the Australian Research Council Discovery Grants DP160101236 and DP150100618, and the European Research Council Consolidator Grant 863818 (FoRM-SMArt).\r\nAuthors would like to thank Patrick McKinlay for his work on the preliminary results for this paper.","volume":8,"date_created":"2020-11-22T23:01:24Z","date_updated":"2023-08-22T13:25:45Z","author":[{"full_name":"Kleshnina, Maria","id":"4E21749C-F248-11E8-B48F-1D18A9856A87","last_name":"Kleshnina","first_name":"Maria"},{"first_name":"Sabrina","last_name":"Streipert","full_name":"Streipert, Sabrina"},{"first_name":"Jerzy","last_name":"Filar","full_name":"Filar, Jerzy"},{"last_name":"Chatterjee","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu"}],"publication_identifier":{"eissn":["22277390"]},"month":"11","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"},{"call_identifier":"H2020","name":"Formal Methods for Stochastic Models: Algorithms and Applications","grant_number":"863818","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E"}],"isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000593962100001"]},"language":[{"iso":"eng"}],"doi":"10.3390/math8111945","type":"journal_article","issue":"11","abstract":[{"text":"Cooperation is a ubiquitous and beneficial behavioural trait despite being prone to exploitation by free-riders. Hence, cooperative populations are prone to invasions by selfish individuals. However, a population consisting of only free-riders typically does not survive. Thus, cooperators and free-riders often coexist in some proportion. An evolutionary version of a Snowdrift Game proved its efficiency in analysing this phenomenon. However, what if the system has already reached its stable state but was perturbed due to a change in environmental conditions? Then, individuals may have to re-learn their effective strategies. To address this, we consider behavioural mistakes in strategic choice execution, which we refer to as incompetence. Parametrising the propensity to make such mistakes allows for a mathematical description of learning. We compare strategies based on their relative strategic advantage relying on both fitness and learning factors. When strategies are learned at distinct rates, allowing learning according to a prescribed order is optimal. Interestingly, the strategy with the lowest strategic advantage should be learnt first if we are to optimise fitness over the learning path. Then, the differences between strategies are balanced out in order to minimise the effect of behavioural uncertainty.","lang":"eng"}],"intvolume":" 8","title":"Prioritised learning in snowdrift-type games","status":"public","ddc":["000"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8789","file":[{"content_type":"application/pdf","file_size":565191,"creator":"dernst","access_level":"open_access","file_name":"2020_Mathematics_Kleshnina.pdf","checksum":"61cfcc3b35760656ce7a9385a4ace5d2","success":1,"date_created":"2020-11-23T13:06:30Z","date_updated":"2020-11-23T13:06:30Z","relation":"main_file","file_id":"8797"}],"oa_version":"Published Version","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"04","article_type":"original","citation":{"short":"M. Kleshnina, S. Streipert, J. Filar, K. Chatterjee, Mathematics 8 (2020).","mla":"Kleshnina, Maria, et al. “Prioritised Learning in Snowdrift-Type Games.” Mathematics, vol. 8, no. 11, 1945, MDPI, 2020, doi:10.3390/math8111945.","chicago":"Kleshnina, Maria, Sabrina Streipert, Jerzy Filar, and Krishnendu Chatterjee. “Prioritised Learning in Snowdrift-Type Games.” Mathematics. MDPI, 2020. https://doi.org/10.3390/math8111945.","ama":"Kleshnina M, Streipert S, Filar J, Chatterjee K. Prioritised learning in snowdrift-type games. Mathematics. 2020;8(11). doi:10.3390/math8111945","ieee":"M. Kleshnina, S. Streipert, J. Filar, and K. Chatterjee, “Prioritised learning in snowdrift-type games,” Mathematics, vol. 8, no. 11. MDPI, 2020.","apa":"Kleshnina, M., Streipert, S., Filar, J., & Chatterjee, K. (2020). Prioritised learning in snowdrift-type games. Mathematics. MDPI. https://doi.org/10.3390/math8111945","ista":"Kleshnina M, Streipert S, Filar J, Chatterjee K. 2020. Prioritised learning in snowdrift-type games. Mathematics. 8(11), 1945."},"publication":"Mathematics","date_published":"2020-11-04T00:00:00Z"},{"file_date_updated":"2020-08-24T12:53:15Z","ec_funded":1,"date_updated":"2023-08-22T13:27:32Z","date_created":"2020-08-24T12:56:20Z","author":[{"full_name":"Bogomolov, Sergiy","first_name":"Sergiy","last_name":"Bogomolov"},{"full_name":"Forets, Marcelo","last_name":"Forets","first_name":"Marcelo"},{"full_name":"Frehse, Goran","last_name":"Frehse","first_name":"Goran"},{"full_name":"Potomkin, Kostiantyn","first_name":"Kostiantyn","last_name":"Potomkin"},{"full_name":"Schilling, Christian","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3658-1065","first_name":"Christian","last_name":"Schilling"}],"related_material":{"record":[{"id":"8790","status":"public","relation":"later_version"}]},"publication_status":"published","department":[{"_id":"ToHe"}],"year":"2020","language":[{"iso":"eng"}],"conference":{"name":"EMSOFT: International Conference on Embedded Software","end_date":"2020-09-25","location":"Virtual ","start_date":"2020-09-20"},"quality_controlled":"1","project":[{"grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Rigorous Systems Engineering"},{"call_identifier":"FWF","name":"The Wittgenstein Prize","_id":"25C5A090-B435-11E9-9278-68D0E5697425","grant_number":"Z00312"},{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"external_id":{"arxiv":["1905.02458"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"abstract":[{"text":"Reachability analysis aims at identifying states reachable by a system within a given time horizon. This task is known to be computationally expensive for linear hybrid systems. Reachability analysis works by iteratively applying continuous and discrete post operators to compute states reachable according to continuous and discrete dynamics, respectively. In this paper, we enhance both of these operators and make sure that most of the involved computations are performed in low-dimensional state space. In particular, we improve the continuous-post operator by performing computations in high-dimensional state space only for time intervals relevant for the subsequent application of the discrete-post operator. Furthermore, the new discrete-post operator performs low-dimensional computations by leveraging the structure of the guard and assignment of a considered transition. We illustrate the potential of our approach on a number of challenging benchmarks.","lang":"eng"}],"type":"conference","file":[{"access_level":"open_access","file_name":"2020EMSOFT.pdf","file_size":696384,"content_type":"application/pdf","creator":"cschilli","relation":"main_file","file_id":"8288","checksum":"d19e97d0f8a3a441dc078ec812297d75","success":1,"date_updated":"2020-08-24T12:53:15Z","date_created":"2020-08-24T12:53:15Z"}],"oa_version":"Preprint","status":"public","title":"Reachability analysis of linear hybrid systems via block decomposition","ddc":["000"],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"8287","has_accepted_license":"1","article_processing_charge":"No","keyword":["reachability","hybrid systems","decomposition"],"date_published":"2020-01-01T00:00:00Z","publication":"Proceedings of the International Conference on Embedded Software","citation":{"ama":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. Reachability analysis of linear hybrid systems via block decomposition. In: Proceedings of the International Conference on Embedded Software. ; 2020.","ista":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. 2020. Reachability analysis of linear hybrid systems via block decomposition. Proceedings of the International Conference on Embedded Software. EMSOFT: International Conference on Embedded Software.","ieee":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, and C. Schilling, “Reachability analysis of linear hybrid systems via block decomposition,” in Proceedings of the International Conference on Embedded Software, Virtual , 2020.","apa":"Bogomolov, S., Forets, M., Frehse, G., Potomkin, K., & Schilling, C. (2020). Reachability analysis of linear hybrid systems via block decomposition. In Proceedings of the International Conference on Embedded Software. Virtual .","mla":"Bogomolov, Sergiy, et al. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” Proceedings of the International Conference on Embedded Software, 2020.","short":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, C. Schilling, in:, Proceedings of the International Conference on Embedded Software, 2020.","chicago":"Bogomolov, Sergiy, Marcelo Forets, Goran Frehse, Kostiantyn Potomkin, and Christian Schilling. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” In Proceedings of the International Conference on Embedded Software, 2020."}},{"issue":"11","abstract":[{"text":"Reachability analysis aims at identifying states reachable by a system within a given time horizon. This task is known to be computationally expensive for linear hybrid systems. Reachability analysis works by iteratively applying continuous and discrete post operators to compute states reachable according to continuous and discrete dynamics, respectively. In this article, we enhance both of these operators and make sure that most of the involved computations are performed in low-dimensional state space. In particular, we improve the continuous-post operator by performing computations in high-dimensional state space only for time intervals relevant for the subsequent application of the discrete-post operator. Furthermore, the new discrete-post operator performs low-dimensional computations by leveraging the structure of the guard and assignment of a considered transition. We illustrate the potential of our approach on a number of challenging benchmarks.","lang":"eng"}],"type":"journal_article","oa_version":"Preprint","intvolume":" 39","status":"public","title":"Reachability analysis of linear hybrid systems via block decomposition","_id":"8790","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2020-11-01T00:00:00Z","page":"4018-4029","article_type":"original","citation":{"short":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, C. Schilling, IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems 39 (2020) 4018–4029.","mla":"Bogomolov, Sergiy, et al. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems, vol. 39, no. 11, IEEE, 2020, pp. 4018–29, doi:10.1109/TCAD.2020.3012859.","chicago":"Bogomolov, Sergiy, Marcelo Forets, Goran Frehse, Kostiantyn Potomkin, and Christian Schilling. “Reachability Analysis of Linear Hybrid Systems via Block Decomposition.” IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. IEEE, 2020. https://doi.org/10.1109/TCAD.2020.3012859.","ama":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. Reachability analysis of linear hybrid systems via block decomposition. IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. 2020;39(11):4018-4029. doi:10.1109/TCAD.2020.3012859","ieee":"S. Bogomolov, M. Forets, G. Frehse, K. Potomkin, and C. Schilling, “Reachability analysis of linear hybrid systems via block decomposition,” IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems, vol. 39, no. 11. IEEE, pp. 4018–4029, 2020.","apa":"Bogomolov, S., Forets, M., Frehse, G., Potomkin, K., & Schilling, C. (2020). Reachability analysis of linear hybrid systems via block decomposition. IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. IEEE. https://doi.org/10.1109/TCAD.2020.3012859","ista":"Bogomolov S, Forets M, Frehse G, Potomkin K, Schilling C. 2020. Reachability analysis of linear hybrid systems via block decomposition. IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems. 39(11), 4018–4029."},"publication":"IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems","ec_funded":1,"volume":39,"date_updated":"2023-08-22T13:27:33Z","date_created":"2020-11-22T23:01:25Z","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"8287"}]},"author":[{"first_name":"Sergiy","last_name":"Bogomolov","id":"369D9A44-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0686-0365","full_name":"Bogomolov, Sergiy"},{"last_name":"Forets","first_name":"Marcelo","full_name":"Forets, Marcelo"},{"full_name":"Frehse, Goran","last_name":"Frehse","first_name":"Goran"},{"first_name":"Kostiantyn","last_name":"Potomkin","full_name":"Potomkin, Kostiantyn"},{"full_name":"Schilling, Christian","last_name":"Schilling","first_name":"Christian","orcid":"0000-0003-3658-1065","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87"}],"department":[{"_id":"ToHe"}],"publisher":"IEEE","publication_status":"published","year":"2020","acknowledgement":"This research was supported in part by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE/SHiNE) and Z211-N23 (Wittgenstein Award), the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 754411, and the Air Force Office of Scientific Research under award number FA2386-17-1-4065. Any opinions, findings, and conclusions or recommendations expressed in this material are those of the authors and do not necessarily reflect the views of the United States Air Force. ","publication_identifier":{"issn":["02780070"],"eissn":["19374151"]},"month":"11","language":[{"iso":"eng"}],"doi":"10.1109/TCAD.2020.3012859","project":[{"name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","name":"The Wittgenstein Prize","_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211"},{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"quality_controlled":"1","isi":1,"external_id":{"isi":["000587712700072"],"arxiv":["1905.02458"]},"oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1905.02458"}]},{"publisher":"Frontiers","department":[{"_id":"EvBe"}],"publication_status":"published","acknowledgement":"CN, DD, NF-F, and JD were funded by the BBSRC (grant number BB/M009459/1). NK and AM were funded through the ERASMUS+Program. NC was funded by the VIPS Program of the Austrian Federal Ministry of Science and Research and the City of Vienna.","year":"2020","volume":11,"date_updated":"2023-08-24T10:50:00Z","date_created":"2020-12-06T23:01:14Z","author":[{"full_name":"Nibau, Candida","last_name":"Nibau","first_name":"Candida"},{"full_name":"Dadarou, Despoina","first_name":"Despoina","last_name":"Dadarou"},{"full_name":"Kargios, Nestoras","last_name":"Kargios","first_name":"Nestoras"},{"last_name":"Mallioura","first_name":"Areti","full_name":"Mallioura, Areti"},{"first_name":"Narcis","last_name":"Fernandez-Fuentes","full_name":"Fernandez-Fuentes, Narcis"},{"full_name":"Cavallari, Nicola","id":"457160E6-F248-11E8-B48F-1D18A9856A87","first_name":"Nicola","last_name":"Cavallari"},{"last_name":"Doonan","first_name":"John H.","full_name":"Doonan, John H."}],"article_number":"586870","file_date_updated":"2020-12-09T09:14:19Z","isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000591637000001"]},"language":[{"iso":"eng"}],"doi":"10.3389/fpls.2020.586870","publication_identifier":{"eissn":["1664-462X"]},"month":"11","intvolume":" 11","status":"public","title":"A functional kinase is necessary for cyclin-dependent kinase G1 (CDKG1) to maintain fertility at high ambient temperature in Arabidopsis","ddc":["580"],"_id":"8924","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","file":[{"relation":"main_file","file_id":"8929","checksum":"1c0ee6ce9950aa665d6a5cc64aa6b752","success":1,"date_created":"2020-12-09T09:14:19Z","date_updated":"2020-12-09T09:14:19Z","access_level":"open_access","file_name":"2020_Frontiers_Nibau.pdf","content_type":"application/pdf","file_size":1833244,"creator":"dernst"}],"type":"journal_article","abstract":[{"text":"Maintaining fertility in a fluctuating environment is key to the reproductive success of flowering plants. Meiosis and pollen formation are particularly sensitive to changes in growing conditions, especially temperature. We have previously identified cyclin-dependent kinase G1 (CDKG1) as a master regulator of temperature-dependent meiosis and this may involve the regulation of alternative splicing (AS), including of its own transcript. CDKG1 mRNA can undergo several AS events, potentially producing two protein variants: CDKG1L and CDKG1S, differing in their N-terminal domain which may be involved in co-factor interaction. In leaves, both isoforms have distinct temperature-dependent functions on target mRNA processing, but their role in pollen development is unknown. In the present study, we characterize the role of CDKG1L and CDKG1S in maintaining Arabidopsis fertility. We show that the long (L) form is necessary and sufficient to rescue the fertility defects of the cdkg1-1 mutant, while the short (S) form is unable to rescue fertility. On the other hand, an extra copy of CDKG1L reduces fertility. In addition, mutation of the ATP binding pocket of the kinase indicates that kinase activity is necessary for the function of CDKG1. Kinase mutants of CDKG1L and CDKG1S correctly localize to the cell nucleus and nucleus and cytoplasm, respectively, but are unable to rescue either the fertility or the splicing defects of the cdkg1-1 mutant. Furthermore, we show that there is partial functional overlap between CDKG1 and its paralog CDKG2 that could in part be explained by overlapping gene expression.","lang":"eng"}],"article_type":"original","citation":{"chicago":"Nibau, Candida, Despoina Dadarou, Nestoras Kargios, Areti Mallioura, Narcis Fernandez-Fuentes, Nicola Cavallari, and John H. Doonan. “A Functional Kinase Is Necessary for Cyclin-Dependent Kinase G1 (CDKG1) to Maintain Fertility at High Ambient Temperature in Arabidopsis.” Frontiers in Plant Science. Frontiers, 2020. https://doi.org/10.3389/fpls.2020.586870.","mla":"Nibau, Candida, et al. “A Functional Kinase Is Necessary for Cyclin-Dependent Kinase G1 (CDKG1) to Maintain Fertility at High Ambient Temperature in Arabidopsis.” Frontiers in Plant Science, vol. 11, 586870, Frontiers, 2020, doi:10.3389/fpls.2020.586870.","short":"C. Nibau, D. Dadarou, N. Kargios, A. Mallioura, N. Fernandez-Fuentes, N. Cavallari, J.H. Doonan, Frontiers in Plant Science 11 (2020).","ista":"Nibau C, Dadarou D, Kargios N, Mallioura A, Fernandez-Fuentes N, Cavallari N, Doonan JH. 2020. A functional kinase is necessary for cyclin-dependent kinase G1 (CDKG1) to maintain fertility at high ambient temperature in Arabidopsis. Frontiers in Plant Science. 11, 586870.","apa":"Nibau, C., Dadarou, D., Kargios, N., Mallioura, A., Fernandez-Fuentes, N., Cavallari, N., & Doonan, J. H. (2020). A functional kinase is necessary for cyclin-dependent kinase G1 (CDKG1) to maintain fertility at high ambient temperature in Arabidopsis. Frontiers in Plant Science. Frontiers. https://doi.org/10.3389/fpls.2020.586870","ieee":"C. Nibau et al., “A functional kinase is necessary for cyclin-dependent kinase G1 (CDKG1) to maintain fertility at high ambient temperature in Arabidopsis,” Frontiers in Plant Science, vol. 11. Frontiers, 2020.","ama":"Nibau C, Dadarou D, Kargios N, et al. A functional kinase is necessary for cyclin-dependent kinase G1 (CDKG1) to maintain fertility at high ambient temperature in Arabidopsis. Frontiers in Plant Science. 2020;11. doi:10.3389/fpls.2020.586870"},"publication":"Frontiers in Plant Science","date_published":"2020-11-10T00:00:00Z","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"10"},{"issue":"18","abstract":[{"lang":"eng","text":"Superconductor insulator transition in transverse magnetic field is studied in the highly disordered MoC film with the product of the Fermi momentum and the mean free path kF*l close to unity. Surprisingly, the Zeeman paramagnetic effects dominate over orbital coupling on both sides of the transition. In superconducting state it is evidenced by a high upper critical magnetic field 𝐵𝑐2, by its square root dependence on temperature, as well as by the Zeeman splitting of the quasiparticle density of states (DOS) measured by scanning tunneling microscopy. At 𝐵𝑐2 a logarithmic anomaly in DOS is observed. This anomaly is further enhanced in increasing magnetic field, which is explained by the Zeeman splitting of the Altshuler-Aronov DOS driving\r\nthe system into a more insulating or resistive state. Spin dependent Altshuler-Aronov correction is also needed to explain the transport behavior above 𝐵𝑐2."}],"type":"journal_article","oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8944","intvolume":" 102","status":"public","title":"Zeeman-driven superconductor-insulator transition in strongly disordered MoC films: Scanning tunneling microscopy and transport studies in a transverse magnetic field","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2020-11-01T00:00:00Z","citation":{"ista":"Zemlicka M, Kopčík M, Szabó P, Samuely T, Kačmarčík J, Neilinger P, Grajcar M, Samuely P. 2020. Zeeman-driven superconductor-insulator transition in strongly disordered MoC films: Scanning tunneling microscopy and transport studies in a transverse magnetic field. Physical Review B. 102(18), 180508.","ieee":"M. Zemlicka et al., “Zeeman-driven superconductor-insulator transition in strongly disordered MoC films: Scanning tunneling microscopy and transport studies in a transverse magnetic field,” Physical Review B, vol. 102, no. 18. American Physical Society, 2020.","apa":"Zemlicka, M., Kopčík, M., Szabó, P., Samuely, T., Kačmarčík, J., Neilinger, P., … Samuely, P. (2020). Zeeman-driven superconductor-insulator transition in strongly disordered MoC films: Scanning tunneling microscopy and transport studies in a transverse magnetic field. Physical Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.102.180508","ama":"Zemlicka M, Kopčík M, Szabó P, et al. Zeeman-driven superconductor-insulator transition in strongly disordered MoC films: Scanning tunneling microscopy and transport studies in a transverse magnetic field. Physical Review B. 2020;102(18). doi:10.1103/PhysRevB.102.180508","chicago":"Zemlicka, Martin, M. Kopčík, P. Szabó, T. Samuely, J. Kačmarčík, P. Neilinger, M. Grajcar, and P. Samuely. “Zeeman-Driven Superconductor-Insulator Transition in Strongly Disordered MoC Films: Scanning Tunneling Microscopy and Transport Studies in a Transverse Magnetic Field.” Physical Review B. American Physical Society, 2020. https://doi.org/10.1103/PhysRevB.102.180508.","mla":"Zemlicka, Martin, et al. “Zeeman-Driven Superconductor-Insulator Transition in Strongly Disordered MoC Films: Scanning Tunneling Microscopy and Transport Studies in a Transverse Magnetic Field.” Physical Review B, vol. 102, no. 18, 180508, American Physical Society, 2020, doi:10.1103/PhysRevB.102.180508.","short":"M. Zemlicka, M. Kopčík, P. Szabó, T. Samuely, J. Kačmarčík, P. Neilinger, M. Grajcar, P. Samuely, Physical Review B 102 (2020)."},"publication":"Physical Review B","article_type":"original","article_number":"180508","author":[{"id":"2DCF8DE6-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","last_name":"Zemlicka","full_name":"Zemlicka, Martin"},{"last_name":"Kopčík","first_name":"M.","full_name":"Kopčík, M."},{"full_name":"Szabó, P.","last_name":"Szabó","first_name":"P."},{"first_name":"T.","last_name":"Samuely","full_name":"Samuely, T."},{"first_name":"J.","last_name":"Kačmarčík","full_name":"Kačmarčík, J."},{"full_name":"Neilinger, P.","last_name":"Neilinger","first_name":"P."},{"full_name":"Grajcar, M.","first_name":"M.","last_name":"Grajcar"},{"full_name":"Samuely, P.","last_name":"Samuely","first_name":"P."}],"volume":102,"date_updated":"2023-08-24T10:53:36Z","date_created":"2020-12-13T23:01:21Z","year":"2020","acknowledgement":"We gratefully acknowledge helpful conversations with B.L. Altshuler and R. Hlubina. The work was supported by the projects APVV-18-0358, VEGA 2/0058/20, VEGA 1/0743/19 the European Microkelvin Platform, the COST action CA16218 (Nanocohybri) and by U.S. Steel Košice. ","department":[{"_id":"JoFi"}],"publisher":"American Physical Society","publication_status":"published","publication_identifier":{"issn":["24699950"],"eissn":["24699969"]},"month":"11","doi":"10.1103/PhysRevB.102.180508","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2011.04329"}],"oa":1,"external_id":{"arxiv":["2011.04329"],"isi":["000591509900003"]},"quality_controlled":"1","isi":1},{"language":[{"iso":"eng"}],"doi":"10.3389/fphys.2020.558070","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"isi":1,"quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["33324233"],"isi":["000596849400001"]},"publication_identifier":{"eissn":["1664042X"]},"month":"11","volume":11,"date_created":"2020-12-20T23:01:18Z","date_updated":"2023-08-24T11:00:45Z","author":[{"full_name":"Rizzo, Rossella","last_name":"Rizzo","first_name":"Rossella"},{"full_name":"Zhang, Xiyun","last_name":"Zhang","first_name":"Xiyun"},{"first_name":"Jilin W.J.L.","last_name":"Wang","full_name":"Wang, Jilin W.J.L."},{"orcid":"0000-0003-2623-5249","id":"A057D288-3E88-11E9-986D-0CF4E5697425","last_name":"Lombardi","first_name":"Fabrizio","full_name":"Lombardi, Fabrizio"},{"last_name":"Ivanov","first_name":"Plamen Ch","full_name":"Ivanov, Plamen Ch"}],"publisher":"Frontiers","department":[{"_id":"GaTk"}],"publication_status":"published","pmid":1,"year":"2020","acknowledgement":"We acknowledge support from the W. M. Keck Foundation, National Institutes of Health (NIH Grant 1R01-HL098437), the US-Israel Binational Science Foundation (BSF Grant 2012219), and the Office of Naval Research (ONR Grant 000141010078). FL acknowledges support also from the European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant Agreement No. 754411.","ec_funded":1,"file_date_updated":"2020-12-21T10:37:50Z","article_number":"558070","date_published":"2020-11-26T00:00:00Z","article_type":"original","citation":{"ama":"Rizzo R, Zhang X, Wang JWJL, Lombardi F, Ivanov PC. Network physiology of cortico–muscular interactions. Frontiers in Physiology. 2020;11. doi:10.3389/fphys.2020.558070","ista":"Rizzo R, Zhang X, Wang JWJL, Lombardi F, Ivanov PC. 2020. Network physiology of cortico–muscular interactions. Frontiers in Physiology. 11, 558070.","apa":"Rizzo, R., Zhang, X., Wang, J. W. J. L., Lombardi, F., & Ivanov, P. C. (2020). Network physiology of cortico–muscular interactions. Frontiers in Physiology. Frontiers. https://doi.org/10.3389/fphys.2020.558070","ieee":"R. Rizzo, X. Zhang, J. W. J. L. Wang, F. Lombardi, and P. C. Ivanov, “Network physiology of cortico–muscular interactions,” Frontiers in Physiology, vol. 11. Frontiers, 2020.","mla":"Rizzo, Rossella, et al. “Network Physiology of Cortico–Muscular Interactions.” Frontiers in Physiology, vol. 11, 558070, Frontiers, 2020, doi:10.3389/fphys.2020.558070.","short":"R. Rizzo, X. Zhang, J.W.J.L. Wang, F. Lombardi, P.C. Ivanov, Frontiers in Physiology 11 (2020).","chicago":"Rizzo, Rossella, Xiyun Zhang, Jilin W.J.L. Wang, Fabrizio Lombardi, and Plamen Ch Ivanov. “Network Physiology of Cortico–Muscular Interactions.” Frontiers in Physiology. Frontiers, 2020. https://doi.org/10.3389/fphys.2020.558070."},"publication":"Frontiers in Physiology","has_accepted_license":"1","article_processing_charge":"No","day":"26","scopus_import":"1","oa_version":"Published Version","file":[{"file_id":"8961","relation":"main_file","date_created":"2020-12-21T10:37:50Z","date_updated":"2020-12-21T10:37:50Z","success":1,"checksum":"ef9515b28c5619b7126c0f347958bcb3","file_name":"2020_Frontiers_Rizzo.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":13380030}],"intvolume":" 11","status":"public","title":"Network physiology of cortico–muscular interactions","ddc":["570"],"_id":"8955","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"lang":"eng","text":"Skeletal muscle activity is continuously modulated across physiologic states to provide coordination, flexibility and responsiveness to body tasks and external inputs. Despite the central role the muscular system plays in facilitating vital body functions, the network of brain-muscle interactions required to control hundreds of muscles and synchronize their activation in relation to distinct physiologic states has not been investigated. Recent approaches have focused on general associations between individual brain rhythms and muscle activation during movement tasks. However, the specific forms of coupling, the functional network of cortico-muscular coordination, and how network structure and dynamics are modulated by autonomic regulation across physiologic states remains unknown. To identify and quantify the cortico-muscular interaction network and uncover basic features of neuro-autonomic control of muscle function, we investigate the coupling between synchronous bursts in cortical rhythms and peripheral muscle activation during sleep and wake. Utilizing the concept of time delay stability and a novel network physiology approach, we find that the brain-muscle network exhibits complex dynamic patterns of communication involving multiple brain rhythms across cortical locations and different electromyographic frequency bands. Moreover, our results show that during each physiologic state the cortico-muscular network is characterized by a specific profile of network links strength, where particular brain rhythms play role of main mediators of interaction and control. Further, we discover a hierarchical reorganization in network structure across physiologic states, with high connectivity and network link strength during wake, intermediate during REM and light sleep, and low during deep sleep, a sleep-stage stratification that demonstrates a unique association between physiologic states and cortico-muscular network structure. The reported empirical observations are consistent across individual subjects, indicating universal behavior in network structure and dynamics, and high sensitivity of cortico-muscular control to changes in autonomic regulation, even at low levels of physical activity and muscle tone during sleep. Our findings demonstrate previously unrecognized basic principles of brain-muscle network communication and control, and provide new perspectives on the regulatory mechanisms of brain dynamics and locomotor activation, with potential clinical implications for neurodegenerative, movement and sleep disorders, and for developing efficient treatment strategies."}],"type":"journal_article"},{"article_number":"2662","ec_funded":1,"file_date_updated":"2020-12-14T08:09:43Z","acknowledgement":"This research was funded by grants from the National Institutes of Health to H.T.G. (R01NS098370 and R01NS089795). C.V.M. was supported by a National Science Foundation Graduate Research Fellowship (DGE-1746939). R.B. was supported by the FWF Lise-Meitner program (M 2416), and S.H. was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 725780 LinPro).The authors thank members of the Ghashghaei lab for discussions, technical support, and help with preparation of the manuscript.","year":"2020","publisher":"MDPI","department":[{"_id":"SiHi"}],"publication_status":"published","author":[{"first_name":"Xuying","last_name":"Zhang","full_name":"Zhang, Xuying"},{"first_name":"Christine V.","last_name":"Mennicke","full_name":"Mennicke, Christine V."},{"last_name":"Xiao","first_name":"Guanxi","full_name":"Xiao, Guanxi"},{"last_name":"Beattie","first_name":"Robert J","orcid":"0000-0002-8483-8753","id":"2E26DF60-F248-11E8-B48F-1D18A9856A87","full_name":"Beattie, Robert J"},{"full_name":"Haider, Mansoor","first_name":"Mansoor","last_name":"Haider"},{"full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","first_name":"Simon"},{"last_name":"Ghashghaei","first_name":"H. Troy","full_name":"Ghashghaei, H. Troy"}],"volume":9,"date_created":"2020-12-14T08:04:03Z","date_updated":"2023-08-24T10:57:48Z","publication_identifier":{"issn":["2073-4409"]},"month":"12","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000601787300001"]},"project":[{"call_identifier":"FWF","name":"Molecular Mechanisms Regulating Gliogenesis in the Cerebral Cortex","_id":"264E56E2-B435-11E9-9278-68D0E5697425","grant_number":"M02416"},{"grant_number":"725780","_id":"260018B0-B435-11E9-9278-68D0E5697425","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","call_identifier":"H2020"}],"isi":1,"quality_controlled":"1","doi":"10.3390/cells9122662","language":[{"iso":"eng"}],"type":"journal_article","issue":"12","abstract":[{"text":"Development of the nervous system undergoes important transitions, including one from neurogenesis to gliogenesis which occurs late during embryonic gestation. Here we report on clonal analysis of gliogenesis in mice using Mosaic Analysis with Double Markers (MADM) with quantitative and computational methods. Results reveal that developmental gliogenesis in the cerebral cortex occurs in a fraction of earlier neurogenic clones, accelerating around E16.5, and giving rise to both astrocytes and oligodendrocytes. Moreover, MADM-based genetic deletion of the epidermal growth factor receptor (Egfr) in gliogenic clones revealed that Egfr is cell autonomously required for gliogenesis in the mouse dorsolateral cortices. A broad range in the proliferation capacity, symmetry of clones, and competitive advantage of MADM cells was evident in clones that contained one cellular lineage with double dosage of Egfr relative to their environment, while their sibling Egfr-null cells failed to generate glia. Remarkably, the total numbers of glia in MADM clones balance out regardless of significant alterations in clonal symmetries. The variability in glial clones shows stochastic patterns that we define mathematically, which are different from the deterministic patterns in neuronal clones. This study sets a foundation for studying the biological significance of stochastic and deterministic clonal principles underlying tissue development, and identifying mechanisms that differentiate between neurogenesis and gliogenesis.","lang":"eng"}],"_id":"8949","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 9","ddc":["570"],"status":"public","title":"Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic expansion of glia and cell autonomous responses to Egfr dosage","oa_version":"Published Version","file":[{"date_created":"2020-12-14T08:09:43Z","date_updated":"2020-12-14T08:09:43Z","checksum":"5095cbdc728c9a510c5761cf60a8861c","success":1,"relation":"main_file","file_id":"8950","content_type":"application/pdf","file_size":3504525,"creator":"dernst","file_name":"2020_Cells_Zhang.pdf","access_level":"open_access"}],"article_processing_charge":"No","has_accepted_license":"1","day":"11","citation":{"short":"X. Zhang, C.V. Mennicke, G. Xiao, R.J. Beattie, M. Haider, S. Hippenmeyer, H.T. Ghashghaei, Cells 9 (2020).","mla":"Zhang, Xuying, et al. “Clonal Analysis of Gliogenesis in the Cerebral Cortex Reveals Stochastic Expansion of Glia and Cell Autonomous Responses to Egfr Dosage.” Cells, vol. 9, no. 12, 2662, MDPI, 2020, doi:10.3390/cells9122662.","chicago":"Zhang, Xuying, Christine V. Mennicke, Guanxi Xiao, Robert J Beattie, Mansoor Haider, Simon Hippenmeyer, and H. Troy Ghashghaei. “Clonal Analysis of Gliogenesis in the Cerebral Cortex Reveals Stochastic Expansion of Glia and Cell Autonomous Responses to Egfr Dosage.” Cells. MDPI, 2020. https://doi.org/10.3390/cells9122662.","ama":"Zhang X, Mennicke CV, Xiao G, et al. Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic expansion of glia and cell autonomous responses to Egfr dosage. Cells. 2020;9(12). doi:10.3390/cells9122662","apa":"Zhang, X., Mennicke, C. V., Xiao, G., Beattie, R. J., Haider, M., Hippenmeyer, S., & Ghashghaei, H. T. (2020). Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic expansion of glia and cell autonomous responses to Egfr dosage. Cells. MDPI. https://doi.org/10.3390/cells9122662","ieee":"X. Zhang et al., “Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic expansion of glia and cell autonomous responses to Egfr dosage,” Cells, vol. 9, no. 12. MDPI, 2020.","ista":"Zhang X, Mennicke CV, Xiao G, Beattie RJ, Haider M, Hippenmeyer S, Ghashghaei HT. 2020. Clonal analysis of gliogenesis in the cerebral cortex reveals stochastic expansion of glia and cell autonomous responses to Egfr dosage. Cells. 9(12), 2662."},"publication":"Cells","article_type":"original","date_published":"2020-12-11T00:00:00Z"},{"language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"doi":"10.1038/s41467-020-20286-x","project":[{"name":"Structure and isoform diversity of the Arp2/3 complex","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","grant_number":"P33367"},{"grant_number":"M02495","_id":"2674F658-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Protein structure and function in filopodia across scales"}],"isi":1,"quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000603078000003"]},"publication_identifier":{"issn":["2041-1723"]},"month":"12","volume":11,"date_created":"2020-12-23T08:25:45Z","date_updated":"2023-08-24T11:01:50Z","related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/cutting-edge-technology-reveals-structures-within-cells/"}]},"author":[{"full_name":"Fäßler, Florian","orcid":"0000-0001-7149-769X","id":"404F5528-F248-11E8-B48F-1D18A9856A87","last_name":"Fäßler","first_name":"Florian"},{"orcid":"0000-0001-8370-6161","id":"38C393BE-F248-11E8-B48F-1D18A9856A87","last_name":"Dimchev","first_name":"Georgi A","full_name":"Dimchev, Georgi A"},{"full_name":"Hodirnau, Victor-Valentin","id":"3661B498-F248-11E8-B48F-1D18A9856A87","first_name":"Victor-Valentin","last_name":"Hodirnau"},{"first_name":"William","last_name":"Wan","full_name":"Wan, William"},{"full_name":"Schur, Florian KM","orcid":"0000-0003-4790-8078","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","last_name":"Schur","first_name":"Florian KM"}],"department":[{"_id":"FlSc"},{"_id":"EM-Fac"}],"publisher":"Springer Nature","publication_status":"published","year":"2020","acknowledgement":"This research was supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the BioImaging Facility (BIF), and the Electron Microscopy Facility (EMF). We also thank Dimitry Tegunov (MPI for Biophysical Chemistry) for helpful discussions\r\nabout the M software, and Michael Sixt (IST Austria) and Klemens Rottner (Technical University Braunschweig, HZI Braunschweig) for critical reading of the manuscript. We also thank Gregory Voth (University of Chicago) for providing us the MD-derived branch junction model for comparison. The authors acknowledge support from IST Austria and from the Austrian Science Fund (FWF): M02495 to G.D. and Austrian Science Fund (FWF): P33367 to F.K.M.S. ","file_date_updated":"2020-12-28T08:16:10Z","article_number":"6437","date_published":"2020-12-22T00:00:00Z","article_type":"original","citation":{"ama":"Fäßler F, Dimchev GA, Hodirnau V-V, Wan W, Schur FK. Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. Nature Communications. 2020;11. doi:10.1038/s41467-020-20286-x","ista":"Fäßler F, Dimchev GA, Hodirnau V-V, Wan W, Schur FK. 2020. Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. Nature Communications. 11, 6437.","apa":"Fäßler, F., Dimchev, G. A., Hodirnau, V.-V., Wan, W., & Schur, F. K. (2020). Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-20286-x","ieee":"F. Fäßler, G. A. Dimchev, V.-V. Hodirnau, W. Wan, and F. K. Schur, “Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction,” Nature Communications, vol. 11. Springer Nature, 2020.","mla":"Fäßler, Florian, et al. “Cryo-Electron Tomography Structure of Arp2/3 Complex in Cells Reveals New Insights into the Branch Junction.” Nature Communications, vol. 11, 6437, Springer Nature, 2020, doi:10.1038/s41467-020-20286-x.","short":"F. Fäßler, G.A. Dimchev, V.-V. Hodirnau, W. Wan, F.K. Schur, Nature Communications 11 (2020).","chicago":"Fäßler, Florian, Georgi A Dimchev, Victor-Valentin Hodirnau, William Wan, and Florian KM Schur. “Cryo-Electron Tomography Structure of Arp2/3 Complex in Cells Reveals New Insights into the Branch Junction.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-20286-x."},"publication":"Nature Communications","article_processing_charge":"No","has_accepted_license":"1","day":"22","keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"scopus_import":"1","oa_version":"Published Version","file":[{"creator":"dernst","file_size":3958727,"content_type":"application/pdf","file_name":"2020_NatureComm_Faessler.pdf","access_level":"open_access","date_created":"2020-12-28T08:16:10Z","date_updated":"2020-12-28T08:16:10Z","success":1,"checksum":"55d43ea0061cc4027ba45e966e1db8cc","file_id":"8975","relation":"main_file"}],"intvolume":" 11","status":"public","title":"Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction","ddc":["570"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8971","abstract":[{"text":"The actin-related protein (Arp)2/3 complex nucleates branched actin filament networks pivotal for cell migration, endocytosis and pathogen infection. Its activation is tightly regulated and involves complex structural rearrangements and actin filament binding, which are yet to be understood. Here, we report a 9.0 Å resolution structure of the actin filament Arp2/3 complex branch junction in cells using cryo-electron tomography and subtomogram averaging. This allows us to generate an accurate model of the active Arp2/3 complex in the branch junction and its interaction with actin filaments. Notably, our model reveals a previously undescribed set of interactions of the Arp2/3 complex with the mother filament, significantly different to the previous branch junction model. Our structure also indicates a central role for the ArpC3 subunit in stabilizing the active conformation.","lang":"eng"}],"type":"journal_article"},{"project":[{"name":"Teaching Old Crypto New Tricks","call_identifier":"H2020","_id":"258AA5B2-B435-11E9-9278-68D0E5697425","grant_number":"682815"}],"quality_controlled":"1","isi":1,"external_id":{"isi":["000927592800001"]},"oa":1,"main_file_link":[{"url":"https://eprint.iacr.org/2020/418","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1007/978-3-030-65277-7_1","conference":{"location":"Bangalore, India","start_date":"2020-12-13","end_date":"2020-12-16","name":"INDOCRYPT: International Conference on Cryptology in India"},"publication_identifier":{"eissn":["16113349"],"isbn":["9783030652760"],"issn":["03029743"]},"month":"12","department":[{"_id":"KrPi"}],"publisher":"Springer Nature","publication_status":"published","year":"2020","volume":12578,"date_updated":"2023-08-24T11:08:58Z","date_created":"2021-01-03T23:01:23Z","author":[{"first_name":"Krzysztof Z","last_name":"Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z"}],"ec_funded":1,"page":"3-15","citation":{"chicago":"Pietrzak, Krzysztof Z. “Delayed Authentication: Preventing Replay and Relay Attacks in Private Contact Tracing.” In Progress in Cryptology, 12578:3–15. LNCS. Springer Nature, 2020. https://doi.org/10.1007/978-3-030-65277-7_1.","mla":"Pietrzak, Krzysztof Z. “Delayed Authentication: Preventing Replay and Relay Attacks in Private Contact Tracing.” Progress in Cryptology, vol. 12578, Springer Nature, 2020, pp. 3–15, doi:10.1007/978-3-030-65277-7_1.","short":"K.Z. Pietrzak, in:, Progress in Cryptology, Springer Nature, 2020, pp. 3–15.","ista":"Pietrzak KZ. 2020. Delayed authentication: Preventing replay and relay attacks in private contact tracing. Progress in Cryptology. INDOCRYPT: International Conference on Cryptology in IndiaLNCS vol. 12578, 3–15.","ieee":"K. Z. Pietrzak, “Delayed authentication: Preventing replay and relay attacks in private contact tracing,” in Progress in Cryptology, Bangalore, India, 2020, vol. 12578, pp. 3–15.","apa":"Pietrzak, K. Z. (2020). Delayed authentication: Preventing replay and relay attacks in private contact tracing. In Progress in Cryptology (Vol. 12578, pp. 3–15). Bangalore, India: Springer Nature. https://doi.org/10.1007/978-3-030-65277-7_1","ama":"Pietrzak KZ. Delayed authentication: Preventing replay and relay attacks in private contact tracing. In: Progress in Cryptology. Vol 12578. LNCS. Springer Nature; 2020:3-15. doi:10.1007/978-3-030-65277-7_1"},"publication":"Progress in Cryptology","date_published":"2020-12-08T00:00:00Z","series_title":"LNCS","scopus_import":"1","article_processing_charge":"No","day":"08","intvolume":" 12578","title":"Delayed authentication: Preventing replay and relay attacks in private contact tracing","status":"public","_id":"8987","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Preprint","type":"conference","abstract":[{"lang":"eng","text":"Currently several projects aim at designing and implementing protocols for privacy preserving automated contact tracing to help fight the current pandemic. Those proposal are quite similar, and in their most basic form basically propose an app for mobile phones which broadcasts frequently changing pseudorandom identifiers via (low energy) Bluetooth, and at the same time, the app stores IDs broadcast by phones in its proximity. Only if a user is tested positive, they upload either the beacons they did broadcast (which is the case in decentralized proposals as DP-3T, east and west coast PACT or Covid watch) or received (as in Popp-PT or ROBERT) during the last two weeks or so.\r\n\r\nVaudenay [eprint 2020/399] observes that this basic scheme (he considers the DP-3T proposal) succumbs to relay and even replay attacks, and proposes more complex interactive schemes which prevent those attacks without giving up too many privacy aspects. Unfortunately interaction is problematic for this application for efficiency and security reasons. The countermeasures that have been suggested so far are either not practical or give up on key privacy aspects. We propose a simple non-interactive variant of the basic protocol that\r\n(security) Provably prevents replay and (if location data is available) relay attacks.\r\n(privacy) The data of all parties (even jointly) reveals no information on the location or time where encounters happened.\r\n(efficiency) The broadcasted message can fit into 128 bits and uses only basic crypto (commitments and secret key authentication).\r\n\r\nTowards this end we introduce the concept of “delayed authentication”, which basically is a message authentication code where verification can be done in two steps, where the first doesn’t require the key, and the second doesn’t require the message."