[{"page":"66-72","article_type":"original","citation":{"ama":"Bougault C, Ayala I, Vollmer W, Simorre J-P, Schanda P. Studying intact bacterial peptidoglycan by proton-detected NMR spectroscopy at 100 kHz MAS frequency. Journal of Structural Biology. 2019;206(1):66-72. doi:10.1016/j.jsb.2018.07.009","ista":"Bougault C, Ayala I, Vollmer W, Simorre J-P, Schanda P. 2019. Studying intact bacterial peptidoglycan by proton-detected NMR spectroscopy at 100 kHz MAS frequency. Journal of Structural Biology. 206(1), 66–72.","apa":"Bougault, C., Ayala, I., Vollmer, W., Simorre, J.-P., & Schanda, P. (2019). Studying intact bacterial peptidoglycan by proton-detected NMR spectroscopy at 100 kHz MAS frequency. Journal of Structural Biology. Elsevier. https://doi.org/10.1016/j.jsb.2018.07.009","ieee":"C. Bougault, I. Ayala, W. Vollmer, J.-P. Simorre, and P. Schanda, “Studying intact bacterial peptidoglycan by proton-detected NMR spectroscopy at 100 kHz MAS frequency,” Journal of Structural Biology, vol. 206, no. 1. Elsevier, pp. 66–72, 2019.","mla":"Bougault, Catherine, et al. “Studying Intact Bacterial Peptidoglycan by Proton-Detected NMR Spectroscopy at 100 kHz MAS Frequency.” Journal of Structural Biology, vol. 206, no. 1, Elsevier, 2019, pp. 66–72, doi:10.1016/j.jsb.2018.07.009.","short":"C. Bougault, I. Ayala, W. Vollmer, J.-P. Simorre, P. Schanda, Journal of Structural Biology 206 (2019) 66–72.","chicago":"Bougault, Catherine, Isabel Ayala, Waldemar Vollmer, Jean-Pierre Simorre, and Paul Schanda. “Studying Intact Bacterial Peptidoglycan by Proton-Detected NMR Spectroscopy at 100 kHz MAS Frequency.” Journal of Structural Biology. Elsevier, 2019. https://doi.org/10.1016/j.jsb.2018.07.009."},"publication":"Journal of Structural Biology","date_published":"2019-04-01T00:00:00Z","keyword":["Structural Biology"],"article_processing_charge":"No","day":"01","intvolume":" 206","title":"Studying intact bacterial peptidoglycan by proton-detected NMR spectroscopy at 100 kHz MAS frequency","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8409","oa_version":"Submitted Version","type":"journal_article","issue":"1","abstract":[{"text":"The bacterial cell wall is composed of the peptidoglycan (PG), a large polymer that maintains the integrity of the bacterial cell. Due to its multi-gigadalton size, heterogeneity, and dynamics, atomic-resolution studies are inherently complex. Solid-state NMR is an important technique to gain insight into its structure, dynamics and interactions. Here, we explore the possibilities to study the PG with ultra-fast (100 kHz) magic-angle spinning NMR. We demonstrate that highly resolved spectra can be obtained, and show strategies to obtain site-specific resonance assignments and distance information. We also explore the use of proton-proton correlation experiments, thus opening the way for NMR studies of intact cell walls without the need for isotope labeling.","lang":"eng"}],"quality_controlled":"1","external_id":{"pmid":["30031884"]},"language":[{"iso":"eng"}],"doi":"10.1016/j.jsb.2018.07.009","publication_identifier":{"issn":["1047-8477"]},"month":"04","publisher":"Elsevier","publication_status":"published","pmid":1,"year":"2019","volume":206,"date_updated":"2021-01-12T08:19:05Z","date_created":"2020-09-17T10:29:10Z","author":[{"full_name":"Bougault, Catherine","first_name":"Catherine","last_name":"Bougault"},{"first_name":"Isabel","last_name":"Ayala","full_name":"Ayala, Isabel"},{"full_name":"Vollmer, Waldemar","last_name":"Vollmer","first_name":"Waldemar"},{"full_name":"Simorre, Jean-Pierre","last_name":"Simorre","first_name":"Jean-Pierre"},{"full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","first_name":"Paul"}],"extern":"1"},{"keyword":["Nuclear and High Energy Physics","Biophysics","Biochemistry","Condensed Matter Physics"],"publication_identifier":{"issn":["1090-7807"]},"article_processing_charge":"No","day":"01","month":"09","page":"180-186","article_type":"original","quality_controlled":"1","citation":{"apa":"Schanda, P. (2019). Relaxing with liquids and solids – A perspective on biomolecular dynamics. Journal of Magnetic Resonance. Elsevier. https://doi.org/10.1016/j.jmr.2019.07.025","ieee":"P. Schanda, “Relaxing with liquids and solids – A perspective on biomolecular dynamics,” Journal of Magnetic Resonance, vol. 306. Elsevier, pp. 180–186, 2019.","ista":"Schanda P. 2019. Relaxing with liquids and solids – A perspective on biomolecular dynamics. Journal of Magnetic Resonance. 306, 180–186.","ama":"Schanda P. Relaxing with liquids and solids – A perspective on biomolecular dynamics. Journal of Magnetic Resonance. 2019;306:180-186. doi:10.1016/j.jmr.2019.07.025","chicago":"Schanda, Paul. “Relaxing with Liquids and Solids – A Perspective on Biomolecular Dynamics.” Journal of Magnetic Resonance. Elsevier, 2019. https://doi.org/10.1016/j.jmr.2019.07.025.","short":"P. Schanda, Journal of Magnetic Resonance 306 (2019) 180–186.","mla":"Schanda, Paul. “Relaxing with Liquids and Solids – A Perspective on Biomolecular Dynamics.” Journal of Magnetic Resonance, vol. 306, Elsevier, 2019, pp. 180–86, doi:10.1016/j.jmr.2019.07.025."},"external_id":{"pmid":["31350165"]},"publication":"Journal of Magnetic Resonance","language":[{"iso":"eng"}],"date_published":"2019-09-01T00:00:00Z","doi":"10.1016/j.jmr.2019.07.025","type":"journal_article","extern":"1","intvolume":" 306","publisher":"Elsevier","title":"Relaxing with liquids and solids – A perspective on biomolecular dynamics","status":"public","publication_status":"published","pmid":1,"_id":"8407","year":"2019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":306,"oa_version":"Submitted Version","date_created":"2020-09-17T10:28:47Z","date_updated":"2021-01-12T08:19:04Z","author":[{"orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","first_name":"Paul","full_name":"Schanda, Paul"}]},{"oa_version":"Published Version","intvolume":" 20","title":"NMR for Biological Systems","status":"public","_id":"8410","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"2","type":"journal_article","date_published":"2019-01-21T00:00:00Z","page":"177-177","article_type":"letter_note","citation":{"mla":"Schanda, Paul, and Eduard Y. Chekmenev. “NMR for Biological Systems.” ChemPhysChem, vol. 20, no. 2, Wiley, 2019, pp. 177–177, doi:10.1002/cphc.201801100.","short":"P. Schanda, E.Y. Chekmenev, ChemPhysChem 20 (2019) 177–177.","chicago":"Schanda, Paul, and Eduard Y. Chekmenev. “NMR for Biological Systems.” ChemPhysChem. Wiley, 2019. https://doi.org/10.1002/cphc.201801100.","ama":"Schanda P, Chekmenev EY. NMR for Biological Systems. ChemPhysChem. 2019;20(2):177-177. doi:10.1002/cphc.201801100","ista":"Schanda P, Chekmenev EY. 2019. NMR for Biological Systems. ChemPhysChem. 20(2), 177–177.","apa":"Schanda, P., & Chekmenev, E. Y. (2019). NMR for Biological Systems. ChemPhysChem. Wiley. https://doi.org/10.1002/cphc.201801100","ieee":"P. Schanda and E. Y. Chekmenev, “NMR for Biological Systems,” ChemPhysChem, vol. 20, no. 2. Wiley, pp. 177–177, 2019."},"publication":"ChemPhysChem","article_processing_charge":"No","day":"21","volume":20,"date_updated":"2021-01-12T08:19:05Z","date_created":"2020-09-17T10:29:26Z","author":[{"full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","first_name":"Paul"},{"last_name":"Chekmenev","first_name":"Eduard Y.","full_name":"Chekmenev, Eduard Y."}],"publisher":"Wiley","publication_status":"published","pmid":1,"year":"2019","extern":"1","language":[{"iso":"eng"}],"doi":"10.1002/cphc.201801100","quality_controlled":"1","oa":1,"external_id":{"pmid":["30556633"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/cphc.201801100"}],"publication_identifier":{"issn":["1439-4235"]},"month":"01"},{"conference":{"name":"ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems","start_date":"2019-04-15","location":"Montreal, Canada","end_date":"2019-04-15"},"date_published":"2019-05-25T00:00:00Z","doi":"10.29007/bj1w","language":[{"iso":"eng"}],"publication":"EPiC Series in Computing","main_file_link":[{"open_access":"1","url":"https://easychair.org/publications/open/1gbP"}],"citation":{"chicago":"Althoff, Matthias, Stanley Bak, Marcelo Forets, Goran Frehse, Niklas Kochdumper, Rajarshi Ray, Christian Schilling, and Stefan Schupp. “ARCH-COMP19 Category Report: Continuous and Hybrid Systems with Linear Continuous Dynamics.” In EPiC Series in Computing, 61:14–40. EasyChair, 2019. https://doi.org/10.29007/bj1w.","short":"M. Althoff, S. Bak, M. Forets, G. Frehse, N. Kochdumper, R. Ray, C. Schilling, S. Schupp, in:, EPiC Series in Computing, EasyChair, 2019, pp. 14–40.","mla":"Althoff, Matthias, et al. “ARCH-COMP19 Category Report: Continuous and Hybrid Systems with Linear Continuous Dynamics.” EPiC Series in Computing, vol. 61, EasyChair, 2019, pp. 14–40, doi:10.29007/bj1w.","ieee":"M. Althoff et al., “ARCH-COMP19 Category Report: Continuous and hybrid systems with linear continuous dynamics,” in EPiC Series in Computing, Montreal, Canada, 2019, vol. 61, pp. 14–40.","apa":"Althoff, M., Bak, S., Forets, M., Frehse, G., Kochdumper, N., Ray, R., … Schupp, S. (2019). ARCH-COMP19 Category Report: Continuous and hybrid systems with linear continuous dynamics. In EPiC Series in Computing (Vol. 61, pp. 14–40). Montreal, Canada: EasyChair. https://doi.org/10.29007/bj1w","ista":"Althoff M, Bak S, Forets M, Frehse G, Kochdumper N, Ray R, Schilling C, Schupp S. 2019. ARCH-COMP19 Category Report: Continuous and hybrid systems with linear continuous dynamics. EPiC Series in Computing. ARCH: International Workshop on Applied Verification on Continuous and Hybrid Systems vol. 61, 14–40.","ama":"Althoff M, Bak S, Forets M, et al. ARCH-COMP19 Category Report: Continuous and hybrid systems with linear continuous dynamics. In: EPiC Series in Computing. Vol 61. EasyChair; 2019:14-40. doi:10.29007/bj1w"},"oa":1,"quality_controlled":"1","page":"14-40","month":"05","day":"25","article_processing_charge":"No","publication_identifier":{"eissn":["23987340"]},"author":[{"last_name":"Althoff","first_name":"Matthias","full_name":"Althoff, Matthias"},{"last_name":"Bak","first_name":"Stanley","full_name":"Bak, Stanley"},{"last_name":"Forets","first_name":"Marcelo","full_name":"Forets, Marcelo"},{"last_name":"Frehse","first_name":"Goran","full_name":"Frehse, Goran"},{"full_name":"Kochdumper, Niklas","last_name":"Kochdumper","first_name":"Niklas"},{"full_name":"Ray, Rajarshi","last_name":"Ray","first_name":"Rajarshi"},{"full_name":"Schilling, Christian","last_name":"Schilling","first_name":"Christian","orcid":"0000-0003-3658-1065","id":"3A2F4DCE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Stefan","last_name":"Schupp","full_name":"Schupp, Stefan"}],"date_updated":"2021-01-12T08:20:05Z","date_created":"2020-09-26T14:23:54Z","volume":61,"oa_version":"Published Version","year":"2019","_id":"8570","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","status":"public","title":"ARCH-COMP19 Category Report: Continuous and hybrid systems with linear continuous dynamics","intvolume":" 61","department":[{"_id":"ToHe"}],"publisher":"EasyChair","abstract":[{"lang":"eng","text":"This report presents the results of a friendly competition for formal verification of continuous and hybrid systems with linear continuous dynamics. The friendly competition took place as part of the workshop Applied Verification for Continuous and Hybrid Systems (ARCH) in 2019. In its third edition, seven tools have been applied to solve six different benchmark problems in the category for linear continuous dynamics (in alphabetical order): CORA, CORA/SX, HyDRA, Hylaa, JuliaReach, SpaceEx, and XSpeed. This report is a snapshot of the current landscape of tools and the types of benchmarks they are particularly suited for. Due to the diversity of problems, we are not ranking tools, yet the presented results provide one of the most complete assessments of tools for the safety verification of continuous and hybrid systems with linear continuous dynamics up to this date."}],"type":"conference"},{"quality_controlled":"1","oa":1,"main_file_link":[{"url":" https://doi.org/10.1002/cbic.201800633","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1002/cbic.201800633","month":"04","publication_identifier":{"issn":["1439-4227","1439-7633"]},"publication_status":"published","publisher":"Wiley","year":"2019","date_updated":"2023-02-23T13:46:48Z","date_created":"2021-01-19T10:59:14Z","volume":20,"author":[{"first_name":"May M","last_name":"Bakail","id":"FB3C3F8E-522F-11EA-B186-22963DDC885E","orcid":"0000-0002-9592-1587","full_name":"Bakail, May M"},{"full_name":"Rodriguez‐Marin, Silvia","first_name":"Silvia","last_name":"Rodriguez‐Marin"},{"last_name":"Hegedüs","first_name":"Zsófia","full_name":"Hegedüs, Zsófia"},{"full_name":"Perrin, Marie E.","last_name":"Perrin","first_name":"Marie E."},{"last_name":"Ochsenbein","first_name":"Françoise","full_name":"Ochsenbein, Françoise"},{"first_name":"Andrew J.","last_name":"Wilson","full_name":"Wilson, Andrew J."}],"extern":"1","article_type":"original","page":"891-895","publication":"ChemBioChem","citation":{"ieee":"M. M. Bakail, S. Rodriguez‐Marin, Z. Hegedüs, M. E. Perrin, F. Ochsenbein, and A. J. Wilson, “Recognition of ASF1 by using hydrocarbon‐constrained peptides,” ChemBioChem, vol. 20, no. 7. Wiley, pp. 891–895, 2019.","apa":"Bakail, M. M., Rodriguez‐Marin, S., Hegedüs, Z., Perrin, M. E., Ochsenbein, F., & Wilson, A. J. (2019). Recognition of ASF1 by using hydrocarbon‐constrained peptides. ChemBioChem. Wiley. https://doi.org/10.1002/cbic.201800633","ista":"Bakail MM, Rodriguez‐Marin S, Hegedüs Z, Perrin ME, Ochsenbein F, Wilson AJ. 2019. Recognition of ASF1 by using hydrocarbon‐constrained peptides. ChemBioChem. 20(7), 891–895.","ama":"Bakail MM, Rodriguez‐Marin S, Hegedüs Z, Perrin ME, Ochsenbein F, Wilson AJ. Recognition of ASF1 by using hydrocarbon‐constrained peptides. ChemBioChem. 2019;20(7):891-895. doi:10.1002/cbic.201800633","chicago":"Bakail, May M, Silvia Rodriguez‐Marin, Zsófia Hegedüs, Marie E. Perrin, Françoise Ochsenbein, and Andrew J. Wilson. “Recognition of ASF1 by Using Hydrocarbon‐constrained Peptides.” ChemBioChem. Wiley, 2019. https://doi.org/10.1002/cbic.201800633.","short":"M.M. Bakail, S. Rodriguez‐Marin, Z. Hegedüs, M.E. Perrin, F. Ochsenbein, A.J. Wilson, ChemBioChem 20 (2019) 891–895.","mla":"Bakail, May M., et al. “Recognition of ASF1 by Using Hydrocarbon‐constrained Peptides.” ChemBioChem, vol. 20, no. 7, Wiley, 2019, pp. 891–95, doi:10.1002/cbic.201800633."},"date_published":"2019-04-01T00:00:00Z","day":"01","article_processing_charge":"No","title":"Recognition of ASF1 by using hydrocarbon‐constrained peptides","status":"public","intvolume":" 20","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"9016","oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"Inhibiting the histone H3–ASF1 (anti‐silencing function 1) protein–protein interaction (PPI) represents a potential approach for treating numerous cancers. As an α‐helix‐mediated PPI, constraining the key histone H3 helix (residues 118–135) is a strategy through which chemical probes might be elaborated to test this hypothesis. In this work, variant H3118–135 peptides bearing pentenylglycine residues at the i and i+4 positions were constrained by olefin metathesis. Biophysical analyses revealed that promotion of a bioactive helical conformation depends on the position at which the constraint is introduced, but that the potency of binding towards ASF1 is unaffected by the constraint and instead that enthalpy–entropy compensation occurs."}],"issue":"7"},{"file":[{"file_id":"9061","relation":"main_file","success":1,"checksum":"70c6e5d6fbea0932b0669505ab6633ec","date_updated":"2021-02-02T13:47:21Z","date_created":"2021-02-02T13:47:21Z","access_level":"open_access","file_name":"2019_NatureComm_Ramananarivo.pdf","creator":"cziletti","file_size":2820337,"content_type":"application/pdf"}],"oa_version":"Published Version","status":"public","ddc":["530"],"title":"Activity-controlled annealing of colloidal monolayers","intvolume":" 10","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","_id":"9060","abstract":[{"text":"Molecular motors are essential to the living, generating fluctuations that boost transport and assist assembly. Active colloids, that consume energy to move, hold similar potential for man-made materials controlled by forces generated from within. Yet, their use as a powerhouse in materials science lacks. Here we show a massive acceleration of the annealing of a monolayer of passive beads by moderate addition of self-propelled microparticles. We rationalize our observations with a model of collisions that drive active fluctuations and activate the annealing. The experiment is quantitatively compared with Brownian dynamic simulations that further unveil a dynamical transition in the mechanism of annealing. Active dopants travel uniformly in the system or co-localize at the grain boundaries as a result of the persistence of their motion. Our findings uncover the potential of internal activity to control materials and lay the groundwork for the rise of materials science beyond equilibrium.","lang":"eng"}],"issue":"1","type":"journal_article","date_published":"2019-07-29T00:00:00Z","article_type":"original","publication":"Nature Communications","citation":{"chicago":"Ramananarivo, Sophie, Etienne Ducrot, and Jérémie A Palacci. “Activity-Controlled Annealing of Colloidal Monolayers.” Nature Communications. Springer Nature, 2019. https://doi.org/10.1038/s41467-019-11362-y.","mla":"Ramananarivo, Sophie, et al. “Activity-Controlled Annealing of Colloidal Monolayers.” Nature Communications, vol. 10, no. 1, 3380, Springer Nature, 2019, doi:10.1038/s41467-019-11362-y.","short":"S. Ramananarivo, E. Ducrot, J.A. Palacci, Nature Communications 10 (2019).","ista":"Ramananarivo S, Ducrot E, Palacci JA. 2019. Activity-controlled annealing of colloidal monolayers. Nature Communications. 10(1), 3380.","ieee":"S. Ramananarivo, E. Ducrot, and J. A. Palacci, “Activity-controlled annealing of colloidal monolayers,” Nature Communications, vol. 10, no. 1. Springer Nature, 2019.","apa":"Ramananarivo, S., Ducrot, E., & Palacci, J. A. (2019). Activity-controlled annealing of colloidal monolayers. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-019-11362-y","ama":"Ramananarivo S, Ducrot E, Palacci JA. Activity-controlled annealing of colloidal monolayers. Nature Communications. 