}]},{"_id":"9000","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 117","title":"Nonequilibrium models of optimal enhancer function","ddc":["570"],"status":"public","file":[{"file_name":"2020_PNAS_Grah.pdf","access_level":"open_access","creator":"dernst","file_size":1199247,"content_type":"application/pdf","file_id":"9004","relation":"main_file","date_created":"2021-01-11T08:37:31Z","date_updated":"2021-01-11T08:37:31Z","success":1,"checksum":"69039cd402a571983aa6cb4815ffa863"}],"oa_version":"Published Version","type":"journal_article","issue":"50","abstract":[{"text":"In prokaryotes, thermodynamic models of gene regulation provide a highly quantitative mapping from promoter sequences to gene-expression levels that is compatible with in vivo and in vitro biophysical measurements. Such concordance has not been achieved for models of enhancer function in eukaryotes. In equilibrium models, it is difficult to reconcile the reported short transcription factor (TF) residence times on the DNA with the high specificity of regulation. In nonequilibrium models, progress is difficult due to an explosion in the number of parameters. Here, we navigate this complexity by looking for minimal nonequilibrium enhancer models that yield desired regulatory phenotypes: low TF residence time, high specificity, and tunable cooperativity. We find that a single extra parameter, interpretable as the “linking rate,” by which bound TFs interact with Mediator components, enables our models to escape equilibrium bounds and access optimal regulatory phenotypes, while remaining consistent with the reported phenomenology and simple enough to be inferred from upcoming experiments. We further find that high specificity in nonequilibrium models is in a trade-off with gene-expression noise, predicting bursty dynamics—an experimentally observed hallmark of eukaryotic transcription. By drastically reducing the vast parameter space of nonequilibrium enhancer models to a much smaller subspace that optimally realizes biological function, we deliver a rich class of models that could be tractably inferred from data in the near future.","lang":"eng"}],"citation":{"ieee":"R. Grah, B. Zoller, and G. Tkačik, “Nonequilibrium models of optimal enhancer function,” PNAS, vol. 117, no. 50. National Academy of Sciences, pp. 31614–31622, 2020.","apa":"Grah, R., Zoller, B., & Tkačik, G. (2020). Nonequilibrium models of optimal enhancer function. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.2006731117","ista":"Grah R, Zoller B, Tkačik G. 2020. Nonequilibrium models of optimal enhancer function. PNAS. 117(50), 31614–31622.","ama":"Grah R, Zoller B, Tkačik G. Nonequilibrium models of optimal enhancer function. PNAS. 2020;117(50):31614-31622. doi:10.1073/pnas.2006731117","chicago":"Grah, Rok, Benjamin Zoller, and Gašper Tkačik. “Nonequilibrium Models of Optimal Enhancer Function.” PNAS. National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.2006731117.","short":"R. Grah, B. Zoller, G. Tkačik, PNAS 117 (2020) 31614–31622.","mla":"Grah, Rok, et al. “Nonequilibrium Models of Optimal Enhancer Function.” PNAS, vol. 117, no. 50, National Academy of Sciences, 2020, pp. 31614–22, doi:10.1073/pnas.2006731117."},"publication":"PNAS","page":"31614-31622","article_type":"original","date_published":"2020-12-15T00:00:00Z","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"15","pmid":1,"acknowledgement":"G.T. was supported by Human Frontiers Science Program Grant RGP0034/2018. R.G. was supported by the Austrian Academy of Sciences DOC Fellowship. R.G. thanks S. Avvakumov for helpful discussions.","year":"2020","publisher":"National Academy of Sciences","department":[{"_id":"GaTk"}],"publication_status":"published","related_material":{"link":[{"url":"https://ist.ac.at/en/news/new-compact-model-for-gene-regulation-in-higher-organisms/","relation":"press_release","description":"News on IST Homepage"}]},"author":[{"full_name":"Grah, Rok","orcid":"0000-0003-2539-3560","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","last_name":"Grah","first_name":"Rok"},{"last_name":"Zoller","first_name":"Benjamin","full_name":"Zoller, Benjamin"},{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik","first_name":"Gašper"}],"volume":117,"date_created":"2021-01-10T23:01:17Z","date_updated":"2023-08-24T11:10:22Z","file_date_updated":"2021-01-11T08:37:31Z","external_id":{"pmid":["33268497"],"isi":["000600608300015"]},"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"project":[{"name":"Can evolution minimize spurious signaling crosstalk to reach optimal performance?","_id":"2665AAFE-B435-11E9-9278-68D0E5697425","grant_number":"RGP0034/2018"},{"_id":"267C84F4-B435-11E9-9278-68D0E5697425","name":"Biophysically realistic genotype-phenotype maps for regulatory networks"}],"quality_controlled":"1","isi":1,"doi":"10.1073/pnas.2006731117","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["10916490"],"issn":["00278424"]},"month":"12"},{"intvolume":" 6","title":"Microwave quantum illumination using a digital receiver","ddc":["530"],"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7910","file":[{"access_level":"open_access","file_name":"2020_ScienceAdvances_Barzanjeh.pdf","creator":"dernst","file_size":795822,"content_type":"application/pdf","file_id":"7913","relation":"main_file","checksum":"16fa61cc1951b444ee74c07188cda9da","date_updated":"2020-07-14T12:48:05Z","date_created":"2020-06-02T09:18:36Z"}],"oa_version":"Published Version","type":"journal_article","issue":"19","abstract":[{"text":"Quantum illumination uses entangled signal-idler photon pairs to boost the detection efficiency of low-reflectivity objects in environments with bright thermal noise. Its advantage is particularly evident at low signal powers, a promising feature for applications such as noninvasive biomedical scanning or low-power short-range radar. Here, we experimentally investigate the concept of quantum illumination at microwave frequencies. We generate entangled fields to illuminate a room-temperature object at a distance of 1 m in a free-space detection setup. We implement a digital phase-conjugate receiver based on linear quadrature measurements that outperforms a symmetric classical noise radar in the same conditions, despite the entanglement-breaking signal path. Starting from experimental data, we also simulate the case of perfect idler photon number detection, which results in a quantum advantage compared with the relative classical benchmark. Our results highlight the opportunities and challenges in the way toward a first room-temperature application of microwave quantum circuits.","lang":"eng"}],"article_type":"original","citation":{"ista":"Barzanjeh S, Pirandola S, Vitali D, Fink JM. 2020. Microwave quantum illumination using a digital receiver. Science Advances. 6(19), eabb0451.","ieee":"S. Barzanjeh, S. Pirandola, D. Vitali, and J. M. Fink, “Microwave quantum illumination using a digital receiver,” Science Advances, vol. 6, no. 19. AAAS, 2020.","apa":"Barzanjeh, S., Pirandola, S., Vitali, D., & Fink, J. M. (2020). Microwave quantum illumination using a digital receiver. Science Advances. AAAS. https://doi.org/10.1126/sciadv.abb0451","ama":"Barzanjeh S, Pirandola S, Vitali D, Fink JM. Microwave quantum illumination using a digital receiver. Science Advances. 2020;6(19). doi:10.1126/sciadv.abb0451","chicago":"Barzanjeh, Shabir, S. Pirandola, D Vitali, and Johannes M Fink. “Microwave Quantum Illumination Using a Digital Receiver.” Science Advances. AAAS, 2020. https://doi.org/10.1126/sciadv.abb0451.","mla":"Barzanjeh, Shabir, et al. “Microwave Quantum Illumination Using a Digital Receiver.” Science Advances, vol. 6, no. 19, eabb0451, AAAS, 2020, doi:10.1126/sciadv.abb0451.","short":"S. Barzanjeh, S. Pirandola, D. Vitali, J.M. Fink, Science Advances 6 (2020)."},"publication":"Science Advances","date_published":"2020-05-06T00:00:00Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"06","publisher":"AAAS","department":[{"_id":"JoFi"}],"publication_status":"published","year":"2020","volume":6,"date_updated":"2023-08-24T11:10:49Z","date_created":"2020-05-31T22:00:49Z","related_material":{"record":[{"id":"9001","relation":"later_version","status":"public"}],"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/scientists-demonstrate-quantum-radar-prototype/"}]},"author":[{"last_name":"Barzanjeh","first_name":"Shabir","orcid":"0000-0003-0415-1423","id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87","full_name":"Barzanjeh, Shabir"},{"full_name":"Pirandola, S.","first_name":"S.","last_name":"Pirandola"},{"last_name":"Vitali","first_name":"D","full_name":"Vitali, D"},{"last_name":"Fink","first_name":"Johannes M","orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M"}],"article_number":"eabb0451","ec_funded":1,"file_date_updated":"2020-07-14T12:48:05Z","project":[{"_id":"26336814-B435-11E9-9278-68D0E5697425","grant_number":"758053","name":"A Fiber Optic Transceiver for Superconducting Qubits","call_identifier":"H2020"},{"call_identifier":"H2020","name":"Quantum readout techniques and technologies","grant_number":"862644","_id":"237CBA6C-32DE-11EA-91FC-C7463DDC885E"},{"name":"Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination with cavity Optomechanics SUPEREOM","call_identifier":"H2020","grant_number":"707438","_id":"258047B6-B435-11E9-9278-68D0E5697425"},{"grant_number":"732894","_id":"257EB838-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Hybrid Optomechanical Technologies"},{"_id":"26927A52-B435-11E9-9278-68D0E5697425","grant_number":"F07105","name":"Integrating superconducting quantum circuits","call_identifier":"FWF"}],"quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000531171100045"],"arxiv":["1908.03058"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1126/sciadv.abb0451","publication_identifier":{"eissn":["23752548"]},"month":"05"},{"day":"21","article_processing_charge":"No","scopus_import":"1","date_published":"2020-09-21T00:00:00Z","publication":"IEEE National Radar Conference - Proceedings","citation":{"ama":"Barzanjeh S, Pirandola S, Vitali D, Fink JM. Microwave quantum illumination with a digital phase-conjugated receiver. In: IEEE National Radar Conference - Proceedings. Vol 2020. IEEE; 2020. doi:10.1109/RadarConf2043947.2020.9266397","ista":"Barzanjeh S, Pirandola S, Vitali D, Fink JM. 2020. Microwave quantum illumination with a digital phase-conjugated receiver. IEEE National Radar Conference - Proceedings. RadarConf: National Conference on Radar vol. 2020, 9266397.","ieee":"S. Barzanjeh, S. Pirandola, D. Vitali, and J. M. Fink, “Microwave quantum illumination with a digital phase-conjugated receiver,” in IEEE National Radar Conference - Proceedings, Florence, Italy, 2020, vol. 2020, no. 9.","apa":"Barzanjeh, S., Pirandola, S., Vitali, D., & Fink, J. M. (2020). Microwave quantum illumination with a digital phase-conjugated receiver. In IEEE National Radar Conference - Proceedings (Vol. 2020). Florence, Italy: IEEE. https://doi.org/10.1109/RadarConf2043947.2020.9266397","mla":"Barzanjeh, Shabir, et al. “Microwave Quantum Illumination with a Digital Phase-Conjugated Receiver.” IEEE National Radar Conference - Proceedings, vol. 2020, no. 9, 9266397, IEEE, 2020, doi:10.1109/RadarConf2043947.2020.9266397.","short":"S. Barzanjeh, S. Pirandola, D. Vitali, J.M. Fink, in:, IEEE National Radar Conference - Proceedings, IEEE, 2020.","chicago":"Barzanjeh, Shabir, Stefano Pirandola, David Vitali, and Johannes M Fink. “Microwave Quantum Illumination with a Digital Phase-Conjugated Receiver.” In IEEE National Radar Conference - Proceedings, Vol. 2020. IEEE, 2020. https://doi.org/10.1109/RadarConf2043947.2020.9266397."},"abstract":[{"text":"Quantum illumination is a sensing technique that employs entangled signal-idler beams to improve the detection efficiency of low-reflectivity objects in environments with large thermal noise. The advantage over classical strategies is evident at low signal brightness, a feature which could make the protocol an ideal prototype for non-invasive scanning or low-power short-range radar. Here we experimentally investigate the concept of quantum illumination at microwave frequencies, by generating entangled fields using a Josephson parametric converter which are then amplified to illuminate a room-temperature object at a distance of 1 meter. Starting from experimental data, we simulate the case of perfect idler photon number detection, which results in a quantum advantage compared to the relative classical benchmark. Our results highlight the opportunities and challenges on the way towards a first room-temperature application of microwave quantum circuits.","lang":"eng"}],"issue":"9","type":"conference","oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9001","status":"public","title":"Microwave quantum illumination with a digital phase-conjugated receiver","intvolume":" 2020","month":"09","publication_identifier":{"issn":["1097-5659"],"isbn":["9781728189420"]},"conference":{"name":"RadarConf: National Conference on Radar","location":"Florence, Italy","start_date":"2020-09-21","end_date":"2020-09-25"},"doi":"10.1109/RadarConf2043947.2020.9266397","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/1908.03058","open_access":"1"}],"external_id":{"arxiv":["1908.03058"],"isi":["000612224900089"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"_id":"26336814-B435-11E9-9278-68D0E5697425","grant_number":"758053","name":"A Fiber Optic Transceiver for Superconducting Qubits","call_identifier":"H2020"},{"_id":"237CBA6C-32DE-11EA-91FC-C7463DDC885E","grant_number":"862644","name":"Quantum readout techniques and technologies","call_identifier":"H2020"},{"grant_number":"707438","_id":"258047B6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination with cavity Optomechanics SUPEREOM"},{"_id":"257EB838-B435-11E9-9278-68D0E5697425","grant_number":"732894","call_identifier":"H2020","name":"Hybrid Optomechanical Technologies"}],"ec_funded":1,"article_number":"9266397","author":[{"orcid":"0000-0003-0415-1423","id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87","last_name":"Barzanjeh","first_name":"Shabir","full_name":"Barzanjeh, Shabir"},{"last_name":"Pirandola","first_name":"Stefano","full_name":"Pirandola, Stefano"},{"full_name":"Vitali, David","first_name":"David","last_name":"Vitali"},{"id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X","first_name":"Johannes M","last_name":"Fink","full_name":"Fink, Johannes M"}],"related_material":{"record":[{"id":"7910","relation":"earlier_version","status":"public"}]},"date_updated":"2023-08-24T11:10:49Z","date_created":"2021-01-10T23:01:17Z","volume":2020,"year":"2020","acknowledgement":"This work was supported by the Institute of Science and Technology Austria (IST Austria), the European Research Council under grant agreement number 758053 (ERC StG QUNNECT) and the EU’s Horizon 2020 research and innovation programme under grant agreement number 862644 (FET Open QUARTET). S.B. acknowledges support from the Marie Skłodowska Curie\r\nfellowship number 707438 (MSC-IF SUPEREOM), DV acknowledge support from EU’s Horizon 2020 research and innovation programme under grant agreement number 732894 (FET Proactive HOT) and the Project QuaSeRT funded by the QuantERA ERANET Cofund in Quantum Technologies, and J.M.F from the Austrian Science Fund (FWF) through BeyondC (F71), a NOMIS foundation research grant, and the EU’s Horizon 2020 research and\r\ninnovation programme under grant agreement number 732894 (FET Proactive\r\nHOT).","publication_status":"published","publisher":"IEEE","department":[{"_id":"JoFi"}]},{"type":"journal_article","issue":"4","abstract":[{"lang":"eng","text":"Motivated by a recent question of Peyre, we apply the Hardy–Littlewood circle method to count “sufficiently free” rational points of bounded height on arbitrary smooth projective hypersurfaces of low degree that are defined over the rationals."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9007","intvolume":" 95","status":"public","title":"Free rational points on smooth hypersurfaces","oa_version":"Preprint","scopus_import":"1","article_processing_charge":"No","day":"07","citation":{"ama":"Browning TD, Sawin W. Free rational points on smooth hypersurfaces. Commentarii Mathematici Helvetici. 2020;95(4):635-659. doi:10.4171/CMH/499","apa":"Browning, T. D., & Sawin, W. (2020). Free rational points on smooth hypersurfaces. Commentarii Mathematici Helvetici. European Mathematical Society. https://doi.org/10.4171/CMH/499","ieee":"T. D. Browning and W. Sawin, “Free rational points on smooth hypersurfaces,” Commentarii Mathematici Helvetici, vol. 95, no. 4. European Mathematical Society, pp. 635–659, 2020.","ista":"Browning TD, Sawin W. 2020. Free rational points on smooth hypersurfaces. Commentarii Mathematici Helvetici. 95(4), 635–659.","short":"T.D. Browning, W. Sawin, Commentarii Mathematici Helvetici 95 (2020) 635–659.","mla":"Browning, Timothy D., and Will Sawin. “Free Rational Points on Smooth Hypersurfaces.” Commentarii Mathematici Helvetici, vol. 95, no. 4, European Mathematical Society, 2020, pp. 635–59, doi:10.4171/CMH/499.","chicago":"Browning, Timothy D, and Will Sawin. “Free Rational Points on Smooth Hypersurfaces.” Commentarii Mathematici Helvetici. European Mathematical Society, 2020. https://doi.org/10.4171/CMH/499."},"publication":"Commentarii Mathematici Helvetici","page":"635-659","article_type":"original","date_published":"2020-12-07T00:00:00Z","year":"2020","department":[{"_id":"TiBr"}],"publisher":"European Mathematical Society","publication_status":"published","author":[{"id":"35827D50-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8314-0177","first_name":"Timothy D","last_name":"Browning","full_name":"Browning, Timothy D"},{"full_name":"Sawin, Will","first_name":"Will","last_name":"Sawin"}],"volume":95,"date_created":"2021-01-17T23:01:11Z","date_updated":"2023-08-24T11:11:36Z","publication_identifier":{"eissn":["14208946"],"issn":["00102571"]},"month":"12","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1906.08463"}],"oa":1,"external_id":{"arxiv":["1906.08463"],"isi":["000596833300001"]},"isi":1,"quality_controlled":"1","doi":"10.4171/CMH/499","language":[{"iso":"eng"}]},{"ec_funded":1,"file_date_updated":"2021-02-12T11:16:16Z","article_number":"020315","volume":1,"date_created":"2021-02-12T10:41:28Z","date_updated":"2023-08-24T11:16:36Z","related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/how-to-transport-microwave-quantum-information-via-optical-fiber/"}],"record":[{"status":"public","relation":"research_data","id":"13071"},{"status":"public","relation":"dissertation_contains","id":"12900"},{"relation":"dissertation_contains","status":"public","id":"13175"}]},"author":[{"full_name":"Hease, William J","orcid":"0000-0001-9868-2166","id":"29705398-F248-11E8-B48F-1D18A9856A87","last_name":"Hease","first_name":"William J"},{"orcid":"0000-0001-6249-5860","id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","last_name":"Rueda Sanchez","first_name":"Alfredo R","full_name":"Rueda Sanchez, Alfredo R"},{"full_name":"Sahu, Rishabh","id":"47D26E34-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6264-2162","first_name":"Rishabh","last_name":"Sahu"},{"first_name":"Matthias","last_name":"Wulf","id":"45598606-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6613-1378","full_name":"Wulf, Matthias"},{"first_name":"Georg M","last_name":"Arnold","id":"3770C838-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1397-7876","full_name":"Arnold, Georg M"},{"full_name":"Schwefel, Harald G.L.","first_name":"Harald G.L.","last_name":"Schwefel"},{"last_name":"Fink","first_name":"Johannes M","orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","full_name":"Fink, Johannes M"}],"publisher":"American Physical Society","department":[{"_id":"JoFi"}],"publication_status":"published","year":"2020","acknowledgement":"The authors acknowledge the support of T. Menner, A. Arslani, and T. Asenov from the Miba machine shop for machining the microwave cavity, and thank S. Barzanjeh, F. Sedlmeir, and C. Marquardt for fruitful discussions. This work is supported by IST Austria and the European Research Council under Grant No. 758053 (ERC StG QUNNECT). W.H. is the recipient of an ISTplus postdoctoral fellowship with funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant No. 754411.\r\nG.A. is the recipient of a DOC fellowship of the Austrian Academy of Sciences at IST Austria. J.M.F. acknowledges support from the Austrian Science Fund (FWF) through BeyondC (F71) and the European Union’s Horizon 2020 research and innovation program under Grant No. 899354 (FET Open SuperQuLAN). H.G.L.S. acknowledges support from the Aotearoa/New Zealand’s MBIE Endeavour Smart Ideas Grant No UOOX1805.","publication_identifier":{"issn":["2691-3399"]},"month":"11","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"M-Shop"}],"doi":"10.1103/prxquantum.1.020315","project":[{"grant_number":"758053","_id":"26336814-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"A Fiber Optic Transceiver for Superconducting Qubits"},{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"},{"call_identifier":"H2020","name":"Quantum Local Area Networks with Superconducting Qubits","grant_number":"899354","_id":"9B868D20-BA93-11EA-9121-9846C619BF3A"},{"grant_number":"F07105","_id":"26927A52-B435-11E9-9278-68D0E5697425","name":"Integrating superconducting quantum circuits","call_identifier":"FWF"},{"name":"Coherent on-chip conversion of superconducting qubit signals from microwaves to optical frequencies","_id":"2671EB66-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","isi":1,"external_id":{"isi":["000674680100001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"issue":"2","abstract":[{"text":"Microwave photonics lends the advantages of fiber optics to electronic sensing and communication systems. In contrast to nonlinear optics, electro-optic devices so far require classical modulation fields whose variance is dominated by electronic or thermal noise rather than quantum fluctuations. Here we demonstrate bidirectional single-sideband conversion of X band microwave to C band telecom light with a microwave mode occupancy as low as 0.025 ± 0.005 and an added output noise of less than or equal to 0.074 photons. This is facilitated by radiative cooling and a triply resonant ultra-low-loss transducer operating at millikelvin temperatures. The high bandwidth of 10.7 MHz and total (internal) photon conversion\r\nefficiency of 0.03% (0.67%) combined with the extremely slow heating rate of 1.1 added output noise photons per second for the highest available pump power of 1.48 mW puts near-unity efficiency pulsed quantum transduction within reach. Together with the non-Gaussian resources of superconducting qubits this might provide the practical foundation to extend the range and scope of current quantum networks in analogy to electrical repeaters in classical fiber optic communication.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","file":[{"file_id":"9115","relation":"main_file","date_created":"2021-02-12T11:16:16Z","date_updated":"2021-02-12T11:16:16Z","success":1,"checksum":"b70b12ded6d7660d4c9037eb09bfed0c","file_name":"2020_PRXQuantum_Hease.pdf","access_level":"open_access","creator":"dernst","file_size":2146924,"content_type":"application/pdf"}],"intvolume":" 1","status":"public","title":"Bidirectional electro-optic wavelength conversion in the quantum ground state","ddc":["530"],"_id":"9114","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","has_accepted_license":"1","article_processing_charge":"No","day":"23","date_published":"2020-11-23T00:00:00Z","article_type":"original","citation":{"apa":"Hease, W. J., Rueda Sanchez, A. R., Sahu, R., Wulf, M., Arnold, G. M., Schwefel, H. G. L., & Fink, J. M. (2020). Bidirectional electro-optic wavelength conversion in the quantum ground state. PRX Quantum. American Physical Society. https://doi.org/10.1103/prxquantum.1.020315","ieee":"W. J. Hease et al., “Bidirectional electro-optic wavelength conversion in the quantum ground state,” PRX Quantum, vol. 1, no. 2. American Physical Society, 2020.","ista":"Hease WJ, Rueda Sanchez AR, Sahu R, Wulf M, Arnold GM, Schwefel HGL, Fink JM. 2020. Bidirectional electro-optic wavelength conversion in the quantum ground state. PRX Quantum. 1(2), 020315.","ama":"Hease WJ, Rueda Sanchez AR, Sahu R, et al. Bidirectional electro-optic wavelength conversion in the quantum ground state. PRX Quantum. 2020;1(2). doi:10.1103/prxquantum.1.020315","chicago":"Hease, William J, Alfredo R Rueda Sanchez, Rishabh Sahu, Matthias Wulf, Georg M Arnold, Harald G.L. Schwefel, and Johannes M Fink. “Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State.” PRX Quantum. American Physical Society, 2020. https://doi.org/10.1103/prxquantum.1.020315.","short":"W.J. Hease, A.R. Rueda Sanchez, R. Sahu, M. Wulf, G.M. Arnold, H.G.L. Schwefel, J.M. Fink, PRX Quantum 1 (2020).","mla":"Hease, William J., et al. “Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State.” PRX Quantum, vol. 1, no. 2, 020315, American Physical Society, 2020, doi:10.1103/prxquantum.1.020315."},"publication":"PRX Quantum"},{"citation":{"ama":"Lauk N, Sinclair N, Barzanjeh S, et al. Perspectives on quantum transduction. Quantum Science and Technology. 2020;5(2). doi:10.1088/2058-9565/ab788a","ista":"Lauk N, Sinclair N, Barzanjeh S, Covey JP, Saffman M, Spiropulu M, Simon C. 2020. Perspectives on quantum transduction. Quantum Science and Technology. 5(2), 020501.","ieee":"N. Lauk et al., “Perspectives on quantum transduction,” Quantum Science and Technology, vol. 5, no. 2. IOP Publishing, 2020.","apa":"Lauk, N., Sinclair, N., Barzanjeh, S., Covey, J. P., Saffman, M., Spiropulu, M., & Simon, C. (2020). Perspectives on quantum transduction. Quantum Science and Technology. IOP Publishing. https://doi.org/10.1088/2058-9565/ab788a","mla":"Lauk, Nikolai, et al. “Perspectives on Quantum Transduction.” Quantum Science and Technology, vol. 5, no. 2, 020501, IOP Publishing, 2020, doi:10.1088/2058-9565/ab788a.","short":"N. Lauk, N. Sinclair, S. Barzanjeh, J.P. Covey, M. Saffman, M. Spiropulu, C. Simon, Quantum Science and Technology 5 (2020).","chicago":"Lauk, Nikolai, Neil Sinclair, Shabir Barzanjeh, Jacob P Covey, Mark Saffman, Maria Spiropulu, and Christoph Simon. “Perspectives on Quantum Transduction.” Quantum Science and Technology. IOP Publishing, 2020. https://doi.org/10.1088/2058-9565/ab788a."},"publication":"Quantum Science and Technology","article_type":"review","date_published":"2020-03-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"01","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9194","intvolume":" 5","status":"public","ddc":["530"],"title":"Perspectives on quantum transduction","oa_version":"Published Version","file":[{"creator":"dernst","file_size":974399,"content_type":"application/pdf","file_name":"2020_QuantumScience_Lauk.pdf","access_level":"open_access","date_updated":"2021-03-02T09:47:13Z","date_created":"2021-03-02T09:47:13Z","success":1,"checksum":"a8562c42124a66b86836fe2489eb5f4f","file_id":"9215","relation":"main_file"}],"type":"journal_article","issue":"2","abstract":[{"text":"Quantum transduction, the process of converting quantum signals from one form of energy to another, is an important area of quantum science and technology. The present perspective article reviews quantum transduction between microwave and optical photons, an area that has recently seen a lot of activity and progress because of its relevance for connecting superconducting quantum processors over long distances, among other applications. Our review covers the leading approaches to achieving such transduction, with an emphasis on those based on atomic ensembles, opto-electro-mechanics, and electro-optics. We briefly discuss relevant metrics from the point of view of different applications, as well as challenges for the future.","lang":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000521449500001"]},"project":[{"_id":"258047B6-B435-11E9-9278-68D0E5697425","grant_number":"707438","name":"Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination with cavity Optomechanics SUPEREOM","call_identifier":"H2020"}],"isi":1,"quality_controlled":"1","doi":"10.1088/2058-9565/ab788a","language":[{"iso":"eng"}],"publication_identifier":{"issn":["2058-9565"]},"month":"03","acknowledgement":"During the writing of this article we became aware of another review of quantum transduction with somewhat different emphasis [99].\r\nWe would like to thank the participants of the transduction workshop at Caltech in September 2018 for helpful and stimulating discussions. We particularly thank John Bartholomew, Andrei Faraon, Johannes Fink, Jeff Holzgrafe, Linbo Shao, Marko Lončar, Daniel Oblak, and Oskar Painter.\r\nN L and N S acknowledge support from the Alliance for Quantum Technologies' (AQT) Intelligent Quantum Networks and Technologies (INQNET) research program and by DOE/HEP QuantISED program grant, QCCFP (Quantum Communication Channels for Fundamental Physics), award number DE-SC0019219. NS further acknowledges support by the Natural Sciences and Engineering Research Council of Canada (NSERC). SB acknowledges support from the Marie Skłodowska Curie fellowship number 707 438 (MSC-IF SUPEREOM). JPC acknowledges support from the Caltech PMA prize postdoctoral fellowship. MS acknowledges support from the ARL-CDQI and the National Science Foundation. CS acknowledges NSERC, Quantum Alberta, and the Alberta Major Innovation Fund.","year":"2020","department":[{"_id":"JoFi"}],"publisher":"IOP Publishing","publication_status":"published","author":[{"full_name":"Lauk, Nikolai","last_name":"Lauk","first_name":"Nikolai"},{"full_name":"Sinclair, Neil","first_name":"Neil","last_name":"Sinclair"},{"full_name":"Barzanjeh, Shabir","last_name":"Barzanjeh","first_name":"Shabir","orcid":"0000-0003-0415-1423","id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Covey","first_name":"Jacob P","full_name":"Covey, Jacob P"},{"first_name":"Mark","last_name":"Saffman","full_name":"Saffman, Mark"},{"full_name":"Spiropulu, Maria","last_name":"Spiropulu","first_name":"Maria"},{"full_name":"Simon, Christoph","first_name":"Christoph","last_name":"Simon"}],"volume":5,"date_updated":"2023-08-24T11:17:48Z","date_created":"2021-02-25T08:32:29Z","article_number":"020501","ec_funded":1,"file_date_updated":"2021-03-02T09:47:13Z"},{"date_published":"2020-12-15T00:00:00Z","publication":"SIAM Journal on Mathematical Analysis","citation":{"mla":"Fischer, Julian L., et al. “Convergence Rates of the Allen-Cahn Equation to Mean Curvature Flow: A Short Proof Based on Relative Entropies.” SIAM Journal on Mathematical Analysis, vol. 52, no. 6, Society for Industrial and Applied Mathematics, 2020, pp. 6222–33, doi:10.1137/20M1322182.","short":"J.L. Fischer, T. Laux, T.M. Simon, SIAM Journal on Mathematical Analysis 52 (2020) 6222–6233.","chicago":"Fischer, Julian L, Tim Laux, and Theresa M. Simon. “Convergence Rates of the Allen-Cahn Equation to Mean Curvature Flow: A Short Proof Based on Relative Entropies.” SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics, 2020. https://doi.org/10.1137/20M1322182.","ama":"Fischer JL, Laux T, Simon TM. Convergence rates of the Allen-Cahn equation to mean curvature flow: A short proof based on relative entropies. SIAM Journal on Mathematical Analysis. 2020;52(6):6222-6233. doi:10.1137/20M1322182","ista":"Fischer JL, Laux T, Simon TM. 2020. Convergence rates of the Allen-Cahn equation to mean curvature flow: A short proof based on relative entropies. SIAM Journal on Mathematical Analysis. 52(6), 6222–6233.","apa":"Fischer, J. L., Laux, T., & Simon, T. M. (2020). Convergence rates of the Allen-Cahn equation to mean curvature flow: A short proof based on relative entropies. SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics. https://doi.org/10.1137/20M1322182","ieee":"J. L. Fischer, T. Laux, and T. M. Simon, “Convergence rates of the Allen-Cahn equation to mean curvature flow: A short proof based on relative entropies,” SIAM Journal on Mathematical Analysis, vol. 52, no. 6. Society for Industrial and Applied Mathematics, pp. 6222–6233, 2020."},"article_type":"original","page":"6222-6233","day":"15","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","file":[{"success":1,"checksum":"21aa1cf4c30a86a00cae15a984819b5d","date_updated":"2021-01-25T07:48:39Z","date_created":"2021-01-25T07:48:39Z","file_id":"9041","relation":"main_file","creator":"dernst","file_size":310655,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_SIAM_Fischer.pdf"}],"oa_version":"Published Version","_id":"9039","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","title":"Convergence rates of the Allen-Cahn equation to mean curvature flow: A short proof based on relative entropies","ddc":["510"],"intvolume":" 52","abstract":[{"text":"We give a short and self-contained proof for rates of convergence of the Allen--Cahn equation towards mean curvature flow, assuming that a classical (smooth) solution to the latter exists and starting from well-prepared initial data. Our approach is based on a relative entropy technique. In particular, it does not require a stability analysis for the linearized Allen--Cahn operator. As our analysis also does not rely on the comparison principle, we expect it to be applicable to more complex equations and systems.","lang":"eng"}],"issue":"6","type":"journal_article","doi":"10.1137/20M1322182","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000600695200027"]},"quality_controlled":"1","isi":1,"project":[{"name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"month":"12","publication_identifier":{"issn":["00361410"],"eissn":["10957154"]},"author":[{"full_name":"Fischer, Julian L","last_name":"Fischer","first_name":"Julian L","orcid":"0000-0002-0479-558X","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Laux, Tim","first_name":"Tim","last_name":"Laux"},{"full_name":"Simon, Theresa M.","last_name":"Simon","first_name":"Theresa M."}],"date_updated":"2023-08-24T11:15:16Z","date_created":"2021-01-24T23:01:09Z","volume":52,"year":"2020","acknowledgement":"This work was supported by the European Union's Horizon 2020 Research and Innovation\r\nProgramme under Marie Sklodowska-Curie grant agreement 665385 and by the Deutsche\r\nForschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy, EXC-2047/1--390685813.","publication_status":"published","publisher":"Society for Industrial and Applied Mathematics","department":[{"_id":"JuFi"}],"file_date_updated":"2021-01-25T07:48:39Z","ec_funded":1},{"month":"11","publication_identifier":{"eissn":["15658538"],"issn":["00217670"]},"isi":1,"quality_controlled":"1","project":[{"call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804"}],"main_file_link":[{"url":"https://arxiv.org/abs/1804.11199","open_access":"1"}],"oa":1,"external_id":{"isi":["000611879400008"],"arxiv":["1804.11199"]},"language":[{"iso":"eng"}],"doi":"10.1007/s11854-020-0135-2","ec_funded":1,"publication_status":"published","department":[{"_id":"LaEr"}],"publisher":"Springer Nature","acknowledgement":"Supported in part by Hong Kong RGC Grant ECS 26301517.\r\nSupported in part by ERC Advanced Grant RANMAT No. 338804.\r\nSupported in part by the Knut and Alice Wallenberg Foundation and the Swedish Research Council Grant VR-2017-05195.","year":"2020","date_updated":"2023-08-24T11:16:03Z","date_created":"2021-02-07T23:01:15Z","volume":142,"author":[{"full_name":"Bao, Zhigang","orcid":"0000-0003-3036-1475","id":"442E6A6C-F248-11E8-B48F-1D18A9856A87","last_name":"Bao","first_name":"Zhigang"},{"full_name":"Erdös, László","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","first_name":"László"},{"first_name":"Kevin","last_name":"Schnelli","id":"434AD0AE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0954-3231","full_name":"Schnelli, Kevin"}],"scopus_import":"1","day":"01","article_processing_charge":"No","article_type":"original","page":"323-348","publication":"Journal d'Analyse Mathematique","citation":{"apa":"Bao, Z., Erdös, L., & Schnelli, K. (2020). On the support of the free additive convolution. Journal d’Analyse Mathematique. Springer Nature. https://doi.org/10.1007/s11854-020-0135-2","ieee":"Z. Bao, L. Erdös, and K. Schnelli, “On the support of the free additive convolution,” Journal d’Analyse Mathematique, vol. 142. Springer Nature, pp. 323–348, 2020.","ista":"Bao Z, Erdös L, Schnelli K. 2020. On the support of the free additive convolution. Journal d’Analyse Mathematique. 142, 323–348.","ama":"Bao Z, Erdös L, Schnelli K. On the support of the free additive convolution. Journal d’Analyse Mathematique. 2020;142:323-348. doi:10.1007/s11854-020-0135-2","chicago":"Bao, Zhigang, László Erdös, and Kevin Schnelli. “On the Support of the Free Additive Convolution.” Journal d’Analyse Mathematique. Springer Nature, 2020. https://doi.org/10.1007/s11854-020-0135-2.","short":"Z. Bao, L. Erdös, K. Schnelli, Journal d’Analyse Mathematique 142 (2020) 323–348.","mla":"Bao, Zhigang, et al. “On the Support of the Free Additive Convolution.” Journal d’Analyse Mathematique, vol. 142, Springer Nature, 2020, pp. 323–48, doi:10.1007/s11854-020-0135-2."},"date_published":"2020-11-01T00:00:00Z","type":"journal_article","abstract":[{"text":"We consider the free additive convolution of two probability measures μ and ν on the real line and show that μ ⊞ v is supported on a single interval if μ and ν each has single interval support. Moreover, the density of μ ⊞ ν is proven to vanish as a square root near the edges of its support if both μ and ν have power law behavior with exponents between −1 and 1 near their edges. In particular, these results show the ubiquity of the conditions in our recent work on optimal local law at the spectral edges for addition of random matrices [5].","lang":"eng"}],"title":"On the support of the free additive convolution","status":"public","intvolume":" 142","_id":"9104","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Preprint"},{"related_material":{"record":[{"id":"9114","relation":"used_in_publication","status":"public"}]},"author":[{"orcid":"0000-0001-9868-2166","id":"29705398-F248-11E8-B48F-1D18A9856A87","last_name":"Hease","first_name":"William J","full_name":"Hease, William J"},{"first_name":"Alfredo R","last_name":"Rueda Sanchez","id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6249-5860","full_name":"Rueda Sanchez, Alfredo R"},{"full_name":"Sahu, Rishabh","orcid":"0000-0001-6264-2162","id":"47D26E34-F248-11E8-B48F-1D18A9856A87","last_name":"Sahu","first_name":"Rishabh"},{"full_name":"Wulf, Matthias","first_name":"Matthias","last_name":"Wulf","id":"45598606-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6613-1378"},{"first_name":"Georg M","last_name":"Arnold","id":"3770C838-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1397-7876","full_name":"Arnold, Georg M"},{"first_name":"Harald","last_name":"Schwefel","full_name":"Schwefel, Harald"},{"first_name":"Johannes M","last_name":"Fink","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8112-028X","full_name":"Fink, Johannes M"}],"oa_version":"Published Version","date_updated":"2023-08-24T11:16:35Z","date_created":"2023-05-23T16:44:11Z","year":"2020","_id":"13071","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"JoFi"}],"publisher":"Zenodo","ddc":["530"],"status":"public","title":"Bidirectional electro-optic wavelength conversion in the quantum ground state","abstract":[{"text":"This dataset comprises all data shown in the plots of the main part of the submitted article \"Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State\". Additional raw data are available from the corresponding author on reasonable request.","lang":"eng"}],"type":"research_data_reference","doi":"10.5281/ZENODO.4266025","date_published":"2020-11-10T00:00:00Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"citation":{"ista":"Hease WJ, Rueda Sanchez AR, Sahu R, Wulf M, Arnold GM, Schwefel H, Fink JM. 2020. Bidirectional electro-optic wavelength conversion in the quantum ground state, Zenodo, 10.5281/ZENODO.4266025.","ieee":"W. J. Hease et al., “Bidirectional electro-optic wavelength conversion in the quantum ground state.” Zenodo, 2020.","apa":"Hease, W. J., Rueda Sanchez, A. R., Sahu, R., Wulf, M., Arnold, G. M., Schwefel, H., & Fink, J. M. (2020). Bidirectional electro-optic wavelength conversion in the quantum ground state. Zenodo. https://doi.org/10.5281/ZENODO.4266025","ama":"Hease WJ, Rueda Sanchez AR, Sahu R, et al. Bidirectional electro-optic wavelength conversion in the quantum ground state. 2020. doi:10.5281/ZENODO.4266025","chicago":"Hease, William J, Alfredo R Rueda Sanchez, Rishabh Sahu, Matthias Wulf, Georg M Arnold, Harald Schwefel, and Johannes M Fink. “Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State.” Zenodo, 2020. https://doi.org/10.5281/ZENODO.4266025.","mla":"Hease, William J., et al. Bidirectional Electro-Optic Wavelength Conversion in the Quantum Ground State. Zenodo, 2020, doi:10.5281/ZENODO.4266025.","short":"W.J. Hease, A.R. Rueda Sanchez, R. Sahu, M. Wulf, G.M. Arnold, H. Schwefel, J.M. Fink, (2020)."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.4266026"}],"article_processing_charge":"No","day":"10","month":"11"},{"doi":"10.1002/qute.201900077","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"external_id":{"isi":["000548088300001"]},"isi":1,"quality_controlled":"1","publication_identifier":{"issn":["2511-9044"]},"month":"01","related_material":{"link":[{"url":"https://doi.org/10.1002/qute.202070011","relation":"poster","description":"Cover Page"}]},"author":[{"full_name":"Lambert, Nicholas J.","first_name":"Nicholas J.","last_name":"Lambert"},{"full_name":"Rueda Sanchez, Alfredo R","first_name":"Alfredo R","last_name":"Rueda Sanchez","id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6249-5860"},{"full_name":"Sedlmeir, Florian","last_name":"Sedlmeir","first_name":"Florian"},{"full_name":"Schwefel, Harald G. L.","last_name":"Schwefel","first_name":"Harald G. L."}],"volume":3,"date_created":"2021-02-25T08:52:36Z","date_updated":"2023-08-24T13:53:02Z","acknowledgement":"The authors thank Amita Deb for useful comments on this manuscript. The authors acknowledge support from the MBIE of New Zealand Endeavour Smart Ideas fund. The reference numbers in Figure 8 were corrected in April 2020, after online publication.","year":"2020","department":[{"_id":"JoFi"}],"publisher":"Wiley","publication_status":"published","file_date_updated":"2021-03-02T12:30:03Z","article_number":"1900077","date_published":"2020-01-01T00:00:00Z","citation":{"apa":"Lambert, N. J., Rueda Sanchez, A. R., Sedlmeir, F., & Schwefel, H. G. L. (2020). Coherent conversion between microwave and optical photons - An overview of physical implementations. Advanced Quantum Technologies. Wiley. https://doi.org/10.1002/qute.201900077","ieee":"N. J. Lambert, A. R. Rueda Sanchez, F. Sedlmeir, and H. G. L. Schwefel, “Coherent conversion between microwave and optical photons - An overview of physical implementations,” Advanced Quantum Technologies, vol. 3, no. 1. Wiley, 2020.","ista":"Lambert NJ, Rueda Sanchez AR, Sedlmeir F, Schwefel HGL. 2020. Coherent conversion between microwave and optical photons - An overview of physical implementations. Advanced Quantum Technologies. 3(1), 1900077.","ama":"Lambert NJ, Rueda Sanchez AR, Sedlmeir F, Schwefel HGL. Coherent conversion between microwave and optical photons - An overview of physical implementations. Advanced Quantum Technologies. 2020;3(1). doi:10.1002/qute.201900077","chicago":"Lambert, Nicholas J., Alfredo R Rueda Sanchez, Florian Sedlmeir, and Harald G. L. Schwefel. “Coherent Conversion between Microwave and Optical Photons - An Overview of Physical Implementations.” Advanced Quantum Technologies. Wiley, 2020. https://doi.org/10.1002/qute.201900077.","short":"N.J. Lambert, A.R. Rueda Sanchez, F. Sedlmeir, H.G.L. Schwefel, Advanced Quantum Technologies 3 (2020).","mla":"Lambert, Nicholas J., et al. “Coherent Conversion between Microwave and Optical Photons - An Overview of Physical Implementations.” Advanced Quantum Technologies, vol. 3, no. 1, 1900077, Wiley, 2020, doi:10.1002/qute.201900077."},"publication":"Advanced Quantum Technologies","article_type":"original","article_processing_charge":"No","has_accepted_license":"1","day":"01","oa_version":"Published Version","file":[{"creator":"dernst","file_size":2410114,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_AdvQuantumTech_Lambert.pdf","success":1,"checksum":"157e95abd6883c3b35b0fa78ae10775e","date_created":"2021-03-02T12:30:03Z","date_updated":"2021-03-02T12:30:03Z","file_id":"9216","relation":"main_file"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9195","intvolume":" 3","status":"public","ddc":["530"],"title":"Coherent conversion between microwave and optical photons - An overview of physical implementations","issue":"1","abstract":[{"text":"Quantum information technology based on solid state qubits has created much interest in converting quantum states from the microwave to the optical domain. Optical photons, unlike microwave photons, can be transmitted by fiber, making them suitable for long distance quantum communication. Moreover, the optical domain offers access to a large set of very well‐developed quantum optical tools, such as highly efficient single‐photon detectors and long‐lived quantum memories. For a high fidelity microwave to optical transducer, efficient conversion at single photon level and low added noise is needed. Currently, the most promising approaches to build such systems are based on second‐order nonlinear phenomena such as optomechanical and electro‐optic interactions. Alternative approaches, although not yet as efficient, include magneto‐optical coupling and schemes based on isolated quantum systems like atoms, ions, or quantum dots. Herein, the necessary theoretical foundations for the most important microwave‐to‐optical conversion experiments are provided, their implementations are described, and the current limitations and future prospects are discussed.","lang":"eng"}],"type":"journal_article"},{"oa_version":"Published Version","_id":"9011","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 14","title":"CALYPSO: Private data management for decentralized ledgers","status":"public","issue":"4","abstract":[{"lang":"eng","text":"Distributed ledgers provide high availability and integrity, making them a key enabler for practical and secure computation of distributed workloads among mutually distrustful parties. Many practical applications also require strong confidentiality, however. This work enhances permissioned and permissionless blockchains with the ability to manage confidential data without forfeiting availability or decentralization. The proposed Calypso architecture addresses two orthogonal challenges confronting modern distributed ledgers: (a) enabling the auditable management of secrets and (b) protecting distributed computations against arbitrage attacks when their results depend on the ordering and secrecy of inputs.\r\n\r\nCalypso introduces on-chain secrets, a novel abstraction that enforces atomic deposition of an auditable trace whenever users access confidential data. Calypso provides user-controlled consent management that ensures revocation atomicity and accountable anonymity. To enable permissionless deployment, we introduce an incentive scheme and provide users with the option to select their preferred trustees. We evaluated our Calypso prototype with a confidential document-sharing application and a decentralized lottery. Our benchmarks show that transaction-processing latency increases linearly in terms of security (number of trustees) and is in the range of 0.2 to 8 seconds for 16 to 128 trustees."}],"type":"journal_article","date_published":"2020-12-01T00:00:00Z","citation":{"chicago":"Kokoris Kogias, Eleftherios, Enis Ceyhun Alp, Linus Gasser, Philipp Jovanovic, Ewa Syta, and Bryan Ford. “CALYPSO: Private Data Management for Decentralized Ledgers.” Proceedings of the VLDB Endowment. Association for Computing Machinery, 2020. https://doi.org/10.14778/3436905.3436917.","short":"E. Kokoris Kogias, E.C. Alp, L. Gasser, P. Jovanovic, E. Syta, B. Ford, Proceedings of the VLDB Endowment 14 (2020) 586–599.","mla":"Kokoris Kogias, Eleftherios, et al. “CALYPSO: Private Data Management for Decentralized Ledgers.” Proceedings of the VLDB Endowment, vol. 14, no. 4, Association for Computing Machinery, 2020, pp. 586–99, doi:10.14778/3436905.3436917.","apa":"Kokoris Kogias, E., Alp, E. C., Gasser, L., Jovanovic, P., Syta, E., & Ford, B. (2020). CALYPSO: Private data management for decentralized ledgers. Proceedings of the VLDB Endowment. Association for Computing Machinery. https://doi.org/10.14778/3436905.3436917","ieee":"E. Kokoris Kogias, E. C. Alp, L. Gasser, P. Jovanovic, E. Syta, and B. Ford, “CALYPSO: Private data management for decentralized ledgers,” Proceedings of the VLDB Endowment, vol. 14, no. 4. Association for Computing Machinery, pp. 586–599, 2020.","ista":"Kokoris Kogias E, Alp EC, Gasser L, Jovanovic P, Syta E, Ford B. 2020. CALYPSO: Private data management for decentralized ledgers. Proceedings of the VLDB Endowment. 14(4), 586–599.","ama":"Kokoris Kogias E, Alp EC, Gasser L, Jovanovic P, Syta E, Ford B. CALYPSO: Private data management for decentralized ledgers. Proceedings of the VLDB Endowment. 2020;14(4):586-599. doi:10.14778/3436905.3436917"},"publication":"Proceedings of the VLDB Endowment","page":"586-599","article_type":"original","article_processing_charge":"No","day":"01","scopus_import":"1","author":[{"full_name":"Kokoris Kogias, Eleftherios","first_name":"Eleftherios","last_name":"Kokoris Kogias","id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30"},{"full_name":"Alp, Enis Ceyhun","first_name":"Enis Ceyhun","last_name":"Alp"},{"first_name":"Linus","last_name":"Gasser","full_name":"Gasser, Linus"},{"full_name":"Jovanovic, Philipp","last_name":"Jovanovic","first_name":"Philipp"},{"last_name":"Syta","first_name":"Ewa","full_name":"Syta, Ewa"},{"last_name":"Ford","first_name":"Bryan","full_name":"Ford, Bryan"}],"volume":14,"date_created":"2021-01-17T23:01:13Z","date_updated":"2023-08-24T13:57:13Z","year":"2020","acknowledgement":"We thank Nicolas Gailly, Vincent Graf, Jean-Pierre Hubaux, Wouter Lueks, Massimo Marelli, Carmela Troncoso, Juan-Ramón Troncoso Pastoriza, Frédéric Pont, and Sandra Siby for their valuable feedback. This project was supported in part by the ETH domain under PHRT grant #2017−201, and by the AXA Research Fund, Byzgen, DFINITY, and the Swiss Data Science Center (SDSC).","publisher":"Association for Computing Machinery","department":[{"_id":"ElKo"}],"publication_status":"published","doi":"10.14778/3436905.3436917","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://dl.acm.org/doi/10.14778/3436905.3436917"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"external_id":{"isi":["000658495400012"]},"quality_controlled":"1","isi":1,"publication_identifier":{"eissn":["2150-8097"]},"month":"12"},{"scopus_import":"1","day":"26","has_accepted_license":"1","article_processing_charge":"No","article_type":"original","publication":"Physical Review B","citation":{"ama":"Brighi P, Abanin DA, Serbyn M. Stability of mobility edges in disordered interacting systems. Physical Review B. 2020;102(6). doi:10.1103/physrevb.102.060202","ieee":"P. Brighi, D. A. Abanin, and M. Serbyn, “Stability of mobility edges in disordered interacting systems,” Physical Review B, vol. 102, no. 6. American Physical Society, 2020.","apa":"Brighi, P., Abanin, D. A., & Serbyn, M. (2020). Stability of mobility edges in disordered interacting systems. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.102.060202","ista":"Brighi P, Abanin DA, Serbyn M. 2020. Stability of mobility edges in disordered interacting systems. Physical Review B. 102(6), 060202(R).","short":"P. Brighi, D.A. Abanin, M. Serbyn, Physical Review B 102 (2020).","mla":"Brighi, Pietro, et al. “Stability of Mobility Edges in Disordered Interacting Systems.” Physical Review B, vol. 102, no. 6, 060202(R), American Physical Society, 2020, doi:10.1103/physrevb.102.060202.","chicago":"Brighi, Pietro, Dmitry A. Abanin, and Maksym Serbyn. “Stability of Mobility Edges in Disordered Interacting Systems.” Physical Review B. American Physical Society, 2020. https://doi.org/10.1103/physrevb.102.060202."},"date_published":"2020-08-26T00:00:00Z","type":"journal_article","abstract":[{"text":"Many-body localization provides a mechanism to avoid thermalization in isolated interacting quantum systems. The breakdown of thermalization may be complete, when all eigenstates in the many-body spectrum become localized, or partial, when the so-called many-body mobility edge separates localized and delocalized parts of the spectrum. Previously, De Roeck et al. [Phys. Rev. B 93, 014203 (2016)] suggested a possible instability of the many-body mobility edge in energy density. The local ergodic regions—so-called “bubbles”—resonantly spread throughout the system, leading to delocalization. In order to study such instability mechanism, in this work we design a model featuring many-body mobility edge in particle density: the states at small particle density are localized, while increasing the density of particles leads to delocalization. Using numerical simulations with matrix product states, we demonstrate the stability of many-body localization with respect to small bubbles in large dilute systems for experimentally relevant timescales. In addition, we demonstrate that processes where the bubble spreads are favored over processes that lead to resonant tunneling, suggesting a possible mechanism behind the observed stability of many-body mobility edge. We conclude by proposing experiments to probe particle density mobility edge in the Bose-Hubbard model.","lang":"eng"}],"issue":"6","status":"public","ddc":["530"],"title":"Stability of mobility edges in disordered interacting systems","intvolume":" 102","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8308","file":[{"relation":"main_file","file_id":"8309","checksum":"716442fa7861323fcc80b93718ca009c","success":1,"date_created":"2020-08-26T19:28:55Z","date_updated":"2020-08-26T19:28:55Z","access_level":"open_access","file_name":"PhysRevB.102.060202.pdf","content_type":"application/pdf","file_size":488825,"creator":"mserbyn"},{"file_name":"Supplementary-mbme.pdf","access_level":"open_access","content_type":"application/pdf","file_size":711405,"creator":"mserbyn","relation":"main_file","file_id":"8310","date_updated":"2020-08-26T19:29:00Z","date_created":"2020-08-26T19:29:00Z","checksum":"be0abdc8f60fe065ea6dc92e08487122","success":1}],"oa_version":"None","month":"08","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"quality_controlled":"1","isi":1,"project":[{"name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","call_identifier":"H2020","grant_number":"850899","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E"}],"oa":1,"external_id":{"isi":["000562628300001"]},"language":[{"iso":"eng"}],"doi":"10.1103/physrevb.102.060202","article_number":"060202(R)","file_date_updated":"2020-08-26T19:29:00Z","ec_funded":1,"publication_status":"published","department":[{"_id":"MaSe"}],"publisher":"American Physical Society","acknowledgement":"Acknowledgments. We acknowledge useful discussions with W. De Roeck and A. Michailidis. P.B. was supported by the European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie Grant Agreement No. 665385. D.A. was supported by the Swiss National Science Foundation. M.S. was supported by European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (Grant Agreement No. 850899). This work benefited from visits to KITP, supported by the National Science Foundation under Grant No. NSF PHY-1748958 and from the program “Thermalization, Many Body Localization and Hydrodynamics” at International Centre for Theoretical Sciences (Code: ICTS/hydrodynamics2019/11).","year":"2020","date_updated":"2023-08-24T14:20:21Z","date_created":"2020-08-26T19:27:42Z","volume":102,"author":[{"full_name":"Brighi, Pietro","first_name":"Pietro","last_name":"Brighi","id":"4115AF5C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7969-2729"},{"last_name":"Abanin","first_name":"Dmitry A.","full_name":"Abanin, Dmitry A."},{"full_name":"Serbyn, Maksym","last_name":"Serbyn","first_name":"Maksym","orcid":"0000-0002-2399-5827","id":"47809E7E-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"id":"12732","status":"public","relation":"dissertation_contains"}]}},{"month":"10","publication_identifier":{"issn":["0022-1236"]},"doi":"10.1016/j.jfa.2020.108639","language":[{"iso":"eng"}],"oa":1,"external_id":{"arxiv":["1708.01597"],"isi":["000559623200009"]},"main_file_link":[{"url":"https://arxiv.org/abs/1708.01597","open_access":"1"}],"quality_controlled":"1","isi":1,"project":[{"name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7","grant_number":"338804","_id":"258DCDE6-B435-11E9-9278-68D0E5697425"}],"ec_funded":1,"article_number":"108639","author":[{"orcid":"0000-0003-3036-1475","id":"442E6A6C-F248-11E8-B48F-1D18A9856A87","last_name":"Bao","first_name":"Zhigang","full_name":"Bao, Zhigang"},{"full_name":"Erdös, László","first_name":"László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603"},{"first_name":"Kevin","last_name":"Schnelli","full_name":"Schnelli, Kevin"}],"date_created":"2022-03-18T10:18:59Z","date_updated":"2023-08-24T14:08:42Z","volume":279,"acknowledgement":"Partially supported by ERC Advanced Grant RANMAT No. 338804.","year":"2020","publication_status":"published","department":[{"_id":"LaEr"}],"publisher":"Elsevier","day":"15","article_processing_charge":"No","scopus_import":"1","keyword":["Analysis"],"date_published":"2020-10-15T00:00:00Z","publication":"Journal of Functional Analysis","citation":{"mla":"Bao, Zhigang, et al. “Spectral Rigidity for Addition of Random Matrices at the Regular Edge.” Journal of Functional Analysis, vol. 279, no. 7, 108639, Elsevier, 2020, doi:10.1016/j.jfa.2020.108639.","short":"Z. Bao, L. Erdös, K. Schnelli, Journal of Functional Analysis 279 (2020).","chicago":"Bao, Zhigang, László Erdös, and Kevin Schnelli. “Spectral Rigidity for Addition of Random Matrices at the Regular Edge.” Journal of Functional Analysis. Elsevier, 2020. https://doi.org/10.1016/j.jfa.2020.108639.","ama":"Bao Z, Erdös L, Schnelli K. Spectral rigidity for addition of random matrices at the regular edge. Journal of Functional Analysis. 2020;279(7). doi:10.1016/j.jfa.2020.108639","ista":"Bao Z, Erdös L, Schnelli K. 2020. Spectral rigidity for addition of random matrices at the regular edge. Journal of Functional Analysis. 279(7), 108639.","apa":"Bao, Z., Erdös, L., & Schnelli, K. (2020). Spectral rigidity for addition of random matrices at the regular edge. Journal of Functional Analysis. Elsevier. https://doi.org/10.1016/j.jfa.2020.108639","ieee":"Z. Bao, L. Erdös, and K. Schnelli, “Spectral rigidity for addition of random matrices at the regular edge,” Journal of Functional Analysis, vol. 279, no. 7. Elsevier, 2020."},"article_type":"original","abstract":[{"text":"We consider the sum of two large Hermitian matrices A and B with a Haar unitary conjugation bringing them into a general relative position. We prove that the eigenvalue density on the scale slightly above the local eigenvalue spacing is asymptotically given by the free additive convolution of the laws of A and B as the dimension of the matrix increases. This implies optimal rigidity of the eigenvalues and optimal rate of convergence in Voiculescu's theorem. Our previous works [4], [5] established these results in the bulk spectrum, the current paper completely settles the problem at the spectral edges provided they have the typical square-root behavior. The key element of our proof is to compensate the deterioration of the stability of the subordination equations by sharp error estimates that properly account for the local density near the edge. Our results also hold if the Haar unitary matrix is replaced by the Haar orthogonal matrix.","lang":"eng"}],"issue":"7","type":"journal_article","oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"10862","title":"Spectral rigidity for addition of random matrices at the regular edge","status":"public","intvolume":" 279"},{"oa":1,"external_id":{"arxiv":["1702.07513"],"isi":["000522852700002"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1702.07513"}],"isi":1,"quality_controlled":"1","doi":"10.1093/imrn/rny037","language":[{"iso":"eng"}],"month":"02","publication_identifier":{"issn":["1073-7928"],"eissn":["1687-0247"]},"year":"2020","acknowledgement":" Supported by the Russian Foundation for Basic Research grant 18-01-00036.","publication_status":"published","publisher":"Oxford University Press","department":[{"_id":"HeEd"}],"author":[{"full_name":"Akopyan, Arseniy","orcid":"0000-0002-2548-617X","id":"430D2C90-F248-11E8-B48F-1D18A9856A87","last_name":"Akopyan","first_name":"Arseniy"},{"last_name":"Karasev","first_name":"Roman","full_name":"Karasev, Roman"}],"date_updated":"2023-08-24T14:19:55Z","date_created":"2022-03-18T11:39:30Z","volume":2020,"publication":"International Mathematics Research Notices","citation":{"chicago":"Akopyan, Arseniy, and Roman Karasev. “Waist of Balls in Hyperbolic and Spherical Spaces.” International Mathematics Research Notices. Oxford University Press, 2020. https://doi.org/10.1093/imrn/rny037.","short":"A. Akopyan, R. Karasev, International Mathematics Research Notices 2020 (2020) 669–697.","mla":"Akopyan, Arseniy, and Roman Karasev. “Waist of Balls in Hyperbolic and Spherical Spaces.” International Mathematics Research Notices, vol. 2020, no. 3, Oxford University Press, 2020, pp. 669–97, doi:10.1093/imrn/rny037.","ieee":"A. Akopyan and R. Karasev, “Waist of balls in hyperbolic and spherical spaces,” International Mathematics Research Notices, vol. 2020, no. 3. Oxford University Press, pp. 669–697, 2020.","apa":"Akopyan, A., & Karasev, R. (2020). Waist of balls in hyperbolic and spherical spaces. International Mathematics Research Notices. Oxford University Press. https://doi.org/10.1093/imrn/rny037","ista":"Akopyan A, Karasev R. 2020. Waist of balls in hyperbolic and spherical spaces. International Mathematics Research Notices. 2020(3), 669–697.","ama":"Akopyan A, Karasev R. Waist of balls in hyperbolic and spherical spaces. International Mathematics Research Notices. 2020;2020(3):669-697. doi:10.1093/imrn/rny037"},"article_type":"original","page":"669-697","date_published":"2020-02-01T00:00:00Z","scopus_import":"1","keyword":["General Mathematics"],"day":"01","article_processing_charge":"No","_id":"10867","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Waist of balls in hyperbolic and spherical spaces","status":"public","intvolume":" 2020","oa_version":"Preprint","type":"journal_article","abstract":[{"text":"In this paper we find a tight estimate for Gromov’s waist of the balls in spaces of constant curvature, deduce the estimates for the balls in Riemannian manifolds with upper bounds on the curvature (CAT(ϰ)-spaces), and establish similar result for normed spaces.","lang":"eng"}],"issue":"3"},{"abstract":[{"lang":"eng","text":"Fitness interactions between mutations can influence a population’s evolution in many different ways. While epistatic effects are difficult to measure precisely, important information is captured by the mean and variance of log fitnesses for individuals carrying different numbers of mutations. We derive predictions for these quantities from a class of simple fitness landscapes, based on models of optimizing selection on quantitative traits. We also explore extensions to the models, including modular pleiotropy, variable effect sizes, mutational bias and maladaptation of the wild type. We illustrate our approach by reanalysing a large dataset of mutant effects in a yeast snoRNA. Though characterized by some large epistatic effects, these data give a good overall fit to the non-epistatic null model, suggesting that epistasis might have limited influence on the evolutionary dynamics in this system. We also show how the amount of epistasis depends on both the underlying fitness landscape and the distribution of mutations, and so is expected to vary in consistent ways between new mutations, standing variation and fixed mutations."}],"type":"research_data_reference","related_material":{"record":[{"id":"6467","status":"public","relation":"used_in_publication"}]},"author":[{"full_name":"Fraisse, Christelle","orcid":"0000-0001-8441-5075","id":"32DF5794-F248-11E8-B48F-1D18A9856A87","last_name":"Fraisse","first_name":"Christelle"},{"full_name":"Welch, John J.","last_name":"Welch","first_name":"John J."}],"oa_version":"Published Version","date_created":"2021-08-06T11:26:57Z","date_updated":"2023-08-25T10:34:41Z","year":"2020","_id":"9799","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","department":[{"_id":"BeVi"},{"_id":"NiBa"}],"publisher":"Royal Society of London","title":"Simulation code for Fig S1 from the distribution of epistasis on simple fitness landscapes","status":"public","article_processing_charge":"No","day":"15","month":"10","date_published":"2020-10-15T00:00:00Z","doi":"10.6084/m9.figshare.7957469.v1","citation":{"chicago":"Fraisse, Christelle, and John J. Welch. “Simulation Code for Fig S1 from the Distribution of Epistasis on Simple Fitness Landscapes.” Royal Society of London, 2020. https://doi.org/10.6084/m9.figshare.7957469.v1.","mla":"Fraisse, Christelle, and John J. Welch. Simulation Code for Fig S1 from the Distribution of Epistasis on Simple Fitness Landscapes. Royal Society of London, 2020, doi:10.6084/m9.figshare.7957469.v1.","short":"C. Fraisse, J.J. Welch, (2020).","ista":"Fraisse C, Welch JJ. 2020. Simulation code for Fig S1 from the distribution of epistasis on simple fitness landscapes, Royal Society of London, 10.6084/m9.figshare.7957469.v1.","ieee":"C. Fraisse and J. J. Welch, “Simulation code for Fig S1 from the distribution of epistasis on simple fitness landscapes.” Royal Society of London, 2020.","apa":"Fraisse, C., & Welch, J. J. (2020). Simulation code for Fig S1 from the distribution of epistasis on simple fitness landscapes. Royal Society of London. https://doi.org/10.6084/m9.figshare.7957469.v1","ama":"Fraisse C, Welch JJ. Simulation code for Fig S1 from the distribution of epistasis on simple fitness landscapes. 2020. doi:10.6084/m9.figshare.7957469.v1"},"main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.7957469.v1","open_access":"1"}],"oa":1},{"citation":{"chicago":"Fraisse, Christelle, and John J. Welch. “Simulation Code for Fig S2 from the Distribution of Epistasis on Simple Fitness Landscapes.” Royal Society of London, 2020. https://doi.org/10.6084/m9.figshare.7957472.v1.","short":"C. Fraisse, J.J. Welch, (2020).","mla":"Fraisse, Christelle, and John J. Welch. Simulation Code for Fig S2 from the Distribution of Epistasis on Simple Fitness Landscapes. Royal Society of London, 2020, doi:10.6084/m9.figshare.7957472.v1.","apa":"Fraisse, C., & Welch, J. J. (2020). Simulation code for Fig S2 from the distribution of epistasis on simple fitness landscapes. Royal Society of London. https://doi.org/10.6084/m9.figshare.7957472.v1","ieee":"C. Fraisse and J. J. Welch, “Simulation code for Fig S2 from the distribution of epistasis on simple fitness landscapes.” Royal Society of London, 2020.","ista":"Fraisse C, Welch JJ. 2020. Simulation code for Fig S2 from the distribution of epistasis on simple fitness landscapes, Royal Society of London, 10.6084/m9.figshare.7957472.v1.","ama":"Fraisse C, Welch JJ. Simulation code for Fig S2 from the distribution of epistasis on simple fitness landscapes. 2020. doi:10.6084/m9.figshare.7957472.v1"},"main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.7957472.v1","open_access":"1"}],"oa":1,"doi":"10.6084/m9.figshare.7957472.v1","date_published":"2020-10-15T00:00:00Z","day":"15","month":"10","article_processing_charge":"No","title":"Simulation code for Fig S2 from the distribution of epistasis on simple fitness landscapes","status":"public","publisher":"Royal Society of London","department":[{"_id":"BeVi"},{"_id":"NiBa"}],"_id":"9798","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","year":"2020","date_created":"2021-08-06T11:18:15Z","date_updated":"2023-08-25T10:34:41Z","oa_version":"Published Version","author":[{"id":"32DF5794-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8441-5075","first_name":"Christelle","last_name":"Fraisse","full_name":"Fraisse, Christelle"},{"full_name":"Welch, John J.","first_name":"John J.","last_name":"Welch"}],"related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"6467"}]},"type":"research_data_reference","abstract":[{"lang":"eng","text":"Fitness interactions between mutations can influence a population’s evolution in many different ways. While epistatic effects are difficult to measure precisely, important information is captured by the mean and variance of log fitnesses for individuals carrying different numbers of mutations. We derive predictions for these quantities from a class of simple fitness landscapes, based on models of optimizing selection on quantitative traits. We also explore extensions to the models, including modular pleiotropy, variable effect sizes, mutational bias and maladaptation of the wild type. We illustrate our approach by reanalysing a large dataset of mutant effects in a yeast snoRNA. Though characterized by some large epistatic effects, these data give a good overall fit to the non-epistatic null model, suggesting that epistasis might have limited influence on the evolutionary dynamics in this system. We also show how the amount of epistasis depends on both the underlying fitness landscape and the distribution of mutations, and so is expected to vary in consistent ways between new mutations, standing variation and fixed mutations."}]},{"isi":1,"quality_controlled":"1","project":[{"name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804"},{"grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","call_identifier":"H2020"}],"external_id":{"isi":["000547464400001"],"arxiv":["1806.08751"]},"oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1806.08751"}],"language":[{"iso":"eng"}],"doi":"10.1142/S2010326320500069","month":"07","publication_identifier":{"issn":["20103263"],"eissn":["20103271"]},"publication_status":"published","department":[{"_id":"LaEr"}],"publisher":"World Scientific Publishing","year":"2020","date_created":"2019-05-26T21:59:14Z","date_updated":"2023-08-28T08:38:48Z","volume":9,"author":[{"last_name":"Cipolloni","first_name":"Giorgio","orcid":"0000-0002-4901-7992","id":"42198EFA-F248-11E8-B48F-1D18A9856A87","full_name":"Cipolloni, Giorgio"},{"orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","first_name":"László","full_name":"Erdös, László"}],"article_number":"2050006","ec_funded":1,"article_type":"original","publication":"Random Matrices: Theory and Application","citation":{"short":"G. Cipolloni, L. Erdös, Random Matrices: Theory and Application 9 (2020).","mla":"Cipolloni, Giorgio, and László Erdös. “Fluctuations for Differences of Linear Eigenvalue Statistics for Sample Covariance Matrices.” Random Matrices: Theory and Application, vol. 9, no. 3, 2050006, World Scientific Publishing, 2020, doi:10.1142/S2010326320500069.","chicago":"Cipolloni, Giorgio, and László Erdös. “Fluctuations for Differences of Linear Eigenvalue Statistics for Sample Covariance Matrices.” Random Matrices: Theory and Application. World Scientific Publishing, 2020. https://doi.org/10.1142/S2010326320500069.","ama":"Cipolloni G, Erdös L. Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices. Random Matrices: Theory and Application. 2020;9(3). doi:10.1142/S2010326320500069","apa":"Cipolloni, G., & Erdös, L. (2020). Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices. Random Matrices: Theory and Application. World Scientific Publishing. https://doi.org/10.1142/S2010326320500069","ieee":"G. Cipolloni and L. Erdös, “Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices,” Random Matrices: Theory and Application, vol. 9, no. 3. World Scientific Publishing, 2020.","ista":"Cipolloni G, Erdös L. 2020. Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices. Random Matrices: Theory and Application. 9(3), 2050006."},"date_published":"2020-07-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No","title":"Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices","status":"public","intvolume":" 9","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6488","oa_version":"Preprint","type":"journal_article","abstract":[{"text":"We prove a central limit theorem for the difference of linear eigenvalue statistics of a sample covariance matrix W˜ and its minor W. We find that the fluctuation of this difference is much smaller than those of the individual linear statistics, as a consequence of the strong correlation between the eigenvalues of W˜ and W. Our result identifies the fluctuation of the spatial derivative of the approximate Gaussian field in the recent paper by Dumitru and Paquette. Unlike in a similar result for Wigner matrices, for sample covariance matrices, the fluctuation may entirely vanish.","lang":"eng"}],"issue":"3"},{"doi":"10.1063/5.0025965","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1063/5.0025965","open_access":"1"}],"external_id":{"isi":["000591639700001"]},"oa":1,"isi":1,"quality_controlled":"1","publication_identifier":{"eissn":["1077-3118"],"issn":["0003-6951"]},"month":"10","author":[{"full_name":"Miranti, Retno","last_name":"Miranti","first_name":"Retno"},{"last_name":"Septianto","first_name":"Ricky Dwi","full_name":"Septianto, Ricky Dwi"},{"full_name":"Ibáñez, Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843","first_name":"Maria","last_name":"Ibáñez"},{"first_name":"Maksym V.","last_name":"Kovalenko","full_name":"Kovalenko, Maksym V."},{"full_name":"Matsushita, Nobuhiro","first_name":"Nobuhiro","last_name":"Matsushita"},{"first_name":"Yoshihiro","last_name":"Iwasa","full_name":"Iwasa, Yoshihiro"},{"first_name":"Satria Zulkarnaen","last_name":"Bisri","full_name":"Bisri, Satria Zulkarnaen"}],"volume":117,"date_updated":"2023-09-05T11:57:23Z","date_created":"2020-11-09T08:05:43Z","year":"2020","acknowledgement":"This work was partly supported by Grants-in-Aid for Scientific Research by Young Scientist A (KAKENHI Wakate-A) No.\r\nJP17H04802, Grants-in-Aid for Scientific Research No. JP19H05602 from the Japan Society for the Promotion of Science, and RIKEN Incentive Research Grant (Shoreikadai) 2016. M.V.K. and M.I. acknowledge financial support from the European Union (EU) via FP7 ERC Starting Grant 2012 (Project NANOSOLID, GA No. 306733) and ETH Zurich via ETH career seed grant (No. SEED-18 16-2). We acknowledge Mrs. T. Kikitsu and Dr. D. Hashizume (RIKEN-CEMS) for access to the transmission electron microscope facility.","department":[{"_id":"MaIb"}],"publisher":"AIP Publishing","publication_status":"published","article_number":"173101","date_published":"2020-10-26T00:00:00Z","citation":{"chicago":"Miranti, Retno, Ricky Dwi Septianto, Maria Ibáñez, Maksym V. Kovalenko, Nobuhiro Matsushita, Yoshihiro Iwasa, and Satria Zulkarnaen Bisri. “Electron Transport in Iodide-Capped Core@shell PbTe@PbS Colloidal Nanocrystal Solids.” Applied Physics Letters. AIP Publishing, 2020. https://doi.org/10.1063/5.0025965.","mla":"Miranti, Retno, et al. “Electron Transport in Iodide-Capped Core@shell PbTe@PbS Colloidal Nanocrystal Solids.” Applied Physics Letters, vol. 117, no. 17, 173101, AIP Publishing, 2020, doi:10.1063/5.0025965.","short":"R. Miranti, R.D. Septianto, M. Ibáñez, M.V. Kovalenko, N. Matsushita, Y. Iwasa, S.Z. Bisri, Applied Physics Letters 117 (2020).","ista":"Miranti R, Septianto RD, Ibáñez M, Kovalenko MV, Matsushita N, Iwasa Y, Bisri SZ. 2020. Electron transport in iodide-capped core@shell PbTe@PbS colloidal nanocrystal solids. Applied Physics Letters. 117(17), 173101.","ieee":"R. Miranti et al., “Electron transport in iodide-capped core@shell PbTe@PbS colloidal nanocrystal solids,” Applied Physics Letters, vol. 117, no. 17. AIP Publishing, 2020.","apa":"Miranti, R., Septianto, R. D., Ibáñez, M., Kovalenko, M. V., Matsushita, N., Iwasa, Y., & Bisri, S. Z. (2020). Electron transport in iodide-capped core@shell PbTe@PbS colloidal nanocrystal solids. Applied Physics Letters. AIP Publishing. https://doi.org/10.1063/5.0025965","ama":"Miranti R, Septianto RD, Ibáñez M, et al. Electron transport in iodide-capped core@shell PbTe@PbS colloidal nanocrystal solids. Applied Physics Letters. 2020;117(17). doi:10.1063/5.0025965"},"publication":"Applied Physics Letters","article_type":"original","article_processing_charge":"No","day":"26","scopus_import":"1","oa_version":"Published Version","_id":"8746","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 117","status":"public","title":"Electron transport in iodide-capped core@shell PbTe@PbS colloidal nanocrystal solids","issue":"17","abstract":[{"lang":"eng","text":"Research in the field of colloidal semiconductor nanocrystals (NCs) has progressed tremendously, mostly because of their exceptional optoelectronic properties. Core@shell NCs, in which one or more inorganic layers overcoat individual NCs, recently received significant attention due to their remarkable optical characteristics. Reduced Auger recombination, suppressed blinking, and enhanced carrier multiplication are among the merits of core@shell NCs. Despite their importance in device development, the influence of the shell and the surface modification of the core@shell NC assemblies on the charge carrier transport remains a pertinent research objective. Type-II PbTe@PbS core@shell NCs, in which exclusive electron transport was demonstrated, still exhibit instability of their electron \r\n ransport. Here, we demonstrate the enhancement of electron transport and stability in PbTe@PbS core@shell NC assemblies using iodide as a surface passivating ligand. The combination of the PbS shelling and the use of the iodide ligand contributes to the addition of one mobile electron for each core@shell NC. Furthermore, both electron mobility and on/off current modulation ratio values of the core@shell NC field-effect transistor are steady with the usage of iodide. Excellent stability in these exclusively electron-transporting core@shell NCs paves the way for their utilization in electronic devices. "}],"type":"journal_article"},{"author":[{"full_name":"Kwak, WJ","first_name":"WJ","last_name":"Kwak"},{"last_name":"Sharon","first_name":"D","full_name":"Sharon, D"},{"last_name":"Xia","first_name":"C","full_name":"Xia, C"},{"full_name":"Kim, H","last_name":"Kim","first_name":"H"},{"first_name":"LR","last_name":"Johnson","full_name":"Johnson, LR"},{"first_name":"PG","last_name":"Bruce","full_name":"Bruce, PG"},{"full_name":"Nazar, LF","last_name":"Nazar","first_name":"LF"},{"last_name":"Sun","first_name":"YK","full_name":"Sun, YK"},{"full_name":"Frimer, AA","last_name":"Frimer","first_name":"AA"},{"full_name":"Noked, M","first_name":"M","last_name":"Noked"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","first_name":"Stefan Alexander"},{"first_name":"D","last_name":"Aurbach","full_name":"Aurbach, D"}],"volume":120,"date_updated":"2023-09-05T12:04:28Z","date_created":"2020-06-19T08:42:47Z","pmid":1,"year":"2020","acknowledgement":"S.A.F. is indebted to the European Research Council (ERC) under the European Union’s\r\nHorizon 2020 research and innovation programme (grant agreement No 636069).","publisher":"American Chemical Society","department":[{"_id":"StFr"}],"publication_status":"published","file_date_updated":"2020-07-14T12:48:06Z","doi":"10.1021/acs.chemrev.9b00609","language":[{"iso":"eng"}],"oa":1,"external_id":{"isi":["000555413600008"],"pmid":["32134255"]},"isi":1,"quality_controlled":"1","publication_identifier":{"eissn":["1520-6890"],"issn":["0009-2665"]},"month":"03","file":[{"checksum":"1a683353d46c5841c8bb2ee0a56ac7be","date_created":"2020-06-29T16:36:01Z","date_updated":"2020-07-14T12:48:06Z","file_id":"8060","relation":"main_file","creator":"sfreunbe","file_size":8525678,"content_type":"application/pdf","access_level":"open_access","file_name":"ChemRev_final.pdf"}],"oa_version":"Submitted Version","_id":"7985","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 120","title":"Lithium-oxygen batteries and related systems: Potential, status, and future","ddc":["540"],"status":"public","issue":"14","abstract":[{"lang":"eng","text":"The goal of limiting global warming to 1.5 °C requires a drastic reduction in CO2 emissions across many sectors of the world economy. Batteries are vital to this endeavor, whether used in electric vehicles, to store renewable electricity, or in aviation. Present lithium-ion technologies are preparing the public for this inevitable change, but their maximum theoretical specific capacity presents a limitation. Their high cost is another concern for commercial viability. Metal–air batteries have the highest theoretical energy density of all possible secondary battery technologies and could yield step changes in energy storage, if their practical difficulties could be overcome. The scope of this review is to provide an objective, comprehensive, and authoritative assessment of the intensive work invested in nonaqueous rechargeable metal–air batteries over the past few years, which identified the key problems and guides directions to solve them. We focus primarily on the challenges and outlook for Li–O2 cells but include Na–O2, K–O2, and Mg–O2 cells for comparison. Our review highlights the interdisciplinary nature of this field that involves a combination of materials chemistry, electrochemistry, computation, microscopy, spectroscopy, and surface science. The mechanisms of O2 reduction and evolution are considered in the light of recent findings, along with developments in positive and negative electrodes, electrolytes, electrocatalysis on surfaces and in solution, and the degradative effect of singlet oxygen, which is typically formed in Li–O2 cells."}],"type":"journal_article","date_published":"2020-03-05T00:00:00Z","citation":{"ieee":"W. Kwak et al., “Lithium-oxygen batteries and related systems: Potential, status, and future,” Chemical Reviews, vol. 120, no. 14. American Chemical Society, pp. 6626–6683, 2020.","apa":"Kwak, W., Sharon, D., Xia, C., Kim, H., Johnson, L., Bruce, P., … Aurbach, D. (2020). Lithium-oxygen batteries and related systems: Potential, status, and future. Chemical Reviews. American Chemical Society. https://doi.org/10.1021/acs.chemrev.9b00609","ista":"Kwak W, Sharon D, Xia C, Kim H, Johnson L, Bruce P, Nazar L, Sun Y, Frimer A, Noked M, Freunberger SA, Aurbach D. 2020. Lithium-oxygen batteries and related systems: Potential, status, and future. Chemical Reviews. 120(14), 6626–6683.","ama":"Kwak W, Sharon D, Xia C, et al. Lithium-oxygen batteries and related systems: Potential, status, and future. Chemical Reviews. 2020;120(14):6626-6683. doi:10.1021/acs.chemrev.9b00609","chicago":"Kwak, WJ, D Sharon, C Xia, H Kim, LR Johnson, PG Bruce, LF Nazar, et al. “Lithium-Oxygen Batteries and Related Systems: Potential, Status, and Future.” Chemical Reviews. American Chemical Society, 2020. https://doi.org/10.1021/acs.chemrev.9b00609.","short":"W. Kwak, D. Sharon, C. Xia, H. Kim, L. Johnson, P. Bruce, L. Nazar, Y. Sun, A. Frimer, M. Noked, S.A. Freunberger, D. Aurbach, Chemical Reviews 120 (2020) 6626–6683.","mla":"Kwak, WJ, et al. “Lithium-Oxygen Batteries and Related Systems: Potential, Status, and Future.” Chemical Reviews, vol. 120, no. 14, American Chemical Society, 2020, pp. 6626–83, doi:10.1021/acs.chemrev.9b00609."},"publication":"Chemical Reviews","page":"6626-6683","article_type":"review","has_accepted_license":"1","article_processing_charge":"No","day":"05","scopus_import":"1"},{"title":"Receptor kinase module targets PIN-dependent auxin transport during canalization","status":"public","intvolume":" 370","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8721","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"Spontaneously arising channels that transport the phytohormone auxin provide positional cues for self-organizing aspects of plant development such as flexible vasculature regeneration or its patterning during leaf venation. The auxin canalization hypothesis proposes a feedback between auxin signaling and transport as the underlying mechanism, but molecular players await discovery. We identified part of the machinery that routes auxin transport. The auxin-regulated receptor CAMEL (Canalization-related Auxin-regulated Malectin-type RLK) together with CANAR (Canalization-related Receptor-like kinase) interact with and phosphorylate PIN auxin transporters. camel and canar mutants are impaired in PIN1 subcellular trafficking and auxin-mediated PIN polarization, which macroscopically manifests as defects in leaf venation and vasculature regeneration after wounding. The CAMEL-CANAR receptor complex is part of the auxin feedback that coordinates polarization of individual cells during auxin canalization.","lang":"eng"}],"issue":"6516","article_type":"original","page":"550-557","publication":"Science","citation":{"chicago":"Hajny, Jakub, Tomas Prat, N Rydza, Lesia Rodriguez Solovey, Shutang Tan, Inge Verstraeten, David Domjan, et al. “Receptor Kinase Module Targets PIN-Dependent Auxin Transport during Canalization.” Science. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/science.aba3178.","short":"J. Hajny, T. Prat, N. Rydza, L. Rodriguez Solovey, S. Tan, I. Verstraeten, D. Domjan, E. Mazur, E. Smakowska-Luzan, W. Smet, E. Mor, J. Nolf, B. Yang, W. Grunewald, G. Molnar, Y. Belkhadir, B. De Rybel, J. Friml, Science 370 (2020) 550–557.","mla":"Hajny, Jakub, et al. “Receptor Kinase Module Targets PIN-Dependent Auxin Transport during Canalization.” Science, vol. 370, no. 6516, American Association for the Advancement of Science, 2020, pp. 550–57, doi:10.1126/science.aba3178.","ieee":"J. Hajny et al., “Receptor kinase module targets PIN-dependent auxin transport during canalization,” Science, vol. 370, no. 6516. American Association for the Advancement of Science, pp. 550–557, 2020.","apa":"Hajny, J., Prat, T., Rydza, N., Rodriguez Solovey, L., Tan, S., Verstraeten, I., … Friml, J. (2020). Receptor kinase module targets PIN-dependent auxin transport during canalization. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aba3178","ista":"Hajny J, Prat T, Rydza N, Rodriguez Solovey L, Tan S, Verstraeten I, Domjan D, Mazur E, Smakowska-Luzan E, Smet W, Mor E, Nolf J, Yang B, Grunewald W, Molnar G, Belkhadir Y, De Rybel B, Friml J. 2020. Receptor kinase module targets PIN-dependent auxin transport during canalization. Science. 370(6516), 550–557.","ama":"Hajny J, Prat T, Rydza N, et al. Receptor kinase module targets PIN-dependent auxin transport during canalization. Science. 2020;370(6516):550-557. doi:10.1126/science.aba3178"},"date_published":"2020-10-30T00:00:00Z","scopus_import":"1","day":"30","article_processing_charge":"No","publication_status":"published","publisher":"American Association for the Advancement of Science","department":[{"_id":"JiFr"}],"year":"2020","acknowledgement":"We acknowledge M. Glanc and Y. Zhang for providing entryclones; Vienna Biocenter Core Facilities (VBCF) for recombinantprotein production and purification; Vienna Biocenter Massspectrometry Facility, Bioimaging, and Life Science Facilities at IST Austria and Proteomics Core Facility CEITEC for a great assistance.Funding:This project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement 742985) and Austrian Science Fund (FWF): I 3630-B25 to J.F.and by grants from the Austrian Academy of Science through the Gregor Mendel Institute (Y.B.) and the Austrian Agency for International Cooperation in Education and Research (D.D.); the Netherlands Organization for Scientific Research (NWO; VIDI-864.13.001) (W.S.); the Research Foundation–Flanders (FWO;Odysseus II G0D0515N) and a European Research Council grant (ERC; StG TORPEDO; 714055) to B.D.R., B.Y., and E.M.; and the Hertha Firnberg Programme postdoctoral fellowship (T-947) from the FWF Austrian Science Fund to E.S.-L.; J.H. is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at IST Austria.","pmid":1,"date_updated":"2023-09-05T12:02:35Z","date_created":"2020-11-02T10:04:46Z","volume":370,"author":[{"first_name":"Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195","full_name":"Hajny, Jakub"},{"full_name":"Prat, Tomas","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","first_name":"Tomas","last_name":"Prat"},{"full_name":"Rydza, N","first_name":"N","last_name":"Rydza"},{"full_name":"Rodriguez Solovey, Lesia","last_name":"Rodriguez Solovey","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang","full_name":"Tan, Shutang"},{"full_name":"Verstraeten, Inge","last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Domjan, David","orcid":"0000-0003-2267-106X","id":"C684CD7A-257E-11EA-9B6F-D8588B4F947F","last_name":"Domjan","first_name":"David"},{"full_name":"Mazur, E","last_name":"Mazur","first_name":"E"},{"first_name":"E","last_name":"Smakowska-Luzan","full_name":"Smakowska-Luzan, E"},{"full_name":"Smet, W","first_name":"W","last_name":"Smet"},{"full_name":"Mor, E","first_name":"E","last_name":"Mor"},{"last_name":"Nolf","first_name":"J","full_name":"Nolf, J"},{"full_name":"Yang, B","last_name":"Yang","first_name":"B"},{"full_name":"Grunewald, W","first_name":"W","last_name":"Grunewald"},{"full_name":"Molnar, Gergely","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","last_name":"Molnar","first_name":"Gergely"},{"full_name":"Belkhadir, Y","last_name":"Belkhadir","first_name":"Y"},{"full_name":"De Rybel, B","first_name":"B","last_name":"De Rybel"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"}],"related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/molecular-compass-for-cell-orientation/"}]},"ec_funded":1,"isi":1,"quality_controlled":"1","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"},{"name":"Cell surface receptor complexes for PIN polarity and auxin-mediated development","grant_number":"25239","_id":"2699E3D2-B435-11E9-9278-68D0E5697425"}],"main_file_link":[{"open_access":"1","url":"https://europepmc.org/article/MED/33122378#free-full-text"}],"oa":1,"external_id":{"isi":["000583031800041"],"pmid":["33122378"]},"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"doi":"10.1126/science.aba3178","month":"10","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]}},{"author":[{"first_name":"Areg","last_name":"Ghazaryan","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9666-3543","full_name":"Ghazaryan, Areg"},{"full_name":"Paltiel, Yossi","last_name":"Paltiel","first_name":"Yossi"},{"full_name":"Lemeshko, Mikhail","first_name":"Mikhail","last_name":"Lemeshko","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802"}],"date_created":"2020-06-16T14:29:59Z","date_updated":"2023-09-05T12:07:15Z","volume":124,"year":"2020","publication_status":"published","department":[{"_id":"MiLe"}],"publisher":"American Chemical Society","file_date_updated":"2020-10-20T14:39:47Z","ec_funded":1,"doi":"10.1021/acs.jpcc.0c02584","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000614616200006"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"},{"_id":"26031614-B435-11E9-9278-68D0E5697425","grant_number":"P29902","call_identifier":"FWF","name":"Quantum rotations in the presence of a many-body environment"},{"_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770","name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020"}],"month":"05","publication_identifier":{"issn":["1932-7447"],"eissn":["1932-7455"]},"file":[{"file_size":1543429,"content_type":"application/pdf","creator":"kschuh","access_level":"open_access","file_name":"2020_PhysChemC_Ghazaryan.pdf","checksum":"25932bb1d0b0a955be0bea4d17facd49","success":1,"date_created":"2020-10-20T14:39:47Z","date_updated":"2020-10-20T14:39:47Z","relation":"main_file","file_id":"8683"}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7968","ddc":["530"],"title":"Analytic model of chiral-induced spin selectivity","status":"public","intvolume":" 124","abstract":[{"lang":"eng","text":"Organic materials are known to feature long spin-diffusion times, originating in a generally small spin–orbit coupling observed in these systems. From that perspective, chiral molecules acting as efficient spin selectors pose a puzzle that attracted a lot of attention in recent years. Here, we revisit the physical origins of chiral-induced spin selectivity (CISS) and propose a simple analytic minimal model to describe it. The model treats a chiral molecule as an anisotropic wire with molecular dipole moments aligned arbitrarily with respect to the wire’s axes and is therefore quite general. Importantly, it shows that the helical structure of the molecule is not necessary to observe CISS and other chiral nonhelical molecules can also be considered as potential candidates for the CISS effect. We also show that the suggested simple model captures the main characteristics of CISS observed in the experiment, without the need for additional constraints employed in the previous studies. The results pave the way for understanding other related physical phenomena where the CISS effect plays an essential role."