2019;10(1). doi:10.1038/s41467-019-11362-y"},"day":"29","has_accepted_license":"1","article_processing_charge":"No","keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"scopus_import":"1","date_updated":"2023-02-23T13:47:59Z","date_created":"2021-02-02T13:43:36Z","volume":10,"author":[{"last_name":"Ramananarivo","first_name":"Sophie","full_name":"Ramananarivo, Sophie"},{"last_name":"Ducrot","first_name":"Etienne","full_name":"Ducrot, Etienne"},{"full_name":"Palacci, Jérémie A","id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","orcid":"0000-0002-7253-9465","first_name":"Jérémie A","last_name":"Palacci"}],"publication_status":"published","publisher":"Springer Nature","year":"2019","pmid":1,"extern":"1","file_date_updated":"2021-02-02T13:47:21Z","article_number":"3380","language":[{"iso":"eng"}],"doi":"10.1038/s41467-019-11362-y","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":{"arxiv":["1909.07382"],"pmid":["31358762"]},"month":"07","publication_identifier":{"issn":["2041-1723"]}},{"oa":1,"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":{"pmid":["31000601"]},"quality_controlled":"1","doi":"10.1073/pnas.1821435116","language":[{"iso":"eng"}],"month":"05","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"year":"2019","pmid":1,"publication_status":"published","publisher":"National Academy of Sciences","department":[{"_id":"DaZi"}],"author":[{"first_name":"M. Yvonne","last_name":"Kim","full_name":"Kim, M. Yvonne"},{"last_name":"Ono","first_name":"Akemi","full_name":"Ono, Akemi"},{"full_name":"Scholten, Stefan","last_name":"Scholten","first_name":"Stefan"},{"full_name":"Kinoshita, Tetsu","last_name":"Kinoshita","first_name":"Tetsu"},{"full_name":"Zilberman, Daniel","first_name":"Daniel","last_name":"Zilberman","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","orcid":"0000-0002-0123-8649"},{"last_name":"Okamoto","first_name":"Takashi","full_name":"Okamoto, Takashi"},{"last_name":"Fischer","first_name":"Robert L.","full_name":"Fischer, Robert L."}],"date_updated":"2021-12-14T07:52:30Z","date_created":"2021-06-04T12:38:20Z","volume":116,"file_date_updated":"2021-06-04T12:50:47Z","extern":"1","publication":"Proceedings of the National Academy of Sciences","citation":{"chicago":"Kim, M. Yvonne, Akemi Ono, Stefan Scholten, Tetsu Kinoshita, Daniel Zilberman, Takashi Okamoto, and Robert L. Fischer. “DNA Demethylation by ROS1a in Rice Vegetative Cells Promotes Methylation in Sperm.” Proceedings of the National Academy of Sciences. National Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1821435116.","short":"M.Y. Kim, A. Ono, S. Scholten, T. Kinoshita, D. Zilberman, T. Okamoto, R.L. Fischer, Proceedings of the National Academy of Sciences 116 (2019) 9652–9657.","mla":"Kim, M. Yvonne, et al. “DNA Demethylation by ROS1a in Rice Vegetative Cells Promotes Methylation in Sperm.” Proceedings of the National Academy of Sciences, vol. 116, no. 19, National Academy of Sciences, 2019, pp. 9652–57, doi:10.1073/pnas.1821435116.","ieee":"M. Y. Kim et al., “DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm,” Proceedings of the National Academy of Sciences, vol. 116, no. 19. National Academy of Sciences, pp. 9652–9657, 2019.","apa":"Kim, M. Y., Ono, A., Scholten, S., Kinoshita, T., Zilberman, D., Okamoto, T., & Fischer, R. L. (2019). DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1821435116","ista":"Kim MY, Ono A, Scholten S, Kinoshita T, Zilberman D, Okamoto T, Fischer RL. 2019. DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. 116(19), 9652–9657.","ama":"Kim MY, Ono A, Scholten S, et al. DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. 2019;116(19):9652-9657. doi:10.1073/pnas.1821435116"},"article_type":"original","page":"9652-9657","date_published":"2019-05-07T00:00:00Z","scopus_import":"1","keyword":["Multidisciplinary"],"day":"07","has_accepted_license":"1","article_processing_charge":"No","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"9460","status":"public","ddc":["580"],"title":"DNA demethylation by ROS1a in rice vegetative cells promotes methylation in sperm","intvolume":" 116","oa_version":"Published Version","file":[{"file_name":"2019_PNAS_Kim.pdf","access_level":"open_access","file_size":1142540,"content_type":"application/pdf","creator":"asandaue","relation":"main_file","file_id":"9461","date_updated":"2021-06-04T12:50:47Z","date_created":"2021-06-04T12:50:47Z","checksum":"5b0ae3779b8b21b5223bd2d3cceede3a","success":1}],"type":"journal_article","abstract":[{"lang":"eng","text":"Epigenetic reprogramming is required for proper regulation of gene expression in eukaryotic organisms. In Arabidopsis, active DNA demethylation is crucial for seed viability, pollen function, and successful reproduction. The DEMETER (DME) DNA glycosylase initiates localized DNA demethylation in vegetative and central cells, so-called companion cells that are adjacent to sperm and egg gametes, respectively. In rice, the central cell genome displays local DNA hypomethylation, suggesting that active DNA demethylation also occurs in rice; however, the enzyme responsible for this process is unknown. One candidate is the rice REPRESSOR OF SILENCING 1a (ROS1a) gene, which is related to DME and is essential for rice seed viability and pollen function. Here, we report genome-wide analyses of DNA methylation in wild-type and ros1a mutant sperm and vegetative cells. We find that the rice vegetative cell genome is locally hypomethylated compared with sperm by a process that requires ROS1a activity. We show that many ROS1a target sequences in the vegetative cell are hypomethylated in the rice central cell, suggesting that ROS1a also demethylates the central cell genome. Similar to Arabidopsis, we show that sperm non-CG methylation is indirectly promoted by DNA demethylation in the vegetative cell. These results reveal that DNA glycosylase-mediated DNA demethylation processes are conserved in Arabidopsis and rice, plant species that diverged 150 million years ago. Finally, although global non-CG methylation levels of sperm and egg differ, the maternal and paternal embryo genomes show similar non-CG methylation levels, suggesting that rice gamete genomes undergo dynamic DNA methylation reprogramming after cell fusion."}],"issue":"19"},{"issue":"4","abstract":[{"text":"A central goal of computational physics and chemistry is to predict material properties by using first-principles methods based on the fundamental laws of quantum mechanics. However, the high computational costs of these methods typically prevent rigorous predictions of macroscopic quantities at finite temperatures, such as heat capacity, density, and chemical potential. Here, we enable such predictions by marrying advanced free-energy methods with data-driven machine-learning interatomic potentials. We show that, for the ubiquitous and technologically essential system of water, a first-principles thermodynamic description not only leads to excellent agreement with experiments, but also reveals the crucial role of nuclear quantum fluctuations in modulating the thermodynamic stabilities of different phases of water.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","_id":"9689","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","intvolume":" 116","status":"public","title":"Ab initio thermodynamics of liquid and solid water","article_processing_charge":"No","day":"22","scopus_import":"1","date_published":"2019-01-22T00:00:00Z","citation":{"ista":"Cheng B, Engel EA, Behler J, Dellago C, Ceriotti M. 2019. Ab initio thermodynamics of liquid and solid water. Proceedings of the National Academy of Sciences. 116(4), 1110–1115.","ieee":"B. Cheng, E. A. Engel, J. Behler, C. Dellago, and M. Ceriotti, “Ab initio thermodynamics of liquid and solid water,” Proceedings of the National Academy of Sciences, vol. 116, no. 4. National Academy of Sciences, pp. 1110–1115, 2019.","apa":"Cheng, B., Engel, E. A., Behler, J., Dellago, C., & Ceriotti, M. (2019). Ab initio thermodynamics of liquid and solid water. Proceedings of the National Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1815117116","ama":"Cheng B, Engel EA, Behler J, Dellago C, Ceriotti M. Ab initio thermodynamics of liquid and solid water. Proceedings of the National Academy of Sciences. 2019;116(4):1110-1115. doi:10.1073/pnas.1815117116","chicago":"Cheng, Bingqing, Edgar A. Engel, Jörg Behler, Christoph Dellago, and Michele Ceriotti. “Ab Initio Thermodynamics of Liquid and Solid Water.” Proceedings of the National Academy of Sciences. National Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1815117116.","mla":"Cheng, Bingqing, et al. “Ab Initio Thermodynamics of Liquid and Solid Water.” Proceedings of the National Academy of Sciences, vol. 116, no. 4, National Academy of Sciences, 2019, pp. 1110–15, doi:10.1073/pnas.1815117116.","short":"B. Cheng, E.A. Engel, J. Behler, C. Dellago, M. Ceriotti, Proceedings of the National Academy of Sciences 116 (2019) 1110–1115."},"publication":"Proceedings of the National Academy of Sciences","page":"1110-1115","article_type":"original","extern":"1","author":[{"full_name":"Cheng, Bingqing","orcid":"0000-0002-3584-9632","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","last_name":"Cheng","first_name":"Bingqing"},{"full_name":"Engel, Edgar A.","last_name":"Engel","first_name":"Edgar A."},{"full_name":"Behler, Jörg","first_name":"Jörg","last_name":"Behler"},{"full_name":"Dellago, Christoph","last_name":"Dellago","first_name":"Christoph"},{"full_name":"Ceriotti, Michele","first_name":"Michele","last_name":"Ceriotti"}],"volume":116,"date_created":"2021-07-19T10:17:09Z","date_updated":"2023-02-23T14:05:08Z","pmid":1,"year":"2019","publisher":"National Academy of Sciences","publication_status":"published","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"month":"01","doi":"10.1073/pnas.1815117116","language":[{"iso":"eng"}],"external_id":{"pmid":["30610171"],"arxiv":["1811.08630"]},"oa":1,"main_file_link":[{"url":"https://doi.org/10.1073/pnas.1815117116","open_access":"1"}],"quality_controlled":"1"},{"scopus_import":1,"day":"08","article_processing_charge":"No","has_accepted_license":"1","publication":"BMC Research Notes","citation":{"chicago":"Antoniou, Michael N., Armel Nicolas, Robin Mesnage, Martina Biserni, Francesco V. Rao, and Cristina Vazquez Martin. “Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” BMC Research Notes. BioMed Central, 2019. https://doi.org/10.1186/s13104-019-4534-3.","short":"M.N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F.V. Rao, C.V. Martin, BMC Research Notes 12 (2019).","mla":"Antoniou, Michael N., et al. “Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” BMC Research Notes, vol. 12, 494, BioMed Central, 2019, doi:10.1186/s13104-019-4534-3.","ieee":"M. N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F. V. Rao, and C. V. Martin, “Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells,” BMC Research Notes, vol. 12. BioMed Central, 2019.","apa":"Antoniou, M. N., Nicolas, A., Mesnage, R., Biserni, M., Rao, F. V., & Martin, C. V. (2019). Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. BioMed Central. https://doi.org/10.1186/s13104-019-4534-3","ista":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. 2019. Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. 12, 494.","ama":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. 2019;12. doi:10.1186/s13104-019-4534-3"},"date_published":"2019-08-08T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Glyphosate (N-phosphonomethyl glycine) and its commercial herbicide formulations have been shown to exert toxicity via various mechanisms. It has been asserted that glyphosate substitutes for glycine in polypeptide chains leading to protein misfolding and toxicity. However, as no direct evidence exists for glycine to glyphosate substitution in proteins, including in mammalian organisms, we tested this claim by conducting a proteomics analysis of MDA-MB-231 human breast cancer cells grown in the presence of 100 mg/L glyphosate for 6 days. Protein extracts from three treated and three untreated cell cultures were analysed as one TMT-6plex labelled sample, to highlight a specific pattern (+/+/+/−/−/−) of reporter intensities for peptides bearing true glyphosate treatment induced-post translational modifications as well as allowing an investigation of the total proteome."}],"ddc":["570"],"status":"public","title":"Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells","intvolume":" 12","_id":"6819","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","file":[{"relation":"main_file","file_id":"6829","checksum":"4a2bb7994b7f2c432bf44f5127ea3102","date_created":"2019-08-23T11:10:35Z","date_updated":"2020-07-14T12:47:40Z","access_level":"open_access","file_name":"2019_BMC_Antoniou.pdf","content_type":"application/pdf","file_size":1177482,"creator":"dernst"}],"month":"08","publication_identifier":{"eissn":["1756-0500"]},"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":["31395095"]},"language":[{"iso":"eng"}],"doi":"10.1186/s13104-019-4534-3","article_number":"494","file_date_updated":"2020-07-14T12:47:40Z","publication_status":"published","publisher":"BioMed Central","department":[{"_id":"LifeSc"}],"year":"2019","pmid":1,"date_updated":"2023-02-23T14:08:14Z","date_created":"2019-08-18T22:00:39Z","volume":12,"author":[{"full_name":"Antoniou, Michael N.","first_name":"Michael N.","last_name":"Antoniou"},{"last_name":"Nicolas","first_name":"Armel","id":"2A103192-F248-11E8-B48F-1D18A9856A87","full_name":"Nicolas, Armel"},{"first_name":"Robin","last_name":"Mesnage","full_name":"Mesnage, Robin"},{"last_name":"Biserni","first_name":"Martina","full_name":"Biserni, Martina"},{"first_name":"Francesco V.","last_name":"Rao","full_name":"Rao, Francesco V."},{"full_name":"Martin, Cristina Vazquez","last_name":"Martin","first_name":"Cristina Vazquez"}],"related_material":{"record":[{"id":"9784","relation":"research_data","status":"public"}]}},{"article_processing_charge":"No","month":"08","day":"09","doi":"10.6084/m9.figshare.9411761.v1","date_published":"2019-08-09T00:00:00Z","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.9411761.v1"}],"citation":{"mla":"Antoniou, Michael N., et al. MOESM1 of Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells. Springer Nature, 2019, doi:10.6084/m9.figshare.9411761.v1.","short":"M.N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F.V. Rao, C.V. Martin, (2019).","chicago":"Antoniou, Michael N., Armel Nicolas, Robin Mesnage, Martina Biserni, Francesco V. Rao, and Cristina Vazquez Martin. “MOESM1 of Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9411761.v1.","ama":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. 2019. doi:10.6084/m9.figshare.9411761.v1","ista":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. 2019. MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells, Springer Nature, 10.6084/m9.figshare.9411761.v1.","ieee":"M. N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F. V. Rao, and C. V. Martin, “MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells.” Springer Nature, 2019.","apa":"Antoniou, M. N., Nicolas, A., Mesnage, R., Biserni, M., Rao, F. V., & Martin, C. V. (2019). MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. Springer Nature. https://doi.org/10.6084/m9.figshare.9411761.v1"},"abstract":[{"text":"Additional file 1: Table S1. Kinetics of MDA-MB-231 cell growth in either the presence or absence of 100Â mg/L glyphosate. Cell counts are given at day-1 of seeding flasks and following 6-days of continuous culture. Note: no differences in cell numbers were observed between negative control and glyphosate treated cultures.","lang":"eng"}],"type":"research_data_reference","oa_version":"Published Version","date_updated":"2023-02-23T12:52:29Z","date_created":"2021-08-06T08:14:05Z","related_material":{"record":[{"id":"6819","status":"public","relation":"used_in_publication"}]},"author":[{"first_name":"Michael N.","last_name":"Antoniou","full_name":"Antoniou, Michael N."},{"id":"2A103192-F248-11E8-B48F-1D18A9856A87","last_name":"Nicolas","first_name":"Armel","full_name":"Nicolas, Armel"},{"full_name":"Mesnage, Robin","first_name":"Robin","last_name":"Mesnage"},{"full_name":"Biserni, Martina","last_name":"Biserni","first_name":"Martina"},{"full_name":"Rao, Francesco V.","first_name":"Francesco V.","last_name":"Rao"},{"last_name":"Martin","first_name":"Cristina Vazquez","full_name":"Martin, Cristina Vazquez"}],"department":[{"_id":"LifeSc"}],"publisher":"Springer Nature","title":"MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells","status":"public","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","_id":"9784","year":"2019"},{"abstract":[{"text":"More than 100 years after Grigg’s influential analysis of species’ borders, the causes of limits to species’ ranges still represent a puzzle that has never been understood with clarity. The topic has become especially important recently as many scientists have become interested in the potential for species’ ranges to shift in response to climate change—and yet nearly all of those studies fail to recognise or incorporate evolutionary genetics in a way that relates to theoretical developments. I show that range margins can be understood based on just two measurable parameters: (i) the fitness cost of dispersal—a measure of environmental heterogeneity—and (ii) the strength of genetic drift, which reduces genetic diversity. Together, these two parameters define an ‘expansion threshold’: adaptation fails when genetic drift reduces genetic diversity below that required for adaptation to a heterogeneous environment. When the key parameters drop below this expansion threshold locally, a sharp range margin forms. When they drop below this threshold throughout the species’ range, adaptation collapses everywhere, resulting in either extinction or formation of a fragmented metapopulation. Because the effects of dispersal differ fundamentally with dimension, the second parameter—the strength of genetic drift—is qualitatively different compared to a linear habitat. In two-dimensional habitats, genetic drift becomes effectively independent of selection. It decreases with ‘neighbourhood size’—the number of individuals accessible by dispersal within one generation. Moreover, in contrast to earlier predictions, which neglected evolution of genetic variance and/or stochasticity in two dimensions, dispersal into small marginal populations aids adaptation. This is because the reduction of both genetic and demographic stochasticity has a stronger effect than the cost of dispersal through increased maladaptation. The expansion threshold thus provides a novel, theoretically justified, and testable prediction for formation of the range margin and collapse of the species’ range.","lang":"eng"}],"type":"research_data_reference","oa_version":"Published Version","date_updated":"2023-02-23T11:14:30Z","date_created":"2021-08-09T13:07:28Z","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"315"}]},"author":[{"first_name":"Jitka","last_name":"Polechova","id":"3BBFB084-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0951-3112","full_name":"Polechova, Jitka"}],"publisher":"Dryad","department":[{"_id":"NiBa"}],"title":"Data from: Is the sky the limit? On the expansion threshold of a species' range","status":"public","year":"2019","_id":"9839","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","article_processing_charge":"No","month":"06","day":"22","doi":"10.5061/dryad.5vv37","date_published":"2019-06-22T00:00:00Z","main_file_link":[{"url":"https://doi.org/10.5061/dryad.5vv37","open_access":"1"}],"oa":1,"citation":{"chicago":"Polechova, Jitka. “Data from: Is the Sky the Limit? On the Expansion Threshold of a Species’ Range.” Dryad, 2019. https://doi.org/10.5061/dryad.5vv37.","mla":"Polechova, Jitka. Data from: Is the Sky the Limit? On the Expansion Threshold of a Species’ Range. Dryad, 2019, doi:10.5061/dryad.5vv37.","short":"J. Polechova, (2019).","ista":"Polechova J. 2019. Data from: Is the sky the limit? On the expansion threshold of a species’ range, Dryad, 10.5061/dryad.5vv37.","ieee":"J. Polechova, “Data from: Is the sky the limit? On the expansion threshold of a species’ range.” Dryad, 2019.","apa":"Polechova, J. (2019). Data from: Is the sky the limit? On the expansion threshold of a species’ range. Dryad. https://doi.org/10.5061/dryad.5vv37","ama":"Polechova J. Data from: Is the sky the limit? On the expansion threshold of a species’ range. 2019. doi:10.5061/dryad.5vv37"}},{"extern":"1","pmid":1,"year":"2019","publisher":"American Chemical Society","publication_status":"published","author":[{"full_name":"Gauto, Diego F.","last_name":"Gauto","first_name":"Diego F."},{"full_name":"Macek, Pavel","first_name":"Pavel","last_name":"Macek"},{"full_name":"Barducci, Alessandro","first_name":"Alessandro","last_name":"Barducci"},{"full_name":"Fraga, Hugo","last_name":"Fraga","first_name":"Hugo"},{"first_name":"Audrey","last_name":"Hessel","full_name":"Hessel, Audrey"},{"full_name":"Terauchi, Tsutomu","last_name":"Terauchi","first_name":"Tsutomu"},{"first_name":"David","last_name":"Gajan","full_name":"Gajan, David"},{"full_name":"Miyanoiri, Yohei","last_name":"Miyanoiri","first_name":"Yohei"},{"full_name":"Boisbouvier, Jerome","first_name":"Jerome","last_name":"Boisbouvier"},{"full_name":"Lichtenecker, Roman","first_name":"Roman","last_name":"Lichtenecker"},{"first_name":"Masatsune","last_name":"Kainosho","full_name":"Kainosho, Masatsune"},{"full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","last_name":"Schanda","first_name":"Paul"}],"volume":141,"date_created":"2020-09-17T10:29:00Z","date_updated":"2021-01-12T08:19:04Z","publication_identifier":{"issn":["0002-7863","1520-5126"]},"month":"06","external_id":{"pmid":["31199882"]},"quality_controlled":"1","doi":"10.1021/jacs.9b04219","language":[{"iso":"eng"}],"type":"journal_article","issue":"28","abstract":[{"text":"Aromatic residues are located at structurally important sites of many proteins. Probing their interactions and dynamics can provide important functional insight but is challenging in large proteins. Here, we introduce approaches to characterize dynamics of phenylalanine residues using 1H-detected fast magic-angle spinning (MAS) NMR combined with a tailored isotope-labeling scheme. Our approach yields isolated two-spin systems that are ideally suited for artefact-free dynamics measurements, and allows probing motions effectively without molecular-weight limitations. The application to the TET2 enzyme assembly of ~0.5 MDa size, the currently largest protein assigned by MAS NMR, provides insights into motions occurring on a wide range of time scales (ps-ms). We quantitatively probe ring flip motions, and show the temperature dependence by MAS NMR measurements down to 100 K. Interestingly, favorable line widths are observed down to 100 K, with potential implications for DNP NMR. Furthermore, we report the first 13C R1ρ MAS NMR relaxation-dispersion measurements and detect structural excursions occurring on a microsecond time scale in the entry pore to the catalytic chamber and at a trimer interface that was proposed as exit pore. We show that the labeling scheme with deuteration at ca. 50 kHz MAS provides superior resolution compared to 100 kHz MAS experiments with protonated, uniformly 13C-labeled samples.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8408","intvolume":" 141","status":"public","title":"Aromatic ring dynamics, thermal activation, and transient conformations of a 468 kDa enzyme by specific 1H–13C labeling and fast magic-angle spinning NMR","oa_version":"Submitted Version","keyword":["Colloid and Surface Chemistry","Biochemistry","General Chemistry","Catalysis"],"article_processing_charge":"No","day":"14","citation":{"short":"D.F. Gauto, P. Macek, A. Barducci, H. Fraga, A. Hessel, T. Terauchi, D. Gajan, Y. Miyanoiri, J. Boisbouvier, R. Lichtenecker, M. Kainosho, P. Schanda, Journal of the American Chemical Society 141 (2019) 11183–11195.","mla":"Gauto, Diego F., et al. “Aromatic Ring Dynamics, Thermal Activation, and Transient Conformations of a 468 KDa Enzyme by Specific 1H–13C Labeling and Fast Magic-Angle Spinning NMR.” Journal of the American Chemical Society, vol. 141, no. 28, American Chemical Society, 2019, pp. 11183–95, doi:10.1021/jacs.9b04219.","chicago":"Gauto, Diego F., Pavel Macek, Alessandro Barducci, Hugo Fraga, Audrey Hessel, Tsutomu Terauchi, David Gajan, et al. “Aromatic Ring Dynamics, Thermal Activation, and Transient Conformations of a 468 KDa Enzyme by Specific 1H–13C Labeling and Fast Magic-Angle Spinning NMR.” Journal of the American Chemical Society. American Chemical Society, 2019. https://doi.org/10.1021/jacs.9b04219.","ama":"Gauto DF, Macek P, Barducci A, et al. Aromatic ring dynamics, thermal activation, and transient conformations of a 468 kDa enzyme by specific 1H–13C labeling and fast magic-angle spinning NMR. Journal of the American Chemical Society. 2019;141(28):11183-11195. doi:10.1021/jacs.9b04219","ieee":"D. F. Gauto et al., “Aromatic ring dynamics, thermal activation, and transient conformations of a 468 kDa enzyme by specific 1H–13C labeling and fast magic-angle spinning NMR,” Journal of the American Chemical Society, vol. 141, no. 28. American Chemical Society, pp. 11183–11195, 2019.","apa":"Gauto, D. F., Macek, P., Barducci, A., Fraga, H., Hessel, A., Terauchi, T., … Schanda, P. (2019). Aromatic ring dynamics, thermal activation, and transient conformations of a 468 kDa enzyme by specific 1H–13C labeling and fast magic-angle spinning NMR. Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.9b04219","ista":"Gauto DF, Macek P, Barducci A, Fraga H, Hessel A, Terauchi T, Gajan D, Miyanoiri Y, Boisbouvier J, Lichtenecker R, Kainosho M, Schanda P. 2019. Aromatic ring dynamics, thermal activation, and transient conformations of a 468 kDa enzyme by specific 1H–13C labeling and fast magic-angle spinning NMR. Journal of the American Chemical Society. 141(28), 11183–11195."},"publication":"Journal of the American Chemical Society","page":"11183-11195","article_type":"original","date_published":"2019-06-14T00:00:00Z"},{"year":"2019","publication_status":"published","publisher":"Springer Nature","author":[{"last_name":"Guardia","first_name":"Marcel","full_name":"Guardia, Marcel"},{"orcid":"0000-0002-6051-2628","id":"FE553552-CDE8-11E9-B324-C0EBE5697425","last_name":"Kaloshin","first_name":"Vadim","full_name":"Kaloshin, Vadim"},{"first_name":"Jianlu","last_name":"Zhang","full_name":"Zhang, Jianlu"}],"date_updated":"2021-01-12T08:19:09Z","date_created":"2020-09-17T10:41:51Z","volume":233,"extern":"1","oa":1,"main_file_link":[{"url":"https://doi.org/10.1007/s00205-019-01368-7","open_access":"1"}],"quality_controlled":"1","doi":"10.1007/s00205-019-01368-7","language":[{"iso":"eng"}],"month":"03","publication_identifier":{"issn":["0003-9527","1432-0673"]},"_id":"8418","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Asymptotic density of collision orbits in the Restricted Circular Planar 3 Body Problem","status":"public","intvolume":" 233","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"For the Restricted Circular Planar 3 Body Problem, we show that there exists an open set U in phase space of fixed measure, where the set of initial points which lead to collision is O(μ120) dense as μ→0.","lang":"eng"}],"issue":"2","publication":"Archive for Rational Mechanics and Analysis","citation":{"short":"M. Guardia, V. Kaloshin, J. Zhang, Archive for Rational Mechanics and Analysis 233 (2019) 799–836.","mla":"Guardia, Marcel, et al. “Asymptotic Density of Collision Orbits in the Restricted Circular Planar 3 Body Problem.” Archive for Rational Mechanics and Analysis, vol. 233, no. 2, Springer Nature, 2019, pp. 799–836, doi:10.1007/s00205-019-01368-7.","chicago":"Guardia, Marcel, Vadim Kaloshin, and Jianlu Zhang. “Asymptotic Density of Collision Orbits in the Restricted Circular Planar 3 Body Problem.” Archive for Rational Mechanics and Analysis. Springer Nature, 2019. https://doi.org/10.1007/s00205-019-01368-7.","ama":"Guardia M, Kaloshin V, Zhang J. Asymptotic density of collision orbits in the Restricted Circular Planar 3 Body Problem. Archive for Rational Mechanics and Analysis. 2019;233(2):799-836. doi:10.1007/s00205-019-01368-7","apa":"Guardia, M., Kaloshin, V., & Zhang, J. (2019). Asymptotic density of collision orbits in the Restricted Circular Planar 3 Body Problem. Archive for Rational Mechanics and Analysis. Springer Nature. https://doi.org/10.1007/s00205-019-01368-7","ieee":"M. Guardia, V. Kaloshin, and J. Zhang, “Asymptotic density of collision orbits in the Restricted Circular Planar 3 Body Problem,” Archive for Rational Mechanics and Analysis, vol. 233, no. 2. Springer Nature, pp. 799–836, 2019.","ista":"Guardia M, Kaloshin V, Zhang J. 2019. Asymptotic density of collision orbits in the Restricted Circular Planar 3 Body Problem. Archive for Rational Mechanics and Analysis. 233(2), 799–836."},"article_type":"original","page":"799-836","date_published":"2019-03-12T00:00:00Z","keyword":["Mechanical Engineering","Mathematics (miscellaneous)","Analysis"],"day":"12","article_processing_charge":"No"},{"issue":"2","abstract":[{"text":"In this paper, we show that any smooth one-parameter deformations of a strictly convex integrable billiard table Ω0 preserving the integrability near the boundary have to be tangent to a finite dimensional space passing through Ω0.","lang":"eng"}],"type":"journal_article","oa_version":"Preprint","intvolume":" 19","title":"On the finite dimensionality of integrable deformations of strictly convex integrable billiard tables","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8416","article_processing_charge":"No","day":"01","date_published":"2019-04-01T00:00:00Z","page":"307-327","article_type":"original","citation":{"chicago":"Huang, Guan, and Vadim Kaloshin. “On the Finite Dimensionality of Integrable Deformations of Strictly Convex Integrable Billiard Tables.” Moscow Mathematical Journal. American Mathematical Society, 2019. https://doi.org/10.17323/1609-4514-2019-19-2-307-327.","mla":"Huang, Guan, and Vadim Kaloshin. “On the Finite Dimensionality of Integrable Deformations of Strictly Convex Integrable Billiard Tables.” Moscow Mathematical Journal, vol. 19, no. 2, American Mathematical Society, 2019, pp. 307–27, doi:10.17323/1609-4514-2019-19-2-307-327.","short":"G. Huang, V. Kaloshin, Moscow Mathematical Journal 19 (2019) 307–327.","ista":"Huang G, Kaloshin V. 2019. On the finite dimensionality of integrable deformations of strictly convex integrable billiard tables. Moscow Mathematical Journal. 19(2), 307–327.","apa":"Huang, G., & Kaloshin, V. (2019). On the finite dimensionality of integrable deformations of strictly convex integrable billiard tables. Moscow Mathematical Journal. American Mathematical Society. https://doi.org/10.17323/1609-4514-2019-19-2-307-327","ieee":"G. Huang and V. Kaloshin, “On the finite dimensionality of integrable deformations of strictly convex integrable billiard tables,” Moscow Mathematical Journal, vol. 19, no. 2. American Mathematical Society, pp. 307–327, 2019.","ama":"Huang G, Kaloshin V. On the finite dimensionality of integrable deformations of strictly convex integrable billiard tables. Moscow Mathematical Journal. 2019;19(2):307-327. doi:10.17323/1609-4514-2019-19-2-307-327"},"publication":"Moscow Mathematical Journal","extern":"1","volume":19,"date_created":"2020-09-17T10:41:36Z","date_updated":"2021-01-12T08:19:08Z","author":[{"full_name":"Huang, Guan","last_name":"Huang","first_name":"Guan"},{"orcid":"0000-0002-6051-2628","id":"FE553552-CDE8-11E9-B324-C0EBE5697425","last_name":"Kaloshin","first_name":"Vadim","full_name":"Kaloshin, Vadim"}],"publisher":"American Mathematical Society","publication_status":"published","year":"2019","publication_identifier":{"issn":["1609-4514"]},"month":"04","language":[{"iso":"eng"}],"doi":"10.17323/1609-4514-2019-19-2-307-327","quality_controlled":"1","main_file_link":[{"url":"https://arxiv.org/abs/1809.09341","open_access":"1"}],"external_id":{"arxiv":["1809.09341"]},"oa":1},{"oa_version":"Preprint","volume":24,"date_updated":"2021-01-12T08:20:34Z","date_created":"2020-10-21T15:25:45Z","author":[{"last_name":"Chierchia","first_name":"Luigi","full_name":"Chierchia, Luigi"},{"full_name":"Koudjinan, Edmond","id":"52DF3E68-AEFA-11EA-95A4-124A3DDC885E","orcid":"0000-0003-2640-4049","first_name":"Edmond","last_name":"Koudjinan"}],"intvolume":" 24","publisher":"Springer","publication_status":"published","title":"V. I. Arnold’s “pointwise” KAM theorem","status":"public","_id":"8693","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2019","extern":"1","abstract":[{"text":"We review V. I. Arnold’s 1963 celebrated paper [1] Proof of A. N. Kolmogorov’s Theorem on the Conservation of Conditionally Periodic Motions with a Small Variation in the Hamiltonian, and prove that, optimising Arnold’s scheme, one can get “sharp” asymptotic quantitative conditions (as ε → 0, ε being the strength of the perturbation). All constants involved are explicitly computed.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"date_published":"2019-12-10T00:00:00Z","doi":"10.1134/S1560354719060017","page":"583–606","article_type":"original","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1908.02523"}],"external_id":{"arxiv":["1908.02523"]},"citation":{"short":"L. Chierchia, E. Koudjinan, Regular and Chaotic Dynamics 24 (2019) 583–606.","mla":"Chierchia, Luigi, and Edmond Koudjinan. “V. I. Arnold’s ‘Pointwise’ KAM Theorem.” Regular and Chaotic Dynamics, vol. 24, Springer, 2019, pp. 583–606, doi:10.1134/S1560354719060017.","chicago":"Chierchia, Luigi, and Edmond Koudjinan. “V. I. Arnold’s ‘Pointwise’ KAM Theorem.” Regular and Chaotic Dynamics. Springer, 2019. https://doi.org/10.1134/S1560354719060017.","ama":"Chierchia L, Koudjinan E. V. I. Arnold’s “pointwise” KAM theorem. Regular and Chaotic Dynamics. 2019;24:583–606. doi:10.1134/S1560354719060017","ieee":"L. Chierchia and E. Koudjinan, “V. I. Arnold’s ‘pointwise’ KAM theorem,” Regular and Chaotic Dynamics, vol. 24. Springer, pp. 583–606, 2019.","apa":"Chierchia, L., & Koudjinan, E. (2019). V. I. Arnold’s “pointwise” KAM theorem. Regular and Chaotic Dynamics. Springer. https://doi.org/10.1134/S1560354719060017","ista":"Chierchia L, Koudjinan E. 2019. V. I. Arnold’s “pointwise” KAM theorem. Regular and Chaotic Dynamics. 24, 583–606."},"oa":1,"publication":"Regular and Chaotic Dynamics","article_processing_charge":"No","month":"12","day":"10"},{"doi":"10.1016/j.chembiol.2019.09.002","language":[{"iso":"eng"}],"external_id":{"pmid":["31543461"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.chembiol.2019.09.002"}],"oa":1,"quality_controlled":"1","month":"11","publication_identifier":{"issn":["2451-9456"]},"author":[{"full_name":"Bakail, May M","last_name":"Bakail","first_name":"May M","orcid":"0000-0002-9592-1587","id":"FB3C3F8E-522F-11EA-B186-22963DDC885E"},{"full_name":"Gaubert, Albane","last_name":"Gaubert","first_name":"Albane"},{"full_name":"Andreani, Jessica","last_name":"Andreani","first_name":"Jessica"},{"last_name":"Moal","first_name":"Gwenaëlle","full_name":"Moal, Gwenaëlle"},{"full_name":"Pinna, Guillaume","first_name":"Guillaume","last_name":"Pinna"},{"full_name":"Boyarchuk, Ekaterina","last_name":"Boyarchuk","first_name":"Ekaterina"},{"full_name":"Gaillard, Marie-Cécile","first_name":"Marie-Cécile","last_name":"Gaillard"},{"last_name":"Courbeyrette","first_name":"Regis","full_name":"Courbeyrette, Regis"},{"full_name":"Mann, Carl","first_name":"Carl","last_name":"Mann"},{"full_name":"Thuret, Jean-Yves","first_name":"Jean-Yves","last_name":"Thuret"},{"first_name":"Bérengère","last_name":"Guichard","full_name":"Guichard, Bérengère"},{"last_name":"Murciano","first_name":"Brice","full_name":"Murciano, Brice"},{"full_name":"Richet, Nicolas","last_name":"Richet","first_name":"Nicolas"},{"last_name":"Poitou","first_name":"Adeline","full_name":"Poitou, Adeline"},{"last_name":"Frederic","first_name":"Claire","full_name":"Frederic, Claire"},{"full_name":"Le Du, Marie-Hélène","first_name":"Marie-Hélène","last_name":"Le Du"},{"first_name":"Morgane","last_name":"Agez","full_name":"Agez, Morgane"},{"first_name":"Caroline","last_name":"Roelants","full_name":"Roelants, Caroline"},{"last_name":"Gurard-Levin","first_name":"Zachary A.","full_name":"Gurard-Levin, Zachary A."},{"last_name":"Almouzni","first_name":"Geneviève","full_name":"Almouzni, Geneviève"},{"last_name":"Cherradi","first_name":"Nadia","full_name":"Cherradi, Nadia"},{"full_name":"Guerois, Raphael","first_name":"Raphael","last_name":"Guerois"},{"full_name":"Ochsenbein, Françoise","first_name":"Françoise","last_name":"Ochsenbein"}],"date_updated":"2023-02-23T13:46:53Z","date_created":"2021-01-19T11:04:50Z","volume":26,"year":"2019","pmid":1,"publication_status":"published","publisher":"Elsevier","extern":"1","date_published":"2019-11-21T00:00:00Z","publication":"Cell Chemical Biology","citation":{"chicago":"Bakail, May M, Albane Gaubert, Jessica Andreani, Gwenaëlle Moal, Guillaume Pinna, Ekaterina Boyarchuk, Marie-Cécile Gaillard, et al. “Design on a Rational Basis of High-Affinity Peptides Inhibiting the Histone Chaperone ASF1.” Cell Chemical Biology. Elsevier, 2019. https://doi.org/10.1016/j.chembiol.2019.09.002.","mla":"Bakail, May M., et al. “Design on a Rational Basis of High-Affinity Peptides Inhibiting the Histone Chaperone ASF1.” Cell Chemical Biology, vol. 26, no. 11, Elsevier, 2019, p. 1573–1585.e10, doi:10.1016/j.chembiol.2019.09.002.","short":"M.M. Bakail, A. Gaubert, J. Andreani, G. Moal, G. Pinna, E. Boyarchuk, M.-C. Gaillard, R. Courbeyrette, C. Mann, J.-Y. Thuret, B. Guichard, B. Murciano, N. Richet, A. Poitou, C. Frederic, M.-H. Le Du, M. Agez, C. Roelants, Z.A. Gurard-Levin, G. Almouzni, N. Cherradi, R. Guerois, F. Ochsenbein, Cell Chemical Biology 26 (2019) 1573–1585.e10.","ista":"Bakail MM, Gaubert A, Andreani J, Moal G, Pinna G, Boyarchuk E, Gaillard M-C, Courbeyrette R, Mann C, Thuret J-Y, Guichard B, Murciano B, Richet N, Poitou A, Frederic C, Le Du M-H, Agez M, Roelants C, Gurard-Levin ZA, Almouzni G, Cherradi N, Guerois R, Ochsenbein F. 2019. Design on a rational basis of high-affinity peptides inhibiting the histone chaperone ASF1. Cell Chemical Biology. 26(11), 1573–1585.e10.","ieee":"M. M. Bakail et al., “Design on a rational basis of high-affinity peptides inhibiting the histone chaperone ASF1,” Cell Chemical Biology, vol. 26, no. 11. Elsevier, p. 1573–1585.e10, 2019.","apa":"Bakail, M. M., Gaubert, A., Andreani, J., Moal, G., Pinna, G., Boyarchuk, E., … Ochsenbein, F. (2019). Design on a rational basis of high-affinity peptides inhibiting the histone chaperone ASF1. Cell Chemical Biology. Elsevier. https://doi.org/10.1016/j.chembiol.2019.09.002","ama":"Bakail MM, Gaubert A, Andreani J, et al. Design on a rational basis of high-affinity peptides inhibiting the histone chaperone ASF1. Cell Chemical Biology. 