}],"issue":"21","type":"journal_article","date_published":"2020-05-04T00:00:00Z","publication":"The Journal of Physical Chemistry C","citation":{"ama":"Ghazaryan A, Paltiel Y, Lemeshko M. Analytic model of chiral-induced spin selectivity. The Journal of Physical Chemistry C. 2020;124(21):11716-11721. doi:10.1021/acs.jpcc.0c02584","ista":"Ghazaryan A, Paltiel Y, Lemeshko M. 2020. Analytic model of chiral-induced spin selectivity. The Journal of Physical Chemistry C. 124(21), 11716–11721.","ieee":"A. Ghazaryan, Y. Paltiel, and M. Lemeshko, “Analytic model of chiral-induced spin selectivity,” The Journal of Physical Chemistry C, vol. 124, no. 21. American Chemical Society, pp. 11716–11721, 2020.","apa":"Ghazaryan, A., Paltiel, Y., & Lemeshko, M. (2020). Analytic model of chiral-induced spin selectivity. The Journal of Physical Chemistry C. American Chemical Society. https://doi.org/10.1021/acs.jpcc.0c02584","mla":"Ghazaryan, Areg, et al. “Analytic Model of Chiral-Induced Spin Selectivity.” The Journal of Physical Chemistry C, vol. 124, no. 21, American Chemical Society, 2020, pp. 11716–21, doi:10.1021/acs.jpcc.0c02584.","short":"A. Ghazaryan, Y. Paltiel, M. Lemeshko, The Journal of Physical Chemistry C 124 (2020) 11716–11721.","chicago":"Ghazaryan, Areg, Yossi Paltiel, and Mikhail Lemeshko. “Analytic Model of Chiral-Induced Spin Selectivity.” The Journal of Physical Chemistry C. American Chemical Society, 2020. https://doi.org/10.1021/acs.jpcc.0c02584."},"article_type":"original","page":"11716-11721","day":"04","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1"},{"acknowledgement":"J.T.-G. and G.Á.-P. acknowledge support through the Severo Ochoa Program from the\r\nGovernment of the Principality of Asturias (nos. PA-18-PF-BP17-126 and PA20-PF-BP19-053,\r\nrespectively). J. M-S acknowledges financial support through the Ramón y Cajal Program from\r\nthe Government of Spain (RYC2018-026196-I). A.Y.N. acknowledges the Spanish Ministry of\r\nScience, Innovation and Universities (national project no. MAT201788358-C3-3-R). P.A.-G.\r\nacknowledges support from the European Research Council under starting grant no. 715496,\r\n2DNANOPTICA.","year":"2020","pmid":1,"publication_status":"published","department":[{"_id":"NanoFab"}],"publisher":"American Chemical Society","author":[{"last_name":"Duan","first_name":"Jiahua","full_name":"Duan, Jiahua"},{"full_name":"Capote-Robayna, Nathaniel","first_name":"Nathaniel","last_name":"Capote-Robayna"},{"full_name":"Taboada-Gutiérrez, Javier","first_name":"Javier","last_name":"Taboada-Gutiérrez"},{"first_name":"Gonzalo","last_name":"Álvarez-Pérez","full_name":"Álvarez-Pérez, Gonzalo"},{"id":"2A307FE2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7370-5357","first_name":"Ivan","last_name":"Prieto Gonzalez","full_name":"Prieto Gonzalez, Ivan"},{"first_name":"Javier","last_name":"Martín-Sánchez","full_name":"Martín-Sánchez, Javier"},{"full_name":"Nikitin, Alexey Y.","last_name":"Nikitin","first_name":"Alexey Y."},{"full_name":"Alonso-González, Pablo","first_name":"Pablo","last_name":"Alonso-González"}],"date_created":"2022-03-18T11:37:38Z","date_updated":"2023-09-05T12:05:58Z","volume":20,"month":"07","publication_identifier":{"eissn":["1530-6992"],"issn":["1530-6984"]},"main_file_link":[{"url":"https://arxiv.org/abs/2004.14599","open_access":"1"}],"external_id":{"arxiv":["2004.14599"],"isi":["000548893200082"],"pmid":["32530634"]},"oa":1,"isi":1,"quality_controlled":"1","doi":"10.1021/acs.nanolett.0c01673","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"text":"Recent discoveries have shown that, when two layers of van der Waals (vdW) materials are superimposed with a relative twist angle between them, the electronic properties of the coupled system can be dramatically altered. Here, we demonstrate that a similar concept can be extended to the optics realm, particularly to propagating phonon polaritons–hybrid light-matter interactions. To do this, we fabricate stacks composed of two twisted slabs of a vdW crystal (α-MoO3) supporting anisotropic phonon polaritons (PhPs), and image the propagation of the latter when launched by localized sources. Our images reveal that, under a critical angle, the PhPs isofrequency curve undergoes a topological transition, in which the propagation of PhPs is strongly guided (canalization regime) along predetermined directions without geometric spreading. These results demonstrate a new degree of freedom (twist angle) for controlling the propagation of polaritons at the nanoscale with potential for nanoimaging, (bio)-sensing, or heat management.","lang":"eng"}],"issue":"7","_id":"10866","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"Twisted nano-optics: Manipulating light at the nanoscale with twisted phonon polaritonic slabs","intvolume":" 20","oa_version":"Preprint","scopus_import":"1","keyword":["Mechanical Engineering","Condensed Matter Physics","General Materials Science","General Chemistry","Bioengineering"],"day":"01","article_processing_charge":"No","publication":"Nano Letters","citation":{"ama":"Duan J, Capote-Robayna N, Taboada-Gutiérrez J, et al. Twisted nano-optics: Manipulating light at the nanoscale with twisted phonon polaritonic slabs. Nano Letters. 2020;20(7):5323-5329. doi:10.1021/acs.nanolett.0c01673","ista":"Duan J, Capote-Robayna N, Taboada-Gutiérrez J, Álvarez-Pérez G, Prieto Gonzalez I, Martín-Sánchez J, Nikitin AY, Alonso-González P. 2020. Twisted nano-optics: Manipulating light at the nanoscale with twisted phonon polaritonic slabs. Nano Letters. 20(7), 5323–5329.","apa":"Duan, J., Capote-Robayna, N., Taboada-Gutiérrez, J., Álvarez-Pérez, G., Prieto Gonzalez, I., Martín-Sánchez, J., … Alonso-González, P. (2020). Twisted nano-optics: Manipulating light at the nanoscale with twisted phonon polaritonic slabs. Nano Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.0c01673","ieee":"J. Duan et al., “Twisted nano-optics: Manipulating light at the nanoscale with twisted phonon polaritonic slabs,” Nano Letters, vol. 20, no. 7. American Chemical Society, pp. 5323–5329, 2020.","mla":"Duan, Jiahua, et al. “Twisted Nano-Optics: Manipulating Light at the Nanoscale with Twisted Phonon Polaritonic Slabs.” Nano Letters, vol. 20, no. 7, American Chemical Society, 2020, pp. 5323–29, doi:10.1021/acs.nanolett.0c01673.","short":"J. Duan, N. Capote-Robayna, J. Taboada-Gutiérrez, G. Álvarez-Pérez, I. Prieto Gonzalez, J. Martín-Sánchez, A.Y. Nikitin, P. Alonso-González, Nano Letters 20 (2020) 5323–5329.","chicago":"Duan, Jiahua, Nathaniel Capote-Robayna, Javier Taboada-Gutiérrez, Gonzalo Álvarez-Pérez, Ivan Prieto Gonzalez, Javier Martín-Sánchez, Alexey Y. Nikitin, and Pablo Alonso-González. “Twisted Nano-Optics: Manipulating Light at the Nanoscale with Twisted Phonon Polaritonic Slabs.” Nano Letters. American Chemical Society, 2020. https://doi.org/10.1021/acs.nanolett.0c01673."},"article_type":"original","page":"5323-5329","date_published":"2020-07-01T00:00:00Z"},{"article_type":"original","citation":{"short":"C. Hubert, K. Cohen, A. Ghazaryan, M. Lemeshko, R. Rapaport, P.V. Santos, Physical Review B 102 (2020).","mla":"Hubert, C., et al. “Attractive Interactions, Molecular Complexes, and Polarons in Coupled Dipolar Exciton Fluids.” Physical Review B, vol. 102, no. 4, 045307, American Physical Society, 2020, doi:10.1103/physrevb.102.045307.","chicago":"Hubert, C., K. Cohen, Areg Ghazaryan, Mikhail Lemeshko, R. Rapaport, and P. V. Santos. “Attractive Interactions, Molecular Complexes, and Polarons in Coupled Dipolar Exciton Fluids.” Physical Review B. American Physical Society, 2020. https://doi.org/10.1103/physrevb.102.045307.","ama":"Hubert C, Cohen K, Ghazaryan A, Lemeshko M, Rapaport R, Santos PV. Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids. Physical Review B. 2020;102(4). doi:10.1103/physrevb.102.045307","apa":"Hubert, C., Cohen, K., Ghazaryan, A., Lemeshko, M., Rapaport, R., & Santos, P. V. (2020). Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.102.045307","ieee":"C. Hubert, K. Cohen, A. Ghazaryan, M. Lemeshko, R. Rapaport, and P. V. Santos, “Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids,” Physical Review B, vol. 102, no. 4. American Physical Society, 2020.","ista":"Hubert C, Cohen K, Ghazaryan A, Lemeshko M, Rapaport R, Santos PV. 2020. Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids. Physical Review B. 102(4), 045307."},"publication":"Physical Review B","date_published":"2020-07-21T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"21","intvolume":" 102","title":"Attractive interactions, molecular complexes, and polarons in coupled dipolar exciton fluids","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8588","oa_version":"Preprint","type":"journal_article","issue":"4","abstract":[{"lang":"eng","text":"Dipolar (or spatially indirect) excitons (IXs) in semiconductor double quantum well (DQW) subjected to an electric field are neutral species with a dipole moment oriented perpendicular to the DQW plane. Here, we theoretically study interactions between IXs in stacked DQW bilayers, where the dipolar coupling can be either attractive or repulsive depending on the relative positions of the particles. By using microscopic band structure calculations to determine the electronic states forming the excitons, we show that the attractive dipolar interaction between stacked IXs deforms their electronic wave function, thereby increasing the inter-DQW interaction energy and making the IX even more electrically polarizable. Many-particle interaction effects are addressed by considering the coupling between a single IX in one of the DQWs to a cloud of IXs in the other DQW, which is modeled either as a closed-packed lattice or as a continuum IX fluid. We find that the lattice model yields IX interlayer binding energies decreasing with increasing lattice density. This behavior is due to the dominating role of the intra-DQW dipolar repulsion, which prevents more than one exciton from entering the attractive region of the inter-DQW coupling. Finally, both models shows that the single IX distorts the distribution of IXs in the adjacent DQW, thus inducing the formation of an IX dipolar polaron (dipolaron). While the interlayer binding energy reduces with IX density for lattice dipolarons, the continuous polaron model predicts a nonmonotonous dependence on density in semiquantitative agreement with a recent experimental study [cf. Hubert et al., Phys. Rev. X 9, 021026 (2019)]."}],"project":[{"_id":"26031614-B435-11E9-9278-68D0E5697425","grant_number":"P29902","name":"Quantum rotations in the presence of a many-body environment","call_identifier":"FWF"},{"name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020","grant_number":"801770","_id":"2688CF98-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"}],"isi":1,"quality_controlled":"1","oa":1,"external_id":{"arxiv":["1910.06015"],"isi":["000550579100004"]},"main_file_link":[{"url":"https://arxiv.org/abs/1910.06015","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1103/physrevb.102.045307","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"month":"07","publisher":"American Physical Society","department":[{"_id":"MiLe"}],"publication_status":"published","year":"2020","acknowledgement":"We thank W. Kaganer for discussions and for comment on the manuscript. We acknowledge the financial support from the German-Israeli Foundation (GIF), grant agreement I-1277-303.10/2014. M.L. acknowledges support by the Austrian Science Fund (FWF), under project No. P29902-N27, and by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). A.G. acknowledges support by the European Unions Horizon 2020 research and innovation\r\nprogram under the Marie Skodowska-Curie grant agreement No 754411. P.V.S acknowledges financial support\r\nfrom the Deutsche Forschungsgemeinschaft (DFG) under\r\nProject No. SA 598/12-1.","volume":102,"date_updated":"2023-09-05T12:12:10Z","date_created":"2020-09-30T10:33:43Z","author":[{"full_name":"Hubert, C.","first_name":"C.","last_name":"Hubert"},{"full_name":"Cohen, K.","last_name":"Cohen","first_name":"K."},{"full_name":"Ghazaryan, Areg","first_name":"Areg","last_name":"Ghazaryan","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9666-3543"},{"full_name":"Lemeshko, Mikhail","last_name":"Lemeshko","first_name":"Mikhail","orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Rapaport, R.","first_name":"R.","last_name":"Rapaport"},{"first_name":"P. V.","last_name":"Santos","full_name":"Santos, P. V."}],"article_number":"045307","ec_funded":1},{"oa_version":"Preprint","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8769","status":"public","title":"Quantum impurity model for anyons","intvolume":" 102","abstract":[{"text":"One of the hallmarks of quantum statistics, tightly entwined with the concept of topological phases of matter, is the prediction of anyons. Although anyons are predicted to be realized in certain fractional quantum Hall systems, they have not yet been unambiguously detected in experiment. Here we introduce a simple quantum impurity model, where bosonic or fermionic impurities turn into anyons as a consequence of their interaction with the surrounding many-particle bath. A cloud of phonons dresses each impurity in such a way that it effectively attaches fluxes or vortices to it and thereby converts it into an Abelian anyon. The corresponding quantum impurity model, first, provides a different approach to the numerical solution of the many-anyon problem, along with a concrete perspective of anyons as emergent quasiparticles built from composite bosons or fermions. More importantly, the model paves the way toward realizing anyons using impurities in crystal lattices as well as ultracold gases. In particular, we consider two heavy electrons interacting with a two-dimensional lattice crystal in a magnetic field, and show that when the impurity-bath system is rotated at the cyclotron frequency, impurities behave as anyons as a consequence of the angular momentum exchange between the impurities and the bath. A possible experimental realization is proposed by identifying the statistics parameter in terms of the mean-square distance of the impurities and the magnetization of the impurity-bath system, both of which are accessible to experiment. Another proposed application is impurities immersed in a two-dimensional weakly interacting Bose gas.","lang":"eng"}],"issue":"14","type":"journal_article","date_published":"2020-10-01T00:00:00Z","publication":"Physical Review B","citation":{"mla":"Yakaboylu, Enderalp, et al. “Quantum Impurity Model for Anyons.” Physical Review B, vol. 102, no. 14, 144109, American Physical Society, 2020, doi:10.1103/physrevb.102.144109.","short":"E. Yakaboylu, A. Ghazaryan, D. Lundholm, N. Rougerie, M. Lemeshko, R. Seiringer, Physical Review B 102 (2020).","chicago":"Yakaboylu, Enderalp, Areg Ghazaryan, D. Lundholm, N. Rougerie, Mikhail Lemeshko, and Robert Seiringer. “Quantum Impurity Model for Anyons.” Physical Review B. American Physical Society, 2020. https://doi.org/10.1103/physrevb.102.144109.","ama":"Yakaboylu E, Ghazaryan A, Lundholm D, Rougerie N, Lemeshko M, Seiringer R. Quantum impurity model for anyons. Physical Review B. 2020;102(14). doi:10.1103/physrevb.102.144109","ista":"Yakaboylu E, Ghazaryan A, Lundholm D, Rougerie N, Lemeshko M, Seiringer R. 2020. Quantum impurity model for anyons. Physical Review B. 102(14), 144109.","ieee":"E. Yakaboylu, A. Ghazaryan, D. Lundholm, N. Rougerie, M. Lemeshko, and R. Seiringer, “Quantum impurity model for anyons,” Physical Review B, vol. 102, no. 14. American Physical Society, 2020.","apa":"Yakaboylu, E., Ghazaryan, A., Lundholm, D., Rougerie, N., Lemeshko, M., & Seiringer, R. (2020). Quantum impurity model for anyons. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.102.144109"},"article_type":"original","day":"01","article_processing_charge":"No","scopus_import":"1","author":[{"full_name":"Yakaboylu, Enderalp","first_name":"Enderalp","last_name":"Yakaboylu","id":"38CB71F6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5973-0874"},{"id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9666-3543","first_name":"Areg","last_name":"Ghazaryan","full_name":"Ghazaryan, Areg"},{"first_name":"D.","last_name":"Lundholm","full_name":"Lundholm, D."},{"first_name":"N.","last_name":"Rougerie","full_name":"Rougerie, N."},{"full_name":"Lemeshko, Mikhail","last_name":"Lemeshko","first_name":"Mikhail","orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert"}],"date_updated":"2023-09-05T12:12:30Z","date_created":"2020-11-18T07:34:17Z","volume":102,"year":"2020","acknowledgement":"We are grateful to M. Correggi, A. Deuchert, and P. Schmelcher for valuable discussions. We also thank the anonymous referees for helping to clarify a few important points in the experimental realization. A.G. acknowledges support by the European Unions Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant agreement\r\nNo 754411. D.L. acknowledges financial support from the Goran Gustafsson Foundation (grant no. 1804) and LMU Munich. R.S., M.L., and N.R. gratefully acknowledge financial support by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreements No 694227, No 801770, and No 758620, respectively).","publication_status":"published","department":[{"_id":"MiLe"},{"_id":"RoSe"}],"publisher":"American Physical Society","ec_funded":1,"article_number":"144109","doi":"10.1103/physrevb.102.144109","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/1912.07890","open_access":"1"}],"oa":1,"external_id":{"isi":["000582563300001"],"arxiv":["1912.07890"]},"isi":1,"quality_controlled":"1","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"Analysis of quantum many-body systems","grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425"},{"_id":"2688CF98-B435-11E9-9278-68D0E5697425","grant_number":"801770","name":"Angulon: physics and applications of a new quasiparticle","call_identifier":"H2020"}],"month":"10","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]}},{"date_published":"2020-06-15T00:00:00Z","article_type":"original","publication":"Physical Review B","citation":{"ista":"Rao P, Serbyn M. 2020. Gully quantum Hall ferromagnetism in biased trilayer graphene. Physical Review B. 101(24), 245411.","ieee":"P. Rao and M. Serbyn, “Gully quantum Hall ferromagnetism in biased trilayer graphene,” Physical Review B, vol. 101, no. 24. American Physical Society, 2020.","apa":"Rao, P., & Serbyn, M. (2020). Gully quantum Hall ferromagnetism in biased trilayer graphene. Physical Review B. American Physical Society. https://doi.org/10.1103/physrevb.101.245411","ama":"Rao P, Serbyn M. Gully quantum Hall ferromagnetism in biased trilayer graphene. Physical Review B. 2020;101(24). doi:10.1103/physrevb.101.245411","chicago":"Rao, Peng, and Maksym Serbyn. “Gully Quantum Hall Ferromagnetism in Biased Trilayer Graphene.” Physical Review B. American Physical Society, 2020. https://doi.org/10.1103/physrevb.101.245411.","mla":"Rao, Peng, and Maksym Serbyn. “Gully Quantum Hall Ferromagnetism in Biased Trilayer Graphene.” Physical Review B, vol. 101, no. 24, 245411, American Physical Society, 2020, doi:10.1103/physrevb.101.245411.","short":"P. Rao, M. Serbyn, Physical Review B 101 (2020)."},"day":"15","article_processing_charge":"No","scopus_import":"1","oa_version":"Preprint","status":"public","title":"Gully quantum Hall ferromagnetism in biased trilayer graphene","intvolume":" 101","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7971","abstract":[{"text":"Multilayer graphene lattices allow for an additional tunability of the band structure by the strong perpendicular electric field. In particular, the emergence of the new multiple Dirac points in ABA stacked trilayer graphene subject to strong transverse electric fields was proposed theoretically and confirmed experimentally. These new Dirac points dubbed “gullies” emerge from the interplay between strong electric field and trigonal warping. In this work, we first characterize the properties of new emergent Dirac points and show that the electric field can be used to tune the distance between gullies in the momentum space. We demonstrate that the band structure has multiple Lifshitz transitions and higher-order singularity of “monkey saddle” type. Following the characterization of the band structure, we consider the spectrum of Landau levels and structure of their wave functions. In the limit of strong electric fields when gullies are well separated in momentum space, they give rise to triply degenerate Landau levels. In the second part of this work, we investigate how degeneracy between three gully Landau levels is lifted in the presence of interactions. Within the Hartree-Fock approximation we show that the symmetry breaking state interpolates between the fully gully polarized state that breaks C3 symmetry at high displacement field and the gully symmetric state when the electric field is decreased. The discontinuous transition between these two states is driven by enhanced intergully tunneling and exchange. We conclude by outlining specific experimental predictions for the existence of such a symmetry-breaking state.","lang":"eng"}],"issue":"24","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1103/physrevb.101.245411","quality_controlled":"1","isi":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2002.05739"}],"oa":1,"external_id":{"isi":["000538715500010"]},"month":"06","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"date_updated":"2023-09-05T12:11:37Z","date_created":"2020-06-17T14:52:06Z","volume":101,"author":[{"full_name":"Rao, Peng","id":"47C23AC6-02D0-11E9-BD0E-99399A5D3DEB","orcid":"0000-0003-1250-0021","first_name":"Peng","last_name":"Rao"},{"orcid":"0000-0002-2399-5827","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","last_name":"Serbyn","first_name":"Maksym","full_name":"Serbyn, Maksym"}],"publication_status":"published","publisher":"American Physical Society","department":[{"_id":"MaSe"}],"year":"2020","article_number":"245411"},{"date_updated":"2023-09-05T12:08:29Z","date_created":"2020-10-08T17:27:32Z","volume":125,"author":[{"id":"47A5E706-F248-11E8-B48F-1D18A9856A87","first_name":"Balachandra","last_name":"Suri","full_name":"Suri, Balachandra"},{"full_name":"Kageorge, Logan","last_name":"Kageorge","first_name":"Logan"},{"full_name":"Grigoriev, Roman O.","first_name":"Roman O.","last_name":"Grigoriev"},{"first_name":"Michael F.","last_name":"Schatz","full_name":"Schatz, Michael F."}],"publication_status":"published","publisher":"American Physical Society","department":[{"_id":"BjHo"}],"year":"2020","acknowledgement":"M. F. S. and R. O. G. acknowledge funding from the National Science Foundation (CMMI-1234436, DMS1125302, CMMI-1725587) and Defense Advanced Research Projects Agency (HR0011-16-2-0033). B. S.has received funding from the People Programme (Marie Curie Actions) of the European Union's Seventh Framework Programme FP7/2007–2013/ under REA Grant Agreement No. 291734.","ec_funded":1,"article_number":"064501","language":[{"iso":"eng"}],"doi":"10.1103/physrevlett.125.064501","isi":1,"quality_controlled":"1","project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2008.02367"}],"oa":1,"external_id":{"arxiv":["2008.02367"],"isi":["000555785600005"]},"month":"08","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"oa_version":"Preprint","title":"Capturing turbulent dynamics and statistics in experiments with unstable periodic orbits","status":"public","intvolume":" 125","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8634","abstract":[{"lang":"eng","text":"In laboratory studies and numerical simulations, we observe clear signatures of unstable time-periodic solutions in a moderately turbulent quasi-two-dimensional flow. We validate the dynamical relevance of such solutions by demonstrating that turbulent flows in both experiment and numerics transiently display time-periodic dynamics when they shadow unstable periodic orbits (UPOs). We show that UPOs we computed are also statistically significant, with turbulent flows spending a sizable fraction of the total time near these solutions. As a result, the average rates of energy input and dissipation for the turbulent flow and frequently visited UPOs differ only by a few percent."}],"issue":"6","type":"journal_article","date_published":"2020-08-05T00:00:00Z","article_type":"original","publication":"Physical Review Letters","citation":{"ista":"Suri B, Kageorge L, Grigoriev RO, Schatz MF. 2020. Capturing turbulent dynamics and statistics in experiments with unstable periodic orbits. Physical Review Letters. 125(6), 064501.","ieee":"B. Suri, L. Kageorge, R. O. Grigoriev, and M. F. Schatz, “Capturing turbulent dynamics and statistics in experiments with unstable periodic orbits,” Physical Review Letters, vol. 125, no. 6. American Physical Society, 2020.","apa":"Suri, B., Kageorge, L., Grigoriev, R. O., & Schatz, M. F. (2020). Capturing turbulent dynamics and statistics in experiments with unstable periodic orbits. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.125.064501","ama":"Suri B, Kageorge L, Grigoriev RO, Schatz MF. Capturing turbulent dynamics and statistics in experiments with unstable periodic orbits. Physical Review Letters. 2020;125(6). doi:10.1103/physrevlett.125.064501","chicago":"Suri, Balachandra, Logan Kageorge, Roman O. Grigoriev, and Michael F. Schatz. “Capturing Turbulent Dynamics and Statistics in Experiments with Unstable Periodic Orbits.” Physical Review Letters. American Physical Society, 2020. https://doi.org/10.1103/physrevlett.125.064501.","mla":"Suri, Balachandra, et al. “Capturing Turbulent Dynamics and Statistics in Experiments with Unstable Periodic Orbits.” Physical Review Letters, vol. 125, no. 6, 064501, American Physical Society, 2020, doi:10.1103/physrevlett.125.064501.","short":"B. Suri, L. Kageorge, R.O. Grigoriev, M.F. Schatz, Physical Review Letters 125 (2020)."},"day":"05","article_processing_charge":"No","keyword":["General Physics and Astronomy"]},{"publication_identifier":{"eissn":["1535-9484"]},"month":"08","quality_controlled":"1","isi":1,"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000561114000001"],"pmid":["32404488"]},"language":[{"iso":"eng"}],"doi":"10.1074/mcp.ra119.001826","file_date_updated":"2021-05-05T10:10:14Z","department":[{"_id":"JiFr"}],"publisher":"American Society for Biochemistry and Molecular Biology","publication_status":"published","pmid":1,"year":"2020","acknowledgement":"We thank Maria Njo, Sarah De Cokere, Marieke Mispelaere and Darren Wells, for practical assistance, Daniël Van Damme for assistance with image analysis, Marnik Vuylsteke for advice on statistics, Catherine Perrot-Rechenmann for useful discussions, Steffen Lau for critical reading oft he manuscript, and Philip Benfey, Gerd Jürgens, Philippe Nacry, Frederik Börnke, and Frans Tax for sharing materials.","volume":19,"date_updated":"2023-09-05T12:17:46Z","date_created":"2020-06-08T10:10:53Z","author":[{"last_name":"Smith","first_name":"S","full_name":"Smith, S"},{"first_name":"S","last_name":"Zhu","full_name":"Zhu, S"},{"full_name":"Joos, L","last_name":"Joos","first_name":"L"},{"last_name":"Roberts","first_name":"I","full_name":"Roberts, I"},{"last_name":"Nikonorova","first_name":"N","full_name":"Nikonorova, N"},{"full_name":"Vu, LD","last_name":"Vu","first_name":"LD"},{"full_name":"Stes, E","first_name":"E","last_name":"Stes"},{"first_name":"H","last_name":"Cho","full_name":"Cho, H"},{"full_name":"Larrieu, A","last_name":"Larrieu","first_name":"A"},{"full_name":"Xuan, W","first_name":"W","last_name":"Xuan"},{"first_name":"B","last_name":"Goodall","full_name":"Goodall, B"},{"full_name":"van de Cotte, B","first_name":"B","last_name":"van de Cotte"},{"full_name":"Waite, JM","first_name":"JM","last_name":"Waite"},{"full_name":"Rigal, A","first_name":"A","last_name":"Rigal"},{"full_name":"R Harborough, SR","last_name":"R Harborough","first_name":"SR"},{"last_name":"Persiau","first_name":"G","full_name":"Persiau, G"},{"first_name":"S","last_name":"Vanneste","full_name":"Vanneste, S"},{"last_name":"Kirschner","first_name":"GK","full_name":"Kirschner, GK"},{"full_name":"Vandermarliere, E","last_name":"Vandermarliere","first_name":"E"},{"last_name":"Martens","first_name":"L","full_name":"Martens, L"},{"last_name":"Stahl","first_name":"Y","full_name":"Stahl, Y"},{"full_name":"Audenaert, D","first_name":"D","last_name":"Audenaert"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Felix","first_name":"G","full_name":"Felix, G"},{"full_name":"Simon, R","last_name":"Simon","first_name":"R"},{"full_name":"Bennett, M","first_name":"M","last_name":"Bennett"},{"full_name":"Bishopp, A","last_name":"Bishopp","first_name":"A"},{"last_name":"De Jaeger","first_name":"G","full_name":"De Jaeger, G"},{"last_name":"Ljung","first_name":"K","full_name":"Ljung, K"},{"first_name":"S","last_name":"Kepinski","full_name":"Kepinski, S"},{"full_name":"Robert, S","first_name":"S","last_name":"Robert"},{"last_name":"Nemhauser","first_name":"J","full_name":"Nemhauser, J"},{"last_name":"Hwang","first_name":"I","full_name":"Hwang, I"},{"last_name":"Gevaert","first_name":"K","full_name":"Gevaert, K"},{"last_name":"Beeckman","first_name":"T","full_name":"Beeckman, T"},{"first_name":"I","last_name":"De Smet","full_name":"De Smet, I"}],"scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"01","page":"1248-1262","article_type":"original","citation":{"ama":"Smith S, Zhu S, Joos L, et al. The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecular & Cellular Proteomics. 2020;19(8):1248-1262. doi:10.1074/mcp.ra119.001826","apa":"Smith, S., Zhu, S., Joos, L., Roberts, I., Nikonorova, N., Vu, L., … De Smet, I. (2020). The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecular & Cellular Proteomics. American Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/mcp.ra119.001826","ieee":"S. Smith et al., “The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis,” Molecular & Cellular Proteomics, vol. 19, no. 8. American Society for Biochemistry and Molecular Biology, pp. 1248–1262, 2020.","ista":"Smith S, Zhu S, Joos L, Roberts I, Nikonorova N, Vu L, Stes E, Cho H, Larrieu A, Xuan W, Goodall B, van de Cotte B, Waite J, Rigal A, R Harborough S, Persiau G, Vanneste S, Kirschner G, Vandermarliere E, Martens L, Stahl Y, Audenaert D, Friml J, Felix G, Simon R, Bennett M, Bishopp A, De Jaeger G, Ljung K, Kepinski S, Robert S, Nemhauser J, Hwang I, Gevaert K, Beeckman T, De Smet I. 2020. The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecular & Cellular Proteomics. 19(8), 1248–1262.","short":"S. Smith, S. Zhu, L. Joos, I. Roberts, N. Nikonorova, L. Vu, E. Stes, H. Cho, A. Larrieu, W. Xuan, B. Goodall, B. van de Cotte, J. Waite, A. Rigal, S. R Harborough, G. Persiau, S. Vanneste, G. Kirschner, E. Vandermarliere, L. Martens, Y. Stahl, D. Audenaert, J. Friml, G. Felix, R. Simon, M. Bennett, A. Bishopp, G. De Jaeger, K. Ljung, S. Kepinski, S. Robert, J. Nemhauser, I. Hwang, K. Gevaert, T. Beeckman, I. De Smet, Molecular & Cellular Proteomics 19 (2020) 1248–1262.","mla":"Smith, S., et al. “The CEP5 Peptide Promotes Abiotic Stress Tolerance, as Revealed by Quantitative Proteomics, and Attenuates the AUX/IAA Equilibrium in Arabidopsis.” Molecular & Cellular Proteomics, vol. 19, no. 8, American Society for Biochemistry and Molecular Biology, 2020, pp. 1248–62, doi:10.1074/mcp.ra119.001826.","chicago":"Smith, S, S Zhu, L Joos, I Roberts, N Nikonorova, LD Vu, E Stes, et al. “The CEP5 Peptide Promotes Abiotic Stress Tolerance, as Revealed by Quantitative Proteomics, and Attenuates the AUX/IAA Equilibrium in Arabidopsis.” Molecular & Cellular Proteomics. American Society for Biochemistry and Molecular Biology, 2020. https://doi.org/10.1074/mcp.ra119.001826."},"publication":"Molecular & Cellular Proteomics","date_published":"2020-08-01T00:00:00Z","type":"journal_article","issue":"8","abstract":[{"text":"Peptides derived from non-functional precursors play important roles in various developmental processes, but also in (a)biotic stress signaling. Our (phospho)proteome-wide analyses of C-terminally encoded peptide 5 (CEP5)-mediated changes revealed an impact on abiotic stress-related processes. Drought has a dramatic impact on plant growth, development and reproduction, and the plant hormone auxin plays a role in drought responses. Our genetic, physiological, biochemical and pharmacological results demonstrated that CEP5-mediated signaling is relevant for osmotic and drought stress tolerance in Arabidopsis, and that CEP5 specifically counteracts auxin effects. Specifically, we found that CEP5 signaling stabilizes AUX/IAA transcriptional repressors, suggesting the existence of a novel peptide-dependent control mechanism that tunes auxin signaling. These observations align with the recently described role of AUX/IAAs in stress tolerance and provide a novel role for CEP5 in osmotic and drought stress tolerance.","lang":"eng"}],"intvolume":" 19","title":"The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis","status":"public","ddc":["580"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7949","oa_version":"Published Version","file":[{"date_created":"2021-05-05T10:10:14Z","date_updated":"2021-05-05T10:10:14Z","success":1,"checksum":"3f3f37b4a1ba2cfd270fc7733dd89680","file_id":"9373","relation":"main_file","creator":"kschuh","content_type":"application/pdf","file_size":1632311,"file_name":"2020_MCP_Smith.pdf","access_level":"open_access"}]},{"type":"journal_article","abstract":[{"text":"Cell polarity is a fundamental feature of all multicellular organisms. In plants, prominent cell polarity markers are PIN auxin transporters crucial for plant development. To identify novel components involved in cell polarity establishment and maintenance, we carried out a forward genetic screening with PIN2:PIN1-HA;pin2 Arabidopsis plants, which ectopically express predominantly basally localized PIN1 in the root epidermal cells leading to agravitropic root growth. From the screen, we identified the regulator of PIN polarity 12 (repp12) mutation, which restored gravitropic root growth and caused PIN1-HA polarity switch from basal to apical side of root epidermal cells. Complementation experiments established the repp12 causative mutation as an amino acid substitution in Aminophospholipid ATPase3 (ALA3), a phospholipid flippase with predicted function in vesicle formation. ala3 T-DNA mutants show defects in many auxin-regulated processes, in asymmetric auxin distribution and in PIN trafficking. Analysis of quintuple and sextuple mutants confirmed a crucial role of ALA proteins in regulating plant development and in PIN trafficking and polarity. Genetic and physical interaction studies revealed that ALA3 functions together with GNOM and BIG3 ARF GEFs. Taken together, our results identified ALA3 flippase as an important interactor and regulator of ARF GEF functioning in PIN polarity, trafficking and auxin-mediated development.","lang":"eng"}],"issue":"5","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7619","status":"public","title":"Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters","intvolume":" 32","oa_version":"Published Version","scopus_import":"1","day":"01","article_processing_charge":"No","publication":"The Plant Cell","citation":{"chicago":"Zhang, Xixi, Maciek Adamowski, Petra Marhavá, Shutang Tan, Yuzhou Zhang, Lesia Rodriguez Solovey, Marta Zwiewka, et al. “Arabidopsis Flippases Cooperate with ARF GTPase Exchange Factors to Regulate the Trafficking and Polarity of PIN Auxin Transporters.” The Plant Cell. American Society of Plant Biologists, 2020. https://doi.org/10.1105/tpc.19.00869.","short":"X. Zhang, M. Adamowski, P. Marhavá, S. Tan, Y. Zhang, L. Rodriguez Solovey, M. Zwiewka, V. Pukyšová, A.S. Sánchez, V.K. Raxwal, C.S. Hardtke, T. Nodzynski, J. Friml, The Plant Cell 32 (2020) 1644–1664.","mla":"Zhang, Xixi, et al. “Arabidopsis Flippases Cooperate with ARF GTPase Exchange Factors to Regulate the Trafficking and Polarity of PIN Auxin Transporters.” The Plant Cell, vol. 32, no. 5, American Society of Plant Biologists, 2020, pp. 1644–64, doi:10.1105/tpc.19.00869.","ieee":"X. Zhang et al., “Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters,” The Plant Cell, vol. 32, no. 5. American Society of Plant Biologists, pp. 1644–1664, 2020.","apa":"Zhang, X., Adamowski, M., Marhavá, P., Tan, S., Zhang, Y., Rodriguez Solovey, L., … Friml, J. (2020). Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters. The Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.19.00869","ista":"Zhang X, Adamowski M, Marhavá P, Tan S, Zhang Y, Rodriguez Solovey L, Zwiewka M, Pukyšová V, Sánchez AS, Raxwal VK, Hardtke CS, Nodzynski T, Friml J. 2020. Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters. The Plant Cell. 32(5), 1644–1664.","ama":"Zhang X, Adamowski M, Marhavá P, et al. Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters. The Plant Cell. 2020;32(5):1644-1664. doi:10.1105/tpc.19.00869"},"article_type":"original","page":"1644-1664","date_published":"2020-05-01T00:00:00Z","ec_funded":1,"year":"2020","pmid":1,"publication_status":"published","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"author":[{"first_name":"Xixi","last_name":"Zhang","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627","full_name":"Zhang, Xixi"},{"orcid":"0000-0001-6463-5257","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","last_name":"Adamowski","first_name":"Maciek","full_name":"Adamowski, Maciek"},{"full_name":"Marhavá, Petra","first_name":"Petra","last_name":"Marhavá","id":"44E59624-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Tan, Shutang","last_name":"Tan","first_name":"Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Zhang, Yuzhou","last_name":"Zhang","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Rodriguez Solovey, Lesia","last_name":"Rodriguez Solovey","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Zwiewka","first_name":"Marta","full_name":"Zwiewka, Marta"},{"full_name":"Pukyšová, Vendula","last_name":"Pukyšová","first_name":"Vendula"},{"last_name":"Sánchez","first_name":"Adrià Sans","full_name":"Sánchez, Adrià Sans"},{"last_name":"Raxwal","first_name":"Vivek Kumar","full_name":"Raxwal, Vivek Kumar"},{"full_name":"Hardtke, Christian S.","last_name":"Hardtke","first_name":"Christian S."},{"full_name":"Nodzynski, Tomasz","last_name":"Nodzynski","first_name":"Tomasz"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"date_updated":"2023-09-05T12:21:06Z","date_created":"2020-03-28T07:39:22Z","volume":32,"month":"05","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298X"]},"external_id":{"pmid":["32193204"],"isi":["000545741500030"]},"oa":1,"main_file_link":[{"url":"https://doi.org/10.1105/tpc.19.00869","open_access":"1"}],"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"doi":"10.1105/tpc.19.00869","acknowledged_ssus":[{"_id":"Bio"}],"language":[{"iso":"eng"}]},{"month":"11","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298x"]},"language":[{"iso":"eng"}],"doi":"10.1105/tpc.20.00384","quality_controlled":"1","isi":1,"project":[{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"},{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"}],"oa":1,"external_id":{"pmid":["32958564"],"isi":["000600226800021"]},"main_file_link":[{"open_access":"1","url":"https://europepmc.org/article/MED/32958564"}],"ec_funded":1,"date_updated":"2023-09-05T12:21:32Z","date_created":"2020-10-05T12:45:16Z","volume":32,"author":[{"first_name":"D","last_name":"Liu","full_name":"Liu, D"},{"last_name":"Kumar","first_name":"R","full_name":"Kumar, R"},{"full_name":"LAN, Claus","last_name":"LAN","first_name":"Claus"},{"full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","last_name":"Johnson","first_name":"Alexander J"},{"full_name":"Siao, W","last_name":"Siao","first_name":"W"},{"last_name":"Vanhoutte","first_name":"I","full_name":"Vanhoutte, I"},{"first_name":"P","last_name":"Wang","full_name":"Wang, P"},{"last_name":"Bender","first_name":"KW","full_name":"Bender, KW"},{"last_name":"Yperman","first_name":"K","full_name":"Yperman, K"},{"last_name":"Martins","first_name":"S","full_name":"Martins, S"},{"full_name":"Zhao, X","first_name":"X","last_name":"Zhao"},{"full_name":"Vert, G","first_name":"G","last_name":"Vert"},{"first_name":"D","last_name":"Van Damme","full_name":"Van Damme, D"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"first_name":"E","last_name":"Russinova","full_name":"Russinova, E"}],"publication_status":"published","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"year":"2020","pmid":1,"day":"01","article_processing_charge":"No","scopus_import":"1","date_published":"2020-11-01T00:00:00Z","article_type":"original","page":"3598-3612","publication":"Plant Cell","citation":{"ieee":"D. Liu et al., “Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif,” Plant Cell, vol. 32, no. 11. American Society of Plant Biologists, pp. 3598–3612, 2020.","apa":"Liu, D., Kumar, R., LAN, C., Johnson, A. J., Siao, W., Vanhoutte, I., … Russinova, E. (2020). Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.20.00384","ista":"Liu D, Kumar R, LAN C, Johnson AJ, Siao W, Vanhoutte I, Wang P, Bender K, Yperman K, Martins S, Zhao X, Vert G, Van Damme D, Friml J, Russinova E. 2020. Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif. Plant Cell. 32(11), 3598–3612.","ama":"Liu D, Kumar R, LAN C, et al. Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif. Plant Cell. 2020;32(11):3598-3612. doi:10.1105/tpc.20.00384","chicago":"Liu, D, R Kumar, Claus LAN, Alexander J Johnson, W Siao, I Vanhoutte, P Wang, et al. “Endocytosis of BRASSINOSTEROID INSENSITIVE1 Is Partly Driven by a Canonical Tyrosine-Based Motif.” Plant Cell. American Society of Plant Biologists, 2020. https://doi.org/10.1105/tpc.20.00384.","short":"D. Liu, R. Kumar, C. LAN, A.J. Johnson, W. Siao, I. Vanhoutte, P. Wang, K. Bender, K. Yperman, S. Martins, X. Zhao, G. Vert, D. Van Damme, J. Friml, E. Russinova, Plant Cell 32 (2020) 3598–3612.","mla":"Liu, D., et al. “Endocytosis of BRASSINOSTEROID INSENSITIVE1 Is Partly Driven by a Canonical Tyrosine-Based Motif.” Plant Cell, vol. 32, no. 11, American Society of Plant Biologists, 2020, pp. 3598–612, doi:10.1105/tpc.20.00384."},"abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) and its core endocytic machinery are evolutionarily conserved across all eukaryotes. In mammals, the heterotetrameric adaptor protein complex-2 (AP-2) sorts plasma membrane (PM) cargoes into vesicles through the recognition of motifs based on tyrosine or di-leucine in their cytoplasmic tails. However, in plants, very little is known on how PM proteins are sorted for CME and whether similar motifs are required. In Arabidopsis thaliana, the brassinosteroid (BR) receptor, BR INSENSITIVE1 (BRI1), undergoes endocytosis that depends on clathrin and AP-2. Here we demonstrate that BRI1 binds directly to the medium AP-2 subunit, AP2M. The cytoplasmic domain of BRI1 contains five putative canonical surface-exposed tyrosine-based endocytic motifs. The tyrosine-to-phenylalanine substitution in Y898KAI reduced BRI1 internalization without affecting its kinase activity. Consistently, plants carrying the BRI1Y898F mutation were hypersensitive to BRs. Our study demonstrates that AP-2-dependent internalization of PM proteins via the recognition of functional tyrosine motifs also operates in plants."}],"issue":"11","type":"journal_article","oa_version":"Published Version","status":"public","title":"Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif","intvolume":" 32","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8607"},{"date_published":"2020-07-01T00:00:00Z","page":"986-997","article_type":"original","citation":{"ista":"Wang J, Mylle E, Johnson AJ, Besbrugge N, De Jaeger G, Friml J, Pleskot R, van Damme D. 2020. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 183(3), 986–997.","apa":"Wang, J., Mylle, E., Johnson, A. J., Besbrugge, N., De Jaeger, G., Friml, J., … van Damme, D. (2020). High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.20.00178","ieee":"J. Wang et al., “High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits,” Plant Physiology, vol. 183, no. 3. American Society of Plant Biologists, pp. 986–997, 2020.","ama":"Wang J, Mylle E, Johnson AJ, et al. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 2020;183(3):986-997. doi:10.1104/pp.20.00178","chicago":"Wang, J, E Mylle, Alexander J Johnson, N Besbrugge, G De Jaeger, Jiří Friml, R Pleskot, and D van Damme. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology. American Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00178.","mla":"Wang, J., et al. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology, vol. 183, no. 3, American Society of Plant Biologists, 2020, pp. 986–97, doi:10.1104/pp.20.00178.","short":"J. Wang, E. Mylle, A.J. Johnson, N. Besbrugge, G. De Jaeger, J. Friml, R. Pleskot, D. van Damme, Plant Physiology 183 (2020) 986–997."},"publication":"Plant Physiology","article_processing_charge":"No","day":"01","scopus_import":"1","oa_version":"Preprint","intvolume":" 183","title":"High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7695","issue":"3","abstract":[{"text":"The TPLATE complex (TPC) is a key endocytic adaptor protein complex in plants. TPC in Arabidopsis (Arabidopsis thaliana) contains six evolutionarily conserved subunits and two plant-specific subunits, AtEH1/Pan1 and AtEH2/Pan1, although cytoplasmic proteins are not associated with the hexameric subcomplex in the cytoplasm. To investigate the dynamic assembly of the octameric TPC at the plasma membrane (PM), we performed state-of-the-art dual-color live cell imaging at physiological and lowered temperatures. Lowering the temperature slowed down endocytosis, thereby enhancing the temporal resolution of the differential recruitment of endocytic components. Under both normal and lowered temperature conditions, the core TPC subunit TPLATE and the AtEH/Pan1 proteins exhibited simultaneous recruitment at the PM. These results, together with co-localization analysis of different TPC subunits, allow us to conclude that TPC in plant cells is not recruited to the PM sequentially but as an octameric complex.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1104/pp.20.00178","project":[{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"}],"quality_controlled":"1","isi":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2020.02.13.948109"}],"external_id":{"isi":["000550682000018"],"pmid":["32321842"]},"oa":1,"publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"month":"07","volume":183,"date_created":"2020-04-29T15:23:00Z","date_updated":"2023-09-05T12:20:02Z","author":[{"full_name":"Wang, J","last_name":"Wang","first_name":"J"},{"full_name":"Mylle, E","first_name":"E","last_name":"Mylle"},{"full_name":"Johnson, Alexander J","last_name":"Johnson","first_name":"Alexander J","orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Besbrugge, N","first_name":"N","last_name":"Besbrugge"},{"full_name":"De Jaeger, G","last_name":"De Jaeger","first_name":"G"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"first_name":"R","last_name":"Pleskot","full_name":"Pleskot, R"},{"first_name":"D","last_name":"van Damme","full_name":"van Damme, D"}],"department":[{"_id":"JiFr"}],"publisher":"American Society of Plant Biologists","publication_status":"published","pmid":1,"year":"2020"},{"article_number":"e104238","file_date_updated":"2020-12-02T09:13:23Z","publication_status":"published","department":[{"_id":"MiSi"},{"_id":"EvBe"}],"publisher":"Embo Press","year":"2020","acknowledgement":"We thank Takashi Aoyama, David Alabadi, and Bert De Rybel for sharing material, Jiří Friml, Maciek Adamowski, and Katerina Schwarzerová for inspiring discussions, and Martine De Cock for help in preparing the manuscript. This research was supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by the Bioimaging Facility (BIF), especially to Robert Hauschild; and the Life Science Facility (LSF). J.C.M. is the recipient of a EMBO Long‐Term Fellowship (ALTF number 710‐2016). This work was supported with MEYS CR, project no.CZ.02.1.01/0.0/0.0/16_019/0000738 to J.P., and by the Austrian Science Fund (FWF01_I1774S) to E.B.","pmid":1,"date_created":"2020-07-21T09:08:38Z","date_updated":"2023-09-05T13:05:47Z","volume":39,"author":[{"full_name":"Montesinos López, Juan C","last_name":"Montesinos López","first_name":"Juan C","orcid":"0000-0001-9179-6099","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"A","last_name":"Abuzeineh","full_name":"Abuzeineh, A"},{"first_name":"Aglaja","last_name":"Kopf","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2187-6656","full_name":"Kopf, Aglaja"},{"full_name":"Juanes Garcia, Alba","last_name":"Juanes Garcia","first_name":"Alba","orcid":"0000-0002-1009-9652","id":"40F05888-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Ötvös, Krisztina","id":"29B901B0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5503-4983","first_name":"Krisztina","last_name":"Ötvös"},{"last_name":"Petrášek","first_name":"J","full_name":"Petrášek, J"},{"orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","first_name":"Michael K","full_name":"Sixt, Michael K"},{"full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"month":"09","publication_identifier":{"eissn":["1460-2075"],"issn":["0261-4189"]},"isi":1,"quality_controlled":"1","project":[{"name":"Molecular mechanism of auxindriven formative divisions delineating lateral root organogenesis in plants","_id":"253E54C8-B435-11E9-9278-68D0E5697425","grant_number":"ALTF710-2016"},{"_id":"2542D156-B435-11E9-9278-68D0E5697425","grant_number":"I 1774-B16","name":"Hormone cross-talk drives nutrient dependent plant development","call_identifier":"FWF"}],"external_id":{"isi":["000548311800001"],"pmid":["32667089"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"doi":"10.15252/embj.2019104238","type":"journal_article","abstract":[{"text":"Cell production and differentiation for the acquisition of specific functions are key features of living systems. The dynamic network of cellular microtubules provides the necessary platform to accommodate processes associated with the transition of cells through the individual phases of cytogenesis. Here, we show that the plant hormone cytokinin fine‐tunes the activity of the microtubular cytoskeleton during cell differentiation and counteracts microtubular rearrangements driven by the hormone auxin. The endogenous upward gradient of cytokinin activity along the longitudinal growth axis in Arabidopsis thaliana roots correlates with robust rearrangements of the microtubule cytoskeleton in epidermal cells progressing from the proliferative to the differentiation stage. Controlled increases in cytokinin activity result in premature re‐organization of the microtubule network from transversal to an oblique disposition in cells prior to their differentiation, whereas attenuated hormone perception delays cytoskeleton conversion into a configuration typical for differentiated cells. Intriguingly, cytokinin can interfere with microtubules also in animal cells, such as leukocytes, suggesting that a cytokinin‐sensitive control pathway for the microtubular cytoskeleton may be at least partially conserved between plant and animal cells.","lang":"eng"}],"issue":"17","status":"public","ddc":["580"],"title":"Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage","intvolume":" 39","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8142","oa_version":"Published Version","file":[{"file_id":"8827","relation":"main_file","success":1,"checksum":"43d2b36598708e6ab05c69074e191d57","date_updated":"2020-12-02T09:13:23Z","date_created":"2020-12-02T09:13:23Z","access_level":"open_access","file_name":"2020_EMBO_Montesinos.pdf","creator":"dernst","file_size":3497156,"content_type":"application/pdf"}],"scopus_import":"1","day":"01","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","article_type":"original","publication":"The Embo Journal","citation":{"ama":"Montesinos López JC, Abuzeineh A, Kopf A, et al. Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage. The Embo Journal. 2020;39(17). doi:10.15252/embj.2019104238","apa":"Montesinos López, J. C., Abuzeineh, A., Kopf, A., Juanes Garcia, A., Ötvös, K., Petrášek, J., … Benková, E. (2020). Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage. The Embo Journal. Embo Press. https://doi.org/10.15252/embj.2019104238","ieee":"J. C. Montesinos López et al., “Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage,” The Embo Journal, vol. 39, no. 17. Embo Press, 2020.","ista":"Montesinos López JC, Abuzeineh A, Kopf A, Juanes Garcia A, Ötvös K, Petrášek J, Sixt MK, Benková E. 2020. Phytohormone cytokinin guides microtubule dynamics during cell progression from proliferative to differentiated stage. The Embo Journal. 39(17), e104238.","short":"J.C. Montesinos López, A. Abuzeineh, A. Kopf, A. Juanes Garcia, K. Ötvös, J. Petrášek, M.K. Sixt, E. Benková, The Embo Journal 39 (2020).","mla":"Montesinos López, Juan C., et al. “Phytohormone Cytokinin Guides Microtubule Dynamics during Cell Progression from Proliferative to Differentiated Stage.” The Embo Journal, vol. 39, no. 17, e104238, Embo Press, 2020, doi:10.15252/embj.2019104238.","chicago":"Montesinos López, Juan C, A Abuzeineh, Aglaja Kopf, Alba Juanes Garcia, Krisztina Ötvös, J Petrášek, Michael K Sixt, and Eva Benková. “Phytohormone Cytokinin Guides Microtubule Dynamics during Cell Progression from Proliferative to Differentiated Stage.” The Embo Journal. Embo Press, 2020. https://doi.org/10.15252/embj.2019104238."},"date_published":"2020-09-01T00:00:00Z"},{"volume":40,"date_created":"2020-07-05T15:24:51Z","date_updated":"2023-09-05T14:02:55Z","author":[{"full_name":"Lombardi, Fabrizio","orcid":"0000-0003-2623-5249","id":"A057D288-3E88-11E9-986D-0CF4E5697425","last_name":"Lombardi","first_name":"Fabrizio"},{"full_name":"Gómez-Extremera, Manuel","first_name":"Manuel","last_name":"Gómez-Extremera"},{"full_name":"Bernaola-Galván, Pedro","first_name":"Pedro","last_name":"Bernaola-Galván"},{"first_name":"Ramalingam","last_name":"Vetrivelan","full_name":"Vetrivelan, Ramalingam"},{"full_name":"Saper, Clifford B.","first_name":"Clifford B.","last_name":"Saper"},{"full_name":"Scammell, Thomas E.","last_name":"Scammell","first_name":"Thomas E."},{"full_name":"Ivanov, Plamen Ch.","last_name":"Ivanov","first_name":"Plamen Ch."}],"publisher":"Society for Neuroscience","department":[{"_id":"GaTk"}],"publication_status":"published","pmid":1,"year":"2020","ec_funded":1,"file_date_updated":"2020-07-22T11:44:48Z","language":[{"iso":"eng"}],"doi":"10.1523/jneurosci.1278-19.2019","project":[{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"isi":1,"quality_controlled":"1","oa":1,"external_id":{"isi":["000505167600016"],"pmid":["31694962"]},"publication_identifier":{"issn":["0270-6474"],"eissn":["1529-2401"]},"month":"01","oa_version":"Published Version","file":[{"date_created":"2020-07-22T11:44:48Z","date_updated":"2020-07-22T11:44:48Z","success":1,"relation":"main_file","file_id":"8150","content_type":"application/pdf","file_size":6646046,"creator":"dernst","file_name":"2020_JournNeuroscience_Lombardi.pdf","access_level":"open_access"}],"intvolume":" 40","status":"public","ddc":["570"],"title":"Critical dynamics and coupling in bursts of cortical rhythms indicate non-homeostatic mechanism for sleep-stage transitions and dual role of VLPO neurons in both sleep and wake","_id":"8084","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","issue":"1","abstract":[{"text":"Origin and functions of intermittent transitions among sleep stages, including brief awakenings and arousals, constitute a challenge to the current homeostatic framework for sleep regulation, focusing on factors modulating sleep over large time scales. Here we propose that the complex micro-architecture characterizing sleep on scales of seconds and minutes results from intrinsic non-equilibrium critical dynamics. We investigate θ- and δ-wave dynamics in control rats and in rats where the sleep-promoting ventrolateral preoptic nucleus (VLPO) is lesioned (male Sprague-Dawley rats). We demonstrate that bursts in θ and δ cortical rhythms exhibit complex temporal organization, with long-range correlations and robust duality of power-law (θ-bursts, active phase) and exponential-like (δ-bursts, quiescent phase) duration distributions, features typical of non-equilibrium systems self-organizing at criticality. We show that such non-equilibrium behavior relates to anti-correlated coupling between θ- and δ-bursts, persists across a range of time scales, and is independent of the dominant physiologic state; indications of a basic principle in sleep regulation. Further, we find that VLPO lesions lead to a modulation of cortical dynamics resulting in altered dynamical parameters of θ- and δ-bursts and significant reduction in θ–δ coupling. Our empirical findings and model simulations demonstrate that θ–δ coupling is essential for the emerging non-equilibrium critical dynamics observed across the sleep–wake cycle, and indicate that VLPO neurons may have dual role for both sleep and arousal/brief wake activation. The uncovered critical behavior in sleep- and wake-related cortical rhythms indicates a mechanism essential for the micro-architecture of spontaneous sleep-stage and arousal transitions within a novel, non-homeostatic paradigm of sleep regulation.","lang":"eng"}],"type":"journal_article","date_published":"2020-01-02T00:00:00Z","page":"171-190","article_type":"original","citation":{"chicago":"Lombardi, Fabrizio, Manuel Gómez-Extremera, Pedro Bernaola-Galván, Ramalingam Vetrivelan, Clifford B. Saper, Thomas E. Scammell, and Plamen Ch. Ivanov. “Critical Dynamics and Coupling in Bursts of Cortical Rhythms Indicate Non-Homeostatic Mechanism for Sleep-Stage Transitions and Dual Role of VLPO Neurons in Both Sleep and Wake.” Journal of Neuroscience. Society for Neuroscience, 2020. https://doi.org/10.1523/jneurosci.1278-19.2019.","short":"F. Lombardi, M. Gómez-Extremera, P. Bernaola-Galván, R. Vetrivelan, C.B. Saper, T.E. Scammell, P.C. Ivanov, Journal of Neuroscience 40 (2020) 171–190.","mla":"Lombardi, Fabrizio, et al. “Critical Dynamics and Coupling in Bursts of Cortical Rhythms Indicate Non-Homeostatic Mechanism for Sleep-Stage Transitions and Dual Role of VLPO Neurons in Both Sleep and Wake.” Journal of Neuroscience, vol. 40, no. 1, Society for Neuroscience, 2020, pp. 171–90, doi:10.1523/jneurosci.1278-19.2019.","ieee":"F. Lombardi et al., “Critical dynamics and coupling in bursts of cortical rhythms indicate non-homeostatic mechanism for sleep-stage transitions and dual role of VLPO neurons in both sleep and wake,” Journal of Neuroscience, vol. 40, no. 1. Society for Neuroscience, pp. 171–190, 2020.","apa":"Lombardi, F., Gómez-Extremera, M., Bernaola-Galván, P., Vetrivelan, R., Saper, C. B., Scammell, T. E., & Ivanov, P. C. (2020). Critical dynamics and coupling in bursts of cortical rhythms indicate non-homeostatic mechanism for sleep-stage transitions and dual role of VLPO neurons in both sleep and wake. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/jneurosci.1278-19.2019","ista":"Lombardi F, Gómez-Extremera M, Bernaola-Galván P, Vetrivelan R, Saper CB, Scammell TE, Ivanov PC. 2020. Critical dynamics and coupling in bursts of cortical rhythms indicate non-homeostatic mechanism for sleep-stage transitions and dual role of VLPO neurons in both sleep and wake. Journal of Neuroscience. 40(1), 171–190.","ama":"Lombardi F, Gómez-Extremera M, Bernaola-Galván P, et al. Critical dynamics and coupling in bursts of cortical rhythms indicate non-homeostatic mechanism for sleep-stage transitions and dual role of VLPO neurons in both sleep and wake. Journal of Neuroscience. 2020;40(1):171-190. doi:10.1523/jneurosci.1278-19.2019"},"publication":"Journal of Neuroscience","has_accepted_license":"1","article_processing_charge":"No","day":"02","scopus_import":"1"},{"ec_funded":1,"file_date_updated":"2020-11-20T13:17:42Z","volume":236,"date_updated":"2023-09-05T14:18:49Z","date_created":"2020-04-08T15:18:03Z","author":[{"full_name":"Deuchert, Andreas","first_name":"Andreas","last_name":"Deuchert","id":"4DA65CD0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3146-6746"},{"full_name":"Seiringer, Robert","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"publisher":"Springer Nature","department":[{"_id":"RoSe"}],"publication_status":"published","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria). It is a pleasure to thank Jakob Yngvason for helpful discussions. Financial support by the European Research Council (ERC) under the European Union’sHorizon 2020 research and innovation programme (Grant Agreement No. 694227) is gratefully acknowledged. A. D. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie Grant Agreement No. 836146.","year":"2020","publication_identifier":{"eissn":["1432-0673"],"issn":["0003-9527"]},"month":"03","language":[{"iso":"eng"}],"doi":"10.1007/s00205-020-01489-4","project":[{"name":"Analysis of quantum many-body systems","call_identifier":"H2020","grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"quality_controlled":"1","isi":1,"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"arxiv":["1901.11363"],"isi":["000519415000001"]},"issue":"6","abstract":[{"lang":"eng","text":"We consider a dilute, homogeneous Bose gas at positive temperature. The system is investigated in the Gross–Pitaevskii limit, where the scattering length a is so small that the interaction energy is of the same order of magnitude as the spectral gap of the Laplacian, and for temperatures that are comparable to the critical temperature of the ideal gas. We show that the difference between the specific free energy of the interacting system and the one of the ideal gas is to leading order given by 4πa(2ϱ2−ϱ20). Here ϱ denotes the density of the system and ϱ0 is the expected condensate density of the ideal gas. Additionally, we show that the one-particle density matrix of any approximate minimizer of the Gibbs free energy functional is to leading order given by the one of the ideal gas. This in particular proves Bose–Einstein condensation with critical temperature given by the one of the ideal gas to leading order. One key ingredient of our proof is a novel use of the Gibbs variational principle that goes hand in hand with the c-number substitution."}],"type":"journal_article","file":[{"file_name":"2020_ArchRatMechanicsAnalysis_Deuchert.pdf","access_level":"open_access","file_size":704633,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"8785","date_created":"2020-11-20T13:17:42Z","date_updated":"2020-11-20T13:17:42Z","checksum":"b645fb64bfe95bbc05b3eea374109a9c","success":1}],"oa_version":"Published Version","intvolume":" 236","status":"public","title":"Gross-Pitaevskii limit of a homogeneous Bose gas at positive temperature","ddc":["510"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7650","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"09","scopus_import":"1","date_published":"2020-03-09T00:00:00Z","page":"1217-1271","article_type":"original","citation":{"mla":"Deuchert, Andreas, and Robert Seiringer. “Gross-Pitaevskii Limit of a Homogeneous Bose Gas at Positive Temperature.” Archive for Rational Mechanics and Analysis, vol. 236, no. 6, Springer Nature, 2020, pp. 1217–71, doi:10.1007/s00205-020-01489-4.","short":"A. Deuchert, R. Seiringer, Archive for Rational Mechanics and Analysis 236 (2020) 1217–1271.","chicago":"Deuchert, Andreas, and Robert Seiringer. “Gross-Pitaevskii Limit of a Homogeneous Bose Gas at Positive Temperature.” Archive for Rational Mechanics and Analysis. Springer Nature, 2020. https://doi.org/10.1007/s00205-020-01489-4.","ama":"Deuchert A, Seiringer R. Gross-Pitaevskii limit of a homogeneous Bose gas at positive temperature. Archive for Rational Mechanics and Analysis. 2020;236(6):1217-1271. doi:10.1007/s00205-020-01489-4","ista":"Deuchert A, Seiringer R. 2020. Gross-Pitaevskii limit of a homogeneous Bose gas at positive temperature. Archive for Rational Mechanics and Analysis. 236(6), 1217–1271.","ieee":"A. Deuchert and R. Seiringer, “Gross-Pitaevskii limit of a homogeneous Bose gas at positive temperature,” Archive for Rational Mechanics and Analysis, vol. 236, no. 6. Springer Nature, pp. 1217–1271, 2020.","apa":"Deuchert, A., & Seiringer, R. (2020). Gross-Pitaevskii limit of a homogeneous Bose gas at positive temperature. Archive for Rational Mechanics and Analysis. Springer Nature. https://doi.org/10.1007/s00205-020-01489-4"},"publication":"Archive for Rational Mechanics and Analysis"},{"external_id":{"isi":["000550164400001"],"arxiv":["1907.04547"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"quality_controlled":"1","isi":1,"doi":"10.1007/s00205-020-01548-w","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0003-9527"],"eissn":["1432-0673"]},"month":"11","year":"2020","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria). I thank Stefan Teufel for helpful remarks and for his involvement in the closely related joint project [10]. Helpful discussions with Serena Cenatiempo and Nikolai Leopold are gratefully acknowledged. This work was supported by the German Research Foundation within the Research Training Group 1838 “Spectral Theory and Dynamics of Quantum Systems” and has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411.","publisher":"Springer Nature","department":[{"_id":"RoSe"}],"publication_status":"published","author":[{"full_name":"Bossmann, Lea","orcid":"0000-0002-6854-1343","id":"A2E3BCBE-5FCC-11E9-AA4B-76F3E5697425","last_name":"Bossmann","first_name":"Lea"}],"volume":238,"date_updated":"2023-09-05T14:19:06Z","date_created":"2020-07-18T15:06:35Z","ec_funded":1,"file_date_updated":"2020-12-02T08:50:38Z","citation":{"mla":"Bossmann, Lea. “Derivation of the 2d Gross–Pitaevskii Equation for Strongly Confined 3d Bosons.” Archive for Rational Mechanics and Analysis, vol. 238, no. 11, Springer Nature, 2020, pp. 541–606, doi:10.1007/s00205-020-01548-w.","short":"L. Bossmann, Archive for Rational Mechanics and Analysis 238 (2020) 541–606.","chicago":"Bossmann, Lea. “Derivation of the 2d Gross–Pitaevskii Equation for Strongly Confined 3d Bosons.” Archive for Rational Mechanics and Analysis. Springer Nature, 2020. https://doi.org/10.1007/s00205-020-01548-w.","ama":"Bossmann L. Derivation of the 2d Gross–Pitaevskii equation for strongly confined 3d Bosons. Archive for Rational Mechanics and Analysis. 2020;238(11):541-606. doi:10.1007/s00205-020-01548-w","ista":"Bossmann L. 2020. Derivation of the 2d Gross–Pitaevskii equation for strongly confined 3d Bosons. Archive for Rational Mechanics and Analysis. 238(11), 541–606.","ieee":"L. Bossmann, “Derivation of the 2d Gross–Pitaevskii equation for strongly confined 3d Bosons,” Archive for Rational Mechanics and Analysis, vol. 238, no. 11. Springer Nature, pp. 541–606, 2020.","apa":"Bossmann, L. (2020). Derivation of the 2d Gross–Pitaevskii equation for strongly confined 3d Bosons. Archive for Rational Mechanics and Analysis. Springer Nature. https://doi.org/10.1007/s00205-020-01548-w"},"publication":"Archive for Rational Mechanics and Analysis","page":"541-606","article_type":"original","date_published":"2020-11-01T00:00:00Z","scopus_import":"1","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","day":"01","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8130","intvolume":" 238","title":"Derivation of the 2d Gross–Pitaevskii equation for strongly confined 3d Bosons","status":"public","ddc":["510"],"file":[{"date_updated":"2020-12-02T08:50:38Z","date_created":"2020-12-02T08:50:38Z","success":1,"checksum":"cc67a79a67bef441625fcb1cd031db3d","file_id":"8826","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":942343,"file_name":"2020_ArchiveRatMech_Bossmann.pdf","access_level":"open_access"}],"oa_version":"Published Version","type":"journal_article","issue":"11","abstract":[{"lang":"eng","text":"We study the dynamics of a system of N interacting bosons in a disc-shaped trap, which is realised by an external potential that confines the bosons in one spatial dimension to an interval of length of order ε. The interaction is non-negative and scaled in such a way that its scattering length is of order ε/N, while its range is proportional to (ε/N)β with scaling parameter β∈(0,1]. We consider the simultaneous limit (N,ε)→(∞,0) and assume that the system initially exhibits Bose–Einstein condensation. We prove that condensation is preserved by the N-body dynamics, where the time-evolved condensate wave function is the solution of a two-dimensional non-linear equation. The strength of the non-linearity depends on the scaling parameter β. For β∈(0,1), we obtain a cubic defocusing non-linear Schrödinger equation, while the choice β=1 yields a Gross–Pitaevskii equation featuring the scattering length of the interaction. In both cases, the coupling parameter depends on the confining potential."}]},{"type":"journal_article","abstract":[{"text":"We consider the Fröhlich model of a polaron, and show that its effective mass diverges in thestrong coupling limit.","lang":"eng"}],"intvolume":" 180","ddc":["510","530"],"status":"public","title":"Divergence of the effective mass of a polaron in the strong coupling limit","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7235","file":[{"creator":"dernst","content_type":"application/pdf","file_size":279749,"file_name":"2020_JourStatPhysics_Lieb.pdf","access_level":"open_access","date_created":"2020-11-19T11:13:55Z","date_updated":"2020-11-19T11:13:55Z","success":1,"checksum":"1e67bee6728592f7bdcea2ad2d9366dc","file_id":"8774","relation":"main_file"}],"oa_version":"Published Version","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"01","page":"23-33","article_type":"original","citation":{"short":"E.H. Lieb, R. Seiringer, Journal of Statistical Physics 180 (2020) 23–33.","mla":"Lieb, Elliott H., and Robert Seiringer. “Divergence of the Effective Mass of a Polaron in the Strong Coupling Limit.” Journal of Statistical Physics, vol. 180, Springer Nature, 2020, pp. 23–33, doi:10.1007/s10955-019-02322-3.","chicago":"Lieb, Elliott H., and Robert Seiringer. “Divergence of the Effective Mass of a Polaron in the Strong Coupling Limit.” Journal of Statistical Physics. Springer Nature, 2020. https://doi.org/10.1007/s10955-019-02322-3.","ama":"Lieb EH, Seiringer R. Divergence of the effective mass of a polaron in the strong coupling limit. Journal of Statistical Physics. 2020;180:23-33. doi:10.1007/s10955-019-02322-3","apa":"Lieb, E. H., & Seiringer, R. (2020). Divergence of the effective mass of a polaron in the strong coupling limit. Journal of Statistical Physics. Springer Nature. https://doi.org/10.1007/s10955-019-02322-3","ieee":"E. H. Lieb and R. Seiringer, “Divergence of the effective mass of a polaron in the strong coupling limit,” Journal of Statistical Physics, vol. 180. Springer Nature, pp. 23–33, 2020.","ista":"Lieb EH, Seiringer R. 2020. Divergence of the effective mass of a polaron in the strong coupling limit. Journal of Statistical Physics. 180, 23–33."},"publication":"Journal of Statistical Physics","date_published":"2020-09-01T00:00:00Z","ec_funded":1,"file_date_updated":"2020-11-19T11:13:55Z","publisher":"Springer Nature","department":[{"_id":"RoSe"}],"publication_status":"published","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria). Financial support through the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227; R.S.) is gratefully acknowledged.","year":"2020","volume":180,"date_updated":"2023-09-05T14:57:29Z","date_created":"2020-01-07T09:42:03Z","author":[{"full_name":"Lieb, Elliott H.","last_name":"Lieb","first_name":"Elliott H."},{"first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521","full_name":"Seiringer, Robert"}],"publication_identifier":{"eissn":["1572-9613"],"issn":["0022-4715"]},"month":"09","project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"},{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","name":"Analysis of quantum many-body systems","call_identifier":"H2020"}],"quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000556199700003"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1007/s10955-019-02322-3"},{"ec_funded":1,"year":"2020","publisher":"Springer Nature","department":[{"_id":"KrPi"}],"publication_status":"published","author":[{"last_name":"Auerbach","first_name":"Benedikt","orcid":"0000-0002-7553-6606","id":"D33D2B18-E445-11E9-ABB7-15F4E5697425","full_name":"Auerbach, Benedikt"},{"first_name":"Federico","last_name":"Giacon","full_name":"Giacon, Federico"},{"last_name":"Kiltz","first_name":"Eike","full_name":"Kiltz, Eike"}],"volume":12107,"date_updated":"2023-09-05T15:06:40Z","date_created":"2020-06-15T07:13:37Z","publication_identifier":{"issn":["0302-9743"],"eissn":["1611-3349"],"isbn":["9783030457266","9783030457273"]},"month":"05","oa":1,"main_file_link":[{"open_access":"1","url":"https://eprint.iacr.org/2019/364"}],"external_id":{"isi":["000828688000016"]},"project":[{"_id":"258AA5B2-B435-11E9-9278-68D0E5697425","grant_number":"682815","call_identifier":"H2020","name":"Teaching Old Crypto New Tricks"}],"quality_controlled":"1","isi":1,"doi":"10.1007/978-3-030-45727-3_16","conference":{"name":"EUROCRYPT: Theory and Applications of Cryptographic Techniques","start_date":"2020-05-11","end_date":"2020-05-15"},"language":[{"iso":"eng"}],"type":"conference","alternative_title":["LNCS"],"abstract":[{"text":"For 1≤m≤n, we consider a natural m-out-of-n multi-instance scenario for a public-key encryption (PKE) scheme. An adversary, given n independent instances of PKE, wins if he breaks at least m out of the n instances. In this work, we are interested in the scaling factor of PKE schemes, SF, which measures how well the difficulty of breaking m out of the n instances scales in m. That is, a scaling factor SF=ℓ indicates that breaking m out of n instances is at least ℓ times more difficult than breaking one single instance. A PKE scheme with small scaling factor hence provides an ideal target for mass surveillance. In fact, the Logjam attack (CCS 2015) implicitly exploited, among other things, an almost constant scaling factor of ElGamal over finite fields (with shared group parameters).\r\n\r\nFor Hashed ElGamal over elliptic curves, we use the generic group model to argue that the scaling factor depends on the scheme's granularity. In low granularity, meaning each public key contains its independent group parameter, the scheme has optimal scaling factor SF=m; In medium and high granularity, meaning all public keys share the same group parameter, the scheme still has a reasonable scaling factor SF=√m. Our findings underline that instantiating ElGamal over elliptic curves should be preferred to finite fields in a multi-instance scenario.\r\n\r\nAs our main technical contribution, we derive new generic-group lower bounds of Ω(√(mp)) on the difficulty of solving both the m-out-of-n Gap Discrete Logarithm and the m-out-of-n Gap Computational Diffie-Hellman problem over groups of prime order p, extending a recent result by Yun (EUROCRYPT 2015). We establish the lower bound by studying the hardness of a related computational problem which we call the search-by-hypersurface problem.","lang":"eng"}],"_id":"7966","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 12107","title":"Everybody’s a target: Scalability in public-key encryption","status":"public","oa_version":"Submitted Version","article_processing_charge":"No","day":"01","citation":{"ama":"Auerbach B, Giacon F, Kiltz E. Everybody’s a target: Scalability in public-key encryption. In: Advances in Cryptology – EUROCRYPT 2020. Vol 12107. Springer Nature; 2020:475-506. doi:10.1007/978-3-030-45727-3_16","ista":"Auerbach B, Giacon F, Kiltz E. 2020. Everybody’s a target: Scalability in public-key encryption. Advances in Cryptology – EUROCRYPT 2020. EUROCRYPT: Theory and Applications of Cryptographic Techniques, LNCS, vol. 12107, 475–506.","apa":"Auerbach, B., Giacon, F., & Kiltz, E. (2020). Everybody’s a target: Scalability in public-key encryption. In Advances in Cryptology – EUROCRYPT 2020 (Vol. 12107, pp. 475–506). Springer Nature. https://doi.org/10.1007/978-3-030-45727-3_16","ieee":"B. Auerbach, F. Giacon, and E. Kiltz, “Everybody’s a target: Scalability in public-key encryption,” in Advances in Cryptology – EUROCRYPT 2020, 2020, vol. 12107, pp. 475–506.","mla":"Auerbach, Benedikt, et al. “Everybody’s a Target: Scalability in Public-Key Encryption.” Advances in Cryptology – EUROCRYPT 2020, vol. 12107, Springer Nature, 2020, pp. 475–506, doi:10.1007/978-3-030-45727-3_16.","short":"B. Auerbach, F. Giacon, E. Kiltz, in:, Advances in Cryptology – EUROCRYPT 2020, Springer Nature, 2020, pp. 475–506.","chicago":"Auerbach, Benedikt, Federico Giacon, and Eike Kiltz. “Everybody’s a Target: Scalability in Public-Key Encryption.” In Advances in Cryptology – EUROCRYPT 2020, 12107:475–506. Springer Nature, 2020. https://doi.org/10.1007/978-3-030-45727-3_16."},"publication":"Advances in Cryptology – EUROCRYPT 2020","page":"475-506","date_published":"2020-05-01T00:00:00Z"},{"publication_identifier":{"issn":["0302-9743"],"eissn":["1611-3349"],"isbn":["9783030605070","9783030605087"]},"month":"10","oa":1,"external_id":{"isi":["000728160600001"]},"project":[{"call_identifier":"FWF","name":"The Wittgenstein Prize","_id":"25F42A32-B435-11E9-9278-68D0E5697425","grant_number":"Z211"}],"isi":1,"quality_controlled":"1","doi":"10.1007/978-3-030-60508-7_1","conference":{"name":"RV: Runtime Verification","end_date":"2020-10-09","location":"Los Angeles, CA, United States","start_date":"2020-10-06"},"language":[{"iso":"eng"}],"file_date_updated":"2020-10-15T14:28:06Z","year":"2020","acknowledgement":"This research was supported in part by the Austrian Science Fund (FWF) under grant Z211-N23 (Wittgenstein Award).","publisher":"Springer Nature","department":[{"_id":"ToHe"}],"publication_status":"published","author":[{"full_name":"Henzinger, Thomas A","last_name":"Henzinger","first_name":"Thomas A","orcid":"0000-0002-2985-7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Naci E","last_name":"Sarac","id":"8C6B42F8-C8E6-11E9-A03A-F2DCE5697425","full_name":"Sarac, Naci E"}],"volume":12399,"date_created":"2020-10-07T15:05:37Z","date_updated":"2023-09-05T15:08:26Z","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"02","citation":{"chicago":"Henzinger, Thomas A, and Naci E Sarac. “Monitorability under Assumptions.” In Runtime Verification, 12399:3–18. Springer Nature, 2020. https://doi.org/10.1007/978-3-030-60508-7_1.","mla":"Henzinger, Thomas A., and Naci E. Sarac. “Monitorability under Assumptions.” Runtime Verification, vol. 12399, Springer Nature, 2020, pp. 3–18, doi:10.1007/978-3-030-60508-7_1.","short":"T.A. Henzinger, N.E. Sarac, in:, Runtime Verification, Springer Nature, 2020, pp. 3–18.","ista":"Henzinger TA, Sarac NE. 2020. Monitorability under assumptions. Runtime Verification. RV: Runtime Verification, LNCS, vol. 12399, 3–18.","ieee":"T. A. Henzinger and N. E. Sarac, “Monitorability under assumptions,” in Runtime Verification, Los Angeles, CA, United States, 2020, vol. 12399, pp. 3–18.","apa":"Henzinger, T. A., & Sarac, N. E. (2020). Monitorability under assumptions. In Runtime Verification (Vol. 12399, pp. 3–18). Los Angeles, CA, United States: Springer Nature. https://doi.org/10.1007/978-3-030-60508-7_1","ama":"Henzinger TA, Sarac NE. Monitorability under assumptions. In: Runtime Verification. Vol 12399. Springer Nature; 2020:3-18. doi:10.1007/978-3-030-60508-7_1"},"publication":"Runtime Verification","page":"3-18","date_published":"2020-10-02T00:00:00Z","type":"conference","alternative_title":["LNCS"],"abstract":[{"lang":"eng","text":"We introduce the monitoring of trace properties under assumptions. An assumption limits the space of possible traces that the monitor may encounter. An assumption may result from knowledge about the system that is being monitored, about the environment, or about another, connected monitor. We define monitorability under assumptions and study its theoretical properties. In particular, we show that for every assumption A, the boolean combinations of properties that are safe or co-safe relative to A are monitorable under A. We give several examples and constructions on how an assumption can make a non-monitorable property monitorable, and how an assumption can make a monitorable property monitorable with fewer resources, such as integer registers."}],"_id":"8623","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 12399","status":"public","title":"Monitorability under assumptions","ddc":["000"],"oa_version":"Submitted Version","file":[{"content_type":"application/pdf","file_size":478148,"creator":"esarac","access_level":"open_access","file_name":"monitorability.pdf","checksum":"00661f9b7034f52e18bf24fa552b8194","success":1,"date_updated":"2020-10-15T14:28:06Z","date_created":"2020-10-15T14:28:06Z","relation":"main_file","file_id":"8665"}]},{"oa_version":"Preprint","_id":"10865","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 12110","status":"public","title":"Witness maps and applications","abstract":[{"text":"We introduce the notion of Witness Maps as a cryptographic notion of a proof system. A Unique Witness Map (UWM) deterministically maps all witnesses for an NP statement to a single representative witness, resulting in a computationally sound, deterministic-prover, non-interactive witness independent proof system. A relaxation of UWM, called Compact Witness Map (CWM), maps all the witnesses to a small number of witnesses, resulting in a “lossy” deterministic-prover, non-interactive proof-system. We also define a Dual Mode Witness Map (DMWM) which adds an “extractable” mode to a CWM.\r\nOur main construction is a DMWM for all NP relations, assuming sub-exponentially secure indistinguishability obfuscation ( iO ), along with standard cryptographic assumptions. The DMWM construction relies on a CWM and a new primitive called Cumulative All-Lossy-But-One Trapdoor Functions (C-ALBO-TDF), both of which are in turn instantiated based on iO and other primitives. Our instantiation of a CWM is in fact a UWM; in turn, we show that a UWM implies Witness Encryption. Along the way to constructing UWM and C-ALBO-TDF, we also construct, from standard assumptions, Puncturable Digital Signatures and a new primitive called Cumulative Lossy Trapdoor Functions (C-LTDF). The former improves up on a construction of Bellare et al. (Eurocrypt 2016), who relied on sub-exponentially secure iO and sub-exponentially secure OWF.\r\nAs an application of our constructions, we show how to use a DMWM to construct the first leakage and tamper-resilient signatures with a deterministic signer, thereby solving a decade old open problem posed by Katz and Vaikunthanathan (Asiacrypt 2009), by Boyle, Segev and Wichs (Eurocrypt 2011), as well as by Faonio and Venturi (Asiacrypt 2016). Our construction achieves the optimal leakage rate of 1−o(1) .","lang":"eng"}],"type":"book_chapter","date_published":"2020-04-29T00:00:00Z","citation":{"short":"S. Chakraborty, M. Prabhakaran, D. Wichs, in:, A. Kiayias (Ed.), Public-Key Cryptography, Springer Nature, Cham, 2020, pp. 220–246.","mla":"Chakraborty, Suvradip, et al. “Witness Maps and Applications.” Public-Key Cryptography, edited by A Kiayias, vol. 12110, Springer Nature, 2020, pp. 220–46, doi:10.1007/978-3-030-45374-9_8.","chicago":"Chakraborty, Suvradip, Manoj Prabhakaran, and Daniel Wichs. “Witness Maps and Applications.” In Public-Key Cryptography, edited by A Kiayias, 12110:220–46. LNCS. Cham: Springer Nature, 2020. https://doi.org/10.1007/978-3-030-45374-9_8.","ama":"Chakraborty S, Prabhakaran M, Wichs D. Witness maps and applications. In: Kiayias A, ed. Public-Key Cryptography. Vol 12110. LNCS. Cham: Springer Nature; 2020:220-246. doi:10.1007/978-3-030-45374-9_8","apa":"Chakraborty, S., Prabhakaran, M., & Wichs, D. (2020). Witness maps and applications. In A. Kiayias (Ed.), Public-Key Cryptography (Vol. 12110, pp. 220–246). Cham: Springer Nature. https://doi.org/10.1007/978-3-030-45374-9_8","ieee":"S. Chakraborty, M. Prabhakaran, and D. Wichs, “Witness maps and applications,” in Public-Key Cryptography, vol. 12110, A. Kiayias, Ed. Cham: Springer Nature, 2020, pp. 220–246.","ista":"Chakraborty S, Prabhakaran M, Wichs D. 2020.Witness maps and applications. In: Public-Key Cryptography. vol. 12110, 220–246."},"publication":"Public-Key Cryptography","page":"220-246","article_processing_charge":"No","day":"29","scopus_import":"1","series_title":"LNCS","author":[{"id":"B9CD0494-D033-11E9-B219-A439E6697425","first_name":"Suvradip","last_name":"Chakraborty","full_name":"Chakraborty, Suvradip"},{"first_name":"Manoj","last_name":"Prabhakaran","full_name":"Prabhakaran, Manoj"},{"last_name":"Wichs","first_name":"Daniel","full_name":"Wichs, Daniel"}],"volume":12110,"date_updated":"2023-09-05T15:10:02Z","date_created":"2022-03-18T11:35:51Z","year":"2020","acknowledgement":"We would like to thank the anonymous reviewers of PKC 2019 for their useful comments and suggestions. We thank Omer Paneth for pointing out to us the connection between Unique Witness Maps (UWM) and Witness encryption (WE). The first author would like to acknowledge Pandu Rangan for his involvement during the initial discussion phase of the project.","editor":[{"first_name":"A","last_name":"Kiayias","full_name":"Kiayias, A"}],"publisher":"Springer Nature","publication_status":"published","place":"Cham","doi":"10.1007/978-3-030-45374-9_8","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://eprint.iacr.org/2020/090","open_access":"1"}],"oa":1,"quality_controlled":"1","publication_identifier":{"isbn":["9783030453732","9783030453749"],"eissn":["1611-3349"],"issn":["0302-9743"]},"month":"04"},{"date_published":"2020-03-12T00:00:00Z","article_type":"original","page":"2143-2174","publication":"Letters in Mathematical Physics","citation":{"ama":"Rademacher SAE. Central limit theorem for Bose gases interacting through singular potentials. Letters in Mathematical Physics. 2020;110:2143-2174. doi:10.1007/s11005-020-01286-w","ieee":"S. A. E. Rademacher, “Central limit theorem for Bose gases interacting through singular potentials,” Letters in Mathematical Physics, vol. 110. Springer Nature, pp. 2143–2174, 2020.","apa":"Rademacher, S. A. E. (2020). Central limit theorem for Bose gases interacting through singular potentials. Letters in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s11005-020-01286-w","ista":"Rademacher SAE. 2020. Central limit theorem for Bose gases interacting through singular potentials. Letters in Mathematical Physics. 110, 2143–2174.","short":"S.A.E. Rademacher, Letters in Mathematical Physics 110 (2020) 2143–2174.","mla":"Rademacher, Simone Anna Elvira. “Central Limit Theorem for Bose Gases Interacting through Singular Potentials.” Letters in Mathematical Physics, vol. 110, Springer Nature, 2020, pp. 2143–74, doi:10.1007/s11005-020-01286-w.","chicago":"Rademacher, Simone Anna Elvira. “Central Limit Theorem for Bose Gases Interacting through Singular Potentials.” Letters in Mathematical Physics. Springer Nature, 2020. https://doi.org/10.1007/s11005-020-01286-w."},"day":"12","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","scopus_import":"1","oa_version":"Published Version","file":[{"checksum":"3bdd41f10ad947b67a45b98f507a7d4a","success":1,"date_created":"2020-11-20T12:04:26Z","date_updated":"2020-11-20T12:04:26Z","relation":"main_file","file_id":"8784","content_type":"application/pdf","file_size":478683,"creator":"dernst","access_level":"open_access","file_name":"2020_LettersMathPhysics_Rademacher.pdf"}],"ddc":["510"],"status":"public","title":"Central limit theorem for Bose gases interacting through singular potentials","intvolume":" 110","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7611","abstract":[{"text":"We consider a system of N bosons in the limit N→∞, interacting through singular potentials. For initial data exhibiting Bose–Einstein condensation, the many-body time evolution is well approximated through a quadratic fluctuation dynamics around a cubic nonlinear Schrödinger equation of the condensate wave function. We show that these fluctuations satisfy a (multi-variate) central limit theorem.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1007/s11005-020-01286-w","isi":1,"quality_controlled":"1","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000551556000006"]},"month":"03","publication_identifier":{"issn":["0377-9017"],"eissn":["1573-0530"]},"date_updated":"2023-09-05T15:14:50Z","date_created":"2020-03-23T11:11:47Z","volume":110,"author":[{"orcid":"0000-0001-5059-4466","id":"856966FE-A408-11E9-977E-802DE6697425","last_name":"Rademacher","first_name":"Simone Anna Elvira","full_name":"Rademacher, Simone Anna Elvira"}],"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"RoSe"}],"acknowledgement":"Simone Rademacher acknowledges partial support from the NCCR SwissMAP. This project has received\r\nfunding from the European Union’s Horizon 2020 research and innovation program under the Marie\r\nSkłodowska-Curie Grant Agreement No. 754411.\r\nOpen access funding provided by Institute of Science and Technology (IST Austria).\r\nS.R. would like to thank Benjamin Schlein for many fruitful discussions.","year":"2020","file_date_updated":"2020-11-20T12:04:26Z","ec_funded":1},{"publication_identifier":{"eissn":["1557-7015"],"issn":["0012-9615"]},"month":"02","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","external_id":{"isi":["000508511600001"]},"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1002/ecm.1397","article_number":"e01397","ec_funded":1,"file_date_updated":"2020-07-14T12:47:54Z","publisher":"Wiley","department":[{"_id":"NiBa"}],"publication_status":"published","year":"2020","volume":90,"date_updated":"2023-09-05T15:43:19Z","date_created":"2020-01-07T12:47:07Z","author":[{"full_name":"Baskett, Carina","orcid":"0000-0002-7354-8574","id":"3B4A7CE2-F248-11E8-B48F-1D18A9856A87","last_name":"Baskett","first_name":"Carina"},{"first_name":"Lucy","last_name":"Schroeder","full_name":"Schroeder, Lucy"},{"full_name":"Weber, Marjorie G.","first_name":"Marjorie G.","last_name":"Weber"},{"full_name":"Schemske, Douglas W.","last_name":"Schemske","first_name":"Douglas W."}],"scopus_import":"1","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"01","article_type":"original","citation":{"short":"C. Baskett, L. Schroeder, M.G. Weber, D.W. Schemske, Ecological Monographs 90 (2020).","mla":"Baskett, Carina, et al. “Multiple Metrics of Latitudinal Patterns in Insect Pollination and Herbivory for a Tropical‐temperate Congener Pair.” Ecological Monographs, vol. 90, no. 1, e01397, Wiley, 2020, doi:10.1002/ecm.1397.","chicago":"Baskett, Carina, Lucy Schroeder, Marjorie G. Weber, and Douglas W. Schemske. “Multiple Metrics of Latitudinal Patterns in Insect Pollination and Herbivory for a Tropical‐temperate Congener Pair.” Ecological Monographs. Wiley, 2020. https://doi.org/10.1002/ecm.1397.","ama":"Baskett C, Schroeder L, Weber MG, Schemske DW. Multiple metrics of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate congener pair. Ecological Monographs. 