2019;26(11):1573-1585.e10. doi:10.1016/j.chembiol.2019.09.002"},"article_type":"original","page":"1573-1585.e10","day":"21","article_processing_charge":"No","keyword":["Clinical Biochemistry","Molecular Medicine","Biochemistry","Molecular Biology","Pharmacology","Drug Discovery"],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"9018","title":"Design on a rational basis of high-affinity peptides inhibiting the histone chaperone ASF1","status":"public","intvolume":" 26","abstract":[{"lang":"eng","text":"Anti-silencing function 1 (ASF1) is a conserved H3-H4 histone chaperone involved in histone dynamics during replication, transcription, and DNA repair. Overexpressed in proliferating tissues including many tumors, ASF1 has emerged as a promising therapeutic target. Here, we combine structural, computational, and biochemical approaches to design peptides that inhibit the ASF1-histone interaction. Starting from the structure of the human ASF1-histone complex, we developed a rational design strategy combining epitope tethering and optimization of interface contacts to identify a potent peptide inhibitor with a dissociation constant of 3 nM. When introduced into cultured cells, the inhibitors impair cell proliferation, perturb cell-cycle progression, and reduce cell migration and invasion in a manner commensurate with their affinity for ASF1. Finally, we find that direct injection of the most potent ASF1 peptide inhibitor in mouse allografts reduces tumor growth. Our results open new avenues to use ASF1 inhibitors as promising leads for cancer therapy."}],"issue":"11","type":"journal_article"},{"title":"DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development","status":"public","ddc":["570"],"intvolume":" 12","_id":"9530","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","file":[{"relation":"main_file","file_id":"9531","checksum":"86ff50a7517891511af2733c76c81b67","success":1,"date_updated":"2021-06-08T09:29:19Z","date_created":"2021-06-08T09:29:19Z","access_level":"open_access","file_name":"2019_EpigeneticsAndChromatin_Harris.pdf","content_type":"application/pdf","file_size":3221067,"creator":"asandaue"}],"type":"journal_article","abstract":[{"text":"Background\r\nDNA methylation of active genes, also known as gene body methylation, is found in many animal and plant genomes. Despite this, the transcriptional and developmental role of such methylation remains poorly understood. Here, we explore the dynamic range of DNA methylation in honey bee, a model organism for gene body methylation.\r\n\r\nResults\r\nOur data show that CG methylation in gene bodies globally fluctuates during honey bee development. However, these changes cause no gene expression alterations. Intriguingly, despite the global alterations, tissue-specific CG methylation patterns of complete genes or exons are rare, implying robust maintenance of genic methylation during development. Additionally, we show that CG methylation maintenance fluctuates in somatic cells, while reaching maximum fidelity in sperm cells. Finally, unlike universally present CG methylation, we discovered non-CG methylation specifically in bee heads that resembles such methylation in mammalian brain tissue.\r\n\r\nConclusions\r\nBased on these results, we propose that gene body CG methylation can oscillate during development if it is kept to a level adequate to preserve function. Additionally, our data suggest that heightened non-CG methylation is a conserved regulator of animal nervous systems.","lang":"eng"}],"article_type":"original","publication":"Epigenetics and Chromatin","citation":{"ama":"Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. Epigenetics and Chromatin. 2019;12. doi:10.1186/s13072-019-0307-4","ieee":"K. D. Harris, J. P. B. Lloyd, K. Domb, D. Zilberman, and A. Zemach, “DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development,” Epigenetics and Chromatin, vol. 12. Springer Nature, 2019.","apa":"Harris, K. D., Lloyd, J. P. B., Domb, K., Zilberman, D., & Zemach, A. (2019). DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. Epigenetics and Chromatin. Springer Nature. https://doi.org/10.1186/s13072-019-0307-4","ista":"Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. 2019. DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. Epigenetics and Chromatin. 12, 62.","short":"K.D. Harris, J.P.B. Lloyd, K. Domb, D. Zilberman, A. Zemach, Epigenetics and Chromatin 12 (2019).","mla":"Harris, Keith D., et al. “DNA Methylation Is Maintained with High Fidelity in the Honey Bee Germline and Exhibits Global Non-Functional Fluctuations during Somatic Development.” Epigenetics and Chromatin, vol. 12, 62, Springer Nature, 2019, doi:10.1186/s13072-019-0307-4.","chicago":"Harris, Keith D., James P. B. Lloyd, Katherine Domb, Daniel Zilberman, and Assaf Zemach. “DNA Methylation Is Maintained with High Fidelity in the Honey Bee Germline and Exhibits Global Non-Functional Fluctuations during Somatic Development.” Epigenetics and Chromatin. Springer Nature, 2019. https://doi.org/10.1186/s13072-019-0307-4."},"date_published":"2019-10-10T00:00:00Z","scopus_import":"1","day":"10","article_processing_charge":"No","has_accepted_license":"1","publication_status":"published","publisher":"Springer Nature","department":[{"_id":"DaZi"}],"year":"2019","pmid":1,"date_created":"2021-06-08T09:21:51Z","date_updated":"2021-12-14T07:53:00Z","volume":12,"author":[{"last_name":"Harris","first_name":"Keith D.","full_name":"Harris, Keith D."},{"first_name":"James P. B.","last_name":"Lloyd","full_name":"Lloyd, James P. B."},{"full_name":"Domb, Katherine","last_name":"Domb","first_name":"Katherine"},{"full_name":"Zilberman, Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","orcid":"0000-0002-0123-8649","first_name":"Daniel","last_name":"Zilberman"},{"first_name":"Assaf","last_name":"Zemach","full_name":"Zemach, Assaf"}],"article_number":"62","extern":"1","file_date_updated":"2021-06-08T09:29:19Z","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":{"pmid":["31601251"]},"language":[{"iso":"eng"}],"doi":"10.1186/s13072-019-0307-4","month":"10","publication_identifier":{"eissn":["1756-8935"]}},{"extern":"1","year":"2019","publisher":"Wiley","publication_status":"published","author":[{"full_name":"Kwan, Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","orcid":"0000-0002-4003-7567","first_name":"Matthew Alan","last_name":"Kwan"},{"last_name":"Sudakov","first_name":"Benny","full_name":"Sudakov, Benny"},{"last_name":"Tran","first_name":"Tuan","full_name":"Tran, Tuan"}],"volume":99,"date_updated":"2023-02-23T14:01:53Z","date_created":"2021-06-22T09:46:03Z","publication_identifier":{"issn":["0024-6107"],"eissn":["1469-7750"]},"month":"05","main_file_link":[{"url":"https://arxiv.org/abs/1807.05202","open_access":"1"}],"external_id":{"arxiv":["1807.05202"]},"oa":1,"quality_controlled":"1","doi":"10.1112/jlms.12192","language":[{"iso":"eng"}],"type":"journal_article","issue":"3","abstract":[{"lang":"eng","text":"Consider integers 𝑘,ℓ such that 0⩽ℓ⩽(𝑘2) . Given a large graph 𝐺 , what is the fraction of 𝑘 -vertex subsets of 𝐺 which span exactly ℓ edges? When 𝐺 is empty or complete, and ℓ is zero or (𝑘2) , this fraction can be exactly 1. On the other hand, if ℓ is far from these extreme values, one might expect that this fraction is substantially smaller than 1. This was recently proved by Alon, Hefetz, Krivelevich, and Tyomkyn who initiated the systematic study of this question and proposed several natural conjectures.\r\nLet ℓ∗=min{ℓ,(𝑘2)−ℓ} . Our main result is that for any 𝑘 and ℓ , the fraction of 𝑘 -vertex subsets that span ℓ edges is at most log𝑂(1)(ℓ∗/𝑘)√ 𝑘/ℓ∗, which is best-possible up to the logarithmic factor. This improves on multiple results of Alon, Hefetz, Krivelevich, and Tyomkyn, and resolves one of their conjectures. In addition, we also make some first steps towards some analogous questions for hypergraphs.\r\nOur proofs involve some Ramsey-type arguments, and a number of different probabilistic tools, such as polynomial anticoncentration inequalities, hypercontractivity, and a coupling trick for random variables defined on a ‘slice’ of the Boolean hypercube."}],"_id":"9586","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","intvolume":" 99","title":"Anticoncentration for subgraph statistics","status":"public","oa_version":"Preprint","scopus_import":"1","article_processing_charge":"No","day":"03","citation":{"chicago":"Kwan, Matthew Alan, Benny Sudakov, and Tuan Tran. “Anticoncentration for Subgraph Statistics.” Journal of the London Mathematical Society. Wiley, 2019. https://doi.org/10.1112/jlms.12192.","short":"M.A. Kwan, B. Sudakov, T. Tran, Journal of the London Mathematical Society 99 (2019) 757–777.","mla":"Kwan, Matthew Alan, et al. “Anticoncentration for Subgraph Statistics.” Journal of the London Mathematical Society, vol. 99, no. 3, Wiley, 2019, pp. 757–77, doi:10.1112/jlms.12192.","ieee":"M. A. Kwan, B. Sudakov, and T. Tran, “Anticoncentration for subgraph statistics,” Journal of the London Mathematical Society, vol. 99, no. 3. Wiley, pp. 757–777, 2019.","apa":"Kwan, M. A., Sudakov, B., & Tran, T. (2019). Anticoncentration for subgraph statistics. Journal of the London Mathematical Society. Wiley. https://doi.org/10.1112/jlms.12192","ista":"Kwan MA, Sudakov B, Tran T. 2019. Anticoncentration for subgraph statistics. Journal of the London Mathematical Society. 99(3), 757–777.","ama":"Kwan MA, Sudakov B, Tran T. Anticoncentration for subgraph statistics. Journal of the London Mathematical Society. 2019;99(3):757-777. doi:10.1112/jlms.12192"},"publication":"Journal of the London Mathematical Society","page":"757-777","article_type":"original","date_published":"2019-05-03T00:00:00Z"},{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1803.08462"}],"oa":1,"external_id":{"arxiv":["1803.08462"]},"quality_controlled":"1","doi":"10.1007/s11856-019-1897-z","language":[{"iso":"eng"}],"month":"08","publication_identifier":{"issn":["0021-2172"],"eissn":["1565-8511"]},"year":"2019","publication_status":"published","publisher":"Springer","author":[{"last_name":"Conlon","first_name":"David","full_name":"Conlon, David"},{"full_name":"Fox, Jacob","first_name":"Jacob","last_name":"Fox"},{"first_name":"Matthew Alan","last_name":"Kwan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","orcid":"0000-0002-4003-7567","full_name":"Kwan, Matthew Alan"},{"full_name":"Sudakov, Benny","first_name":"Benny","last_name":"Sudakov"}],"date_updated":"2023-02-23T14:01:41Z","date_created":"2021-06-21T13:36:02Z","volume":233,"extern":"1","publication":"Israel Journal of Mathematics","citation":{"short":"D. Conlon, J. Fox, M.A. Kwan, B. Sudakov, Israel Journal of Mathematics 233 (2019) 67–111.","mla":"Conlon, David, et al. “Hypergraph Cuts above the Average.” Israel Journal of Mathematics, vol. 233, no. 1, Springer, 2019, pp. 67–111, doi:10.1007/s11856-019-1897-z.","chicago":"Conlon, David, Jacob Fox, Matthew Alan Kwan, and Benny Sudakov. “Hypergraph Cuts above the Average.” Israel Journal of Mathematics. Springer, 2019. https://doi.org/10.1007/s11856-019-1897-z.","ama":"Conlon D, Fox J, Kwan MA, Sudakov B. Hypergraph cuts above the average. Israel Journal of Mathematics. 2019;233(1):67-111. doi:10.1007/s11856-019-1897-z","ieee":"D. Conlon, J. Fox, M. A. Kwan, and B. Sudakov, “Hypergraph cuts above the average,” Israel Journal of Mathematics, vol. 233, no. 1. Springer, pp. 67–111, 2019.","apa":"Conlon, D., Fox, J., Kwan, M. A., & Sudakov, B. (2019). Hypergraph cuts above the average. Israel Journal of Mathematics. Springer. https://doi.org/10.1007/s11856-019-1897-z","ista":"Conlon D, Fox J, Kwan MA, Sudakov B. 2019. Hypergraph cuts above the average. Israel Journal of Mathematics. 233(1), 67–111."},"article_type":"original","page":"67-111","date_published":"2019-08-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No","_id":"9580","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","status":"public","title":"Hypergraph cuts above the average","intvolume":" 233","oa_version":"Preprint","type":"journal_article","abstract":[{"text":"An r-cut of a k-uniform hypergraph H is a partition of the vertex set of H into r parts and the size of the cut is the number of edges which have a vertex in each part. A classical result of Edwards says that every m-edge graph has a 2-cut of size m/2+Ω)(m−−√) and this is best possible. That is, there exist cuts which exceed the expected size of a random cut by some multiple of the standard deviation. We study analogues of this and related results in hypergraphs. First, we observe that similarly to graphs, every m-edge k-uniform hypergraph has an r-cut whose size is Ω(m−−√) larger than the expected size of a random r-cut. Moreover, in the case where k = 3 and r = 2 this bound is best possible and is attained by Steiner triple systems. Surprisingly, for all other cases (that is, if k ≥ 4 or r ≥ 3), we show that every m-edge k-uniform hypergraph has an r-cut whose size is Ω(m5/9) larger than the expected size of a random r-cut. This is a significant difference in behaviour, since the amount by which the size of the largest cut exceeds the expected size of a random cut is now considerably larger than the standard deviation.","lang":"eng"}],"issue":"1"},{"year":"2019","publication_status":"published","publisher":"American Mathematical Society","author":[{"full_name":"Kwan, Matthew Alan","orcid":"0000-0002-4003-7567","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","last_name":"Kwan","first_name":"Matthew Alan"},{"full_name":"Sudakov, Benny","last_name":"Sudakov","first_name":"Benny"}],"date_created":"2021-06-22T09:31:45Z","date_updated":"2023-02-23T14:01:50Z","volume":372,"extern":"1","external_id":{"arxiv":["1712.05656"]},"oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1090/tran/7729"}],"quality_controlled":"1","doi":"10.1090/tran/7729","language":[{"iso":"eng"}],"month":"10","publication_identifier":{"eissn":["1088-6850"],"issn":["0002-9947"]},"_id":"9585","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","title":"Proof of a conjecture on induced subgraphs of Ramsey graphs","status":"public","intvolume":" 372","oa_version":"Submitted Version","type":"journal_article","abstract":[{"lang":"eng","text":"An n-vertex graph is called C-Ramsey if it has no clique or independent set of size C log n. All known constructions of Ramsey graphs involve randomness in an essential way, and there is an ongoing line of research towards showing that in fact all Ramsey graphs must obey certain “richness” properties characteristic of random graphs. More than 25 years ago, Erdős, Faudree and Sós conjectured that in any C-Ramsey graph there are Ω(n^5/2) induced subgraphs, no pair of which have the same numbers of vertices and edges. Improving on earlier results of Alon, Balogh, Kostochka and Samotij, in this paper we prove this conjecture."}],"issue":"8","publication":"Transactions of the American Mathematical Society","citation":{"short":"M.A. Kwan, B. Sudakov, Transactions of the American Mathematical Society 372 (2019) 5571–5594.","mla":"Kwan, Matthew Alan, and Benny Sudakov. “Proof of a Conjecture on Induced Subgraphs of Ramsey Graphs.” Transactions of the American Mathematical Society, vol. 372, no. 8, American Mathematical Society, 2019, pp. 5571–94, doi:10.1090/tran/7729.","chicago":"Kwan, Matthew Alan, and Benny Sudakov. “Proof of a Conjecture on Induced Subgraphs of Ramsey Graphs.” Transactions of the American Mathematical Society. American Mathematical Society, 2019. https://doi.org/10.1090/tran/7729.","ama":"Kwan MA, Sudakov B. Proof of a conjecture on induced subgraphs of Ramsey graphs. Transactions of the American Mathematical Society. 2019;372(8):5571-5594. doi:10.1090/tran/7729","apa":"Kwan, M. A., & Sudakov, B. (2019). Proof of a conjecture on induced subgraphs of Ramsey graphs. Transactions of the American Mathematical Society. American Mathematical Society. https://doi.org/10.1090/tran/7729","ieee":"M. A. Kwan and B. Sudakov, “Proof of a conjecture on induced subgraphs of Ramsey graphs,” Transactions of the American Mathematical Society, vol. 372, no. 8. American Mathematical Society, pp. 5571–5594, 2019.","ista":"Kwan MA, Sudakov B. 2019. Proof of a conjecture on induced subgraphs of Ramsey graphs. Transactions of the American Mathematical Society. 372(8), 5571–5594."},"article_type":"original","page":"5571-5594","date_published":"2019-10-15T00:00:00Z","scopus_import":"1","day":"15","article_processing_charge":"No"},{"abstract":[{"text":"Progress in the atomic-scale modeling of matter over the past decade has been tremendous. This progress has been brought about by improvements in methods for evaluating interatomic forces that work by either solving the electronic structure problem explicitly, or by computing accurate approximations of the solution and by the development of techniques that use the Born–Oppenheimer (BO) forces to move the atoms on the BO potential energy surface. As a consequence of these developments it is now possible to identify stable or metastable states, to sample configurations consistent with the appropriate thermodynamic ensemble, and to estimate the kinetics of reactions and phase transitions. All too often, however, progress is slowed down by the bottleneck associated with implementing new optimization algorithms and/or sampling techniques into the many existing electronic-structure and empirical-potential codes. To address this problem, we are thus releasing a new version of the i-PI software. This piece of software is an easily extensible framework for implementing advanced atomistic simulation techniques using interatomic potentials and forces calculated by an external driver code. While the original version of the code (Ceriotti et al., 2014) was developed with a focus on path integral molecular dynamics techniques, this second release of i-PI not only includes several new advanced path integral methods, but also offers other classes of algorithms. In other words, i-PI is moving towards becoming a universal force engine that is both modular and tightly coupled to the driver codes that evaluate the potential energy surface and its derivatives.","lang":"eng"}],"type":"journal_article","oa_version":"Preprint","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","_id":"9677","intvolume":" 236","status":"public","title":"i-PI 2.0: A universal force engine for advanced molecular simulations","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2019-03-01T00:00:00Z","citation":{"mla":"Kapil, Venkat, et al. “I-PI 2.0: A Universal Force Engine for Advanced Molecular Simulations.” Computer Physics Communications, vol. 236, Elsevier, 2019, pp. 214–23, doi:10.1016/j.cpc.2018.09.020.","short":"V. Kapil, M. Rossi, O. Marsalek, R. Petraglia, Y. Litman, T. Spura, B. Cheng, A. Cuzzocrea, R.H. Meißner, D.M. Wilkins, B.A. Helfrecht, P. Juda, S.P. Bienvenue, W. Fang, J. Kessler, I. Poltavsky, S. Vandenbrande, J. Wieme, C. Corminboeuf, T.D. Kühne, D.E. Manolopoulos, T.E. Markland, J.O. Richardson, A. Tkatchenko, G.A. Tribello, V. Van Speybroeck, M. Ceriotti, Computer Physics Communications 236 (2019) 214–223.","chicago":"Kapil, Venkat, Mariana Rossi, Ondrej Marsalek, Riccardo Petraglia, Yair Litman, Thomas Spura, Bingqing Cheng, et al. “I-PI 2.0: A Universal Force Engine for Advanced Molecular Simulations.” Computer Physics Communications. Elsevier, 2019. https://doi.org/10.1016/j.cpc.2018.09.020.","ama":"Kapil V, Rossi M, Marsalek O, et al. i-PI 2.0: A universal force engine for advanced molecular simulations. Computer Physics Communications. 