2020;90(1). doi:10.1002/ecm.1397","ieee":"C. Baskett, L. Schroeder, M. G. Weber, and D. W. Schemske, “Multiple metrics of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate congener pair,” Ecological Monographs, vol. 90, no. 1. Wiley, 2020.","apa":"Baskett, C., Schroeder, L., Weber, M. G., & Schemske, D. W. (2020). Multiple metrics of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate congener pair. Ecological Monographs. Wiley. https://doi.org/10.1002/ecm.1397","ista":"Baskett C, Schroeder L, Weber MG, Schemske DW. 2020. Multiple metrics of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate congener pair. Ecological Monographs. 90(1), e01397."},"publication":"Ecological Monographs","date_published":"2020-02-01T00:00:00Z","type":"journal_article","issue":"1","abstract":[{"text":"The biotic interactions hypothesis posits that biotic interactions are more important drivers of adaptation closer to the equator, evidenced by “stronger” contemporary interactions (e.g. greater interaction rates) and/or patterns of trait evolution consistent with a history of stronger interactions. Support for the hypothesis is mixed, but few studies span tropical and temperate regions while experimentally controlling for evolutionary history. Here, we integrate field observations and common garden experiments to quantify the relative importance of pollination and herbivory in a pair of tropical‐temperate congeneric perennial herbs. Phytolacca rivinoides and P. americana are pioneer species native to the Neotropics and the eastern USA, respectively. We compared plant‐pollinator and plant‐herbivore interactions between three tropical populations of P. rivinoides from Costa Rica and three temperate populations of P. americana from its northern range edge in Michigan and Ohio. For some metrics of interaction importance, we also included three subtropical populations of P. americana from its southern range edge in Florida. This approach confounds species and region but allows us, uniquely, to measure complementary proxies of interaction importance across a tropical‐temperate range in one system. To test the prediction that lower‐latitude plants are more reliant on insect pollinators, we quantified floral display and reward, insect visitation rates, and self‐pollination ability (autogamy). To test the prediction that lower‐latitude plants experience more herbivore pressure, we quantified herbivory rates, herbivore abundance, and leaf palatability. We found evidence supporting the biotic interactions hypothesis for most comparisons between P. rivinoides and north‐temperate P. americana (floral display, insect visitation, autogamy, herbivory, herbivore abundance, and young‐leaf palatability). Results for subtropical P. americana populations, however, were typically not intermediate between P. rivinoides and north‐temperate P. americana, as would be predicted by a linear latitudinal gradient in interaction importance. Subtropical young‐leaf palatability was intermediate, but subtropical mature leaves were the least palatable, and pollination‐related traits did not differ between temperate and subtropical regions. These nonlinear patterns of interaction importance suggest future work to relate interaction importance to climatic or biotic thresholds. In sum, we found that the biotic interactions hypothesis was more consistently supported at the larger spatial scale of our study.","lang":"eng"}],"intvolume":" 90","ddc":["570"],"status":"public","title":"Multiple metrics of latitudinal patterns in insect pollination and herbivory for a tropical‐temperate congener pair","_id":"7236","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"content_type":"application/pdf","file_size":537941,"creator":"dernst","file_name":"2020_EcologMono_Baskett.pdf","access_level":"open_access","date_created":"2020-02-10T08:18:14Z","date_updated":"2020-07-14T12:47:54Z","checksum":"ab8130c6e68101f5a091d05324c36f08","relation":"main_file","file_id":"7469"}],"oa_version":"Published Version"},{"month":"09","publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"language":[{"iso":"eng"}],"doi":"10.1111/nph.16629","isi":1,"quality_controlled":"1","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["32350870"],"isi":["000534092400001"]},"oa":1,"file_date_updated":"2020-11-24T12:19:38Z","ec_funded":1,"date_updated":"2023-09-05T15:46:04Z","date_created":"2020-04-30T08:43:29Z","volume":227,"author":[{"first_name":"Yuzhou","last_name":"Zhang","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956","full_name":"Zhang, Yuzhou"},{"orcid":"0000-0003-1618-2737","id":"AEFB2266-8ABF-11EA-AA39-812C3623CBE4","last_name":"Hartinger","first_name":"Corinna","full_name":"Hartinger, Corinna"},{"first_name":"Xiaojuan","last_name":"Wang","full_name":"Wang, Xiaojuan"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Wiley","year":"2020","pmid":1,"day":"01","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","date_published":"2020-09-01T00:00:00Z","article_type":"original","page":"1406-1416","publication":"New Phytologist","citation":{"ama":"Zhang Y, Hartinger C, Wang X, Friml J. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 2020;227(5):1406-1416. doi:10.1111/nph.16629","ista":"Zhang Y, Hartinger C, Wang X, Friml J. 2020. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 227(5), 1406–1416.","apa":"Zhang, Y., Hartinger, C., Wang, X., & Friml, J. (2020). Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. Wiley. https://doi.org/10.1111/nph.16629","ieee":"Y. Zhang, C. Hartinger, X. Wang, and J. Friml, “Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters,” New Phytologist, vol. 227, no. 5. Wiley, pp. 1406–1416, 2020.","mla":"Zhang, Yuzhou, et al. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist, vol. 227, no. 5, Wiley, 2020, pp. 1406–16, doi:10.1111/nph.16629.","short":"Y. Zhang, C. Hartinger, X. Wang, J. Friml, New Phytologist 227 (2020) 1406–1416.","chicago":"Zhang, Yuzhou, Corinna Hartinger, Xiaojuan Wang, and Jiří Friml. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16629."},"abstract":[{"text":"* Morphogenesis and adaptive tropic growth in plants depend on gradients of the phytohormone auxin, mediated by the membrane‐based PIN‐FORMED (PIN) auxin transporters. PINs localize to a particular side of the plasma membrane (PM) or to the endoplasmic reticulum (ER) to directionally transport auxin and maintain intercellular and intracellular auxin homeostasis, respectively. However, the molecular cues that confer their diverse cellular localizations remain largely unknown.\r\n* In this study, we systematically swapped the domains between ER‐ and PM‐localized PIN proteins, as well as between apical and basal PM‐localized PINs from Arabidopsis thaliana , to shed light on why PIN family members with similar topological structures reside at different membrane compartments within cells.\r\n* Our results show that not only do the N‐ and C‐terminal transmembrane domains (TMDs) and central hydrophilic loop contribute to their differential subcellular localizations and cellular polarity, but that the pairwise‐matched N‐ and C‐terminal TMDs resulting from intramolecular domain–domain coevolution are also crucial for their divergent patterns of localization.\r\n* These findings illustrate the complexity of the evolutionary path of PIN proteins in acquiring their plethora of developmental functions and adaptive growth in plants.","lang":"eng"}],"issue":"5","type":"journal_article","file":[{"success":1,"checksum":"8e8150dbbba8cb65b72f81d1f0864b8b","date_updated":"2020-11-24T12:19:38Z","date_created":"2020-11-24T12:19:38Z","file_id":"8799","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":3643395,"access_level":"open_access","file_name":"2020_09_NewPhytologist_Zhang.pdf"}],"oa_version":"Published Version","ddc":["580"],"title":"Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters","status":"public","intvolume":" 227","_id":"7697","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1"},{"abstract":[{"lang":"eng","text":"This paper introduces a simple method for simulating highly anisotropic elastoplastic material behaviors like the dissolution of fibrous phenomena (splintering wood, shredding bales of hay) and materials composed of large numbers of irregularly‐shaped bodies (piles of twigs, pencils, or cards). We introduce a simple transformation of the anisotropic problem into an equivalent isotropic one, and we solve this new “fictitious” isotropic problem using an existing simulator based on the material point method. Our approach results in minimal changes to existing simulators, and it allows us to re‐use popular isotropic plasticity models like the Drucker‐Prager yield criterion instead of inventing new anisotropic plasticity models for every phenomenon we wish to simulate."}],"issue":"2","type":"journal_article","file":[{"date_created":"2020-11-23T09:05:13Z","date_updated":"2020-11-23T09:05:13Z","success":1,"checksum":"7605f605acd84d0942b48bc7a1c2d72e","file_id":"8796","relation":"main_file","creator":"dernst","file_size":38969122,"content_type":"application/pdf","file_name":"2020_poff_revisited.pdf","access_level":"open_access"}],"oa_version":"Submitted Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8765","title":"A practical method for animating anisotropic elastoplastic materials","ddc":["000"],"status":"public","intvolume":" 39","day":"01","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","keyword":["Computer Networks and Communications"],"date_published":"2020-05-01T00:00:00Z","publication":"Computer Graphics Forum","citation":{"mla":"Schreck, Camille, and Chris Wojtan. “A Practical Method for Animating Anisotropic Elastoplastic Materials.” Computer Graphics Forum, vol. 39, no. 2, Wiley, 2020, pp. 89–99, doi:10.1111/cgf.13914.","short":"C. Schreck, C. Wojtan, Computer Graphics Forum 39 (2020) 89–99.","chicago":"Schreck, Camille, and Chris Wojtan. “A Practical Method for Animating Anisotropic Elastoplastic Materials.” Computer Graphics Forum. Wiley, 2020. https://doi.org/10.1111/cgf.13914.","ama":"Schreck C, Wojtan C. A practical method for animating anisotropic elastoplastic materials. Computer Graphics Forum. 2020;39(2):89-99. doi:10.1111/cgf.13914","ista":"Schreck C, Wojtan C. 2020. A practical method for animating anisotropic elastoplastic materials. Computer Graphics Forum. 39(2), 89–99.","apa":"Schreck, C., & Wojtan, C. (2020). A practical method for animating anisotropic elastoplastic materials. Computer Graphics Forum. Wiley. https://doi.org/10.1111/cgf.13914","ieee":"C. Schreck and C. Wojtan, “A practical method for animating anisotropic elastoplastic materials,” Computer Graphics Forum, vol. 39, no. 2. Wiley, pp. 89–99, 2020."},"article_type":"original","page":"89-99","file_date_updated":"2020-11-23T09:05:13Z","ec_funded":1,"author":[{"id":"2B14B676-F248-11E8-B48F-1D18A9856A87","first_name":"Camille","last_name":"Schreck","full_name":"Schreck, Camille"},{"full_name":"Wojtan, Christopher J","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6646-5546","first_name":"Christopher J","last_name":"Wojtan"}],"date_updated":"2023-09-05T16:00:13Z","date_created":"2020-11-17T09:35:10Z","volume":39,"acknowledgement":"We wish to thank the anonymous reviewers and the members of the Visual Computing Group at IST Austria for their valuable feedback. This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing. We would also like to thank Joseph Teran and Chenfanfu Jiang for the helpful discussions.\r\nThis project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme under grant agreement No. 638176.","year":"2020","publication_status":"published","publisher":"Wiley","department":[{"_id":"ChWo"}],"month":"05","publication_identifier":{"issn":["0167-7055"],"eissn":["1467-8659"]},"doi":"10.1111/cgf.13914","acknowledged_ssus":[{"_id":"ScienComp"}],"language":[{"iso":"eng"}],"external_id":{"isi":["000548709600008"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"grant_number":"638176","_id":"2533E772-B435-11E9-9278-68D0E5697425","name":"Efficient Simulation of Natural Phenomena at Extremely Large Scales","call_identifier":"H2020"}]},{"month":"09","publication_identifier":{"eissn":["1521-3757"],"issn":["0044-8249"]},"doi":"10.1002/ange.202005378","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"quality_controlled":"1","file_date_updated":"2020-09-17T08:59:43Z","author":[{"full_name":"Bouchal, Roza","first_name":"Roza","last_name":"Bouchal"},{"full_name":"Li, Zhujie","first_name":"Zhujie","last_name":"Li"},{"full_name":"Bongu, Chandra","first_name":"Chandra","last_name":"Bongu"},{"last_name":"Le Vot","first_name":"Steven","full_name":"Le Vot, Steven"},{"full_name":"Berthelot, Romain","first_name":"Romain","last_name":"Berthelot"},{"first_name":"Benjamin","last_name":"Rotenberg","full_name":"Rotenberg, Benjamin"},{"first_name":"Frederic","last_name":"Favier","full_name":"Favier, Frederic"},{"full_name":"Freunberger, Stefan Alexander","last_name":"Freunberger","first_name":"Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425"},{"first_name":"Mathieu","last_name":"Salanne","full_name":"Salanne, Mathieu"},{"full_name":"Fontaine, Olivier","last_name":"Fontaine","first_name":"Olivier"}],"date_updated":"2023-09-05T15:47:50Z","date_created":"2020-06-29T16:15:49Z","volume":132,"year":"2020","publication_status":"published","publisher":"Wiley","department":[{"_id":"StFr"}],"day":"07","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","date_published":"2020-09-07T00:00:00Z","publication":"Angewandte Chemie","citation":{"short":"R. Bouchal, Z. Li, C. Bongu, S. Le Vot, R. Berthelot, B. Rotenberg, F. Favier, S.A. Freunberger, M. Salanne, O. Fontaine, Angewandte Chemie 132 (2020) 16047–16051.","mla":"Bouchal, Roza, et al. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” Angewandte Chemie, vol. 132, no. 37, Wiley, 2020, pp. 16047–51, doi:10.1002/ange.202005378.","chicago":"Bouchal, Roza, Zhujie Li, Chandra Bongu, Steven Le Vot, Romain Berthelot, Benjamin Rotenberg, Frederic Favier, Stefan Alexander Freunberger, Mathieu Salanne, and Olivier Fontaine. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” Angewandte Chemie. Wiley, 2020. https://doi.org/10.1002/ange.202005378.","ama":"Bouchal R, Li Z, Bongu C, et al. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie. 2020;132(37):16047-16051. doi:10.1002/ange.202005378","apa":"Bouchal, R., Li, Z., Bongu, C., Le Vot, S., Berthelot, R., Rotenberg, B., … Fontaine, O. (2020). Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie. Wiley. https://doi.org/10.1002/ange.202005378","ieee":"R. Bouchal et al., “Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte,” Angewandte Chemie, vol. 132, no. 37. Wiley, pp. 16047–16051, 2020.","ista":"Bouchal R, Li Z, Bongu C, Le Vot S, Berthelot R, Rotenberg B, Favier F, Freunberger SA, Salanne M, Fontaine O. 2020. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie. 132(37), 16047–16051."},"article_type":"original","page":"16047-16051","abstract":[{"lang":"eng","text":"Water-in-salt electrolytes based on highly concentrated bis(trifluoromethyl)sulfonimide (TFSI) promise aqueous electrolytes with stabilities approaching 3 V. However, especially with an electrode approaching the cathodic (reductive) stability, cycling stability is insufficient. While stability critically relies on a solid electrolyte interphase (SEI), the mechanism behind the cathodic stability limit remains unclear. Here, we reveal two distinct reduction potentials for the chemical environments of ‘free’ and ‘bound’ water and that both contribute to SEI formation. Free-water is reduced ~1V above bound water in a hydrogen evolution reaction (HER) and responsible for SEI formation via reactive intermediates of the HER; concurrent LiTFSI precipitation/dissolution establishes a dynamic interface. The free-water population emerges, therefore, as the handle to extend the cathodic limit of aqueous electrolytes and the battery cycling stability."}],"issue":"37","type":"journal_article","oa_version":"Published Version","file":[{"creator":"dernst","content_type":"application/pdf","file_size":1904552,"file_name":"2020_AngChemieDE_Bouchal.pdf","access_level":"open_access","date_updated":"2020-09-17T08:59:43Z","date_created":"2020-09-17T08:59:43Z","success":1,"checksum":"7dd0a56f6bd5de08ea75b1ec388c91bc","file_id":"8401","relation":"main_file"}],"_id":"8057","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte","ddc":["540","541"],"status":"public","intvolume":" 132"},{"scopus_import":"1","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"01","citation":{"ama":"Milutinovic B, Stock M, Grasse AV, Naderlinger E, Hilbe C, Cremer S. Social immunity modulates competition between coinfecting pathogens. Ecology Letters. 2020;23(3):565-574. doi:10.1111/ele.13458","ista":"Milutinovic B, Stock M, Grasse AV, Naderlinger E, Hilbe C, Cremer S. 2020. Social immunity modulates competition between coinfecting pathogens. Ecology Letters. 23(3), 565–574.","apa":"Milutinovic, B., Stock, M., Grasse, A. V., Naderlinger, E., Hilbe, C., & Cremer, S. (2020). Social immunity modulates competition between coinfecting pathogens. Ecology Letters. Wiley. https://doi.org/10.1111/ele.13458","ieee":"B. Milutinovic, M. Stock, A. V. Grasse, E. Naderlinger, C. Hilbe, and S. Cremer, “Social immunity modulates competition between coinfecting pathogens,” Ecology Letters, vol. 23, no. 3. Wiley, pp. 565–574, 2020.","mla":"Milutinovic, Barbara, et al. “Social Immunity Modulates Competition between Coinfecting Pathogens.” Ecology Letters, vol. 23, no. 3, Wiley, 2020, pp. 565–74, doi:10.1111/ele.13458.","short":"B. Milutinovic, M. Stock, A.V. Grasse, E. Naderlinger, C. Hilbe, S. Cremer, Ecology Letters 23 (2020) 565–574.","chicago":"Milutinovic, Barbara, Miriam Stock, Anna V Grasse, Elisabeth Naderlinger, Christian Hilbe, and Sylvia Cremer. “Social Immunity Modulates Competition between Coinfecting Pathogens.” Ecology Letters. Wiley, 2020. https://doi.org/10.1111/ele.13458."},"publication":"Ecology Letters","page":"565-574","article_type":"letter_note","date_published":"2020-03-01T00:00:00Z","type":"journal_article","issue":"3","abstract":[{"text":"Coinfections with multiple pathogens can result in complex within‐host dynamics affecting virulence and transmission. While multiple infections are intensively studied in solitary hosts, it is so far unresolved how social host interactions interfere with pathogen competition, and if this depends on coinfection diversity. We studied how the collective disease defences of ants – their social immunity – influence pathogen competition in coinfections of same or different fungal pathogen species. Social immunity reduced virulence for all pathogen combinations, but interfered with spore production only in different‐species coinfections. Here, it decreased overall pathogen sporulation success while increasing co‐sporulation on individual cadavers and maintaining a higher pathogen diversity at the community level. Mathematical modelling revealed that host sanitary care alone can modulate competitive outcomes between pathogens, giving advantage to fast‐germinating, thus less grooming‐sensitive ones. Host social interactions can hence modulate infection dynamics in coinfected group members, thereby altering pathogen communities at the host level and population level.","lang":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7343","intvolume":" 23","status":"public","title":"Social immunity modulates competition between coinfecting pathogens","ddc":["570"],"oa_version":"Published Version","file":[{"success":1,"checksum":"0cd8be386fa219db02845b7c3991ce04","date_created":"2020-11-19T11:27:10Z","date_updated":"2020-11-19T11:27:10Z","file_id":"8776","relation":"main_file","creator":"dernst","file_size":561749,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_EcologyLetters_Milutinovic.pdf"}],"publication_identifier":{"issn":["1461-023X"],"eissn":["1461-0248"]},"month":"03","oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"external_id":{"isi":["000507515900001"]},"project":[{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"},{"_id":"25DAF0B2-B435-11E9-9278-68D0E5697425","grant_number":"CR-118/3-1","name":"Host-Parasite Coevolution"}],"isi":1,"quality_controlled":"1","doi":"10.1111/ele.13458","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"LifeSc"}],"ec_funded":1,"file_date_updated":"2020-11-19T11:27:10Z","year":"2020","acknowledgement":"We thank Bernhardt Steinwender and Jorgen Eilenberg for the fungal strains, Xavier Espadaler, Mireia Diaz, Christiane Wanke, Lumi Viljakainen and the Social Immunity Team at IST Austria, for help with ant collection, and Wanda Gorecka and Gertraud Stift of the IST Austria Life Science Facility for technical support. We are thankful to Dieter Ebert for input at all stages of the project, Roger Mundry for statistical advice, Hinrich Schulenburg, Paul Schmid-Hempel, Yuko\r\nUlrich and Joachim Kurtz for project discussion, Bor Kavcic for advice on growth curves, Marcus Roper for advice on modelling work and comments on the manuscript, as well as Marjon de Vos, Weini Huang and the Social Immunity Team for comments on the manuscript.\r\nThis study was funded by the German Research Foundation (DFG) within the Priority Programme 1399 Host-parasite Coevolution (CR 118/3 to S.C.) and the People Programme\r\n(Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement no 291734 (ISTFELLOW to B.M.). ","publisher":"Wiley","department":[{"_id":"SyCr"},{"_id":"KrCh"}],"publication_status":"published","related_material":{"record":[{"id":"13060","relation":"research_data","status":"public"}],"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/social-ants-shapes-disease-outcome/"}]},"author":[{"id":"2CDC32B8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8214-4758","first_name":"Barbara","last_name":"Milutinovic","full_name":"Milutinovic, Barbara"},{"full_name":"Stock, Miriam","id":"42462816-F248-11E8-B48F-1D18A9856A87","last_name":"Stock","first_name":"Miriam"},{"full_name":"Grasse, Anna V","id":"406F989C-F248-11E8-B48F-1D18A9856A87","first_name":"Anna V","last_name":"Grasse"},{"full_name":"Naderlinger, Elisabeth","last_name":"Naderlinger","first_name":"Elisabeth","id":"31757262-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hilbe, Christian","last_name":"Hilbe","first_name":"Christian","orcid":"0000-0001-5116-955X","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Cremer","first_name":"Sylvia","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","full_name":"Cremer, Sylvia"}],"volume":23,"date_created":"2020-01-20T13:32:12Z","date_updated":"2023-09-05T16:04:49Z"},{"abstract":[{"lang":"eng","text":"Sewall Wright developed FST for describing population differentiation and it has since been extended to many novel applications, including the detection of homomorphic sex chromosomes. However, there has been confusion regarding the expected estimate of FST for a fixed difference between the X‐ and Y‐chromosome when comparing males and females. Here, we attempt to resolve this confusion by contrasting two common FST estimators and explain why they yield different estimates when applied to the case of sex chromosomes. We show that this difference is true for many allele frequencies, but the situation characterized by fixed differences between the X‐ and Y‐chromosome is among the most extreme. To avoid additional confusion, we recommend that all authors using FST clearly state which estimator of FST their work uses."}],"issue":"6","type":"journal_article","file":[{"file_name":"2020_MolecularEcologyRes_Gammerdinger.pdf","access_level":"open_access","creator":"dernst","file_size":820428,"content_type":"application/pdf","file_id":"8814","relation":"main_file","date_updated":"2020-11-26T11:46:43Z","date_created":"2020-11-26T11:46:43Z","success":1,"checksum":"3d87ebb8757dcd504f20c618b72e6575"}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8099","status":"public","title":"Disagreement in FST estimators: A case study from sex chromosomes","ddc":["570"],"intvolume":" 20","day":"01","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","date_published":"2020-11-01T00:00:00Z","publication":"Molecular Ecology Resources","citation":{"short":"W.J. Gammerdinger, M.A. Toups, B. Vicoso, Molecular Ecology Resources 20 (2020) 1517–1525.","mla":"Gammerdinger, William J., et al. “Disagreement in FST Estimators: A Case Study from Sex Chromosomes.” Molecular Ecology Resources, vol. 20, no. 6, Wiley, 2020, pp. 1517–25, doi:10.1111/1755-0998.13210.","chicago":"Gammerdinger, William J, Melissa A Toups, and Beatriz Vicoso. “Disagreement in FST Estimators: A Case Study from Sex Chromosomes.” Molecular Ecology Resources. Wiley, 2020. https://doi.org/10.1111/1755-0998.13210.","ama":"Gammerdinger WJ, Toups MA, Vicoso B. Disagreement in FST estimators: A case study from sex chromosomes. Molecular Ecology Resources. 2020;20(6):1517-1525. doi:10.1111/1755-0998.13210","apa":"Gammerdinger, W. J., Toups, M. A., & Vicoso, B. (2020). Disagreement in FST estimators: A case study from sex chromosomes. Molecular Ecology Resources. Wiley. https://doi.org/10.1111/1755-0998.13210","ieee":"W. J. Gammerdinger, M. A. Toups, and B. Vicoso, “Disagreement in FST estimators: A case study from sex chromosomes,” Molecular Ecology Resources, vol. 20, no. 6. Wiley, pp. 1517–1525, 2020.","ista":"Gammerdinger WJ, Toups MA, Vicoso B. 2020. Disagreement in FST estimators: A case study from sex chromosomes. Molecular Ecology Resources. 20(6), 1517–1525."},"article_type":"original","page":"1517-1525","file_date_updated":"2020-11-26T11:46:43Z","ec_funded":1,"author":[{"full_name":"Gammerdinger, William J","orcid":"0000-0001-9638-1220","id":"3A7E01BC-F248-11E8-B48F-1D18A9856A87","last_name":"Gammerdinger","first_name":"William J"},{"full_name":"Toups, Melissa A","orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","last_name":"Toups","first_name":"Melissa A"},{"full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4579-8306","first_name":"Beatriz","last_name":"Vicoso"}],"date_updated":"2023-09-05T16:07:08Z","date_created":"2020-07-07T08:56:16Z","volume":20,"year":"2020","pmid":1,"publication_status":"published","publisher":"Wiley","department":[{"_id":"BeVi"}],"month":"11","publication_identifier":{"eissn":["1755-0998"],"issn":["1755-098X"]},"doi":"10.1111/1755-0998.13210","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000545451200001"],"pmid":["32543001"]},"isi":1,"quality_controlled":"1","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"name":"Sex chromosome evolution under male- and female- heterogamety","call_identifier":"FWF","grant_number":"P28842-B22","_id":"250ED89C-B435-11E9-9278-68D0E5697425"}]},{"isi":1,"quality_controlled":"1","external_id":{"isi":["000541488700001"],"pmid":["32390281"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1002/anie.202005378","month":"09","publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"publication_status":"published","department":[{"_id":"StFr"}],"publisher":"Wiley","year":"2020","pmid":1,"date_updated":"2023-09-05T16:02:53Z","date_created":"2020-05-14T21:00:30Z","volume":59,"author":[{"last_name":"Bouchal","first_name":"Roza","full_name":"Bouchal, Roza"},{"first_name":"Zhujie","last_name":"Li","full_name":"Li, Zhujie"},{"full_name":"Bongu, Chandra","last_name":"Bongu","first_name":"Chandra"},{"full_name":"Le Vot, Steven","last_name":"Le Vot","first_name":"Steven"},{"last_name":"Berthelot","first_name":"Romain","full_name":"Berthelot, Romain"},{"full_name":"Rotenberg, Benjamin","last_name":"Rotenberg","first_name":"Benjamin"},{"first_name":"Fréderic","last_name":"Favier","full_name":"Favier, Fréderic"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","first_name":"Stefan Alexander"},{"last_name":"Salanne","first_name":"Mathieu","full_name":"Salanne, Mathieu"},{"full_name":"Fontaine, Olivier","first_name":"Olivier","last_name":"Fontaine"}],"file_date_updated":"2020-09-17T08:57:16Z","article_type":"original","page":"15913-1591","publication":"Angewandte Chemie International Edition","citation":{"ama":"Bouchal R, Li Z, Bongu C, et al. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie International Edition. 2020;59(37):15913-1591. doi:10.1002/anie.202005378","ista":"Bouchal R, Li Z, Bongu C, Le Vot S, Berthelot R, Rotenberg B, Favier F, Freunberger SA, Salanne M, Fontaine O. 2020. Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie International Edition. 59(37), 15913–1591.","apa":"Bouchal, R., Li, Z., Bongu, C., Le Vot, S., Berthelot, R., Rotenberg, B., … Fontaine, O. (2020). Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.202005378","ieee":"R. Bouchal et al., “Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte,” Angewandte Chemie International Edition, vol. 59, no. 37. Wiley, pp. 15913–1591, 2020.","mla":"Bouchal, Roza, et al. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” Angewandte Chemie International Edition, vol. 59, no. 37, Wiley, 2020, pp. 15913–1591, doi:10.1002/anie.202005378.","short":"R. Bouchal, Z. Li, C. Bongu, S. Le Vot, R. Berthelot, B. Rotenberg, F. Favier, S.A. Freunberger, M. Salanne, O. Fontaine, Angewandte Chemie International Edition 59 (2020) 15913–1591.","chicago":"Bouchal, Roza, Zhujie Li, Chandra Bongu, Steven Le Vot, Romain Berthelot, Benjamin Rotenberg, Fréderic Favier, Stefan Alexander Freunberger, Mathieu Salanne, and Olivier Fontaine. “Competitive Salt Precipitation/Dissolution during Free‐water Reduction in Water‐in‐salt Electrolyte.” Angewandte Chemie International Edition. Wiley, 2020. https://doi.org/10.1002/anie.202005378."},"date_published":"2020-09-07T00:00:00Z","scopus_import":"1","day":"07","has_accepted_license":"1","article_processing_charge":"No","title":"Competitive salt precipitation/dissolution during free‐water reduction in water‐in‐salt electrolyte","status":"public","ddc":["540","546"],"intvolume":" 59","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7847","oa_version":"Published Version","file":[{"file_id":"8400","relation":"main_file","success":1,"checksum":"7b6c2fc20e9b0ff4353352f7a7004e2d","date_created":"2020-09-17T08:57:16Z","date_updated":"2020-09-17T08:57:16Z","access_level":"open_access","file_name":"2020_AngChemieINT_Buchal.pdf","creator":"dernst","file_size":1966184,"content_type":"application/pdf"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Water-in-salt electrolytes based on highly concentrated bis(trifluoromethyl)sulfonimide (TFSI) promise aqueous electrolytes with stabilities nearing 3 V. However, especially with an electrode approaching the cathodic (reductive) stability, cycling stability is insufficient. While stability critically relies on a solid electrolyte interphase (SEI), the mechanism behind the cathodic stability limit remains unclear. Here, we reveal two distinct reduction potentials for the chemical environments of 'free' and 'bound' water and that both contribute to SEI formation. Free-water is reduced ~1V above bound water in a hydrogen evolution reaction (HER) and responsible for SEI formation via reactive intermediates of the HER; concurrent LiTFSI precipitation/dissolution establishes a dynamic interface. The free-water population emerges, therefore, as the handle to extend the cathodic limit of aqueous electrolytes and the battery cycling stability. "}],"issue":"37"},{"date_published":"2020-03-01T00:00:00Z","publication":"Ecology Letters","citation":{"ieee":"J. Rybicki, N. Abrego, and O. Ovaskainen, “Habitat fragmentation and species diversity in competitive communities,” Ecology Letters, vol. 23, no. 3. Wiley, pp. 506–517, 2020.","apa":"Rybicki, J., Abrego, N., & Ovaskainen, O. (2020). Habitat fragmentation and species diversity in competitive communities. Ecology Letters. Wiley. https://doi.org/10.1111/ele.13450","ista":"Rybicki J, Abrego N, Ovaskainen O. 2020. Habitat fragmentation and species diversity in competitive communities. Ecology Letters. 23(3), 506–517.","ama":"Rybicki J, Abrego N, Ovaskainen O. Habitat fragmentation and species diversity in competitive communities. Ecology Letters. 2020;23(3):506-517. doi:10.1111/ele.13450","chicago":"Rybicki, Joel, Nerea Abrego, and Otso Ovaskainen. “Habitat Fragmentation and Species Diversity in Competitive Communities.” Ecology Letters. Wiley, 2020. https://doi.org/10.1111/ele.13450.","short":"J. Rybicki, N. Abrego, O. Ovaskainen, Ecology Letters 23 (2020) 506–517.","mla":"Rybicki, Joel, et al. “Habitat Fragmentation and Species Diversity in Competitive Communities.” Ecology Letters, vol. 23, no. 3, Wiley, 2020, pp. 506–17, doi:10.1111/ele.13450."},"article_type":"original","page":"506-517","day":"01","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","scopus_import":"1","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"2020_EcologyLetters_Rybicki.pdf","creator":"dernst","content_type":"application/pdf","file_size":3005474,"file_id":"7486","relation":"main_file","checksum":"372f67f2744f4b6049e9778364766c22","date_updated":"2020-07-14T12:47:54Z","date_created":"2020-02-14T12:02:50Z"}],"_id":"7224","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","ddc":["000"],"title":"Habitat fragmentation and species diversity in competitive communities","intvolume":" 23","abstract":[{"text":"Habitat loss is one of the key drivers of the ongoing decline of biodiversity. However, ecologists still argue about how fragmentation of habitat (independent of habitat loss) affects species richness. The recently proposed habitat amount hypothesis posits that species richness only depends on the total amount of habitat in a local landscape. In contrast, empirical studies report contrasting patterns: some find positive and others negative effects of fragmentation per se on species richness. To explain this apparent disparity, we devise a stochastic, spatially explicit model of competitive species communities in heterogeneous habitats. The model shows that habitat loss and fragmentation have complex effects on species diversity in competitive communities. When the total amount of habitat is large, fragmentation per se tends to increase species diversity, but if the total amount of habitat is small, the situation is reversed: fragmentation per se decreases species diversity.","lang":"eng"}],"issue":"3","type":"journal_article","doi":"10.1111/ele.13450","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000503625200001"]},"oa":1,"isi":1,"quality_controlled":"1","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"name":"Coordination in constrained and natural distributed systems","call_identifier":"H2020","grant_number":"840605","_id":"26A5D39A-B435-11E9-9278-68D0E5697425"}],"month":"03","publication_identifier":{"issn":["1461-023X"],"eissn":["1461-0248"]},"author":[{"full_name":"Rybicki, Joel","orcid":"0000-0002-6432-6646","id":"334EFD2E-F248-11E8-B48F-1D18A9856A87","last_name":"Rybicki","first_name":"Joel"},{"first_name":"Nerea","last_name":"Abrego","full_name":"Abrego, Nerea"},{"full_name":"Ovaskainen, Otso","last_name":"Ovaskainen","first_name":"Otso"}],"date_updated":"2023-09-05T16:04:30Z","date_created":"2020-01-04T11:04:30Z","volume":23,"year":"2020","publication_status":"published","department":[{"_id":"DaAl"}],"publisher":"Wiley","file_date_updated":"2020-07-14T12:47:54Z","ec_funded":1},{"date_published":"2020-12-14T00:00:00Z","article_type":"original","page":"22943-22946","publication":"Angewandte Chemie International Edition","citation":{"ieee":"W. Schlemmer et al., “2‐methoxyhydroquinone from vanillin for aqueous redox‐flow batteries,” Angewandte Chemie International Edition, vol. 59, no. 51. Wiley, pp. 22943–22946, 2020.","apa":"Schlemmer, W., Nothdurft, P., Petzold, A., Frühwirt, P., Schmallegger, M., Gescheidt-Demner, G., … Spirk, S. (2020). 2‐methoxyhydroquinone from vanillin for aqueous redox‐flow batteries. Angewandte Chemie International Edition. Wiley. https://doi.org/10.1002/anie.202008253","ista":"Schlemmer W, Nothdurft P, Petzold A, Frühwirt P, Schmallegger M, Gescheidt-Demner G, Fischer R, Freunberger SA, Kern W, Spirk S. 2020. 2‐methoxyhydroquinone from vanillin for aqueous redox‐flow batteries. Angewandte Chemie International Edition. 59(51), 22943–22946.","ama":"Schlemmer W, Nothdurft P, Petzold A, et al. 2‐methoxyhydroquinone from vanillin for aqueous redox‐flow batteries. Angewandte Chemie International Edition. 2020;59(51):22943-22946. doi:10.1002/anie.202008253","chicago":"Schlemmer, Werner, Philipp Nothdurft, Alina Petzold, Philipp Frühwirt, Max Schmallegger, Georg Gescheidt-Demner, Roland Fischer, Stefan Alexander Freunberger, Wolfgang Kern, and Stefan Spirk. “2‐methoxyhydroquinone from Vanillin for Aqueous Redox‐flow Batteries.” Angewandte Chemie International Edition. Wiley, 2020. https://doi.org/10.1002/anie.202008253.","short":"W. Schlemmer, P. Nothdurft, A. Petzold, P. Frühwirt, M. Schmallegger, G. Gescheidt-Demner, R. Fischer, S.A. Freunberger, W. Kern, S. Spirk, Angewandte Chemie International Edition 59 (2020) 22943–22946.","mla":"Schlemmer, Werner, et al. “2‐methoxyhydroquinone from Vanillin for Aqueous Redox‐flow Batteries.” Angewandte Chemie International Edition, vol. 59, no. 51, Wiley, 2020, pp. 22943–46, doi:10.1002/anie.202008253."},"day":"14","article_processing_charge":"No","scopus_import":"1","oa_version":"Published Version","status":"public","title":"2‐methoxyhydroquinone from vanillin for aqueous redox‐flow batteries","intvolume":" 59","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8329","abstract":[{"lang":"eng","text":"We show the synthesis of a redox‐active quinone, 2‐methoxy‐1,4‐hydroquinone (MHQ), from a bio‐based feedstock and its suitability as electrolyte in aqueous redox flow batteries. We identified semiquinone intermediates at insufficiently low pH and quinoid radicals as responsible for decomposition of MHQ under electrochemical conditions. Both can be avoided and/or stabilized, respectively, using H 3 PO 4 electrolyte, allowing for reversible cycling in a redox flow battery for hundreds of cycles."}],"issue":"51","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1002/anie.202008253","isi":1,"quality_controlled":"1","external_id":{"isi":["000576148700001"]},"oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/anie.202008253"}],"month":"12","publication_identifier":{"issn":["1433-7851"],"eissn":["1521-3773"]},"date_updated":"2023-09-05T16:03:47Z","date_created":"2020-09-03T16:10:56Z","volume":59,"author":[{"full_name":"Schlemmer, Werner","first_name":"Werner","last_name":"Schlemmer"},{"full_name":"Nothdurft, Philipp","first_name":"Philipp","last_name":"Nothdurft"},{"last_name":"Petzold","first_name":"Alina","full_name":"Petzold, Alina"},{"first_name":"Philipp","last_name":"Frühwirt","full_name":"Frühwirt, Philipp"},{"full_name":"Schmallegger, Max","last_name":"Schmallegger","first_name":"Max"},{"full_name":"Gescheidt-Demner, Georg","first_name":"Georg","last_name":"Gescheidt-Demner"},{"full_name":"Fischer, Roland","last_name":"Fischer","first_name":"Roland"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","first_name":"Stefan Alexander"},{"full_name":"Kern, Wolfgang","first_name":"Wolfgang","last_name":"Kern"},{"full_name":"Spirk, Stefan","last_name":"Spirk","first_name":"Stefan"}],"related_material":{"record":[{"id":"9780","status":"public","relation":"research_data"}]},"publication_status":"published","department":[{"_id":"StFr"}],"publisher":"Wiley","acknowledgement":"The Austrian Research Promotion Agency (FFG) is gratefully acknowledged for financial support of the project LignoBatt (860429).","year":"2020"},{"date_published":"2020-12-19T00:00:00Z","doi":"10.5061/DRYAD.CRJDFN318","oa":1,"tmp":{"short":"CC0 (1.0)","image":"/images/cc_0.png","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)"},"main_file_link":[{"url":"https://doi.org/10.5061/dryad.crjdfn318","open_access":"1"}],"citation":{"ieee":"B. Milutinovic, M. Stock, A. V. Grasse, E. Naderlinger, C. Hilbe, and S. Cremer, “Social immunity modulates competition between coinfecting pathogens.” Dryad, 2020.","apa":"Milutinovic, B., Stock, M., Grasse, A. V., Naderlinger, E., Hilbe, C., & Cremer, S. (2020). Social immunity modulates competition between coinfecting pathogens. Dryad. https://doi.org/10.5061/DRYAD.CRJDFN318","ista":"Milutinovic B, Stock M, Grasse AV, Naderlinger E, Hilbe C, Cremer S. 2020. Social immunity modulates competition between coinfecting pathogens, Dryad, 10.5061/DRYAD.CRJDFN318.","ama":"Milutinovic B, Stock M, Grasse AV, Naderlinger E, Hilbe C, Cremer S. Social immunity modulates competition between coinfecting pathogens. 2020. doi:10.5061/DRYAD.CRJDFN318","chicago":"Milutinovic, Barbara, Miriam Stock, Anna V Grasse, Elisabeth Naderlinger, Christian Hilbe, and Sylvia Cremer. “Social Immunity Modulates Competition between Coinfecting Pathogens.” Dryad, 2020. https://doi.org/10.5061/DRYAD.CRJDFN318.","short":"B. Milutinovic, M. Stock, A.V. Grasse, E. Naderlinger, C. Hilbe, S. Cremer, (2020).","mla":"Milutinovic, Barbara, et al. Social Immunity Modulates Competition between Coinfecting Pathogens. Dryad, 2020, doi:10.5061/DRYAD.CRJDFN318."},"month":"12","day":"19","article_processing_charge":"No","author":[{"full_name":"Milutinovic, Barbara","orcid":"0000-0002-8214-4758","id":"2CDC32B8-F248-11E8-B48F-1D18A9856A87","last_name":"Milutinovic","first_name":"Barbara"},{"id":"42462816-F248-11E8-B48F-1D18A9856A87","last_name":"Stock","first_name":"Miriam","full_name":"Stock, Miriam"},{"last_name":"Grasse","first_name":"Anna V","id":"406F989C-F248-11E8-B48F-1D18A9856A87","full_name":"Grasse, Anna V"},{"full_name":"Naderlinger, Elisabeth","last_name":"Naderlinger","first_name":"Elisabeth","id":"31757262-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Hilbe","first_name":"Christian","orcid":"0000-0001-5116-955X","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","full_name":"Hilbe, Christian"},{"full_name":"Cremer, Sylvia","first_name":"Sylvia","last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2193-3868"}],"related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"7343"}]},"date_updated":"2023-09-05T16:04:48Z","date_created":"2023-05-23T16:11:22Z","oa_version":"Published Version","year":"2020","_id":"13060","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","ddc":["570"],"title":"Social immunity modulates competition between coinfecting pathogens","publisher":"Dryad","department":[{"_id":"SyCr"},{"_id":"KrCh"}],"abstract":[{"lang":"eng","text":"Coinfections with multiple pathogens can result in complex within-host dynamics affecting virulence and transmission. Whilst multiple infections are intensively studied in solitary hosts, it is so far unresolved how social host interactions interfere with pathogen competition, and if this depends on coinfection diversity. We studied how the collective disease defenses of ants – their social immunity – influence pathogen competition in coinfections of same or different fungal pathogen species. Social immunity reduced virulence for all pathogen combinations, but interfered with spore production only in different-species coinfections. Here, it decreased overall pathogen sporulation success, whilst simultaneously increasing co-sporulation on individual cadavers and maintaining a higher pathogen diversity at the community-level. Mathematical modeling revealed that host sanitary care alone can modulate competitive outcomes between pathogens, giving advantage to fast-germinating, thus less grooming-sensitive ones. Host social interactions can hence modulate infection dynamics in coinfected group members, thereby altering pathogen communities at the host- and population-level."}],"license":"https://creativecommons.org/publicdomain/zero/1.0/","type":"research_data_reference"},{"article_processing_charge":"No","day":"22","month":"03","doi":"10.5517/ccdc.csd.cc24vsrk","date_published":"2020-03-22T00:00:00Z","oa":1,"citation":{"chicago":"Schlemmer, Werner, Philipp Nothdurft, Alina Petzold, Gisbert Riess, Philipp Frühwirt, Max Schmallegger, Georg Gescheidt-Demner, et al. “CCDC 1991959: Experimental Crystal Structure Determination.” CCDC, 2020. https://doi.org/10.5517/ccdc.csd.cc24vsrk.","short":"W. Schlemmer, P. Nothdurft, A. Petzold, G. Riess, P. Frühwirt, M. Schmallegger, G. Gescheidt-Demner, R. Fischer, S.A. Freunberger, W. Kern, S. Spirk, (2020).","mla":"Schlemmer, Werner, et al. CCDC 1991959: Experimental Crystal Structure Determination. CCDC, 2020, doi:10.5517/ccdc.csd.cc24vsrk.","ieee":"W. Schlemmer et al., “CCDC 1991959: Experimental Crystal Structure Determination.” CCDC, 2020.","apa":"Schlemmer, W., Nothdurft, P., Petzold, A., Riess, G., Frühwirt, P., Schmallegger, M., … Spirk, S. (2020). CCDC 1991959: Experimental Crystal Structure Determination. CCDC. https://doi.org/10.5517/ccdc.csd.cc24vsrk","ista":"Schlemmer W, Nothdurft P, Petzold A, Riess G, Frühwirt P, Schmallegger M, Gescheidt-Demner G, Fischer R, Freunberger SA, Kern W, Spirk S. 2020. CCDC 1991959: Experimental Crystal Structure Determination, CCDC, 10.5517/ccdc.csd.cc24vsrk.","ama":"Schlemmer W, Nothdurft P, Petzold A, et al. CCDC 1991959: Experimental Crystal Structure Determination. 