2019;236:214-223. doi:10.1016/j.cpc.2018.09.020","ista":"Kapil V, Rossi M, Marsalek O, Petraglia R, Litman Y, Spura T, Cheng B, Cuzzocrea A, Meißner RH, Wilkins DM, Helfrecht BA, Juda P, Bienvenue SP, Fang W, Kessler J, Poltavsky I, Vandenbrande S, Wieme J, Corminboeuf C, Kühne TD, Manolopoulos DE, Markland TE, Richardson JO, Tkatchenko A, Tribello GA, Van Speybroeck V, Ceriotti M. 2019. i-PI 2.0: A universal force engine for advanced molecular simulations. Computer Physics Communications. 236, 214–223.","ieee":"V. Kapil et al., “i-PI 2.0: A universal force engine for advanced molecular simulations,” Computer Physics Communications, vol. 236. Elsevier, pp. 214–223, 2019.","apa":"Kapil, V., Rossi, M., Marsalek, O., Petraglia, R., Litman, Y., Spura, T., … Ceriotti, M. (2019). i-PI 2.0: A universal force engine for advanced molecular simulations. Computer Physics Communications. Elsevier. https://doi.org/10.1016/j.cpc.2018.09.020"},"publication":"Computer Physics Communications","page":"214-223","article_type":"original","extern":"1","author":[{"first_name":"Venkat","last_name":"Kapil","full_name":"Kapil, Venkat"},{"full_name":"Rossi, Mariana","last_name":"Rossi","first_name":"Mariana"},{"first_name":"Ondrej","last_name":"Marsalek","full_name":"Marsalek, Ondrej"},{"last_name":"Petraglia","first_name":"Riccardo","full_name":"Petraglia, Riccardo"},{"full_name":"Litman, Yair","first_name":"Yair","last_name":"Litman"},{"first_name":"Thomas","last_name":"Spura","full_name":"Spura, Thomas"},{"last_name":"Cheng","first_name":"Bingqing","orcid":"0000-0002-3584-9632","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","full_name":"Cheng, Bingqing"},{"first_name":"Alice","last_name":"Cuzzocrea","full_name":"Cuzzocrea, Alice"},{"full_name":"Meißner, Robert H.","last_name":"Meißner","first_name":"Robert H."},{"first_name":"David M.","last_name":"Wilkins","full_name":"Wilkins, David M."},{"full_name":"Helfrecht, Benjamin A.","first_name":"Benjamin A.","last_name":"Helfrecht"},{"full_name":"Juda, Przemysław","first_name":"Przemysław","last_name":"Juda"},{"full_name":"Bienvenue, Sébastien P.","last_name":"Bienvenue","first_name":"Sébastien P."},{"first_name":"Wei","last_name":"Fang","full_name":"Fang, Wei"},{"full_name":"Kessler, Jan","first_name":"Jan","last_name":"Kessler"},{"last_name":"Poltavsky","first_name":"Igor","full_name":"Poltavsky, Igor"},{"full_name":"Vandenbrande, Steven","last_name":"Vandenbrande","first_name":"Steven"},{"first_name":"Jelle","last_name":"Wieme","full_name":"Wieme, Jelle"},{"full_name":"Corminboeuf, Clemence","last_name":"Corminboeuf","first_name":"Clemence"},{"full_name":"Kühne, Thomas D.","first_name":"Thomas D.","last_name":"Kühne"},{"first_name":"David E.","last_name":"Manolopoulos","full_name":"Manolopoulos, David E."},{"last_name":"Markland","first_name":"Thomas E.","full_name":"Markland, Thomas E."},{"first_name":"Jeremy O.","last_name":"Richardson","full_name":"Richardson, Jeremy O."},{"full_name":"Tkatchenko, Alexandre","first_name":"Alexandre","last_name":"Tkatchenko"},{"full_name":"Tribello, Gareth A.","first_name":"Gareth A.","last_name":"Tribello"},{"full_name":"Van Speybroeck, Veronique","last_name":"Van Speybroeck","first_name":"Veronique"},{"full_name":"Ceriotti, Michele","last_name":"Ceriotti","first_name":"Michele"}],"volume":236,"date_created":"2021-07-16T08:53:01Z","date_updated":"2021-08-09T12:37:16Z","year":"2019","publisher":"Elsevier","publication_status":"published","publication_identifier":{"issn":["0010-4655"]},"month":"03","doi":"10.1016/j.cpc.2018.09.020","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/1808.03824","open_access":"1"}],"oa":1,"external_id":{"arxiv":["1808.03824"]},"quality_controlled":"1"},{"issue":"1","abstract":[{"text":"Atomistic modeling of phase transitions, chemical reactions, or other rare events that involve overcoming high free energy barriers usually entails prohibitively long simulation times. Introducing a bias potential as a function of an appropriately chosen set of collective variables can significantly accelerate the exploration of phase space, albeit at the price of distorting the distribution of microstates. Efficient reweighting to recover the unbiased distribution can be nontrivial when employing adaptive sampling techniques such as metadynamics, variationally enhanced sampling, or parallel bias metadynamics, in which the system evolves in a quasi-equilibrium manner under a time-dependent bias. We introduce an iterative unbiasing scheme that makes efficient use of all the trajectory data and that does not require the distribution to be evaluated on a grid. The method can thus be used even when the bias has a high dimensionality. We benchmark this approach against some of the existing schemes on model systems with different complexity and dimensionality.","lang":"eng"}],"type":"journal_article","oa_version":"Preprint","_id":"9680","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","intvolume":" 16","title":"Iterative unbiasing of quasi-equilibrium sampling","status":"public","article_processing_charge":"No","day":"14","scopus_import":"1","date_published":"2019-01-14T00:00:00Z","citation":{"chicago":"Giberti, F., Bingqing Cheng, G. A. Tribello, and M. Ceriotti. “Iterative Unbiasing of Quasi-Equilibrium Sampling.” Journal of Chemical Theory and Computation. American Chemical Society, 2019. https://doi.org/10.1021/acs.jctc.9b00907.","short":"F. Giberti, B. Cheng, G.A. Tribello, M. Ceriotti, Journal of Chemical Theory and Computation 16 (2019) 100–107.","mla":"Giberti, F., et al. “Iterative Unbiasing of Quasi-Equilibrium Sampling.” Journal of Chemical Theory and Computation, vol. 16, no. 1, American Chemical Society, 2019, pp. 100–07, doi:10.1021/acs.jctc.9b00907.","ieee":"F. Giberti, B. Cheng, G. A. Tribello, and M. Ceriotti, “Iterative unbiasing of quasi-equilibrium sampling,” Journal of Chemical Theory and Computation, vol. 16, no. 1. American Chemical Society, pp. 100–107, 2019.","apa":"Giberti, F., Cheng, B., Tribello, G. A., & Ceriotti, M. (2019). Iterative unbiasing of quasi-equilibrium sampling. Journal of Chemical Theory and Computation. American Chemical Society. https://doi.org/10.1021/acs.jctc.9b00907","ista":"Giberti F, Cheng B, Tribello GA, Ceriotti M. 2019. Iterative unbiasing of quasi-equilibrium sampling. Journal of Chemical Theory and Computation. 16(1), 100–107.","ama":"Giberti F, Cheng B, Tribello GA, Ceriotti M. Iterative unbiasing of quasi-equilibrium sampling. Journal of Chemical Theory and Computation. 2019;16(1):100-107. doi:10.1021/acs.jctc.9b00907"},"publication":"Journal of Chemical Theory and Computation","page":"100-107","article_type":"original","extern":"1","author":[{"full_name":"Giberti, F.","first_name":"F.","last_name":"Giberti"},{"full_name":"Cheng, Bingqing","id":"cbe3cda4-d82c-11eb-8dc7-8ff94289fcc9","orcid":"0000-0002-3584-9632","first_name":"Bingqing","last_name":"Cheng"},{"full_name":"Tribello, G. A.","last_name":"Tribello","first_name":"G. A."},{"full_name":"Ceriotti, M.","last_name":"Ceriotti","first_name":"M."}],"volume":16,"date_created":"2021-07-19T06:56:45Z","date_updated":"2021-08-09T12:37:37Z","pmid":1,"year":"2019","publisher":"American Chemical Society","publication_status":"published","publication_identifier":{"issn":["1549-9618"],"eissn":["1549-9626"]},"month":"01","doi":"10.1021/acs.jctc.9b00907","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1911.01140"}],"oa":1,"external_id":{"pmid":["31743021"],"arxiv":["1911.01140"]},"quality_controlled":"1"},{"extern":"1","author":[{"full_name":"Girona‐Mata, Marc","last_name":"Girona‐Mata","first_name":"Marc"},{"first_name":"Evan S.","last_name":"Miles","full_name":"Miles, Evan S."},{"first_name":"Silvan","last_name":"Ragettli","full_name":"Ragettli, Silvan"},{"full_name":"Pellicciotti, Francesca","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","first_name":"Francesca","last_name":"Pellicciotti"}],"volume":55,"date_updated":"2023-02-28T12:14:18Z","date_created":"2023-02-20T08:12:59Z","year":"2019","publisher":"American Geophysical Union","publication_status":"published","publication_identifier":{"eissn":["1944-7973"],"issn":["0043-1397"]},"month":"08","doi":"10.1029/2019wr024935","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1029/2019WR024935"}],"oa":1,"quality_controlled":"1","issue":"8","abstract":[{"text":"The snow cover dynamics of High Mountain Asia are usually assessed at spatial resolutions of 250 m or greater, but this scale is too coarse to clearly represent the rugged topography common to the region. Higher-resolution measurement of snow-covered area often results in biased sampling due to cloud cover and deep shadows. We therefore develop a Normalized Difference Snow Index-based workflow to delineate snow lines from Landsat Thematic Mapper/Enhanced Thematic Mapper+ imagery and apply it to the upper Langtang Valley in Nepal, processing 194 scenes spanning 1999 to 2013. For each scene, we determine the spatial distribution of snow line altitudes (SLAs) with respect to aspect and across six subcatchments. Our results show that the mean SLA exhibits distinct seasonal behavior based on aspect and subcatchment position. We find that SLA dynamics respond to spatial and seasonal trade-offs in precipitation, temperature, and solar radiation, which act as primary controls. We identify two SLA spatial gradients, which we attribute to the effect of spatially variable precipitation. Our results also reveal that aspect-related SLA differences vary seasonally and are influenced by solar radiation. In terms of seasonal dominant controls, we demonstrate that the snow line is controlled by snow precipitation in winter, melt in premonsoon, a combination of both in postmonsoon, and temperature in monsoon, explaining to a large extent the spatial and seasonal variability of the SLA in the upper Langtang Valley. We conclude that while SLA and snow-covered area are complementary metrics, the SLA has a strong potential for understanding local-scale snow cover dynamics and their controlling mechanisms.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12600","intvolume":" 55","title":"High‐resolution snowline delineation from Landsat imagery to infer snow cover controls in a Himalayan catchment","status":"public","article_processing_charge":"No","day":"01","scopus_import":"1","keyword":["Water Science and Technology"],"date_published":"2019-08-01T00:00:00Z","citation":{"ista":"Girona‐Mata M, Miles ES, Ragettli S, Pellicciotti F. 2019. High‐resolution snowline delineation from Landsat imagery to infer snow cover controls in a Himalayan catchment. Water Resources Research. 55(8), 6754–6772.","ieee":"M. Girona‐Mata, E. S. Miles, S. Ragettli, and F. Pellicciotti, “High‐resolution snowline delineation from Landsat imagery to infer snow cover controls in a Himalayan catchment,” Water Resources Research, vol. 55, no. 8. American Geophysical Union, pp. 6754–6772, 2019.","apa":"Girona‐Mata, M., Miles, E. S., Ragettli, S., & Pellicciotti, F. (2019). High‐resolution snowline delineation from Landsat imagery to infer snow cover controls in a Himalayan catchment. Water Resources Research. American Geophysical Union. https://doi.org/10.1029/2019wr024935","ama":"Girona‐Mata M, Miles ES, Ragettli S, Pellicciotti F. High‐resolution snowline delineation from Landsat imagery to infer snow cover controls in a Himalayan catchment. Water Resources Research. 2019;55(8):6754-6772. doi:10.1029/2019wr024935","chicago":"Girona‐Mata, Marc, Evan S. Miles, Silvan Ragettli, and Francesca Pellicciotti. “High‐resolution Snowline Delineation from Landsat Imagery to Infer Snow Cover Controls in a Himalayan Catchment.” Water Resources Research. American Geophysical Union, 2019. https://doi.org/10.1029/2019wr024935.","mla":"Girona‐Mata, Marc, et al. “High‐resolution Snowline Delineation from Landsat Imagery to Infer Snow Cover Controls in a Himalayan Catchment.” Water Resources Research, vol. 55, no. 8, American Geophysical Union, 2019, pp. 6754–72, doi:10.1029/2019wr024935.","short":"M. Girona‐Mata, E.S. Miles, S. Ragettli, F. Pellicciotti, Water Resources Research 55 (2019) 6754–6772."},"publication":"Water Resources Research","page":"6754-6772","article_type":"original"},{"date_published":"2019-06-04T00:00:00Z","article_type":"original","publication":"Frontiers in Earth Science","citation":{"ama":"Wijngaard RR, Steiner JF, Kraaijenbrink PDA, et al. Modeling the response of the Langtang Glacier and the Hintereisferner to a changing climate since the Little Ice Age. Frontiers in Earth Science. 2019;7. doi:10.3389/feart.2019.00143","ista":"Wijngaard RR, Steiner JF, Kraaijenbrink PDA, Klug C, Adhikari S, Banerjee A, Pellicciotti F, van Beek LPH, Bierkens MFP, Lutz AF, Immerzeel WW. 2019. Modeling the response of the Langtang Glacier and the Hintereisferner to a changing climate since the Little Ice Age. Frontiers in Earth Science. 7, 143.","apa":"Wijngaard, R. R., Steiner, J. F., Kraaijenbrink, P. D. A., Klug, C., Adhikari, S., Banerjee, A., … Immerzeel, W. W. (2019). Modeling the response of the Langtang Glacier and the Hintereisferner to a changing climate since the Little Ice Age. Frontiers in Earth Science. Frontiers Media. https://doi.org/10.3389/feart.2019.00143","ieee":"R. R. Wijngaard et al., “Modeling the response of the Langtang Glacier and the Hintereisferner to a changing climate since the Little Ice Age,” Frontiers in Earth Science, vol. 7. Frontiers Media, 2019.","mla":"Wijngaard, René R., et al. “Modeling the Response of the Langtang Glacier and the Hintereisferner to a Changing Climate since the Little Ice Age.” Frontiers in Earth Science, vol. 7, 143, Frontiers Media, 2019, doi:10.3389/feart.2019.00143.","short":"R.R. Wijngaard, J.F. Steiner, P.D.A. Kraaijenbrink, C. Klug, S. Adhikari, A. Banerjee, F. Pellicciotti, L.P.H. van Beek, M.F.P. Bierkens, A.F. Lutz, W.W. Immerzeel, Frontiers in Earth Science 7 (2019).","chicago":"Wijngaard, René R., Jakob F. Steiner, Philip D. A. Kraaijenbrink, Christoph Klug, Surendra Adhikari, Argha Banerjee, Francesca Pellicciotti, et al. “Modeling the Response of the Langtang Glacier and the Hintereisferner to a Changing Climate since the Little Ice Age.” Frontiers in Earth Science. Frontiers Media, 2019. https://doi.org/10.3389/feart.2019.00143."},"day":"04","article_processing_charge":"No","scopus_import":"1","oa_version":"Published Version","title":"Modeling the response of the Langtang Glacier and the Hintereisferner to a changing climate since the Little Ice Age","status":"public","intvolume":" 7","_id":"12602","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"This study aims at developing and applying a spatially-distributed coupled glacier mass balance and ice-flow model to attribute the response of glaciers to natural and anthropogenic climate change. We focus on two glaciers with contrasting surface characteristics: a debris-covered glacier (Langtang Glacier in Nepal) and a clean-ice glacier (Hintereisferner in Austria). The model is applied from the end of the Little Ice Age (1850) to the present-day (2016) and is forced with four bias-corrected General Circulation Models (GCMs) from the historical experiment of the CMIP5 archive. The selected GCMs represent region-specific warm-dry, warm-wet, cold-dry, and cold-wet climate conditions. To isolate the effects of anthropogenic climate change on glacier mass balance and flow runs from these GCMs with and without further anthropogenic forcing after 1970 until 2016 are selected. The outcomes indicate that both glaciers experience the largest reduction in area and volume under warm climate conditions, whereas area and volume reductions are smaller under cold climate conditions. Simultaneously with changes in glacier area and volume, surface velocities generally decrease over time. Without further anthropogenic forcing the results reveal a 3% (9%) smaller decline in glacier area (volume) for the debris-covered glacier and a 18% (39%) smaller decline in glacier area (volume) for the clean-ice glacier. The difference in the magnitude between the two glaciers can mainly be attributed to differences in the response time of the glaciers, where the clean-ice glacier shows a much faster response to climate change. We conclude that the response of the two glaciers can mainly be attributed to anthropogenic climate change and that the impact is larger on the clean-ice glacier. The outcomes show that the model performs well under different climate conditions and that the developed approach can be used for regional-scale glacio-hydrological modeling.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.3389/feart.2019.00143","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.3389/feart.2019.00143","open_access":"1"}],"oa":1,"month":"06","publication_identifier":{"issn":["2296-6463"]},"date_updated":"2023-02-28T12:04:48Z","date_created":"2023-02-20T08:13:08Z","volume":7,"author":[{"full_name":"Wijngaard, René R.","first_name":"René R.","last_name":"Wijngaard"},{"full_name":"Steiner, Jakob F.","last_name":"Steiner","first_name":"Jakob F."},{"last_name":"Kraaijenbrink","first_name":"Philip D. A.","full_name":"Kraaijenbrink, Philip D. A."},{"last_name":"Klug","first_name":"Christoph","full_name":"Klug, Christoph"},{"full_name":"Adhikari, Surendra","last_name":"Adhikari","first_name":"Surendra"},{"last_name":"Banerjee","first_name":"Argha","full_name":"Banerjee, Argha"},{"full_name":"Pellicciotti, Francesca","first_name":"Francesca","last_name":"Pellicciotti","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70"},{"full_name":"van Beek, Ludovicus P. H.","first_name":"Ludovicus P. H.","last_name":"van Beek"},{"full_name":"Bierkens, Marc F. P.","last_name":"Bierkens","first_name":"Marc F. P."},{"full_name":"Lutz, Arthur F.","first_name":"Arthur F.","last_name":"Lutz"},{"full_name":"Immerzeel, Walter W.","last_name":"Immerzeel","first_name":"Walter W."}],"publication_status":"published","publisher":"Frontiers Media","year":"2019","extern":"1","article_number":"143"},{"doi":"10.1017/jog.2019.40","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1017/jog.2019.40"}],"oa":1,"quality_controlled":"1","publication_identifier":{"issn":["0022-1430"],"eissn":["1727-5652"]},"month":"08","author":[{"last_name":"STEINER","first_name":"JAKOB F.","full_name":"STEINER, JAKOB F."},{"last_name":"BURI","first_name":"PASCAL","full_name":"BURI, PASCAL"},{"full_name":"MILES, EVAN S.","last_name":"MILES","first_name":"EVAN S."},{"full_name":"RAGETTLI, SILVAN","last_name":"RAGETTLI","first_name":"SILVAN"},{"full_name":"Pellicciotti, Francesca","first_name":"Francesca","last_name":"Pellicciotti","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70"}],"volume":65,"date_created":"2023-02-20T08:13:03Z","date_updated":"2023-02-28T12:11:07Z","year":"2019","publisher":"Cambridge University Press","publication_status":"published","extern":"1","date_published":"2019-08-01T00:00:00Z","citation":{"ista":"STEINER JF, BURI P, MILES ES, RAGETTLI S, Pellicciotti F. 2019. Supraglacial ice cliffs and ponds on debris-covered glaciers: Spatio-temporal distribution and characteristics. Journal of Glaciology. 65(252), 617–632.","ieee":"J. F. STEINER, P. BURI, E. S. MILES, S. RAGETTLI, and F. Pellicciotti, “Supraglacial ice cliffs and ponds on debris-covered glaciers: Spatio-temporal distribution and characteristics,” Journal of Glaciology, vol. 65, no. 252. Cambridge University Press, pp. 617–632, 2019.","apa":"STEINER, J. F., BURI, P., MILES, E. S., RAGETTLI, S., & Pellicciotti, F. (2019). Supraglacial ice cliffs and ponds on debris-covered glaciers: Spatio-temporal distribution and characteristics. Journal of Glaciology. Cambridge University Press. https://doi.org/10.1017/jog.2019.40","ama":"STEINER JF, BURI P, MILES ES, RAGETTLI S, Pellicciotti F. Supraglacial ice cliffs and ponds on debris-covered glaciers: Spatio-temporal distribution and characteristics. Journal of Glaciology. 2019;65(252):617-632. doi:10.1017/jog.2019.40","chicago":"STEINER, JAKOB F., PASCAL BURI, EVAN S. MILES, SILVAN RAGETTLI, and Francesca Pellicciotti. “Supraglacial Ice Cliffs and Ponds on Debris-Covered Glaciers: Spatio-Temporal Distribution and Characteristics.” Journal of Glaciology. Cambridge University Press, 2019. https://doi.org/10.1017/jog.2019.40.","mla":"STEINER, JAKOB F., et al. “Supraglacial Ice Cliffs and Ponds on Debris-Covered Glaciers: Spatio-Temporal Distribution and Characteristics.” Journal of Glaciology, vol. 65, no. 252, Cambridge University Press, 2019, pp. 617–32, doi:10.1017/jog.2019.40.","short":"J.F. STEINER, P. BURI, E.S. MILES, S. RAGETTLI, F. Pellicciotti, Journal of Glaciology 65 (2019) 617–632."},"publication":"Journal of Glaciology","page":"617-632","article_type":"original","article_processing_charge":"No","day":"01","scopus_import":"1","oa_version":"Published Version","_id":"12601","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 65","title":"Supraglacial ice cliffs and ponds on debris-covered glaciers: Spatio-temporal distribution and characteristics","status":"public","issue":"252","abstract":[{"text":"Ice cliffs and ponds on debris-covered glaciers have received increased attention due to their role in amplifying local melt. However, very few studies have looked at these features on the catchment scale to determine their patterns and changes in space and time. We have compiled a detailed inventory of cliffs and ponds in the Langtang catchment, central Himalaya, from six high-resolution satellite orthoimages and DEMs between 2006 and 2015, and a historic orthophoto from 1974. Cliffs cover between 1.4% (± 0.4%) in the dry and 3.4% (± 0.9%) in the wet seasons and ponds between 0.6% (± 0.1%) and 1.6% (± 0.3%) of the total debris-covered tongues. We find large variations between seasons, as cliffs and ponds tend to grow in the wetter monsoon period, but there is no obvious trend in total area over the study period. The inventory further shows that cliffs are predominately north-facing irrespective of the glacier flow direction. Both cliffs and ponds appear in higher densities several hundred metres from the terminus in areas where tributaries reach the main glacier tongue. On the largest glacier in the catchment ~10% of all cliffs and ponds persisted over nearly a decade.","lang":"eng"}],"type":"journal_article"},{"type":"journal_article","abstract":[{"text":"Transposable elements (TEs), the movement of which can damage the genome, are epigenetically silenced in eukaryotes. Intriguingly, TEs are activated in the sperm companion cell – vegetative cell (VC) – of the flowering plant Arabidopsis thaliana. However, the extent and mechanism of this activation are unknown. Here we show that about 100 heterochromatic TEs are activated in VCs, mostly by DEMETER-catalyzed DNA demethylation. We further demonstrate that DEMETER access to some of these TEs is permitted by the natural depletion of linker histone H1 in VCs. Ectopically expressed H1 suppresses TEs in VCs by reducing DNA demethylation and via a methylation-independent mechanism. We demonstrate that H1 is required for heterochromatin condensation in plant cells and show that H1 overexpression creates heterochromatic foci in the VC progenitor cell. Taken together, our results demonstrate that the natural depletion of H1 during male gametogenesis facilitates DEMETER-directed DNA demethylation, heterochromatin relaxation, and TE activation.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12192","status":"public","title":"Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation","ddc":["580"],"intvolume":" 8","oa_version":"Published Version","file":[{"date_updated":"2023-02-07T09:42:46Z","date_created":"2023-02-07T09:42:46Z","checksum":"ea6b89c20d59e5eb3646916fe5d568ad","success":1,"relation":"main_file","file_id":"12525","content_type":"application/pdf","file_size":2493837,"creator":"alisjak","file_name":"2019_elife_He.pdf","access_level":"open_access"}],"scopus_import":"1","keyword":["General Immunology and Microbiology","General Biochemistry","Genetics and Molecular Biology","General Medicine","General Neuroscience"],"day":"28","article_processing_charge":"No","has_accepted_license":"1","publication":"eLife","citation":{"ama":"He S, Vickers M, Zhang J, Feng X. Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation. eLife. 2019;8. doi:10.7554/elife.42530","apa":"He, S., Vickers, M., Zhang, J., & Feng, X. (2019). Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation. ELife. eLife Sciences Publications, Ltd. https://doi.org/10.7554/elife.42530","ieee":"S. He, M. Vickers, J. Zhang, and X. Feng, “Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation,” eLife, vol. 8. eLife Sciences Publications, Ltd, 2019.","ista":"He S, Vickers M, Zhang J, Feng X. 2019. Natural depletion of histone H1 in sex cells causes DNA demethylation, heterochromatin decondensation and transposon activation. eLife. 8, 42530.","short":"S. He, M. Vickers, J. Zhang, X. Feng, ELife 8 (2019).","mla":"He, Shengbo, et al. “Natural Depletion of Histone H1 in Sex Cells Causes DNA Demethylation, Heterochromatin Decondensation and Transposon Activation.” ELife, vol. 8, 42530, eLife Sciences Publications, Ltd, 2019, doi:10.7554/elife.42530.","chicago":"He, Shengbo, Martin Vickers, Jingyi Zhang, and Xiaoqi Feng. “Natural Depletion of Histone H1 in Sex Cells Causes DNA Demethylation, Heterochromatin Decondensation and Transposon Activation.” ELife. eLife Sciences Publications, Ltd, 2019. https://doi.org/10.7554/elife.42530."},"article_type":"original","date_published":"2019-05-28T00:00:00Z","article_number":"42530","file_date_updated":"2023-02-07T09:42:46Z","extern":"1","year":"2019","acknowledgement":"We thank David Twell for the pDONR-P4-P1R-pLAT52 and pDONR-P2R-P3-mRFP vectors, the John Innes Centre Bioimaging Facility (Elaine Barclay and Grant Calder) for their assistance with microscopy, and the Norwich BioScience Institute Partnership Computing infrastructure for Science Group for High Performance Computing resources. This work was funded by a Biotechnology and Biological Sciences Research Council (BBSRC) David Phillips Fellowship (BB/L025043/1; SH, JZ and XF), a European Research Council Starting Grant ('SexMeth' 804981; XF) and a Grant to Exceptional Researchers by the Gatsby Charitable Foundation (SH and XF).","publication_status":"published","publisher":"eLife Sciences Publications, Ltd","department":[{"_id":"XiFe"}],"author":[{"first_name":"Shengbo","last_name":"He","full_name":"He, Shengbo"},{"first_name":"Martin","last_name":"Vickers","full_name":"Vickers, Martin"},{"full_name":"Zhang, Jingyi","first_name":"Jingyi","last_name":"Zhang"},{"first_name":"Xiaoqi","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234","full_name":"Feng, Xiaoqi"}],"date_updated":"2023-05-08T10:54:12Z","date_created":"2023-01-16T09:17:21Z","volume":8,"month":"05","publication_identifier":{"issn":["2050-084X"]},"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6594752/"}],"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":{"unknown":["31135340"]},"quality_controlled":"1","doi":"10.7554/elife.42530","language":[{"iso":"eng"}]},{"keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"scopus_import":"1","day":"19","article_processing_charge":"No","article_type":"original","page":"2676-2686.e3","publication":"Current Biology","citation":{"ama":"Lawrence EJ, Gao H, Tock AJ, et al. Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. 2019;29(16):2676-2686.e3. doi:10.1016/j.cub.2019.06.084","ieee":"E. J. Lawrence et al., “Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis,” Current Biology, vol. 29, no. 16. Elsevier BV, p. 2676–2686.e3, 2019.","apa":"Lawrence, E. J., Gao, H., Tock, A. J., Lambing, C., Blackwell, A. R., Feng, X., & Henderson, I. R. (2019). Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. Elsevier BV. https://doi.org/10.1016/j.cub.2019.06.084","ista":"Lawrence EJ, Gao H, Tock AJ, Lambing C, Blackwell AR, Feng X, Henderson IR. 2019. Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. 29(16), 2676–2686.e3.","short":"E.J. Lawrence, H. Gao, A.J. Tock, C. Lambing, A.R. Blackwell, X. Feng, I.R. Henderson, Current Biology 29 (2019) 2676–2686.e3.","mla":"Lawrence, Emma J., et al. “Natural Variation in TBP-ASSOCIATED FACTOR 4b Controls Meiotic Crossover and Germline Transcription in Arabidopsis.” Current Biology, vol. 29, no. 16, Elsevier BV, 2019, p. 2676–2686.e3, doi:10.1016/j.cub.2019.06.084.","chicago":"Lawrence, Emma J., Hongbo Gao, Andrew J. Tock, Christophe Lambing, Alexander R. Blackwell, Xiaoqi Feng, and Ian R. Henderson. “Natural Variation in TBP-ASSOCIATED FACTOR 4b Controls Meiotic Crossover and Germline Transcription in Arabidopsis.” Current Biology. Elsevier BV, 2019. https://doi.org/10.1016/j.cub.2019.06.084."},"date_published":"2019-08-19T00:00:00Z","type":"journal_article","abstract":[{"text":"Meiotic crossover frequency varies within genomes, which influences genetic diversity and adaptation. In turn, genetic variation within populations can act to modify crossover frequency in cis and trans. To identify genetic variation that controls meiotic crossover frequency, we screened Arabidopsis accessions using fluorescent recombination reporters. We mapped a genetic modifier of crossover frequency in Col × Bur populations of Arabidopsis to a premature stop codon within TBP-ASSOCIATED FACTOR 4b (TAF4b), which encodes a subunit of the RNA polymerase II general transcription factor TFIID. The Arabidopsis taf4b mutation is a rare variant found in the British Isles, originating in South-West Ireland. Using genetics, genomics, and immunocytology, we demonstrate a genome-wide decrease in taf4b crossovers, with strongest reduction in the sub-telomeric regions. Using RNA sequencing (RNA-seq) from purified meiocytes, we show that TAF4b expression is meiocyte enriched, whereas its paralog TAF4 is broadly expressed. Consistent with the role of TFIID in promoting gene expression, RNA-seq of wild-type and taf4b meiocytes identified widespread transcriptional changes, including in genes that regulate the meiotic cell cycle and recombination. Therefore, TAF4b duplication is associated with acquisition of meiocyte-specific expression and promotion of germline transcription, which act directly or indirectly to elevate crossovers. This identifies a novel mode of meiotic recombination control via a general transcription factor.","lang":"eng"}],"issue":"16","title":"Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis","status":"public","intvolume":" 29","_id":"12190","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","month":"08","publication_identifier":{"issn":["0960-9822"]},"quality_controlled":"1","external_id":{"pmid":["31378616"]},"language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2019.06.084","extern":"1","publication_status":"published","publisher":"Elsevier BV","department":[{"_id":"XiFe"}],"acknowledgement":"We thank Gregory Copenhaver (University of North Carolina), Avraham Levy (The Weizmann Institute), and Scott Poethig (University of Pennsylvania) for FTLs; Piotr Ziolkowski for Col-420/Bur seed; Sureshkumar Balasubramanian\r\n(Monash University) for providing British and Irish Arabidopsis accessions; Mathilde Grelon (INRA, Versailles) for providing the MLH1 antibody; and the Gurdon Institute for access to microscopes. This work was supported by a BBSRC DTP studentship (E.J.L.), European Research Area Network for Coordinating Action in Plant Sciences/BBSRC ‘‘DeCOP’’ (BB/M004937/1; C.L.), a BBSRC David Phillips Fellowship (BB/L025043/1; H.G. and X.F.), the European Research Council (CoG ‘‘SynthHotspot,’’ A.J.T., C.L., and I.R.H.; StG ‘‘SexMeth,’’ X.F.), and a Sainsbury Charitable Foundation Studentship (A.R.B.).","year":"2019","pmid":1,"date_updated":"2023-05-08T10:54:54Z","date_created":"2023-01-16T09:16:33Z","volume":29,"author":[{"full_name":"Lawrence, Emma J.","first_name":"Emma J.","last_name":"Lawrence"},{"full_name":"Gao, Hongbo","first_name":"Hongbo","last_name":"Gao"},{"full_name":"Tock, Andrew J.","last_name":"Tock","first_name":"Andrew J."},{"full_name":"Lambing, Christophe","first_name":"Christophe","last_name":"Lambing"},{"first_name":"Alexander R.","last_name":"Blackwell","full_name":"Blackwell, Alexander R."},{"first_name":"Xiaoqi","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234","full_name":"Feng, Xiaoqi"},{"full_name":"Henderson, Ian R.","last_name":"Henderson","first_name":"Ian R."}]},{"_id":"8305","year":"2019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Bootstrapping consensus without trusted setup: fully asynchronous distributed key generation","publication_status":"submitted","author":[{"first_name":"Eleftherios","last_name":"KOKORIS KOGIAS","id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30","full_name":"KOKORIS KOGIAS, Eleftherios"},{"full_name":"Spiegelman, Alexander","last_name":"Spiegelman","first_name":"Alexander"},{"full_name":"Malkhi, Dahlia","last_name":"Malkhi","first_name":"Dahlia"},{"last_name":"Abraham","first_name":"Ittai","full_name":"Abraham, Ittai"}],"oa_version":"Preprint","date_updated":"2023-05-10T09:27:54Z","date_created":"2020-08-26T12:18:00Z","type":"preprint","article_number":"2019/1015","abstract":[{"lang":"eng","text":"In this paper, we present the first fully asynchronous distributed key generation (ADKG) algorithm as well as the first distributed key generation algorithm that can create keys with a dual (f,2f+1)−threshold that are necessary for scalable consensus (which so far needs a trusted dealer assumption). In order to create a DKG with a dual (f,2f+1)− threshold we first answer in the affirmative the open question posed by Cachin et al. how to create an AVSS protocol with recovery thresholds f+1Cryptology EPrint Archive, 2019/1015.","short":"E. Kokoris Kogias, A. Spiegelman, D. Malkhi, I. Abraham, Cryptology EPrint Archive (n.d.).","chicago":"Kokoris Kogias, Eleftherios, Alexander Spiegelman, Dahlia Malkhi, and Ittai Abraham. “Bootstrapping Consensus without Trusted Setup: Fully Asynchronous Distributed Key Generation.” Cryptology EPrint Archive, n.d.","ama":"Kokoris Kogias E, Spiegelman A, Malkhi D, Abraham I. Bootstrapping consensus without trusted setup: fully asynchronous distributed key generation. Cryptology ePrint Archive.","ista":"Kokoris Kogias E, Spiegelman A, Malkhi D, Abraham I. Bootstrapping consensus without trusted setup: fully asynchronous distributed key generation. Cryptology ePrint Archive, 2019/1015.","apa":"Kokoris Kogias, E., Spiegelman, A., Malkhi, D., & Abraham, I. (n.d.). Bootstrapping consensus without trusted setup: fully asynchronous distributed key generation. Cryptology ePrint Archive.","ieee":"E. Kokoris Kogias, A. Spiegelman, D. Malkhi, and I. Abraham, “Bootstrapping consensus without trusted setup: fully asynchronous distributed key generation,” Cryptology ePrint Archive. ."},"main_file_link":[{"open_access":"1","url":"https://eprint.iacr.org/2019/1015"}],"oa":1,"publication":"Cryptology ePrint Archive","date_published":"2019-09-10T00:00:00Z","language":[{"iso":"eng"}],"article_processing_charge":"No","day":"10","month":"09"},{"language":[{"iso":"eng"}],"date_published":"2019-02-27T00:00:00Z","conference":{"name":"AHPC: Austrian HPC Meeting","location":"Grundlsee, Austria","start_date":"2019-02-25","end_date":"2019-02-27"},"page":"25","oa":1,"main_file_link":[{"open_access":"1","url":"https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc19/BOOKLET_AHPC19.pdf"}],"citation":{"chicago":"Schlögl, Alois, Janos Kiss, and Stefano Elefante. “Is Debian Suitable for Running an HPC Cluster?” In AHPC19 - Austrian HPC Meeting 2019 , 25. Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019.","short":"A. Schlögl, J. Kiss, S. Elefante, in:, AHPC19 - Austrian HPC Meeting 2019 , Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019, p. 25.","mla":"Schlögl, Alois, et al. “Is Debian Suitable for Running an HPC Cluster?” AHPC19 - Austrian HPC Meeting 2019 , Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019, p. 25.","ieee":"A. Schlögl, J. Kiss, and S. Elefante, “Is Debian suitable for running an HPC Cluster?,” in AHPC19 - Austrian HPC Meeting 2019 , Grundlsee, Austria, 2019, p. 25.","apa":"Schlögl, A., Kiss, J., & Elefante, S. (2019). Is Debian suitable for running an HPC Cluster? In AHPC19 - Austrian HPC Meeting 2019 (p. 25). Grundlsee, Austria: Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz.","ista":"Schlögl A, Kiss J, Elefante S. 2019. Is Debian suitable for running an HPC Cluster? AHPC19 - Austrian HPC Meeting 2019 . AHPC: Austrian HPC Meeting, 25.","ama":"Schlögl A, Kiss J, Elefante S. Is Debian suitable for running an HPC Cluster? In: AHPC19 - Austrian HPC Meeting 2019 . Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz; 2019:25."