2020. doi:10.5517/ccdc.csd.cc24vsrk"},"main_file_link":[{"url":"https://dx.doi.org/10.5517/ccdc.csd.cc24vsrk","open_access":"1"}],"abstract":[{"lang":"eng","text":"PADREV : 4,4'-dimethoxy[1,1'-biphenyl]-2,2',5,5'-tetrol\r\nSpace Group: C 2 (5), Cell: a 24.488(16)Å b 5.981(4)Å c 3.911(3)Å, α 90° β 91.47(3)° γ 90°"}],"type":"research_data_reference","oa_version":"Published Version","date_created":"2021-08-06T07:41:07Z","date_updated":"2023-09-05T16:03:47Z","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"8329"}]},"author":[{"full_name":"Schlemmer, Werner","last_name":"Schlemmer","first_name":"Werner"},{"full_name":"Nothdurft, Philipp","last_name":"Nothdurft","first_name":"Philipp"},{"last_name":"Petzold","first_name":"Alina","full_name":"Petzold, Alina"},{"full_name":"Riess, Gisbert","last_name":"Riess","first_name":"Gisbert"},{"full_name":"Frühwirt, Philipp","first_name":"Philipp","last_name":"Frühwirt"},{"full_name":"Schmallegger, Max","last_name":"Schmallegger","first_name":"Max"},{"full_name":"Gescheidt-Demner, Georg","last_name":"Gescheidt-Demner","first_name":"Georg"},{"first_name":"Roland","last_name":"Fischer","full_name":"Fischer, Roland"},{"full_name":"Freunberger, Stefan Alexander","orcid":"0000-0003-2902-5319","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","first_name":"Stefan Alexander"},{"full_name":"Kern, Wolfgang","first_name":"Wolfgang","last_name":"Kern"},{"full_name":"Spirk, Stefan","last_name":"Spirk","first_name":"Stefan"}],"department":[{"_id":"StFr"}],"publisher":"CCDC","status":"public","title":"CCDC 1991959: Experimental Crystal Structure Determination","_id":"9780","year":"2020","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf"},{"project":[{"call_identifier":"H2020","name":"Human Brain Project Specific Grant Agreement 1 (HBP SGA 1)","grant_number":"720270","_id":"25CBA828-B435-11E9-9278-68D0E5697425"},{"grant_number":"785907","_id":"26436750-B435-11E9-9278-68D0E5697425","name":"Human Brain Project Specific Grant Agreement 2 (HBP SGA 2)","call_identifier":"H2020"}],"isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000502270900001"],"pmid":["31729777"]},"language":[{"iso":"eng"}],"doi":"10.1111/bpa.12802","publication_identifier":{"eissn":["17503639"],"issn":["10156305"]},"month":"05","publisher":"Wiley","department":[{"_id":"RySh"}],"publication_status":"published","pmid":1,"year":"2020","volume":30,"date_updated":"2023-09-06T14:48:01Z","date_created":"2019-12-22T23:00:43Z","author":[{"full_name":"Martín-Belmonte, Alejandro","last_name":"Martín-Belmonte","first_name":"Alejandro"},{"full_name":"Aguado, Carolina","first_name":"Carolina","last_name":"Aguado"},{"full_name":"Alfaro-Ruíz, Rocío","last_name":"Alfaro-Ruíz","first_name":"Rocío"},{"first_name":"Ana Esther","last_name":"Moreno-Martínez","full_name":"Moreno-Martínez, Ana Esther"},{"first_name":"Luis","last_name":"De La Ossa","full_name":"De La Ossa, Luis"},{"full_name":"Martínez-Hernández, José","first_name":"José","last_name":"Martínez-Hernández"},{"full_name":"Buisson, Alain","first_name":"Alain","last_name":"Buisson"},{"full_name":"Früh, Simon","last_name":"Früh","first_name":"Simon"},{"full_name":"Bettler, Bernhard","first_name":"Bernhard","last_name":"Bettler"},{"first_name":"Ryuichi","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi"},{"last_name":"Fukazawa","first_name":"Yugo","full_name":"Fukazawa, Yugo"},{"first_name":"Rafael","last_name":"Luján","full_name":"Luján, Rafael"}],"ec_funded":1,"file_date_updated":"2020-09-22T09:47:19Z","page":"554-575","article_type":"original","citation":{"chicago":"Martín-Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro-Ruíz, Ana Esther Moreno-Martínez, Luis De La Ossa, José Martínez-Hernández, Alain Buisson, et al. “Reduction in the Neuronal Surface of Post and Presynaptic GABA>B< Receptors in the Hippocampus in a Mouse Model of Alzheimer’s Disease.” Brain Pathology. Wiley, 2020. https://doi.org/10.1111/bpa.12802.","mla":"Martín-Belmonte, Alejandro, et al. “Reduction in the Neuronal Surface of Post and Presynaptic GABA>B< Receptors in the Hippocampus in a Mouse Model of Alzheimer’s Disease.” Brain Pathology, vol. 30, no. 3, Wiley, 2020, pp. 554–75, doi:10.1111/bpa.12802.","short":"A. Martín-Belmonte, C. Aguado, R. Alfaro-Ruíz, A.E. Moreno-Martínez, L. De La Ossa, J. Martínez-Hernández, A. Buisson, S. Früh, B. Bettler, R. Shigemoto, Y. Fukazawa, R. Luján, Brain Pathology 30 (2020) 554–575.","ista":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, Moreno-Martínez AE, De La Ossa L, Martínez-Hernández J, Buisson A, Früh S, Bettler B, Shigemoto R, Fukazawa Y, Luján R. 2020. Reduction in the neuronal surface of post and presynaptic GABA>B< receptors in the hippocampus in a mouse model of Alzheimer’s disease. Brain Pathology. 30(3), 554–575.","ieee":"A. Martín-Belmonte et al., “Reduction in the neuronal surface of post and presynaptic GABA>B< receptors in the hippocampus in a mouse model of Alzheimer’s disease,” Brain Pathology, vol. 30, no. 3. Wiley, pp. 554–575, 2020.","apa":"Martín-Belmonte, A., Aguado, C., Alfaro-Ruíz, R., Moreno-Martínez, A. E., De La Ossa, L., Martínez-Hernández, J., … Luján, R. (2020). Reduction in the neuronal surface of post and presynaptic GABA>B< receptors in the hippocampus in a mouse model of Alzheimer’s disease. Brain Pathology. Wiley. https://doi.org/10.1111/bpa.12802","ama":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, et al. Reduction in the neuronal surface of post and presynaptic GABA>B< receptors in the hippocampus in a mouse model of Alzheimer’s disease. Brain Pathology. 2020;30(3):554-575. doi:10.1111/bpa.12802"},"publication":"Brain Pathology","date_published":"2020-05-01T00:00:00Z","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"01","intvolume":" 30","ddc":["570"],"status":"public","title":"Reduction in the neuronal surface of post and presynaptic GABA>B< receptors in the hippocampus in a mouse model of Alzheimer's disease","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7207","oa_version":"Published Version","file":[{"date_created":"2020-09-22T09:47:19Z","date_updated":"2020-09-22T09:47:19Z","success":1,"checksum":"549cc1b18f638a21d17a939ba5563fa9","file_id":"8554","relation":"main_file","creator":"dernst","file_size":4220935,"content_type":"application/pdf","file_name":"2020_BrainPathology_MartinBelmonte.pdf","access_level":"open_access"}],"type":"journal_article","issue":"3","abstract":[{"lang":"eng","text":"The hippocampus plays key roles in learning and memory and is a main target of Alzheimer's disease (AD), which causes progressive memory impairments. Despite numerous investigations about the processes required for the normal hippocampal functions, the neurotransmitter receptors involved in the synaptic deficits by which AD disables the hippocampus are not yet characterized. By combining histoblots, western blots, immunohistochemistry and high‐resolution immunoelectron microscopic methods for GABAB receptors, this study provides a quantitative description of the expression and the subcellular localization of GABAB1 in the hippocampus in a mouse model of AD at 1, 6 and 12 months of age. Western blots and histoblots showed that the total amount of protein and the laminar expression pattern of GABAB1 were similar in APP/PS1 mice and in age‐matched wild‐type mice. In contrast, immunoelectron microscopic techniques showed that the subcellular localization of GABAB1 subunit did not change significantly in APP/PS1 mice at 1 month of age, was significantly reduced in the stratum lacunosum‐moleculare of CA1 pyramidal cells at 6 months of age and significantly reduced at the membrane surface of CA1 pyramidal cells at 12 months of age. This reduction of plasma membrane GABAB1 was paralleled by a significant increase of the subunit at the intracellular sites. We further observed a decrease of membrane‐targeted GABAB receptors in axon terminals contacting CA1 pyramidal cells. Our data demonstrate compartment‐ and age‐dependent reduction of plasma membrane‐targeted GABAB receptors in the CA1 region of the hippocampus, suggesting that this decrease might be enough to alter the GABAB‐mediated synaptic transmission taking place in AD."}]},{"department":[{"_id":"NiBa"}],"publisher":"Wiley","publication_status":"published","pmid":1,"year":"2020","volume":33,"date_created":"2019-12-22T23:00:43Z","date_updated":"2023-09-06T14:48:57Z","related_material":{"record":[{"relation":"research_data","status":"public","id":"13067"}]},"author":[{"full_name":"Johannesson, Kerstin","first_name":"Kerstin","last_name":"Johannesson"},{"first_name":"Zuzanna","last_name":"Zagrodzka","full_name":"Zagrodzka, Zuzanna"},{"full_name":"Faria, Rui","last_name":"Faria","first_name":"Rui"},{"full_name":"Westram, Anja M","last_name":"Westram","first_name":"Anja M","orcid":"0000-0003-1050-4969","id":"3C147470-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Butlin","first_name":"Roger K.","full_name":"Butlin, Roger K."}],"file_date_updated":"2020-09-22T09:42:18Z","quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000500954800001"],"pmid":["31724256"]},"language":[{"iso":"eng"}],"doi":"10.1111/jeb.13570","publication_identifier":{"issn":["1010061X"],"eissn":["14209101"]},"month":"03","intvolume":" 33","ddc":["570"],"status":"public","title":"Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes?","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7205","oa_version":"Published Version","file":[{"file_id":"8553","relation":"main_file","success":1,"checksum":"7534ff0839709c0c5265c12d29432f03","date_updated":"2020-09-22T09:42:18Z","date_created":"2020-09-22T09:42:18Z","access_level":"open_access","file_name":"2020_EvolBiology_Johannesson.pdf","creator":"dernst","file_size":885611,"content_type":"application/pdf"}],"type":"journal_article","issue":"3","abstract":[{"lang":"eng","text":"Genetic incompatibilities contribute to reproductive isolation between many diverging populations, but it is still unclear to what extent they play a role if divergence happens with gene flow. In contact zones between the \"Crab\" and \"Wave\" ecotypes of the snail Littorina saxatilis, divergent selection forms strong barriers to gene flow, while the role of post‐zygotic barriers due to selection against hybrids remains unclear. High embryo abortion rates in this species could indicate the presence of such barriers. Post‐zygotic barriers might include genetic incompatibilities (e.g. Dobzhansky–Muller incompatibilities) but also maladaptation, both expected to be most pronounced in contact zones. In addition, embryo abortion might reflect physiological stress on females and embryos independent of any genetic stress. We examined all embryos of >500 females sampled outside and inside contact zones of three populations in Sweden. Females' clutch size ranged from 0 to 1,011 embryos (mean 130 ± 123), and abortion rates varied between 0% and 100% (mean 12%). We described female genotypes by using a hybrid index based on hundreds of SNPs differentiated between ecotypes with which we characterized female genotypes. We also calculated female SNP heterozygosity and inversion karyotype. Clutch size did not vary with female hybrid index, and abortion rates were only weakly related to hybrid index in two sites but not at all in a third site. No additional variation in abortion rate was explained by female SNP heterozygosity, but increased female inversion heterozygosity added slightly to increased abortion. Our results show only weak and probably biologically insignificant post‐zygotic barriers contributing to ecotype divergence, and the high and variable abortion rates were marginally, if at all, explained by hybrid index of females."}],"page":"342-351","article_type":"original","citation":{"apa":"Johannesson, K., Zagrodzka, Z., Faria, R., Westram, A. M., & Butlin, R. K. (2020). Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes? Journal of Evolutionary Biology. Wiley. https://doi.org/10.1111/jeb.13570","ieee":"K. Johannesson, Z. Zagrodzka, R. Faria, A. M. Westram, and R. K. Butlin, “Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes?,” Journal of Evolutionary Biology, vol. 33, no. 3. Wiley, pp. 342–351, 2020.","ista":"Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin RK. 2020. Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes? Journal of Evolutionary Biology. 33(3), 342–351.","ama":"Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin RK. Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes? Journal of Evolutionary Biology. 2020;33(3):342-351. doi:10.1111/jeb.13570","chicago":"Johannesson, Kerstin, Zuzanna Zagrodzka, Rui Faria, Anja M Westram, and Roger K. Butlin. “Is Embryo Abortion a Post-Zygotic Barrier to Gene Flow between Littorina Ecotypes?” Journal of Evolutionary Biology. Wiley, 2020. https://doi.org/10.1111/jeb.13570.","short":"K. Johannesson, Z. Zagrodzka, R. Faria, A.M. Westram, R.K. Butlin, Journal of Evolutionary Biology 33 (2020) 342–351.","mla":"Johannesson, Kerstin, et al. “Is Embryo Abortion a Post-Zygotic Barrier to Gene Flow between Littorina Ecotypes?” Journal of Evolutionary Biology, vol. 33, no. 3, Wiley, 2020, pp. 342–51, doi:10.1111/jeb.13570."},"publication":"Journal of Evolutionary Biology","date_published":"2020-03-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"01"},{"article_type":"original","citation":{"ama":"Sinclair SA, Gille S, Pauly M, Krämer U. Regulation of acetylation of plant cell wall components is complex and responds to external stimuli. Plant Signaling & Behavior. 2020;15(1). doi:10.1080/15592324.2019.1687185","ista":"Sinclair SA, Gille S, Pauly M, Krämer U. 2020. Regulation of acetylation of plant cell wall components is complex and responds to external stimuli. Plant Signaling & Behavior. 15(1), e1687185.","ieee":"S. A. Sinclair, S. Gille, M. Pauly, and U. Krämer, “Regulation of acetylation of plant cell wall components is complex and responds to external stimuli,” Plant Signaling & Behavior, vol. 15, no. 1. Informa UK Limited, 2020.","apa":"Sinclair, S. A., Gille, S., Pauly, M., & Krämer, U. (2020). Regulation of acetylation of plant cell wall components is complex and responds to external stimuli. Plant Signaling & Behavior. Informa UK Limited. https://doi.org/10.1080/15592324.2019.1687185","mla":"Sinclair, Scott A., et al. “Regulation of Acetylation of Plant Cell Wall Components Is Complex and Responds to External Stimuli.” Plant Signaling & Behavior, vol. 15, no. 1, e1687185, Informa UK Limited, 2020, doi:10.1080/15592324.2019.1687185.","short":"S.A. Sinclair, S. Gille, M. Pauly, U. Krämer, Plant Signaling & Behavior 15 (2020).","chicago":"Sinclair, Scott A, S. Gille, M. Pauly, and U. Krämer. “Regulation of Acetylation of Plant Cell Wall Components Is Complex and Responds to External Stimuli.” Plant Signaling & Behavior. Informa UK Limited, 2020. https://doi.org/10.1080/15592324.2019.1687185."},"publication":"Plant Signaling & Behavior","date_published":"2020-01-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","intvolume":" 15","status":"public","title":"Regulation of acetylation of plant cell wall components is complex and responds to external stimuli","_id":"7417","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa_version":"Submitted Version","type":"journal_article","issue":"1","abstract":[{"text":"Previously, we reported that the allelic de-etiolated by zinc (dez) and trichome birefringence (tbr) mutants exhibit photomorphogenic development in the dark, which is enhanced by high Zn. TRICHOME BIREFRINGENCE-LIKE proteins had been implicated in transferring acetyl groups to various hemicelluloses. Pectin O-acetylation levels were lower in dark-grown dez seedlings than in the wild type. We observed Zn-enhanced photomorphogenesis in the dark also in the reduced wall acetylation 2 (rwa2-3) mutant, which exhibits lowered O-acetylation levels of cell wall macromolecules including pectins and xyloglucans, supporting a role for cell wall macromolecule O-acetylation in the photomorphogenic phenotypes of rwa2-3 and dez. Application of very short oligogalacturonides (vsOGs) restored skotomorphogenesis in dark-grown dez and rwa2-3. Here we demonstrate that in dez, O-acetylation of non-pectin cell wall components, notably of xyloglucan, is enhanced. Our results highlight the complexity of cell wall homeostasis and indicate against an influence of xyloglucan O-acetylation on light-dependent seedling development.","lang":"eng"}],"quality_controlled":"1","isi":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7012154"}],"external_id":{"isi":["000494907500001"],"pmid":["31696770"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1080/15592324.2019.1687185","publication_identifier":{"issn":["1559-2324"]},"month":"01","department":[{"_id":"JiFr"}],"publisher":"Informa UK Limited","publication_status":"published","pmid":1,"year":"2020","volume":15,"date_created":"2020-01-30T10:14:14Z","date_updated":"2023-09-06T15:23:04Z","author":[{"orcid":"0000-0002-4566-0593","id":"2D99FE6A-F248-11E8-B48F-1D18A9856A87","last_name":"Sinclair","first_name":"Scott A","full_name":"Sinclair, Scott A"},{"full_name":"Gille, S.","last_name":"Gille","first_name":"S."},{"full_name":"Pauly, M.","last_name":"Pauly","first_name":"M."},{"full_name":"Krämer, U.","last_name":"Krämer","first_name":"U."}],"article_number":"e1687185"},{"month":"09","publication_identifier":{"issn":["0010-3616"],"eissn":["1432-0916"]},"isi":1,"quality_controlled":"1","project":[{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804","name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"arxiv":["1809.03971"],"isi":["000529483000001"]},"language":[{"iso":"eng"}],"doi":"10.1007/s00220-019-03657-4","file_date_updated":"2020-11-18T11:14:37Z","ec_funded":1,"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"LaEr"}],"year":"2020","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria). The authors are very grateful to Johannes Alt for numerous discussions on the Dyson equation and for his invaluable help in adjusting [10] to the needs of the present work.","date_updated":"2023-09-07T12:54:12Z","date_created":"2019-03-28T10:21:15Z","volume":378,"author":[{"orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","first_name":"László","full_name":"Erdös, László"},{"orcid":"0000-0002-4821-3297","id":"3020C786-F248-11E8-B48F-1D18A9856A87","last_name":"Krüger","first_name":"Torben H","full_name":"Krüger, Torben H"},{"orcid":"0000-0002-2904-1856","id":"408ED176-F248-11E8-B48F-1D18A9856A87","last_name":"Schröder","first_name":"Dominik J","full_name":"Schröder, Dominik J"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"6179"}]},"scopus_import":"1","day":"01","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","article_type":"original","page":"1203-1278","publication":"Communications in Mathematical Physics","citation":{"mla":"Erdös, László, et al. “Cusp Universality for Random Matrices I: Local Law and the Complex Hermitian Case.” Communications in Mathematical Physics, vol. 378, Springer Nature, 2020, pp. 1203–78, doi:10.1007/s00220-019-03657-4.","short":"L. Erdös, T.H. Krüger, D.J. Schröder, Communications in Mathematical Physics 378 (2020) 1203–1278.","chicago":"Erdös, László, Torben H Krüger, and Dominik J Schröder. “Cusp Universality for Random Matrices I: Local Law and the Complex Hermitian Case.” Communications in Mathematical Physics. Springer Nature, 2020. https://doi.org/10.1007/s00220-019-03657-4.","ama":"Erdös L, Krüger TH, Schröder DJ. Cusp universality for random matrices I: Local law and the complex Hermitian case. Communications in Mathematical Physics. 2020;378:1203-1278. doi:10.1007/s00220-019-03657-4","ista":"Erdös L, Krüger TH, Schröder DJ. 2020. Cusp universality for random matrices I: Local law and the complex Hermitian case. Communications in Mathematical Physics. 378, 1203–1278.","ieee":"L. Erdös, T. H. Krüger, and D. J. Schröder, “Cusp universality for random matrices I: Local law and the complex Hermitian case,” Communications in Mathematical Physics, vol. 378. Springer Nature, pp. 1203–1278, 2020.","apa":"Erdös, L., Krüger, T. H., & Schröder, D. J. (2020). Cusp universality for random matrices I: Local law and the complex Hermitian case. Communications in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s00220-019-03657-4"},"date_published":"2020-09-01T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"For complex Wigner-type matrices, i.e. Hermitian random matrices with independent, not necessarily identically distributed entries above the diagonal, we show that at any cusp singularity of the limiting eigenvalue distribution the local eigenvalue statistics are universal and form a Pearcey process. Since the density of states typically exhibits only square root or cubic root cusp singularities, our work complements previous results on the bulk and edge universality and it thus completes the resolution of the Wigner–Dyson–Mehta universality conjecture for the last remaining universality type in the complex Hermitian class. Our analysis holds not only for exact cusps, but approximate cusps as well, where an extended Pearcey process emerges. As a main technical ingredient we prove an optimal local law at the cusp for both symmetry classes. This result is also the key input in the companion paper (Cipolloni et al. in Pure Appl Anal, 2018. arXiv:1811.04055) where the cusp universality for real symmetric Wigner-type matrices is proven. The novel cusp fluctuation mechanism is also essential for the recent results on the spectral radius of non-Hermitian random matrices (Alt et al. in Spectral radius of random matrices with independent entries, 2019. arXiv:1907.13631), and the non-Hermitian edge universality (Cipolloni et al. in Edge universality for non-Hermitian random matrices, 2019. arXiv:1908.00969)."}],"title":"Cusp universality for random matrices I: Local law and the complex Hermitian case","ddc":["530","510"],"status":"public","intvolume":" 378","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6185","oa_version":"Published Version","file":[{"file_size":2904574,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2020_CommMathPhysics_Erdoes.pdf","checksum":"c3a683e2afdcea27afa6880b01e53dc2","success":1,"date_updated":"2020-11-18T11:14:37Z","date_created":"2020-11-18T11:14:37Z","relation":"main_file","file_id":"8771"}]},{"date_updated":"2023-09-07T13:03:12Z","date_created":"2020-04-02T06:40:23Z","author":[{"id":"35C79D68-F248-11E8-B48F-1D18A9856A87","last_name":"Forkert","first_name":"Dominik L","full_name":"Forkert, Dominik L"}],"publication_status":"published","publisher":"Institute of Science and Technology Austria","department":[{"_id":"JaMa"}],"year":"2020","file_date_updated":"2020-07-14T12:48:01Z","ec_funded":1,"degree_awarded":"PhD","supervisor":[{"id":"4C5696CE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0845-1338","first_name":"Jan","last_name":"Maas","full_name":"Maas, Jan"}],"language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:7629","project":[{"name":"Optimal Transport and Stochastic Dynamics","call_identifier":"H2020","_id":"256E75B8-B435-11E9-9278-68D0E5697425","grant_number":"716117"}],"oa":1,"month":"03","publication_identifier":{"issn":["2663-337X"]},"oa_version":"Published Version","file":[{"content_type":"application/pdf","file_size":3297129,"creator":"dernst","access_level":"open_access","file_name":"Thesis_Forkert_PDFA.pdf","checksum":"c814a1a6195269ca6fe48b0dca45ae8a","date_created":"2020-04-14T10:47:59Z","date_updated":"2020-07-14T12:48:01Z","relation":"main_file","file_id":"7657"},{"relation":"source_file","file_id":"7658","checksum":"ceafb53f923d1b5bdf14b2b0f22e4a81","date_created":"2020-04-14T10:47:59Z","date_updated":"2020-07-14T12:48:01Z","access_level":"closed","file_name":"Thesis_Forkert_source.zip","content_type":"application/x-zip-compressed","file_size":1063908,"creator":"dernst"}],"title":"Gradient flows in spaces of probability measures for finite-volume schemes, metric graphs and non-reversible Markov chains","status":"public","ddc":["510"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7629","abstract":[{"text":"This thesis is based on three main topics: In the first part, we study convergence of discrete gradient flow structures associated with regular finite-volume discretisations of Fokker-Planck equations. We show evolutionary I convergence of the discrete gradient flows to the L2-Wasserstein gradient flow corresponding to the solution of a Fokker-Planck\r\nequation in arbitrary dimension d >= 1. Along the argument, we prove Mosco- and I-convergence results for discrete energy functionals, which are of independent interest for convergence of equivalent gradient flow structures in Hilbert spaces.\r\nThe second part investigates L2-Wasserstein flows on metric graph. The starting point is a Benamou-Brenier formula for the L2-Wasserstein distance, which is proved via a regularisation scheme for solutions of the continuity equation, adapted to the peculiar geometric structure of metric graphs. Based on those results, we show that the L2-Wasserstein space over a metric graph admits a gradient flow which may be identified as a solution of a Fokker-Planck equation.\r\nIn the third part, we focus again on the discrete gradient flows, already encountered in the first part. We propose a variational structure which extends the gradient flow structure to Markov chains violating the detailed-balance conditions. Using this structure, we characterise contraction estimates for the discrete heat flow in terms of convexity of\r\ncorresponding path-dependent energy functionals. In addition, we use this approach to derive several functional inequalities for said functionals.","lang":"eng"}],"alternative_title":["ISTA Thesis"],"type":"dissertation","date_published":"2020-03-31T00:00:00Z","page":"154","citation":{"chicago":"Forkert, Dominik L. “Gradient Flows in Spaces of Probability Measures for Finite-Volume Schemes, Metric Graphs and Non-Reversible Markov Chains.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7629.","mla":"Forkert, Dominik L. Gradient Flows in Spaces of Probability Measures for Finite-Volume Schemes, Metric Graphs and Non-Reversible Markov Chains. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7629.","short":"D.L. Forkert, Gradient Flows in Spaces of Probability Measures for Finite-Volume Schemes, Metric Graphs and Non-Reversible Markov Chains, Institute of Science and Technology Austria, 2020.","ista":"Forkert DL. 2020. Gradient flows in spaces of probability measures for finite-volume schemes, metric graphs and non-reversible Markov chains. Institute of Science and Technology Austria.","ieee":"D. L. Forkert, “Gradient flows in spaces of probability measures for finite-volume schemes, metric graphs and non-reversible Markov chains,” Institute of Science and Technology Austria, 2020.","apa":"Forkert, D. L. (2020). Gradient flows in spaces of probability measures for finite-volume schemes, metric graphs and non-reversible Markov chains. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7629","ama":"Forkert DL. Gradient flows in spaces of probability measures for finite-volume schemes, metric graphs and non-reversible Markov chains. 2020. doi:10.15479/AT:ISTA:7629"},"day":"31","article_processing_charge":"No","has_accepted_license":"1"},{"file":[{"file_name":"thesis_EnikoSzep_final.pdf","access_level":"open_access","creator":"dernst","file_size":6354833,"content_type":"application/pdf","file_id":"8575","relation":"main_file","date_created":"2020-09-28T07:25:35Z","date_updated":"2020-09-28T07:25:35Z","success":1,"checksum":"20e71f015fbbd78fea708893ad634ed0"},{"date_created":"2020-09-28T07:25:37Z","date_updated":"2020-09-28T07:25:37Z","checksum":"a8de2c14a1bb4e53c857787efbb289e1","relation":"source_file","file_id":"8576","content_type":"application/x-zip-compressed","file_size":23020401,"creator":"dernst","file_name":"thesisFiles_EnikoSzep.zip","access_level":"closed"}],"oa_version":"Published Version","ddc":["570"],"status":"public","title":"Local adaptation in metapopulations","_id":"8574","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"lang":"eng","text":"This thesis concerns itself with the interactions of evolutionary and ecological forces and the consequences on genetic diversity and the ultimate survival of populations. It is important to understand what signals processes \r\nleave on the genome and what we can infer from such data, which is usually abundant but noisy. Furthermore, understanding how and when populations adapt or go extinct is important for practical purposes, such as the genetic management of populations, as well as for theoretical questions, since local adaptation can be the first step toward speciation. \r\nIn Chapter 2, we introduce the method of maximum entropy to approximate the demographic changes of a population in a simple setting, namely the logistic growth model with immigration. We show that this method is not only a powerful \r\ntool in physics but can be gainfully applied in an ecological framework. We investigate how well it approximates the real \r\nbehavior of the system, and find that is does so, even in unexpected situations. Finally, we illustrate how it can model changing environments.\r\nIn Chapter 3, we analyze the co-evolution of allele frequencies and population sizes in an infinite island model.\r\nWe give conditions under which polygenic adaptation to a rare habitat is possible. The model we use is based on the diffusion approximation, considers eco-evolutionary feedback mechanisms (hard selection), and treats both \r\ndrift and environmental fluctuations explicitly. We also look at limiting scenarios, for which we derive analytical expressions. \r\nIn Chapter 4, we present a coalescent based simulation tool to obtain patterns of diversity in a spatially explicit subdivided population, in which the demographic history of each subpopulation can be specified. We compare \r\nthe results to existing predictions, and explore the relative importance of time and space under a variety of spatial arrangements and demographic histories, such as expansion and extinction. \r\nIn the last chapter, we give a brief outlook to further research. "}],"alternative_title":["ISTA Thesis"],"type":"dissertation","date_published":"2020-09-20T00:00:00Z","page":"158","citation":{"short":"E. Szep, Local Adaptation in Metapopulations, Institute of Science and Technology Austria, 2020.","mla":"Szep, Eniko. Local Adaptation in Metapopulations. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8574.","chicago":"Szep, Eniko. “Local Adaptation in Metapopulations.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8574.","ama":"Szep E. Local adaptation in metapopulations. 2020. doi:10.15479/AT:ISTA:8574","apa":"Szep, E. (2020). Local adaptation in metapopulations. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8574","ieee":"E. Szep, “Local adaptation in metapopulations,” Institute of Science and Technology Austria, 2020.","ista":"Szep E. 2020. Local adaptation in metapopulations. Institute of Science and Technology Austria."},"day":"20","article_processing_charge":"No","has_accepted_license":"1","date_updated":"2023-09-07T13:11:39Z","date_created":"2020-09-28T07:33:38Z","author":[{"last_name":"Szep","first_name":"Eniko","id":"485BB5A4-F248-11E8-B48F-1D18A9856A87","full_name":"Szep, Eniko"}],"publication_status":"published","publisher":"Institute of Science and Technology Austria","department":[{"_id":"NiBa"}],"year":"2020","file_date_updated":"2020-09-28T07:25:37Z","supervisor":[{"full_name":"Barton, Nicholas H","last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"degree_awarded":"PhD","language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:8574","oa":1,"month":"09","publication_identifier":{"eissn":["2663-337X"]}},{"has_accepted_license":"1","article_processing_charge":"No","day":"24","date_published":"2020-02-24T00:00:00Z","citation":{"ista":"Mayer S. 2020. The free energy of a dilute two-dimensional Bose gas. Institute of Science and Technology Austria.","apa":"Mayer, S. (2020). The free energy of a dilute two-dimensional Bose gas. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7514","ieee":"S. Mayer, “The free energy of a dilute two-dimensional Bose gas,” Institute of Science and Technology Austria, 2020.","ama":"Mayer S. The free energy of a dilute two-dimensional Bose gas. 2020. doi:10.15479/AT:ISTA:7514","chicago":"Mayer, Simon. “The Free Energy of a Dilute Two-Dimensional Bose Gas.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7514.","mla":"Mayer, Simon. The Free Energy of a Dilute Two-Dimensional Bose Gas. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7514.","short":"S. Mayer, The Free Energy of a Dilute Two-Dimensional Bose Gas, Institute of Science and Technology Austria, 2020."},"page":"148","abstract":[{"text":"We study the interacting homogeneous Bose gas in two spatial dimensions in the thermodynamic limit at fixed density. We shall be concerned with some mathematical aspects of this complicated problem in many-body quantum mechanics. More specifically, we consider the dilute limit where the scattering length of the interaction potential, which is a measure for the effective range of the potential, is small compared to the average distance between the particles. We are interested in a setting with positive (i.e., non-zero) temperature. After giving a survey of the relevant literature in the field, we provide some facts and examples to set expectations for the two-dimensional system. The crucial difference to the three-dimensional system is that there is no Bose–Einstein condensate at positive temperature due to the Hohenberg–Mermin–Wagner theorem. However, it turns out that an asymptotic formula for the free energy holds similarly to the three-dimensional case.\r\nWe motivate this formula by considering a toy model with δ interaction potential. By restricting this model Hamiltonian to certain trial states with a quasi-condensate we obtain an upper bound for the free energy that still has the quasi-condensate fraction as a free parameter. When minimizing over the quasi-condensate fraction, we obtain the Berezinskii–Kosterlitz–Thouless critical temperature for superfluidity, which plays an important role in our rigorous contribution. The mathematically rigorous result that we prove concerns the specific free energy in the dilute limit. We give upper and lower bounds on the free energy in terms of the free energy of the non-interacting system and a correction term coming from the interaction. Both bounds match and thus we obtain the leading term of an asymptotic approximation in the dilute limit, provided the thermal wavelength of the particles is of the same order (or larger) than the average distance between the particles. The remarkable feature of this result is its generality: the correction term depends on the interaction potential only through its scattering length and it holds for all nonnegative interaction potentials with finite scattering length that are measurable. In particular, this allows to model an interaction of hard disks.","lang":"eng"}],"type":"dissertation","alternative_title":["ISTA Thesis"],"file":[{"checksum":"b4de7579ddc1dbdd44ff3f17c48395f6","date_created":"2020-02-24T09:15:06Z","date_updated":"2020-07-14T12:47:59Z","relation":"main_file","file_id":"7515","content_type":"application/pdf","file_size":1563429,"creator":"dernst","access_level":"open_access","file_name":"thesis.pdf"},{"file_id":"7516","relation":"source_file","date_created":"2020-02-24T09:15:16Z","date_updated":"2020-07-14T12:47:59Z","checksum":"ad7425867b52d7d9e72296e87bc9cb67","file_name":"thesis_source.zip","access_level":"closed","creator":"dernst","content_type":"application/x-zip-compressed","file_size":2028038}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7514","title":"The free energy of a dilute two-dimensional Bose gas","status":"public","ddc":["510"],"publication_identifier":{"issn":["2663-337X"]},"month":"02","doi":"10.15479/AT:ISTA:7514","language":[{"iso":"eng"}],"degree_awarded":"PhD","supervisor":[{"full_name":"Seiringer, Robert","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","name":"Analysis of quantum many-body systems","call_identifier":"H2020"}],"ec_funded":1,"file_date_updated":"2020-07-14T12:47:59Z","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"7524"}]},"author":[{"id":"30C4630A-F248-11E8-B48F-1D18A9856A87","last_name":"Mayer","first_name":"Simon","full_name":"Mayer, Simon"}],"date_updated":"2023-09-07T13:12:42Z","date_created":"2020-02-24T09:17:27Z","year":"2020","department":[{"_id":"RoSe"},{"_id":"GradSch"}],"publisher":"Institute of Science and Technology Austria","publication_status":"published"},{"month":"09","publication_identifier":{"issn":["2663-337X"]},"project":[{"name":"Revealing the functional mechanism of Mrp antiporter, an ancestor of complex I","_id":"26169496-B435-11E9-9278-68D0E5697425","grant_number":"24741"}],"oa":1,"degree_awarded":"PhD","supervisor":[{"orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov","first_name":"Leonid A","full_name":"Sazanov, Leonid A"}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"EM-Fac"},{"_id":"ScienComp"}],"language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:8353","file_date_updated":"2021-09-16T12:40:56Z","publication_status":"published","publisher":"Institute of Science and Technology Austria","department":[{"_id":"LeSa"}],"acknowledgement":"I acknowledge the scientific service units of the IST Austria for providing resources by the Life Science Facility, the Electron Microscopy Facility and the high-performance computer cluster. Special thanks to the cryo-EM specialists Valentin Hodirnau and Daniel Johann Gütl for spending many hours with me in front of the microscope and for supporting me to collect the data presented here. I also want to thank Professor Masahiro Ito for providing plasmid DNA\r\nencoding Mrp from Anoxybacillus flavithermus WK1. I am a recipient of a DOC Fellowship of the Austrian Academy of Sciences.","year":"2020","date_created":"2020-09-09T14:27:01Z","date_updated":"2023-09-07T13:14:09Z","author":[{"id":"3BB67EB0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0493-3775","first_name":"Julia","last_name":"Steiner","full_name":"Steiner, Julia"}],"related_material":{"record":[{"id":"8284","relation":"part_of_dissertation","status":"public"}]},"day":"09","has_accepted_license":"1","article_processing_charge":"No","page":"191","citation":{"ama":"Steiner J. Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I. 2020. doi:10.15479/AT:ISTA:8353","ieee":"J. Steiner, “Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I,” Institute of Science and Technology Austria, 2020.","apa":"Steiner, J. (2020). Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8353","ista":"Steiner J. 2020. Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I. Institute of Science and Technology Austria.","short":"J. Steiner, Biochemical and Structural Investigation of the Mrp Antiporter, an Ancestor of Complex I, Institute of Science and Technology Austria, 2020.","mla":"Steiner, Julia. Biochemical and Structural Investigation of the Mrp Antiporter, an Ancestor of Complex I. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8353.","chicago":"Steiner, Julia. “Biochemical and Structural Investigation of the Mrp Antiporter, an Ancestor of Complex I.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8353."},"date_published":"2020-09-09T00:00:00Z","alternative_title":["ISTA Thesis"],"type":"dissertation","abstract":[{"text":"Mrp (Multi resistance and pH adaptation) are broadly distributed secondary active antiporters that catalyze the transport of monovalent ions such as sodium and potassium outside of the cell coupled to the inward translocation of protons. Mrp antiporters are unique in a way that they are composed of seven subunits (MrpABCDEFG) encoded in a single operon, whereas other antiporters catalyzing the same reaction are mostly encoded by a single gene. Mrp exchangers are crucial for intracellular pH homeostasis and Na+ efflux, essential mechanisms for H+ uptake under alkaline environments and for reduction of the intracellular concentration of toxic cations. Mrp displays no homology to any other monovalent Na+(K+)/H+ antiporters but Mrp subunits have primary sequence similarity to essential redox-driven proton pumps, such as respiratory complex I and membrane-bound hydrogenases. This similarity reinforces the hypothesis that these present day redox-driven proton pumps are descended from the Mrp antiporter. The Mrp structure serves as a model to understand the yet obscure coupling mechanism between ion or electron transfer and proton translocation in this large group of proteins. In the thesis, I am presenting the purification, biochemical analysis, cryo-EM analysis and molecular structure of the Mrp complex from Anoxybacillus flavithermus solved by cryo-EM at 3.0 Å resolution. Numerous conditions were screened to purify Mrp to high homogeneity and to obtain an appropriate distribution of single particles on cryo-EM grids covered with a continuous layer of ultrathin carbon. A preferred particle orientation problem was solved by performing a tilted data collection. The activity assays showed the specific pH-dependent\r\nprofile of secondary active antiporters. The molecular structure shows that Mrp is a dimer of seven-subunit protomers with 50 trans-membrane helices each. The dimer interface is built by many short and tilted transmembrane helices, probably causing a thinning of the bacterial membrane. The surface charge distribution shows an extraordinary asymmetry within each monomer, revealing presumable proton and sodium translocation pathways. The two largest\r\nand homologous Mrp subunits MrpA and MrpD probably translocate one proton each into the cell. The sodium ion is likely being translocated in the opposite direction within the small subunits along a ladder of charged and conserved residues. Based on the structure, we propose a mechanism were the antiport activity is accomplished via electrostatic interactions between the charged cations and key charged residues. The flexible key TM helices coordinate these\r\nelectrostatic interactions, while the membrane thinning between the monomers enables the translocation of sodium across the charged membrane. The entire family of redox-driven proton pumps is likely to perform their mechanism in a likewise manner.","lang":"eng"}],"status":"public","ddc":["572"],"title":"Biochemical and structural investigation of the Mrp antiporter, an ancestor of complex I","_id":"8353","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"relation":"main_file","file_id":"8354","date_created":"2020-09-09T14:22:35Z","date_updated":"2021-09-16T12:40:56Z","checksum":"2388d7e6e7a4d364c096fa89f305c3de","file_name":"Thesis_Julia_Steiner_pdfA.pdf","access_level":"open_access","content_type":"application/pdf","file_size":117547589,"creator":"jsteiner"},{"file_id":"8355","relation":"source_file","checksum":"ba112f957b7145462d0ab79044873ee9","date_updated":"2020-09-15T08:48:37Z","date_created":"2020-09-09T14:23:25Z","access_level":"closed","file_name":"Thesis_Julia_Steiner.docx","creator":"jsteiner","file_size":223328668,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document"}],"oa_version":"None"},{"page":"164","citation":{"ista":"Han H. 2020. Novel insights into PIN polarity regulation during Arabidopsis development. Institute of Science and Technology Austria.","ieee":"H. Han, “Novel insights into PIN polarity regulation during Arabidopsis development,” Institute of Science and Technology Austria, 2020.","apa":"Han, H. (2020). Novel insights into PIN polarity regulation during Arabidopsis development. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8589","ama":"Han H. Novel insights into PIN polarity regulation during Arabidopsis development. 2020. doi:10.15479/AT:ISTA:8589","chicago":"Han, Huibin. “Novel Insights into PIN Polarity Regulation during Arabidopsis Development.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8589.","mla":"Han, Huibin. Novel Insights into PIN Polarity Regulation during Arabidopsis Development. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8589.","short":"H. Han, Novel Insights into PIN Polarity Regulation during Arabidopsis Development, Institute of Science and Technology Austria, 2020."},"date_published":"2020-09-30T00:00:00Z","day":"30","has_accepted_license":"1","article_processing_charge":"No","status":"public","title":"Novel insights into PIN polarity regulation during Arabidopsis development","ddc":["580"],"_id":"8589","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa_version":"Published Version","file":[{"creator":"dernst","file_size":49198118,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed","file_name":"2020_Han_Thesis.docx","checksum":"c4bda1947d4c09c428ac9ce667b02327","date_created":"2020-09-30T14:50:20Z","date_updated":"2020-09-30T14:50:20Z","file_id":"8590","relation":"source_file"},{"checksum":"3f4f5d1718c2230adf30639ecaf8a00b","date_created":"2020-09-30T14:49:59Z","date_updated":"2021-10-01T13:33:02Z","file_id":"8591","relation":"main_file","creator":"dernst","file_size":15513963,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_Han_Thesis.pdf"}],"alternative_title":["ISTA Thesis"],"type":"dissertation","abstract":[{"lang":"eng","text":"The plant hormone auxin plays indispensable roles in plant growth and development. An essential level of regulation in auxin action is the directional auxin transport within cells. The establishment of auxin gradient in plant tissue has been attributed to local auxin biosynthesis and directional intercellular auxin transport, which both are controlled by various environmental and developmental signals. It is well established that asymmetric auxin distribution in cells is achieved by polarly localized PIN-FORMED (PIN) auxin efflux transporters. Despite the initial insights into cellular mechanisms of PIN polarization obtained from the last decades, the molecular mechanism and specific regulators mediating PIN polarization remains elusive. In this thesis, we aim to find novel players in PIN subcellular polarity regulation during Arabidopsis development. We first characterize the physiological effect of piperonylic acid (PA) on Arabidopsis hypocotyl gravitropic bending and PIN polarization. Secondly, we reveal the importance of SCFTIR1/AFB auxin signaling pathway in shoot gravitropism bending termination. In addition, we also explore the role of myosin XI complex, and actin cytoskeleton in auxin feedback regulation on PIN polarity. In Chapter 1, we give an overview of the current knowledge about PIN-mediated auxin fluxes in various plant tropic responses. In Chapter 2, we study the physiological effect of PA on shoot gravitropic bending. Our results show that PA treatment inhibits auxin-mediated PIN3 repolarization by interfering with PINOID and PIN3 phosphorylation status, ultimately leading to hyperbending hypocotyls. In Chapter 3, we provide evidence to show that the SCFTIR1/AFB nuclear auxin signaling pathway is crucial and required for auxin-mediated PIN3 repolarization and shoot gravitropic bending termination. In Chapter 4, we perform a phosphoproteomics approach and identify the motor protein Myosin XI and its binding protein, the MadB2 family, as an essential regulator of PIN polarity for auxin-canalization related developmental processes. In Chapter 5, we demonstrate the vital role of actin cytoskeleton in auxin feedback on PIN polarity by regulating PIN subcellular trafficking. Overall, the data presented in this PhD thesis brings novel insights into the PIN polar localization regulation that resulted in the (re)establishment of the polar auxin flow and gradient in response to environmental stimuli during plant development."