},"publication":"AHPC19 - Austrian HPC Meeting 2019 ","article_processing_charge":"No","has_accepted_license":"1","day":"27","month":"02","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"2019_AHPC_Schloegl.pdf","file_size":1097603,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"12970","checksum":"acc8272027faaf30709c51ac5c58ffa4","success":1,"date_updated":"2023-05-16T07:27:09Z","date_created":"2023-05-16T07:27:09Z"}],"date_created":"2023-05-05T12:48:48Z","date_updated":"2023-05-16T07:29:32Z","author":[{"full_name":"Schlögl, Alois","last_name":"Schlögl","first_name":"Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Kiss, Janos","first_name":"Janos","last_name":"Kiss","id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Stefano","last_name":"Elefante","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","full_name":"Elefante, Stefano"}],"department":[{"_id":"ScienComp"}],"publisher":"Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz","title":"Is Debian suitable for running an HPC Cluster?","publication_status":"published","status":"public","ddc":["000"],"_id":"12901","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2019","file_date_updated":"2023-05-16T07:27:09Z","type":"conference_abstract"},{"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":{"pmid":["31599721"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.7554/elife.49796","publication_identifier":{"issn":["2050-084X"]},"month":"10","publisher":"eLife Sciences Publications","publication_status":"published","pmid":1,"year":"2019","volume":8,"date_created":"2022-04-07T07:45:02Z","date_updated":"2023-05-31T06:36:22Z","related_material":{"record":[{"id":"13079","relation":"research_data","status":"public"}]},"author":[{"full_name":"Buchwalter, Abigail","first_name":"Abigail","last_name":"Buchwalter"},{"full_name":"Schulte, Roberta","first_name":"Roberta","last_name":"Schulte"},{"full_name":"Tsai, Hsiao","first_name":"Hsiao","last_name":"Tsai"},{"full_name":"Capitanio, Juliana","first_name":"Juliana","last_name":"Capitanio"},{"last_name":"HETZER","first_name":"Martin W","orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W"}],"article_number":"e49796","extern":"1","file_date_updated":"2022-04-08T08:18:01Z","article_type":"original","citation":{"chicago":"Buchwalter, Abigail, Roberta Schulte, Hsiao Tsai, Juliana Capitanio, and Martin Hetzer. “Selective Clearance of the Inner Nuclear Membrane Protein Emerin by Vesicular Transport during ER Stress.” ELife. eLife Sciences Publications, 2019. https://doi.org/10.7554/elife.49796.","short":"A. Buchwalter, R. Schulte, H. Tsai, J. Capitanio, M. Hetzer, ELife 8 (2019).","mla":"Buchwalter, Abigail, et al. “Selective Clearance of the Inner Nuclear Membrane Protein Emerin by Vesicular Transport during ER Stress.” ELife, vol. 8, e49796, eLife Sciences Publications, 2019, doi:10.7554/elife.49796.","ieee":"A. Buchwalter, R. Schulte, H. Tsai, J. Capitanio, and M. Hetzer, “Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress,” eLife, vol. 8. eLife Sciences Publications, 2019.","apa":"Buchwalter, A., Schulte, R., Tsai, H., Capitanio, J., & Hetzer, M. (2019). Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.49796","ista":"Buchwalter A, Schulte R, Tsai H, Capitanio J, Hetzer M. 2019. Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress. eLife. 8, e49796.","ama":"Buchwalter A, Schulte R, Tsai H, Capitanio J, Hetzer M. Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress. eLife. 2019;8. doi:10.7554/elife.49796"},"publication":"eLife","date_published":"2019-10-10T00:00:00Z","keyword":["General Immunology and Microbiology","General Biochemistry","Genetics and Molecular Biology","General Medicine","General Neuroscience"],"scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"10","intvolume":" 8","ddc":["570"],"title":"Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress","status":"public","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","_id":"11060","oa_version":"Published Version","file":[{"relation":"main_file","file_id":"11138","date_updated":"2022-04-08T08:18:01Z","date_created":"2022-04-08T08:18:01Z","checksum":"1e8672a1e9c3dc0a2d3d0dad89673616","success":1,"file_name":"2019_eLife_Buchwalter.pdf","access_level":"open_access","content_type":"application/pdf","file_size":6984654,"creator":"dernst"}],"type":"journal_article","abstract":[{"text":"The inner nuclear membrane (INM) is a subdomain of the endoplasmic reticulum (ER) that is gated by the nuclear pore complex. It is unknown whether proteins of the INM and ER are degraded through shared or distinct pathways in mammalian cells. We applied dynamic proteomics to profile protein half-lives and report that INM and ER residents turn over at similar rates, indicating that the INM’s unique topology is not a barrier to turnover. Using a microscopy approach, we observed that the proteasome can degrade INM proteins in situ. However, we also uncovered evidence for selective, vesicular transport-mediated turnover of a single INM protein, emerin, that is potentiated by ER stress. Emerin is rapidly cleared from the INM by a mechanism that requires emerin’s LEM domain to mediate vesicular trafficking to lysosomes. This work demonstrates that the INM can be dynamically remodeled in response to environmental inputs.","lang":"eng"}]},{"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.n0r525h","open_access":"1"}],"citation":{"ama":"Buchwalter A, Schulte R, Tsai H, Capitanio J, Hetzer M. Data from: Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress. 2019. doi:10.5061/DRYAD.N0R525H","ieee":"A. Buchwalter, R. Schulte, H. Tsai, J. Capitanio, and M. Hetzer, “Data from: Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress.” Dryad, 2019.","apa":"Buchwalter, A., Schulte, R., Tsai, H., Capitanio, J., & Hetzer, M. (2019). Data from: Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress. Dryad. https://doi.org/10.5061/DRYAD.N0R525H","ista":"Buchwalter A, Schulte R, Tsai H, Capitanio J, Hetzer M. 2019. Data from: Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress, Dryad, 10.5061/DRYAD.N0R525H.","short":"A. Buchwalter, R. Schulte, H. Tsai, J. Capitanio, M. Hetzer, (2019).","mla":"Buchwalter, Abigail, et al. Data from: Selective Clearance of the Inner Nuclear Membrane Protein Emerin by Vesicular Transport during ER Stress. Dryad, 2019, doi:10.5061/DRYAD.N0R525H.","chicago":"Buchwalter, Abigail, Roberta Schulte, Hsiao Tsai, Juliana Capitanio, and Martin Hetzer. “Data from: Selective Clearance of the Inner Nuclear Membrane Protein Emerin by Vesicular Transport during ER Stress.” Dryad, 2019. https://doi.org/10.5061/DRYAD.N0R525H."},"oa":1,"doi":"10.5061/DRYAD.N0R525H","date_published":"2019-10-28T00:00:00Z","month":"10","day":"28","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13079","year":"2019","ddc":["570"],"status":"public","title":"Data from: Selective clearance of the inner nuclear membrane protein emerin by vesicular transport during ER stress","publisher":"Dryad","author":[{"full_name":"Buchwalter, Abigail","last_name":"Buchwalter","first_name":"Abigail"},{"full_name":"Schulte, Roberta","first_name":"Roberta","last_name":"Schulte"},{"last_name":"Tsai","first_name":"Hsiao","full_name":"Tsai, Hsiao"},{"last_name":"Capitanio","first_name":"Juliana","full_name":"Capitanio, Juliana"},{"first_name":"Martin W","last_name":"HETZER","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W"}],"related_material":{"record":[{"id":"11060","status":"public","relation":"used_in_publication"}]},"date_updated":"2023-05-31T06:36:23Z","date_created":"2023-05-23T17:09:30Z","oa_version":"Published Version","type":"research_data_reference","abstract":[{"text":"The inner nuclear membrane (INM) is a subdomain of the endoplasmic reticulum (ER) that is gated by the nuclear pore complex. It is unknown whether proteins of the INM and ER are degraded through shared or distinct pathways in mammalian cells. We applied dynamic proteomics to profile protein half-lives and report that INM and ER residents turn over at similar rates, indicating that the INM’s unique topology is not a barrier to turnover. Using a microscopy approach, we observed that the proteasome can degrade INM proteins in situ. However, we also uncovered evidence for selective, vesicular transport-mediated turnover of a single INM protein, emerin, that is potentiated by ER stress. Emerin is rapidly cleared from the INM by a mechanism that requires emerin’s LEM domain to mediate vesicular trafficking to lysosomes. This work demonstrates that the INM can be dynamically remodeled in response to environmental inputs.","lang":"eng"}],"extern":"1","license":"https://creativecommons.org/publicdomain/zero/1.0/"},{"scopus_import":"1","article_processing_charge":"No","day":"01","month":"08","page":"164-170","quality_controlled":"1","citation":{"ista":"Aichholzer O, Akitaya HA, Cheung KC, Demaine ED, Demaine ML, Fekete SP, Kleist L, Kostitsyna I, Löffler M, Masárová Z, Mundilova K, Schmidt C. 2019. Folding polyominoes with holes into a cube. Proceedings of the 31st Canadian Conference on Computational Geometry. CCCG: Canadian Conference in Computational Geometry, 164–170.","apa":"Aichholzer, O., Akitaya, H. A., Cheung, K. C., Demaine, E. D., Demaine, M. L., Fekete, S. P., … Schmidt, C. (2019). Folding polyominoes with holes into a cube. In Proceedings of the 31st Canadian Conference on Computational Geometry (pp. 164–170). Edmonton, Canada: Canadian Conference on Computational Geometry.","ieee":"O. Aichholzer et al., “Folding polyominoes with holes into a cube,” in Proceedings of the 31st Canadian Conference on Computational Geometry, Edmonton, Canada, 2019, pp. 164–170.","ama":"Aichholzer O, Akitaya HA, Cheung KC, et al. Folding polyominoes with holes into a cube. In: Proceedings of the 31st Canadian Conference on Computational Geometry. Canadian Conference on Computational Geometry; 2019:164-170.","chicago":"Aichholzer, Oswin, Hugo A Akitaya, Kenneth C Cheung, Erik D Demaine, Martin L Demaine, Sandor P Fekete, Linda Kleist, et al. “Folding Polyominoes with Holes into a Cube.” In Proceedings of the 31st Canadian Conference on Computational Geometry, 164–70. Canadian Conference on Computational Geometry, 2019.","mla":"Aichholzer, Oswin, et al. “Folding Polyominoes with Holes into a Cube.” Proceedings of the 31st Canadian Conference on Computational Geometry, Canadian Conference on Computational Geometry, 2019, pp. 164–70.","short":"O. Aichholzer, H.A. Akitaya, K.C. Cheung, E.D. Demaine, M.L. Demaine, S.P. Fekete, L. Kleist, I. Kostitsyna, M. Löffler, Z. Masárová, K. Mundilova, C. Schmidt, in:, Proceedings of the 31st Canadian Conference on Computational Geometry, Canadian Conference on Computational Geometry, 2019, pp. 164–170."},"main_file_link":[{"open_access":"1","url":"https://cccg.ca/proceedings/2019/proceedings.pdf"}],"external_id":{"arxiv":["1910.09917"]},"oa":1,"publication":"Proceedings of the 31st Canadian Conference on Computational Geometry","language":[{"iso":"eng"}],"date_published":"2019-08-01T00:00:00Z","conference":{"end_date":"2019-08-10","start_date":"2019-08-08","location":"Edmonton, Canada","name":"CCCG: Canadian Conference in Computational Geometry"},"type":"conference","abstract":[{"text":"When can a polyomino piece of paper be folded into a unit cube? Prior work studied tree-like polyominoes, but polyominoes with holes remain an intriguing open problem. We present sufficient conditions for a polyomino with hole(s) to fold into a cube, and conditions under which cube folding is impossible. In particular, we show that all but five special simple holes guarantee foldability. ","lang":"eng"}],"publisher":"Canadian Conference on Computational Geometry","department":[{"_id":"HeEd"}],"publication_status":"published","status":"public","title":"Folding polyominoes with holes into a cube","year":"2019","_id":"6989","acknowledgement":"This research was performed in part at the 33rd BellairsWinter Workshop on Computational Geometry. Wethank all other participants for a fruitful atmosphere.","user_id":"D865714E-FA4E-11E9-B85B-F5C5E5697425","oa_version":"Published Version","date_created":"2019-11-04T16:46:11Z","date_updated":"2023-08-04T10:57:42Z","related_material":{"record":[{"id":"8317","relation":"extended_version","status":"public"}]},"author":[{"first_name":"Oswin","last_name":"Aichholzer","full_name":"Aichholzer, Oswin"},{"last_name":"Akitaya","first_name":"Hugo A","full_name":"Akitaya, Hugo A"},{"first_name":"Kenneth C","last_name":"Cheung","full_name":"Cheung, Kenneth C"},{"first_name":"Erik D","last_name":"Demaine","full_name":"Demaine, Erik D"},{"last_name":"Demaine","first_name":"Martin L","full_name":"Demaine, Martin L"},{"full_name":"Fekete, Sandor P","first_name":"Sandor P","last_name":"Fekete"},{"full_name":"Kleist, Linda","last_name":"Kleist","first_name":"Linda"},{"full_name":"Kostitsyna, Irina","first_name":"Irina","last_name":"Kostitsyna"},{"full_name":"Löffler, Maarten","first_name":"Maarten","last_name":"Löffler"},{"full_name":"Masárová, Zuzana","first_name":"Zuzana","last_name":"Masárová","id":"45CFE238-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6660-1322"},{"last_name":"Mundilova","first_name":"Klara","full_name":"Mundilova, Klara"},{"last_name":"Schmidt","first_name":"Christiane","full_name":"Schmidt, Christiane"}]},{"language":[{"iso":"eng"}],"doi":"10.1002/adma.201905866","quality_controlled":"1","external_id":{"pmid":["31709655"]},"month":"11","publication_identifier":{"eissn":["1521-4095"],"issn":["0935-9648"]},"date_updated":"2023-08-07T10:23:41Z","date_created":"2023-08-01T09:37:26Z","volume":32,"author":[{"first_name":"Tong","last_name":"Bian","full_name":"Bian, Tong"},{"first_name":"Zonglin","last_name":"Chu","full_name":"Chu, Zonglin"},{"id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","first_name":"Rafal","last_name":"Klajn","full_name":"Klajn, Rafal"}],"publication_status":"published","publisher":"Wiley","year":"2019","pmid":1,"extern":"1","article_number":"1905866","date_published":"2019-11-19T00:00:00Z","article_type":"original","publication":"Advanced Materials","citation":{"ista":"Bian T, Chu Z, Klajn R. 2019. The many ways to assemble nanoparticles using light. Advanced Materials. 32(20), 1905866.","ieee":"T. Bian, Z. Chu, and R. Klajn, “The many ways to assemble nanoparticles using light,” Advanced Materials, vol. 32, no. 20. Wiley, 2019.","apa":"Bian, T., Chu, Z., & Klajn, R. (2019). The many ways to assemble nanoparticles using light. Advanced Materials. Wiley. https://doi.org/10.1002/adma.201905866","ama":"Bian T, Chu Z, Klajn R. The many ways to assemble nanoparticles using light. Advanced Materials. 2019;32(20). doi:10.1002/adma.201905866","chicago":"Bian, Tong, Zonglin Chu, and Rafal Klajn. “The Many Ways to Assemble Nanoparticles Using Light.” Advanced Materials. Wiley, 2019. https://doi.org/10.1002/adma.201905866.","mla":"Bian, Tong, et al. “The Many Ways to Assemble Nanoparticles Using Light.” Advanced Materials, vol. 32, no. 20, 1905866, Wiley, 2019, doi:10.1002/adma.201905866.","short":"T. Bian, Z. Chu, R. Klajn, Advanced Materials 32 (2019)."},"day":"19","article_processing_charge":"No","keyword":["Mechanical Engineering","Mechanics of Materials","General Materials Science"],"scopus_import":"1","oa_version":"None","status":"public","title":"The many ways to assemble nanoparticles using light","intvolume":" 32","_id":"13366","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"The ability to reversibly assemble nanoparticles using light is both fundamentally interesting and important for applications ranging from reversible data storage to controlled drug delivery. Here, the diverse approaches that have so far been developed to control the self-assembly of nanoparticles using light are reviewed and compared. These approaches include functionalizing nanoparticles with monolayers of photoresponsive molecules, placing them in photoresponsive media capable of reversibly protonating the particles under light, and decorating plasmonic nanoparticles with thermoresponsive polymers, to name just a few. The applicability of these methods to larger, micrometer-sized particles is also discussed. Finally, several perspectives on further developments in the field are offered.","lang":"eng"}],"issue":"20","type":"journal_article"},{"extern":"1","author":[{"first_name":"Zonglin","last_name":"Chu","full_name":"Chu, Zonglin"},{"last_name":"Han","first_name":"Yanxiao","full_name":"Han, Yanxiao"},{"full_name":"Bian, Tong","first_name":"Tong","last_name":"Bian"},{"last_name":"De","first_name":"Soumen","full_name":"De, Soumen"},{"last_name":"Král","first_name":"Petr","full_name":"Král, Petr"},{"id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","last_name":"Klajn","first_name":"Rafal","full_name":"Klajn, Rafal"}],"date_updated":"2023-08-07T10:51:12Z","date_created":"2023-08-01T09:39:19Z","volume":141,"year":"2019","pmid":1,"publication_status":"published","publisher":"American Chemical Society","month":"02","publication_identifier":{"issn":["0002-7863"],"eissn":["1520-5126"]},"doi":"10.1021/jacs.8b09638","language":[{"iso":"eng"}],"external_id":{"pmid":["30595017"]},"quality_controlled":"1","abstract":[{"text":"The reversible photoisomerization of azobenzene has been utilized to construct a plethora of systems in which optical, electronic, catalytic, and other properties can be controlled by light. However, owing to azobenzene’s hydrophobic nature, most of these examples have been realized only in organic solvents, and systems operating in water are relatively scarce. Here, we show that by coadsorbing the inherently hydrophobic azobenzenes with water-solubilizing ligands on the same nanoparticulate platforms, it is possible to render them essentially water-soluble. To this end, we developed a modified nanoparticle functionalization procedure allowing us to precisely fine-tune the amount of azobenzene on the functionalized nanoparticles. Molecular dynamics simulations helped us to identify two distinct supramolecular architectures (depending on the length of the background ligand) on these nanoparticles, which can explain their excellent aqueous solubilities. Azobenzenes adsorbed on these water-soluble nanoparticles exhibit highly reversible photoisomerization upon exposure to UV and visible light. Importantly, the mixed-monolayer approach allowed us to systematically investigate how the background ligand affects the switching properties of azobenzene. We found that the nature of the background ligand has a profound effect on the kinetics of azobenzene switching. For example, a hydroxy-terminated background ligand is capable of accelerating the back-isomerization reaction by more than 6000-fold. These results pave the way toward the development of novel light-responsive nanomaterials operating in aqueous media and, in the long run, in biological environments.","lang":"eng"}],"issue":"5","type":"journal_article","oa_version":"Published Version","_id":"13373","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Supramolecular control of azobenzene switching on nanoparticles","intvolume":" 141","day":"06","article_processing_charge":"No","scopus_import":"1","keyword":["Colloid and Surface Chemistry","Biochemistry","General Chemistry","Catalysis"],"date_published":"2019-02-06T00:00:00Z","publication":"Journal of the American Chemical Society","citation":{"ama":"Chu Z, Han Y, Bian T, De S, Král P, Klajn R. Supramolecular control of azobenzene switching on nanoparticles. Journal of the American Chemical Society. 2019;141(5):1949-1960. doi:10.1021/jacs.8b09638","ista":"Chu Z, Han Y, Bian T, De S, Král P, Klajn R. 2019. Supramolecular control of azobenzene switching on nanoparticles. Journal of the American Chemical Society. 141(5), 1949–1960.","ieee":"Z. Chu, Y. Han, T. Bian, S. De, P. Král, and R. Klajn, “Supramolecular control of azobenzene switching on nanoparticles,” Journal of the American Chemical Society, vol. 141, no. 5. American Chemical Society, pp. 1949–1960, 2019.","apa":"Chu, Z., Han, Y., Bian, T., De, S., Král, P., & Klajn, R. (2019). Supramolecular control of azobenzene switching on nanoparticles. Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.8b09638","mla":"Chu, Zonglin, et al. “Supramolecular Control of Azobenzene Switching on Nanoparticles.” Journal of the American Chemical Society, vol. 141, no. 5, American Chemical Society, 2019, pp. 1949–60, doi:10.1021/jacs.8b09638.","short":"Z. Chu, Y. Han, T. Bian, S. De, P. Král, R. Klajn, Journal of the American Chemical Society 141 (2019) 1949–1960.","chicago":"Chu, Zonglin, Yanxiao Han, Tong Bian, Soumen De, Petr Král, and Rafal Klajn. “Supramolecular Control of Azobenzene Switching on Nanoparticles.” Journal of the American Chemical Society. American Chemical Society, 2019. https://doi.org/10.1021/jacs.8b09638."