}],"oa":1,"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"degree_awarded":"PhD","supervisor":[{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:8589","month":"09","publication_identifier":{"issn":["2663-337X"]},"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Institute of Science and Technology Austria","acknowledgement":"I also want to thank the China Scholarship Council for supporting my study during the year from 2015 to 2019. I also want to thank IST facilities – the Bioimaging facility, the media kitchen, the plant facility and all of the campus services, for their support.","year":"2020","date_created":"2020-09-30T14:50:51Z","date_updated":"2023-09-07T13:13:05Z","author":[{"first_name":"Huibin","last_name":"Han","id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin"}],"related_material":{"record":[{"id":"7643","relation":"part_of_dissertation","status":"public"}]},"file_date_updated":"2021-10-01T13:33:02Z"},{"has_accepted_license":"1","article_processing_charge":"No","day":"31","scopus_import":"1","date_published":"2020-07-31T00:00:00Z","citation":{"chicago":"Steiner, Julia, and Leonid A Sazanov. “Structure and Mechanism of the Mrp Complex, an Ancient Cation/Proton Antiporter.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/eLife.59407.","mla":"Steiner, Julia, and Leonid A. Sazanov. “Structure and Mechanism of the Mrp Complex, an Ancient Cation/Proton Antiporter.” ELife, vol. 9, e59407, eLife Sciences Publications, 2020, doi:10.7554/eLife.59407.","short":"J. Steiner, L.A. Sazanov, ELife 9 (2020).","ista":"Steiner J, Sazanov LA. 2020. Structure and mechanism of the Mrp complex, an ancient cation/proton antiporter. eLife. 9, e59407.","ieee":"J. Steiner and L. A. Sazanov, “Structure and mechanism of the Mrp complex, an ancient cation/proton antiporter,” eLife, vol. 9. eLife Sciences Publications, 2020.","apa":"Steiner, J., & Sazanov, L. A. (2020). Structure and mechanism of the Mrp complex, an ancient cation/proton antiporter. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.59407","ama":"Steiner J, Sazanov LA. Structure and mechanism of the Mrp complex, an ancient cation/proton antiporter. eLife. 2020;9. doi:10.7554/eLife.59407"},"publication":"eLife","article_type":"original","abstract":[{"text":"Multiple resistance and pH adaptation (Mrp) antiporters are multi-subunit Na+ (or K+)/H+ exchangers representing an ancestor of many essential redox-driven proton pumps, such as respiratory complex I. The mechanism of coupling between ion or electron transfer and proton translocation in this large protein family is unknown. Here, we present the structure of the Mrp complex from Anoxybacillus flavithermus solved by cryo-EM at 3.0 Å resolution. It is a dimer of seven-subunit protomers with 50 trans-membrane helices each. Surface charge distribution within each monomer is remarkably asymmetric, revealing probable proton and sodium translocation pathways. On the basis of the structure we propose a mechanism where the coupling between sodium and proton translocation is facilitated by a series of electrostatic interactions between a cation and key charged residues. This mechanism is likely to be applicable to the entire family of redox proton pumps, where electron transfer to substrates replaces cation movements.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","file":[{"creator":"cziletti","content_type":"application/pdf","file_size":7320493,"file_name":"2020_eLife_Steiner.pdf","access_level":"open_access","date_updated":"2020-08-24T13:31:53Z","date_created":"2020-08-24T13:31:53Z","success":1,"checksum":"b3656d14d5ddbb9d26e3074eea2d0c15","file_id":"8289","relation":"main_file"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8284","intvolume":" 9","ddc":["570"],"status":"public","title":"Structure and mechanism of the Mrp complex, an ancient cation/proton antiporter","publication_identifier":{"eissn":["2050084X"]},"month":"07","doi":"10.7554/eLife.59407","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"}],"external_id":{"pmid":["32735215"],"isi":["000562123600001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"name":"Revealing the functional mechanism of Mrp antiporter, an ancestor of complex I","grant_number":"24741","_id":"26169496-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","file_date_updated":"2020-08-24T13:31:53Z","article_number":"e59407","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"8353"}],"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/mystery-of-giant-proton-pump-solved/"}]},"author":[{"first_name":"Julia","last_name":"Steiner","id":"3BB67EB0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0493-3775","full_name":"Steiner, Julia"},{"full_name":"Sazanov, Leonid A","last_name":"Sazanov","first_name":"Leonid A","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"}],"volume":9,"date_created":"2020-08-24T06:24:04Z","date_updated":"2023-09-07T13:14:08Z","pmid":1,"year":"2020","acknowledgement":"This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Electron Microscopy Facility (EMF), the Life Science Facility (LSF) and the IST high-performance computing cluster. We thank Dr Victor-Valentin Hodirnau and Daniel Johann Gütl from IST Austria for assistance with collecting cryo-EM data. We thank Prof. Masahiro Ito (Graduate School of Life Sciences, Toyo University, Japan) for a kind provision of plasmid DNA encoding Mrp from A. flavithermus WK1. JS is a recipient of a DOC Fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology, Austria.","publisher":"eLife Sciences Publications","department":[{"_id":"LeSa"}],"publication_status":"published"},{"file_date_updated":"2020-07-30T13:04:55Z","date_created":"2020-07-23T09:51:28Z","date_updated":"2023-09-07T13:13:27Z","author":[{"last_name":"Grah","first_name":"Rok","orcid":"0000-0003-2539-3560","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","full_name":"Grah, Rok"}],"related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"7675"},{"id":"7569","relation":"part_of_dissertation","status":"public"},{"id":"7652","relation":"part_of_dissertation","status":"public"}]},"publication_status":"published","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"publisher":"Institute of Science and Technology Austria","year":"2020","acknowledgement":"For the duration of his PhD, Rok was a recipient of a DOC fellowship of the Austrian Academy of Sciences.","month":"07","publication_identifier":{"issn":["2663-337X"]},"supervisor":[{"full_name":"Guet, Calin C","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6220-2052","first_name":"Calin C","last_name":"Guet"},{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik","first_name":"Gašper"}],"degree_awarded":"PhD","language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:8155","project":[{"name":"Biophysically realistic genotype-phenotype maps for regulatory networks","_id":"267C84F4-B435-11E9-9278-68D0E5697425"}],"oa":1,"abstract":[{"lang":"eng","text":"In the thesis we focus on the interplay of the biophysics and evolution of gene regulation. We start by addressing how the type of prokaryotic gene regulation – activation and repression – affects spurious binding to DNA, also known as\r\ntranscriptional crosstalk. We propose that regulatory interference caused by excess regulatory proteins in the dense cellular medium – global crosstalk – could be a factor in determining which type of gene regulatory network is evolutionarily preferred. Next,we use a normative approach in eukaryotic gene regulation to describe minimal\r\nnon-equilibrium enhancer models that optimize so-called regulatory phenotypes. We find a class of models that differ from standard thermodynamic equilibrium models by a single parameter that notably increases the regulatory performance. Next chapter addresses the question of genotype-phenotype-fitness maps of higher dimensional phenotypes. We show that our biophysically realistic approach allows us to understand how the mechanisms of promoter function constrain genotypephenotype maps, and how they affect the evolutionary trajectories of promoters.\r\nIn the last chapter we ask whether the intrinsic instability of gene duplication and amplification provides a generic alternative to canonical gene regulation. Using mathematical modeling, we show that amplifications can tune gene expression in many environments, including those where transcription factor-based schemes are\r\nhard to evolve or maintain. "}],"alternative_title":["ISTA Thesis"],"type":"dissertation","oa_version":"Published Version","file":[{"success":1,"date_created":"2020-07-27T12:00:07Z","date_updated":"2020-07-27T12:00:07Z","file_id":"8176","relation":"main_file","creator":"rgrah","content_type":"application/pdf","file_size":16638998,"access_level":"open_access","file_name":"Thesis_RokGrah_200727_convertedNew.pdf"},{"relation":"main_file","file_id":"8177","date_created":"2020-07-27T12:02:23Z","date_updated":"2020-07-30T13:04:55Z","access_level":"closed","file_name":"Thesis_new.zip","content_type":"application/zip","file_size":347459978,"creator":"rgrah"}],"title":"Gene regulation across scales – how biophysical constraints shape evolution","status":"public","ddc":["530","570"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8155","day":"24","article_processing_charge":"No","has_accepted_license":"1","date_published":"2020-07-24T00:00:00Z","page":"310","citation":{"short":"R. Grah, Gene Regulation across Scales – How Biophysical Constraints Shape Evolution, Institute of Science and Technology Austria, 2020.","mla":"Grah, Rok. Gene Regulation across Scales – How Biophysical Constraints Shape Evolution. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8155.","chicago":"Grah, Rok. “Gene Regulation across Scales – How Biophysical Constraints Shape Evolution.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8155.","ama":"Grah R. Gene regulation across scales – how biophysical constraints shape evolution. 2020. doi:10.15479/AT:ISTA:8155","apa":"Grah, R. (2020). Gene regulation across scales – how biophysical constraints shape evolution. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8155","ieee":"R. Grah, “Gene regulation across scales – how biophysical constraints shape evolution,” Institute of Science and Technology Austria, 2020.","ista":"Grah R. 2020. Gene regulation across scales – how biophysical constraints shape evolution. Institute of Science and Technology Austria."}},{"scopus_import":"1","day":"08","article_processing_charge":"No","article_type":"letter_note","page":"37-40","publication":"Plant Physiology","citation":{"mla":"Han, Huibin, et al. “SCF TIR1/AFB Auxin Signaling for Bending Termination during Shoot Gravitropism.” Plant Physiology, vol. 183, no. 5, American Society of Plant Biologists, 2020, pp. 37–40, doi:10.1104/pp.20.00212.","short":"H. Han, H. Rakusova, I. Verstraeten, Y. Zhang, J. Friml, Plant Physiology 183 (2020) 37–40.","chicago":"Han, Huibin, Hana Rakusova, Inge Verstraeten, Yuzhou Zhang, and Jiří Friml. “SCF TIR1/AFB Auxin Signaling for Bending Termination during Shoot Gravitropism.” Plant Physiology. American Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00212.","ama":"Han H, Rakusova H, Verstraeten I, Zhang Y, Friml J. SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism. Plant Physiology. 2020;183(5):37-40. doi:10.1104/pp.20.00212","ista":"Han H, Rakusova H, Verstraeten I, Zhang Y, Friml J. 2020. SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism. Plant Physiology. 183(5), 37–40.","apa":"Han, H., Rakusova, H., Verstraeten, I., Zhang, Y., & Friml, J. (2020). SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.20.00212","ieee":"H. Han, H. Rakusova, I. Verstraeten, Y. Zhang, and J. Friml, “SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism,” Plant Physiology, vol. 183, no. 5. American Society of Plant Biologists, pp. 37–40, 2020."},"date_published":"2020-05-08T00:00:00Z","type":"journal_article","issue":"5","title":"SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism","status":"public","intvolume":" 183","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7643","oa_version":"Published Version","month":"05","publication_identifier":{"eissn":["1532-2548"],"issn":["0032-0889"]},"quality_controlled":"1","isi":1,"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1104/pp.20.00212"}],"external_id":{"isi":["000536641800018"],"pmid":["32107280"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1104/pp.20.00212","ec_funded":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"American Society of Plant Biologists","year":"2020","acknowledgement":"This work was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation Programme (ERC grant agreement number 742985), and the Austrian Science Fund (FWF, grant number I 3630-B25) to JF. HH is supported by the China Scholarship Council (CSC scholarship). ","pmid":1,"date_created":"2020-04-06T10:06:40Z","date_updated":"2023-09-07T13:13:04Z","volume":183,"author":[{"id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han","first_name":"Huibin","full_name":"Han, Huibin"},{"full_name":"Rakusova, Hana","id":"4CAAA450-78D2-11EA-8E57-B40A396E08BA","last_name":"Rakusova","first_name":"Hana"},{"first_name":"Inge","last_name":"Verstraeten","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7241-2328","full_name":"Verstraeten, Inge"},{"last_name":"Zhang","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Yuzhou"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"8589"}]}},{"type":"preprint","abstract":[{"lang":"eng","text":"In prokaryotes, thermodynamic models of gene regulation provide a highly quantitative mapping from promoter sequences to gene expression levels that is compatible with in vivo and in vitro bio-physical measurements. Such concordance has not been achieved for models of enhancer function in eukaryotes. In equilibrium models, it is difficult to reconcile the reported short transcription factor (TF) residence times on the DNA with the high specificity of regulation. In non-equilibrium models, progress is difficult due to an explosion in the number of parameters. Here, we navigate this complexity by looking for minimal non-equilibrium enhancer models that yield desired regulatory phenotypes: low TF residence time, high specificity and tunable cooperativity. We find that a single extra parameter, interpretable as the “linking rate” by which bound TFs interact with Mediator components, enables our models to escape equilibrium bounds and access optimal regulatory phenotypes, while remaining consistent with the reported phenomenology and simple enough to be inferred from upcoming experiments. We further find that high specificity in non-equilibrium models is in a tradeoff with gene expression noise, predicting bursty dynamics — an experimentally-observed hallmark of eukaryotic transcription. By drastically reducing the vast parameter space to a much smaller subspace that optimally realizes biological function prior to inference from data, our normative approach holds promise for mathematical models in systems biology."}],"publisher":"Cold Spring Harbor Laboratory","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"status":"public","publication_status":"published","title":"Normative models of enhancer function","_id":"7675","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2020","oa_version":"Preprint","date_updated":"2023-09-07T13:13:26Z","date_created":"2020-04-23T10:12:51Z","related_material":{"record":[{"id":"8155","status":"public","relation":"dissertation_contains"}]},"author":[{"full_name":"Grah, Rok","last_name":"Grah","first_name":"Rok","orcid":"0000-0003-2539-3560","id":"483E70DE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Zoller, Benjamin","first_name":"Benjamin","last_name":"Zoller"},{"full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","last_name":"Tkačik","first_name":"Gašper"}],"article_processing_charge":"No","month":"04","day":"09","project":[{"grant_number":"RGP0034/2018","_id":"2665AAFE-B435-11E9-9278-68D0E5697425","name":"Can evolution minimize spurious signaling crosstalk to reach optimal performance?"},{"_id":"267C84F4-B435-11E9-9278-68D0E5697425","name":"Biophysically realistic genotype-phenotype maps for regulatory networks"}],"citation":{"chicago":"Grah, Rok, Benjamin Zoller, and Gašper Tkačik. “Normative Models of Enhancer Function.” BioRxiv. Cold Spring Harbor Laboratory, 2020. https://doi.org/10.1101/2020.04.08.029405.","mla":"Grah, Rok, et al. “Normative Models of Enhancer Function.” BioRxiv, Cold Spring Harbor Laboratory, 2020, doi:10.1101/2020.04.08.029405.","short":"R. Grah, B. Zoller, G. Tkačik, BioRxiv (2020).","ista":"Grah R, Zoller B, Tkačik G. 2020. Normative models of enhancer function. bioRxiv, 10.1101/2020.04.08.029405.","ieee":"R. Grah, B. Zoller, and G. Tkačik, “Normative models of enhancer function,” bioRxiv. Cold Spring Harbor Laboratory, 2020.","apa":"Grah, R., Zoller, B., & Tkačik, G. (2020). Normative models of enhancer function. bioRxiv. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2020.04.08.029405","ama":"Grah R, Zoller B, Tkačik G. Normative models of enhancer function. bioRxiv. 2020. doi:10.1101/2020.04.08.029405"},"main_file_link":[{"url":"https://doi.org/10.1101/2020.04.08.029405 ","open_access":"1"}],"oa":1,"publication":"bioRxiv","language":[{"iso":"eng"}],"date_published":"2020-04-09T00:00:00Z","doi":"10.1101/2020.04.08.029405"},{"page":"155","citation":{"ista":"Ölsböck K. 2020. The hole system of triangulated shapes. Institute of Science and Technology Austria.","apa":"Ölsböck, K. (2020). The hole system of triangulated shapes. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7460","ieee":"K. Ölsböck, “The hole system of triangulated shapes,” Institute of Science and Technology Austria, 2020.","ama":"Ölsböck K. The hole system of triangulated shapes. 2020. doi:10.15479/AT:ISTA:7460","chicago":"Ölsböck, Katharina. “The Hole System of Triangulated Shapes.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7460.","mla":"Ölsböck, Katharina. The Hole System of Triangulated Shapes. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7460.","short":"K. Ölsböck, The Hole System of Triangulated Shapes, Institute of Science and Technology Austria, 2020."},"date_published":"2020-02-10T00:00:00Z","keyword":["shape reconstruction","hole manipulation","ordered complexes","Alpha complex","Wrap complex","computational topology","Bregman geometry"],"day":"10","has_accepted_license":"1","article_processing_charge":"No","ddc":["514"],"title":"The hole system of triangulated shapes","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7460","oa_version":"Published Version","file":[{"creator":"koelsboe","file_size":76195184,"content_type":"application/pdf","access_level":"open_access","file_name":"thesis_ist-final_noack.pdf","checksum":"1df9f8c530b443c0e63a3f2e4fde412e","date_updated":"2020-07-14T12:47:58Z","date_created":"2020-02-06T14:43:54Z","file_id":"7461","relation":"main_file"},{"file_id":"7462","relation":"source_file","checksum":"7a52383c812b0be64d3826546509e5a4","date_updated":"2020-07-14T12:47:58Z","date_created":"2020-02-06T14:52:45Z","access_level":"closed","description":"latex source files, figures","file_name":"latex-files.zip","creator":"koelsboe","file_size":122103715,"content_type":"application/x-zip-compressed"}],"alternative_title":["ISTA Thesis"],"type":"dissertation","abstract":[{"text":"Many methods for the reconstruction of shapes from sets of points produce ordered simplicial complexes, which are collections of vertices, edges, triangles, and their higher-dimensional analogues, called simplices, in which every simplex gets assigned a real value measuring its size. This thesis studies ordered simplicial complexes, with a focus on their topology, which reflects the connectedness of the represented shapes and the presence of holes. We are interested both in understanding better the structure of these complexes, as well as in developing algorithms for applications.\r\n\r\nFor the Delaunay triangulation, the most popular measure for a simplex is the radius of the smallest empty circumsphere. Based on it, we revisit Alpha and Wrap complexes and experimentally determine their probabilistic properties for random data. Also, we prove the existence of tri-partitions, propose algorithms to open and close holes, and extend the concepts from Euclidean to Bregman geometries.","lang":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","image":"/images/cc_by_nc_sa.png","short":"CC BY-NC-SA (4.0)"},"supervisor":[{"last_name":"Edelsbrunner","first_name":"Herbert","orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","full_name":"Edelsbrunner, Herbert"}],"degree_awarded":"PhD","language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:7460","month":"02","publication_identifier":{"issn":["2663-337X"]},"publication_status":"published","department":[{"_id":"HeEd"},{"_id":"GradSch"}],"publisher":"Institute of Science and Technology Austria","year":"2020","date_updated":"2023-09-07T13:15:30Z","date_created":"2020-02-06T14:56:53Z","author":[{"first_name":"Katharina","last_name":"Ölsböck","id":"4D4AA390-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4672-8297","full_name":"Ölsböck, Katharina"}],"related_material":{"record":[{"id":"6608","status":"public","relation":"part_of_dissertation"}]},"file_date_updated":"2020-07-14T12:47:58Z"},{"type":"dissertation","alternative_title":["ISTA Thesis"],"abstract":[{"lang":"eng","text":"A search problem lies in the complexity class FNP if a solution to the given instance of the problem can be verified efficiently. The complexity class TFNP consists of all search problems in FNP that are total in the sense that a solution is guaranteed to exist. TFNP contains a host of interesting problems from fields such as algorithmic game theory, computational topology, number theory and combinatorics. Since TFNP is a semantic class, it is unlikely to have a complete problem. Instead, one studies its syntactic subclasses which are defined based on the combinatorial principle used to argue totality. Of particular interest is the subclass PPAD, which contains important problems\r\nlike computing Nash equilibrium for bimatrix games and computational counterparts of several fixed-point theorems as complete. In the thesis, we undertake the study of averagecase hardness of TFNP, and in particular its subclass PPAD.\r\nAlmost nothing was known about average-case hardness of PPAD before a series of recent results showed how to achieve it using a cryptographic primitive called program obfuscation.\r\nHowever, it is currently not known how to construct program obfuscation from standard cryptographic assumptions. Therefore, it is desirable to relax the assumption under which average-case hardness of PPAD can be shown. In the thesis we take a step in this direction. First, we show that assuming the (average-case) hardness of a numbertheoretic\r\nproblem related to factoring of integers, which we call Iterated-Squaring, PPAD is hard-on-average in the random-oracle model. Then we strengthen this result to show that the average-case hardness of PPAD reduces to the (adaptive) soundness of the Fiat-Shamir Transform, a well-known technique used to compile a public-coin interactive protocol into a non-interactive one. As a corollary, we obtain average-case hardness for PPAD in the random-oracle model assuming the worst-case hardness of #SAT. Moreover, the above results can all be strengthened to obtain average-case hardness for the class CLS ⊆ PPAD.\r\nOur main technical contribution is constructing incrementally-verifiable procedures for computing Iterated-Squaring and #SAT. By incrementally-verifiable, we mean that every intermediate state of the computation includes a proof of its correctness, and the proof can be updated and verified in polynomial time. Previous constructions of such procedures relied on strong, non-standard assumptions. Instead, we introduce a technique called recursive proof-merging to obtain the same from weaker assumptions. "}],"_id":"7896","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"On the average-case hardness of total search problems","ddc":["000"],"file":[{"date_updated":"2020-07-14T12:48:04Z","date_created":"2020-05-26T14:08:13Z","checksum":"b39e2e1c376f5819b823fb7077491c64","file_id":"7897","relation":"main_file","creator":"dernst","file_size":1622742,"content_type":"application/pdf","file_name":"2020_Thesis_Kamath.pdf","access_level":"open_access"},{"access_level":"closed","file_name":"Thesis_Kamath.zip","creator":"dernst","content_type":"application/x-zip-compressed","file_size":15301529,"file_id":"7898","relation":"source_file","checksum":"8b26ba729c1a85ac6bea775f5d73cdc7","date_updated":"2020-07-14T12:48:04Z","date_created":"2020-05-26T14:08:23Z"}],"oa_version":"Published Version","has_accepted_license":"1","article_processing_charge":"No","day":"25","citation":{"ama":"Kamath Hosdurg C. On the average-case hardness of total search problems. 2020. doi:10.15479/AT:ISTA:7896","ieee":"C. Kamath Hosdurg, “On the average-case hardness of total search problems,” Institute of Science and Technology Austria, 2020.","apa":"Kamath Hosdurg, C. (2020). On the average-case hardness of total search problems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7896","ista":"Kamath Hosdurg C. 2020. On the average-case hardness of total search problems. Institute of Science and Technology Austria.","short":"C. Kamath Hosdurg, On the Average-Case Hardness of Total Search Problems, Institute of Science and Technology Austria, 2020.","mla":"Kamath Hosdurg, Chethan. On the Average-Case Hardness of Total Search Problems. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7896.","chicago":"Kamath Hosdurg, Chethan. “On the Average-Case Hardness of Total Search Problems.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7896."},"page":"126","date_published":"2020-05-25T00:00:00Z","ec_funded":1,"file_date_updated":"2020-07-14T12:48:04Z","year":"2020","publisher":"Institute of Science and Technology Austria","department":[{"_id":"KrPi"}],"publication_status":"published","related_material":{"record":[{"id":"6677","status":"public","relation":"part_of_dissertation"}]},"author":[{"id":"4BD3F30E-F248-11E8-B48F-1D18A9856A87","last_name":"Kamath Hosdurg","first_name":"Chethan","full_name":"Kamath Hosdurg, Chethan"}],"date_updated":"2023-09-07T13:15:55Z","date_created":"2020-05-26T14:08:55Z","publication_identifier":{"issn":["2663-337X"]},"month":"05","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"grant_number":"259668","_id":"258C570E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Provable Security for Physical Cryptography"},{"grant_number":"682815","_id":"258AA5B2-B435-11E9-9278-68D0E5697425","name":"Teaching Old Crypto New Tricks","call_identifier":"H2020"}],"doi":"10.15479/AT:ISTA:7896","language":[{"iso":"eng"}],"degree_awarded":"PhD","supervisor":[{"last_name":"Pietrzak","first_name":"Krzysztof Z","orcid":"0000-0002-9139-1654","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","full_name":"Pietrzak, Krzysztof Z"}]},{"date_published":"2020-03-01T00:00:00Z","citation":{"mla":"Royer, Amélie, and Christoph Lampert. “Localizing Grouped Instances for Efficient Detection in Low-Resource Scenarios.” IEEE Winter Conference on Applications of Computer Vision, 1716–1725, IEEE, 2020, doi:10.1109/WACV45572.2020.9093288.","short":"A. Royer, C. Lampert, in:, IEEE Winter Conference on Applications of Computer Vision, IEEE, 2020.","chicago":"Royer, Amélie, and Christoph Lampert. “Localizing Grouped Instances for Efficient Detection in Low-Resource Scenarios.” In IEEE Winter Conference on Applications of Computer Vision. IEEE, 2020. https://doi.org/10.1109/WACV45572.2020.9093288.","ama":"Royer A, Lampert C. Localizing grouped instances for efficient detection in low-resource scenarios. In: IEEE Winter Conference on Applications of Computer Vision. IEEE; 2020. doi:10.1109/WACV45572.2020.9093288","ista":"Royer A, Lampert C. 2020. Localizing grouped instances for efficient detection in low-resource scenarios. IEEE Winter Conference on Applications of Computer Vision. WACV: Winter Conference on Applications of Computer Vision, 1716–1725.","apa":"Royer, A., & Lampert, C. (2020). Localizing grouped instances for efficient detection in low-resource scenarios. In IEEE Winter Conference on Applications of Computer Vision. Snowmass Village, CO, United States: IEEE. https://doi.org/10.1109/WACV45572.2020.9093288","ieee":"A. Royer and C. Lampert, “Localizing grouped instances for efficient detection in low-resource scenarios,” in IEEE Winter Conference on Applications of Computer Vision, Snowmass Village, CO, United States, 2020."},"publication":"IEEE Winter Conference on Applications of Computer Vision","article_processing_charge":"No","day":"01","scopus_import":1,"oa_version":"Preprint","title":"Localizing grouped instances for efficient detection in low-resource scenarios","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"7936","abstract":[{"lang":"eng","text":"State-of-the-art detection systems are generally evaluated on their ability to exhaustively retrieve objects densely distributed in the image, across a wide variety of appearances and semantic categories. Orthogonal to this, many real-life object detection applications, for example in remote sensing, instead require dealing with large images that contain only a few small objects of a single class, scattered heterogeneously across the space. In addition, they are often subject to strict computational constraints, such as limited battery capacity and computing power.To tackle these more practical scenarios, we propose a novel flexible detection scheme that efficiently adapts to variable object sizes and densities: We rely on a sequence of detection stages, each of which has the ability to predict groups of objects as well as individuals. Similar to a detection cascade, this multi-stage architecture spares computational effort by discarding large irrelevant regions of the image early during the detection process. The ability to group objects provides further computational and memory savings, as it allows working with lower image resolutions in early stages, where groups are more easily detected than individuals, as they are more salient. We report experimental results on two aerial image datasets, and show that the proposed method is as accurate yet computationally more efficient than standard single-shot detectors, consistently across three different backbone architectures."}],"type":"conference","language":[{"iso":"eng"}],"doi":"10.1109/WACV45572.2020.9093288","conference":{"name":"WACV: Winter Conference on Applications of Computer Vision","end_date":"2020-03-05","start_date":"2020-03-01","location":" Snowmass Village, CO, United States"},"quality_controlled":"1","oa":1,"external_id":{"arxiv":["2004.12623"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2004.12623"}],"publication_identifier":{"isbn":["9781728165530"]},"month":"03","date_updated":"2023-09-07T13:16:17Z","date_created":"2020-06-07T22:00:53Z","related_material":{"record":[{"id":"8331","relation":"dissertation_contains","status":"deleted"},{"relation":"dissertation_contains","status":"public","id":"8390"}]},"author":[{"full_name":"Royer, Amélie","orcid":"0000-0002-8407-0705","id":"3811D890-F248-11E8-B48F-1D18A9856A87","last_name":"Royer","first_name":"Amélie"},{"full_name":"Lampert, Christoph","first_name":"Christoph","last_name":"Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887"}],"department":[{"_id":"ChLa"}],"publisher":"IEEE","publication_status":"published","year":"2020","article_number":"1716-1725"},{"oa_version":"Preprint","title":"A flexible selection scheme for minimum-effort transfer learning","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"7937","abstract":[{"lang":"eng","text":"Fine-tuning is a popular way of exploiting knowledge contained in a pre-trained convolutional network for a new visual recognition task. However, the orthogonal setting of transferring knowledge from a pretrained network to a visually different yet semantically close source is rarely considered: This commonly happens with real-life data, which is not necessarily as clean as the training source (noise, geometric transformations, different modalities, etc.).To tackle such scenarios, we introduce a new, generalized form of fine-tuning, called flex-tuning, in which any individual unit (e.g. layer) of a network can be tuned, and the most promising one is chosen automatically. In order to make the method appealing for practical use, we propose two lightweight and faster selection procedures that prove to be good approximations in practice. We study these selection criteria empirically across a variety of domain shifts and data scarcity scenarios, and show that fine-tuning individual units, despite its simplicity, yields very good results as an adaptation technique. As it turns out, in contrast to common practice, rather than the last fully-connected unit it is best to tune an intermediate or early one in many domain- shift scenarios, which is accurately detected by flex-tuning."}],"type":"conference","date_published":"2020-03-01T00:00:00Z","publication":"2020 IEEE Winter Conference on Applications of Computer Vision","citation":{"ama":"Royer A, Lampert C. A flexible selection scheme for minimum-effort transfer learning. In: 2020 IEEE Winter Conference on Applications of Computer Vision. IEEE; 2020. doi:10.1109/WACV45572.2020.9093635","ista":"Royer A, Lampert C. 2020. A flexible selection scheme for minimum-effort transfer learning. 2020 IEEE Winter Conference on Applications of Computer Vision. WACV: Winter Conference on Applications of Computer Vision, 2180–2189.","ieee":"A. Royer and C. Lampert, “A flexible selection scheme for minimum-effort transfer learning,” in 2020 IEEE Winter Conference on Applications of Computer Vision, Snowmass Village, CO, United States, 2020.","apa":"Royer, A., & Lampert, C. (2020). A flexible selection scheme for minimum-effort transfer learning. In 2020 IEEE Winter Conference on Applications of Computer Vision. Snowmass Village, CO, United States: IEEE. https://doi.org/10.1109/WACV45572.2020.9093635","mla":"Royer, Amélie, and Christoph Lampert. “A Flexible Selection Scheme for Minimum-Effort Transfer Learning.” 2020 IEEE Winter Conference on Applications of Computer Vision, 2180–2189, IEEE, 2020, doi:10.1109/WACV45572.2020.9093635.","short":"A. Royer, C. Lampert, in:, 2020 IEEE Winter Conference on Applications of Computer Vision, IEEE, 2020.","chicago":"Royer, Amélie, and Christoph Lampert. “A Flexible Selection Scheme for Minimum-Effort Transfer Learning.” In 2020 IEEE Winter Conference on Applications of Computer Vision. IEEE, 2020. https://doi.org/10.1109/WACV45572.2020.9093635."},"day":"01","article_processing_charge":"No","scopus_import":"1","date_updated":"2023-09-07T13:16:17Z","date_created":"2020-06-07T22:00:53Z","author":[{"full_name":"Royer, Amélie","id":"3811D890-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8407-0705","first_name":"Amélie","last_name":"Royer"},{"full_name":"Lampert, Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","first_name":"Christoph","last_name":"Lampert"}],"related_material":{"record":[{"status":"deleted","relation":"dissertation_contains","id":"8331"},{"id":"8390","status":"public","relation":"dissertation_contains"}]},"publication_status":"published","department":[{"_id":"ChLa"}],"publisher":"IEEE","year":"2020","article_number":"2180-2189","language":[{"iso":"eng"}],"conference":{"name":"WACV: Winter Conference on Applications of Computer Vision","start_date":"2020-03-01","location":"Snowmass Village, CO, United States","end_date":"2020-03-05"},"doi":"10.1109/WACV45572.2020.9093635","quality_controlled":"1","main_file_link":[{"url":"http://arxiv.org/abs/2008.11995","open_access":"1"}],"external_id":{"arxiv":["2008.11995"]},"oa":1,"month":"03","publication_identifier":{"isbn":["9781728165530"]}},{"publication_identifier":{"isbn":["9783030306717"]},"month":"01","doi":"10.1007/978-3-030-30671-7_3","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1711.05139"}],"external_id":{"arxiv":["1711.05139"]},"oa":1,"quality_controlled":"1","related_material":{"record":[{"relation":"dissertation_contains","status":"deleted","id":"8331"},{"relation":"dissertation_contains","status":"public","id":"8390"}]},"author":[{"first_name":"Amélie","last_name":"Royer","id":"3811D890-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8407-0705","full_name":"Royer, Amélie"},{"full_name":"Bousmalis, Konstantinos","first_name":"Konstantinos","last_name":"Bousmalis"},{"last_name":"Gouws","first_name":"Stephan","full_name":"Gouws, Stephan"},{"full_name":"Bertsch, Fred","first_name":"Fred","last_name":"Bertsch"},{"first_name":"Inbar","last_name":"Mosseri","full_name":"Mosseri, Inbar"},{"last_name":"Cole","first_name":"Forrester","full_name":"Cole, Forrester"},{"last_name":"Murphy","first_name":"Kevin","full_name":"Murphy, Kevin"}],"date_updated":"2023-09-07T13:16:18Z","date_created":"2020-07-05T22:00:46Z","year":"2020","editor":[{"full_name":"Singh, Richa","last_name":"Singh","first_name":"Richa"},{"first_name":"Mayank","last_name":"Vatsa","full_name":"Vatsa, Mayank"},{"last_name":"Patel","first_name":"Vishal M.","full_name":"Patel, Vishal M."},{"last_name":"Ratha","first_name":"Nalini","full_name":"Ratha, Nalini"}],"department":[{"_id":"ChLa"}],"publisher":"Springer Nature","publication_status":"published","article_processing_charge":"No","day":"08","scopus_import":"1","date_published":"2020-01-08T00:00:00Z","citation":{"ieee":"A. Royer et al., “XGAN: Unsupervised image-to-image translation for many-to-many mappings,” in Domain Adaptation for Visual Understanding, R. Singh, M. Vatsa, V. M. Patel, and N. Ratha, Eds. Springer Nature, 2020, pp. 33–49.","apa":"Royer, A., Bousmalis, K., Gouws, S., Bertsch, F., Mosseri, I., Cole, F., & Murphy, K. (2020). XGAN: Unsupervised image-to-image translation for many-to-many mappings. In R. Singh, M. Vatsa, V. M. Patel, & N. Ratha (Eds.), Domain Adaptation for Visual Understanding (pp. 33–49). Springer Nature. https://doi.org/10.1007/978-3-030-30671-7_3","ista":"Royer A, Bousmalis K, Gouws S, Bertsch F, Mosseri I, Cole F, Murphy K. 2020.XGAN: Unsupervised image-to-image translation for many-to-many mappings. In: Domain Adaptation for Visual Understanding. , 33–49.","ama":"Royer A, Bousmalis K, Gouws S, et al. XGAN: Unsupervised image-to-image translation for many-to-many mappings. In: Singh R, Vatsa M, Patel VM, Ratha N, eds. Domain Adaptation for Visual Understanding. Springer Nature; 2020:33-49. doi:10.1007/978-3-030-30671-7_3","chicago":"Royer, Amélie, Konstantinos Bousmalis, Stephan Gouws, Fred Bertsch, Inbar Mosseri, Forrester Cole, and Kevin Murphy. “XGAN: Unsupervised Image-to-Image Translation for Many-to-Many Mappings.” In Domain Adaptation for Visual Understanding, edited by Richa Singh, Mayank Vatsa, Vishal M. Patel, and Nalini Ratha, 33–49. Springer Nature, 2020. https://doi.org/10.1007/978-3-030-30671-7_3.","short":"A. Royer, K. Bousmalis, S. Gouws, F. Bertsch, I. Mosseri, F. Cole, K. Murphy, in:, R. Singh, M. Vatsa, V.M. Patel, N. Ratha (Eds.), Domain Adaptation for Visual Understanding, Springer Nature, 2020, pp. 33–49.","mla":"Royer, Amélie, et al. “XGAN: Unsupervised Image-to-Image Translation for Many-to-Many Mappings.” Domain Adaptation for Visual Understanding, edited by Richa Singh et al., Springer Nature, 2020, pp. 33–49, doi:10.1007/978-3-030-30671-7_3."},"publication":"Domain Adaptation for Visual Understanding","page":"33-49","abstract":[{"text":"Image translation refers to the task of mapping images from a visual domain to another. Given two unpaired collections of images, we aim to learn a mapping between the corpus-level style of each collection, while preserving semantic content shared across the two domains. We introduce xgan, a dual adversarial auto-encoder, which captures a shared representation of the common domain semantic content in an unsupervised way, while jointly learning the domain-to-domain image translations in both directions. We exploit ideas from the domain adaptation literature and define a semantic consistency loss which encourages the learned embedding to preserve semantics shared across domains. We report promising qualitative results for the task of face-to-cartoon translation. The cartoon dataset we collected for this purpose, “CartoonSet”, is also publicly available as a new benchmark for semantic style transfer at https://google.github.io/cartoonset/index.html.","lang":"eng"}],"type":"book_chapter","oa_version":"Preprint","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8092","status":"public","title":"XGAN: Unsupervised image-to-image translation for many-to-many mappings"},{"file_date_updated":"2020-07-14T12:48:05Z","license":"https://creativecommons.org/licenses/by-sa/4.0/","author":[{"last_name":"Masárová","first_name":"Zuzana","orcid":"0000-0002-6660-1322","id":"45CFE238-F248-11E8-B48F-1D18A9856A87","full_name":"Masárová, Zuzana"}],"related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"7950"},{"id":"5986","relation":"part_of_dissertation","status":"public"}]},"date_created":"2020-06-08T00:49:46Z","date_updated":"2023-09-07T13:17:37Z","year":"2020","publication_status":"published","publisher":"Institute of Science and Technology Austria","department":[{"_id":"HeEd"},{"_id":"UlWa"}],"month":"06","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-005-3"]},"doi":"10.15479/AT:ISTA:7944","degree_awarded":"PhD","supervisor":[{"last_name":"Wagner","first_name":"Uli","orcid":"0000-0002-1494-0568","id":"36690CA2-F248-11E8-B48F-1D18A9856A87","full_name":"Wagner, Uli"},{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9823-6833","first_name":"Herbert","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert"}],"language":[{"iso":"eng"}],"tmp":{"short":"CC BY-SA (4.0)","image":"/images/cc_by_sa.png","name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode"},"oa":1,"abstract":[{"lang":"eng","text":"This thesis considers two examples of reconfiguration problems: flipping edges in edge-labelled triangulations of planar point sets and swapping labelled tokens placed on vertices of a graph. In both cases the studied structures – all the triangulations of a given point set or all token placements on a given graph – can be thought of as vertices of the so-called reconfiguration graph, in which two vertices are adjacent if the corresponding structures differ by a single elementary operation – by a flip of a diagonal in a triangulation or by a swap of tokens on adjacent vertices, respectively. We study the reconfiguration of one instance of a structure into another via (shortest) paths in the reconfiguration graph.\r\n\r\nFor triangulations of point sets in which each edge has a unique label and a flip transfers the label from the removed edge to the new edge, we prove a polynomial-time testable condition, called the Orbit Theorem, that characterizes when two triangulations of the same point set lie in the same connected component of the reconfiguration graph. The condition was first conjectured by Bose, Lubiw, Pathak and Verdonschot. We additionally provide a polynomial time algorithm that computes a reconfiguring flip sequence, if it exists. Our proof of the Orbit Theorem uses topological properties of a certain high-dimensional cell complex that has the usual reconfiguration graph as its 1-skeleton.\r\n\r\nIn the context of token swapping on a tree graph, we make partial progress on the problem of finding shortest reconfiguration sequences. We disprove the so-called Happy Leaf Conjecture and demonstrate the importance of swapping tokens that are already placed at the correct vertices. We also prove that a generalization of the problem to weighted coloured token swapping is NP-hard on trees but solvable in polynomial time on paths and stars."}],"type":"dissertation","alternative_title":["ISTA Thesis"],"file":[{"content_type":"application/pdf","file_size":13661779,"creator":"zmasarov","file_name":"THESIS_Zuzka_Masarova.pdf","access_level":"open_access","date_updated":"2020-07-14T12:48:05Z","date_created":"2020-06-08T00:34:00Z","checksum":"df688bc5a82b50baee0b99d25fc7b7f0","relation":"main_file","file_id":"7945"},{"creator":"zmasarov","content_type":"application/zip","file_size":32184006,"file_name":"THESIS_Zuzka_Masarova_SOURCE_FILES.zip","access_level":"closed","date_created":"2020-06-08T00:35:30Z","date_updated":"2020-07-14T12:48:05Z","checksum":"45341a35b8f5529c74010b7af43ac188","file_id":"7946","relation":"source_file"}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7944","status":"public","title":"Reconfiguration problems","ddc":["516","514"],"day":"09","has_accepted_license":"1","article_processing_charge":"No","keyword":["reconfiguration","reconfiguration graph","triangulations","flip","constrained triangulations","shellability","piecewise-linear balls","token swapping","trees","coloured weighted token swapping"],"date_published":"2020-06-09T00:00:00Z","citation":{"ieee":"Z. Masárová, “Reconfiguration problems,” Institute of Science and Technology Austria, 2020.","apa":"Masárová, Z. (2020). Reconfiguration problems. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7944","ista":"Masárová Z. 2020. Reconfiguration problems. Institute of Science and Technology Austria.","ama":"Masárová Z. Reconfiguration problems. 2020. doi:10.15479/AT:ISTA:7944","chicago":"Masárová, Zuzana. “Reconfiguration Problems.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7944.","short":"Z. Masárová, Reconfiguration Problems, Institute of Science and Technology Austria, 2020.","mla":"Masárová, Zuzana. Reconfiguration Problems. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7944."},"page":"160"}]