},"article_type":"original","page":"1949-1960"},{"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1039/C8CS00787J"}],"external_id":{"pmid":["30688963"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1039/c8cs00787j","publication_identifier":{"eissn":["1460-4744"],"issn":["0306-0012"]},"month":"01","publisher":"Royal Society of Chemistry","publication_status":"published","pmid":1,"year":"2019","volume":48,"date_created":"2023-08-01T09:38:52Z","date_updated":"2023-08-07T10:48:31Z","author":[{"first_name":"Marek","last_name":"Grzelczak","full_name":"Grzelczak, Marek"},{"first_name":"Luis M.","last_name":"Liz-Marzán","full_name":"Liz-Marzán, Luis M."},{"full_name":"Klajn, Rafal","first_name":"Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b"}],"extern":"1","page":"1342-1361","article_type":"original","citation":{"chicago":"Grzelczak, Marek, Luis M. Liz-Marzán, and Rafal Klajn. “Stimuli-Responsive Self-Assembly of Nanoparticles.” Chemical Society Reviews. Royal Society of Chemistry, 2019. https://doi.org/10.1039/c8cs00787j.","mla":"Grzelczak, Marek, et al. “Stimuli-Responsive Self-Assembly of Nanoparticles.” Chemical Society Reviews, vol. 48, no. 5, Royal Society of Chemistry, 2019, pp. 1342–61, doi:10.1039/c8cs00787j.","short":"M. Grzelczak, L.M. Liz-Marzán, R. Klajn, Chemical Society Reviews 48 (2019) 1342–1361.","ista":"Grzelczak M, Liz-Marzán LM, Klajn R. 2019. Stimuli-responsive self-assembly of nanoparticles. Chemical Society Reviews. 48(5), 1342–1361.","ieee":"M. Grzelczak, L. M. Liz-Marzán, and R. Klajn, “Stimuli-responsive self-assembly of nanoparticles,” Chemical Society Reviews, vol. 48, no. 5. Royal Society of Chemistry, pp. 1342–1361, 2019.","apa":"Grzelczak, M., Liz-Marzán, L. M., & Klajn, R. (2019). Stimuli-responsive self-assembly of nanoparticles. Chemical Society Reviews. Royal Society of Chemistry. https://doi.org/10.1039/c8cs00787j","ama":"Grzelczak M, Liz-Marzán LM, Klajn R. Stimuli-responsive self-assembly of nanoparticles. Chemical Society Reviews. 2019;48(5):1342-1361. doi:10.1039/c8cs00787j"},"publication":"Chemical Society Reviews","date_published":"2019-01-28T00:00:00Z","keyword":["General Chemistry"],"scopus_import":"1","article_processing_charge":"No","day":"28","intvolume":" 48","title":"Stimuli-responsive self-assembly of nanoparticles","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13372","oa_version":"Published Version","type":"journal_article","issue":"5","abstract":[{"lang":"eng","text":"The capacity to respond or adapt to environmental changes is an intrinsic property of living systems that comprise highly-connected subcomponents communicating through chemical networks. The development of responsive synthetic systems is a relatively new research area that covers different disciplines, among which nanochemistry brings conceptually new demonstrations. Especially attractive are ligand-protected gold nanoparticles, which have been extensively used over the last decade as building blocks in constructing superlattices or dynamic aggregates, under the effect of an applied stimulus. To reflect the importance of surface chemistry and nanoparticle core composition in the dynamic self-assembly of nanoparticles, we provide here an overview of various available stimuli, as tools for synthetic chemists to exploit. Along with this task, the review starts with the use of chemical stimuli such as solvent, pH, gases, metal ions or biomolecules. It then focuses on physical stimuli: temperature, magnetic and electric fields, as well as light. To reflect on the increasing complexity of current architectures, we discuss systems that are responsive to more than one stimulus, to finally encourage further research by proposing future challenges."}]},{"title":"Reversible switching of arylazopyrazole within a metal–organic cage","status":"public","intvolume":" 15","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13369","oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"Arylazopyrazoles represent a new family of molecular photoswitches characterized by a near-quantitative conversion between two states and long thermal half-lives of the metastable state. Here, we investigated the behavior of a model arylazopyrazole in the presence of a self-assembled cage based on Pd–imidazole coordination. Owing to its high water solubility, the cage can solubilize the E isomer of arylazopyrazole, which, by itself, is not soluble in water. NMR spectroscopy and X-ray crystallography have independently demonstrated that each cage can encapsulate two molecules of E-arylazopyrazole. UV-induced switching to the Z isomer was accompanied by the release of one of the two guests from the cage and the formation of a 1:1 cage/Z-arylazopyrazole inclusion complex. DFT calculations suggest that this process involves a dramatic change in the conformation of the cage. Back-isomerization was induced with green light and resulted in the initial 1:2 cage/E-arylazopyrazole complex. This back-isomerization reaction also proceeded in the dark, with a rate significantly higher than in the absence of the cage."}],"article_type":"original","page":"2398-2407","publication":"Beilstein Journal of Organic Chemistry","citation":{"short":"A.I. Hanopolskyi, S. De, M.J. Białek, Y. Diskin-Posner, L. Avram, M. Feller, R. Klajn, Beilstein Journal of Organic Chemistry 15 (2019) 2398–2407.","mla":"Hanopolskyi, Anton I., et al. “Reversible Switching of Arylazopyrazole within a Metal–Organic Cage.” Beilstein Journal of Organic Chemistry, vol. 15, Beilstein Institut, 2019, pp. 2398–407, doi:10.3762/bjoc.15.232.","chicago":"Hanopolskyi, Anton I, Soumen De, Michał J Białek, Yael Diskin-Posner, Liat Avram, Moran Feller, and Rafal Klajn. “Reversible Switching of Arylazopyrazole within a Metal–Organic Cage.” Beilstein Journal of Organic Chemistry. Beilstein Institut, 2019. https://doi.org/10.3762/bjoc.15.232.","ama":"Hanopolskyi AI, De S, Białek MJ, et al. Reversible switching of arylazopyrazole within a metal–organic cage. Beilstein Journal of Organic Chemistry. 2019;15:2398-2407. doi:10.3762/bjoc.15.232","ieee":"A. I. Hanopolskyi et al., “Reversible switching of arylazopyrazole within a metal–organic cage,” Beilstein Journal of Organic Chemistry, vol. 15. Beilstein Institut, pp. 2398–2407, 2019.","apa":"Hanopolskyi, A. I., De, S., Białek, M. J., Diskin-Posner, Y., Avram, L., Feller, M., & Klajn, R. (2019). Reversible switching of arylazopyrazole within a metal–organic cage. Beilstein Journal of Organic Chemistry. Beilstein Institut. https://doi.org/10.3762/bjoc.15.232","ista":"Hanopolskyi AI, De S, Białek MJ, Diskin-Posner Y, Avram L, Feller M, Klajn R. 2019. Reversible switching of arylazopyrazole within a metal–organic cage. Beilstein Journal of Organic Chemistry. 15, 2398–2407."},"date_published":"2019-10-10T00:00:00Z","keyword":["Organic Chemistry"],"scopus_import":"1","day":"10","article_processing_charge":"No","publication_status":"published","publisher":"Beilstein Institut","year":"2019","pmid":1,"date_updated":"2023-08-07T10:34:56Z","date_created":"2023-08-01T09:38:06Z","volume":15,"author":[{"full_name":"Hanopolskyi, Anton I","last_name":"Hanopolskyi","first_name":"Anton I"},{"first_name":"Soumen","last_name":"De","full_name":"De, Soumen"},{"full_name":"Białek, Michał J","first_name":"Michał J","last_name":"Białek"},{"full_name":"Diskin-Posner, Yael","last_name":"Diskin-Posner","first_name":"Yael"},{"first_name":"Liat","last_name":"Avram","full_name":"Avram, Liat"},{"full_name":"Feller, Moran","last_name":"Feller","first_name":"Moran"},{"full_name":"Klajn, Rafal","first_name":"Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b"}],"extern":"1","quality_controlled":"1","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.3762/bjoc.15.232"}],"external_id":{"pmid":["31666874"]},"language":[{"iso":"eng"}],"doi":"10.3762/bjoc.15.232","month":"10","publication_identifier":{"eissn":["1860-5397"]}},{"publication_identifier":{"issn":["1530-6984"],"eissn":["1530-6992"]},"month":"09","language":[{"iso":"eng"}],"doi":"10.1021/acs.nanolett.9b02642","quality_controlled":"1","external_id":{"pmid":["31539469"]},"extern":"1","volume":19,"date_created":"2023-08-01T09:38:23Z","date_updated":"2023-08-07T10:39:34Z","author":[{"last_name":"Chu","first_name":"Zonglin","full_name":"Chu, Zonglin"},{"full_name":"Klajn, Rafal","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","first_name":"Rafal","last_name":"Klajn"}],"publisher":"American Chemical Society","publication_status":"published","pmid":1,"year":"2019","article_processing_charge":"No","day":"20","keyword":["Mechanical Engineering","Condensed Matter Physics","General Materials Science","General Chemistry","Bioengineering"],"scopus_import":"1","date_published":"2019-09-20T00:00:00Z","page":"7106-7111","article_type":"original","citation":{"chicago":"Chu, Zonglin, and Rafal Klajn. “Polysilsesquioxane Nanowire Networks as an ‘Artificial Solvent’ for Reversible Operation of Photochromic Molecules.” Nano Letters. American Chemical Society, 2019. https://doi.org/10.1021/acs.nanolett.9b02642.","short":"Z. Chu, R. Klajn, Nano Letters 19 (2019) 7106–7111.","mla":"Chu, Zonglin, and Rafal Klajn. “Polysilsesquioxane Nanowire Networks as an ‘Artificial Solvent’ for Reversible Operation of Photochromic Molecules.” Nano Letters, vol. 19, no. 10, American Chemical Society, 2019, pp. 7106–11, doi:10.1021/acs.nanolett.9b02642.","apa":"Chu, Z., & Klajn, R. (2019). Polysilsesquioxane nanowire networks as an “Artificial Solvent” for reversible operation of photochromic molecules. Nano Letters. American Chemical Society. https://doi.org/10.1021/acs.nanolett.9b02642","ieee":"Z. Chu and R. Klajn, “Polysilsesquioxane nanowire networks as an ‘Artificial Solvent’ for reversible operation of photochromic molecules,” Nano Letters, vol. 19, no. 10. American Chemical Society, pp. 7106–7111, 2019.","ista":"Chu Z, Klajn R. 2019. Polysilsesquioxane nanowire networks as an “Artificial Solvent” for reversible operation of photochromic molecules. Nano Letters. 19(10), 7106–7111.","ama":"Chu Z, Klajn R. Polysilsesquioxane nanowire networks as an “Artificial Solvent” for reversible operation of photochromic molecules. Nano Letters. 2019;19(10):7106-7111. doi:10.1021/acs.nanolett.9b02642"},"publication":"Nano Letters","issue":"10","abstract":[{"lang":"eng","text":"Efficient isomerization of photochromic molecules often requires conformational freedom and is typically not available under solvent-free conditions. Here, we report a general methodology allowing for reversible switching of such molecules on the surfaces of solid materials. Our method is based on dispersing photochromic compounds within polysilsesquioxane nanowire networks (PNNs), which can be fabricated as transparent, highly porous, micrometer-thick layers on various substrates. We found that azobenzene switching within the PNNs proceeded unusually fast compared with the same molecules in liquid solvents. Efficient isomerization of another photochromic system, spiropyran, from a colorless to a colored form was used to create reversible images in PNN-coated glass. The coloration reaction could be induced with sunlight and is of interest for developing “smart” windows."}],"type":"journal_article","oa_version":"None","intvolume":" 19","status":"public","title":"Polysilsesquioxane nanowire networks as an “Artificial Solvent” for reversible operation of photochromic molecules","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13370"},{"publication":"Chem","citation":{"short":"M.J. Białek, R. Klajn, Chem 5 (2019) 2283–2285.","mla":"Białek, Michał J., and Rafal Klajn. “Diamond Grows Up.” Chem, vol. 5, no. 9, Elsevier, 2019, pp. 2283–85, doi:10.1016/j.chempr.2019.08.012.","chicago":"Białek, Michał J., and Rafal Klajn. “Diamond Grows Up.” Chem. Elsevier, 2019. https://doi.org/10.1016/j.chempr.2019.08.012.","ama":"Białek MJ, Klajn R. Diamond grows up. Chem. 2019;5(9):2283-2285. doi:10.1016/j.chempr.2019.08.012","apa":"Białek, M. J., & Klajn, R. (2019). Diamond grows up. Chem. Elsevier. https://doi.org/10.1016/j.chempr.2019.08.012","ieee":"M. J. Białek and R. Klajn, “Diamond grows up,” Chem, vol. 5, no. 9. Elsevier, pp. 2283–2285, 2019.","ista":"Białek MJ, Klajn R. 2019. Diamond grows up. Chem. 5(9), 2283–2285."},"article_type":"original","page":"2283-2285","date_published":"2019-09-12T00:00:00Z","scopus_import":"1","keyword":["Materials Chemistry","Biochemistry (medical)","General Chemical Engineering","Environmental Chemistry","Biochemistry","General Chemistry"],"day":"12","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13371","title":"Diamond grows up","status":"public","intvolume":" 5","oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"Diamondoid nanoporous crystals represent a synthetically challenging class of materials that typically have been obtained from tetrahedral building blocks. In this issue of Chem, Stoddart and coworkers demonstrate that it is possible to generate diamondoid frameworks from a hexacationic building block lacking a tetrahedral symmetry. These results highlight the great potential of self-assembly for rapidly transforming small molecules into structurally complex functional materials."}],"issue":"9","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.chempr.2019.08.012"}],"oa":1,"quality_controlled":"1","doi":"10.1016/j.chempr.2019.08.012","language":[{"iso":"eng"}],"month":"09","publication_identifier":{"issn":["2451-9308"],"eissn":["2451-9294"]},"year":"2019","publication_status":"published","publisher":"Elsevier","author":[{"full_name":"Białek, Michał J.","first_name":"Michał J.","last_name":"Białek"},{"first_name":"Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","full_name":"Klajn, Rafal"}],"date_created":"2023-08-01T09:38:38Z","date_updated":"2023-08-07T10:46:50Z","volume":5,"extern":"1"},{"month":"08","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":["1905.03835"]},"quality_controlled":"1","project":[{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"},{"call_identifier":"FWF","name":"Formal Methods meets Algorithmic Game Theory","_id":"264B3912-B435-11E9-9278-68D0E5697425","grant_number":"M02369"},{"grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425","name":"The Wittgenstein Prize","call_identifier":"FWF"},{"name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S11402-N23","_id":"25F2ACDE-B435-11E9-9278-68D0E5697425"}],"conference":{"start_date":"2019-08-26","location":"Aachen, Germany","end_date":"2019-08-30","name":"MFCS: nternational Symposium on Mathematical Foundations of Computer Science"},"doi":"10.4230/LIPICS.MFCS.2019.11","language":[{"iso":"eng"}],"article_number":"11","file_date_updated":"2020-07-14T12:47:42Z","ec_funded":1,"year":"2019","publication_status":"published","department":[{"_id":"ToHe"},{"_id":"KrCh"}],"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","author":[{"last_name":"Avni","first_name":"Guy","orcid":"0000-0001-5588-8287","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87","full_name":"Avni, Guy"},{"full_name":"Henzinger, Thomas A","orcid":"0000−0002−2985−7724","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","first_name":"Thomas A"},{"full_name":"Zikelic, Dorde","last_name":"Zikelic","first_name":"Dorde","id":"294AA7A6-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"id":"9239","status":"public","relation":"later_version"}]},"date_updated":"2023-08-07T14:08:34Z","date_created":"2019-09-18T08:04:26Z","volume":138,"scopus_import":1,"day":"01","has_accepted_license":"1","citation":{"apa":"Avni, G., Henzinger, T. A., & Zikelic, D. (2019). Bidding mechanisms in graph games (Vol. 138). Presented at the MFCS: nternational Symposium on Mathematical Foundations of Computer Science, Aachen, Germany: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPICS.MFCS.2019.11","ieee":"G. Avni, T. A. Henzinger, and D. Zikelic, “Bidding mechanisms in graph games,” presented at the MFCS: nternational Symposium on Mathematical Foundations of Computer Science, Aachen, Germany, 2019, vol. 138.","ista":"Avni G, Henzinger TA, Zikelic D. 2019. Bidding mechanisms in graph games. MFCS: nternational Symposium on Mathematical Foundations of Computer Science, LIPIcs, vol. 138, 11.","ama":"Avni G, Henzinger TA, Zikelic D. Bidding mechanisms in graph games. In: Vol 138. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2019. doi:10.4230/LIPICS.MFCS.2019.11","chicago":"Avni, Guy, Thomas A Henzinger, and Dorde Zikelic. “Bidding Mechanisms in Graph Games,” Vol. 138. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019. https://doi.org/10.4230/LIPICS.MFCS.2019.11.","short":"G. Avni, T.A. Henzinger, D. Zikelic, in:, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019.","mla":"Avni, Guy, et al. Bidding Mechanisms in Graph Games. Vol. 138, 11, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2019, doi:10.4230/LIPICS.MFCS.2019.11."},"date_published":"2019-08-01T00:00:00Z","type":"conference","alternative_title":["LIPIcs"],"abstract":[{"text":"In two-player games on graphs, the players move a token through a graph to produce a finite or infinite path, which determines the qualitative winner or quantitative payoff of the game. We study bidding games in which the players bid for the right to move the token. Several bidding rules were studied previously. In Richman bidding, in each round, the players simultaneously submit bids, and the higher bidder moves the token and pays the other player. Poorman bidding is similar except that the winner of the bidding pays the \"bank\" rather than the other player. Taxman bidding spans the spectrum between Richman and poorman bidding. They are parameterized by a constant tau in [0,1]: portion tau of the winning bid is paid to the other player, and portion 1-tau to the bank. While finite-duration (reachability) taxman games have been studied before, we present, for the first time, results on infinite-duration taxman games. It was previously shown that both Richman and poorman infinite-duration games with qualitative objectives reduce to reachability games, and we show a similar result here. Our most interesting results concern quantitative taxman games, namely mean-payoff games, where poorman and Richman bidding differ significantly. A central quantity in these games is the ratio between the two players' initial budgets. While in poorman mean-payoff games, the optimal payoff of a player depends on the initial ratio, in Richman bidding, the payoff depends only on the structure of the game. In both games the optimal payoffs can be found using (different) probabilistic connections with random-turn games in which in each turn, instead of bidding, a coin is tossed to determine which player moves. While the value with Richman bidding equals the value of a random-turn game with an un-biased coin, with poorman bidding, the bias in the coin is the initial ratio of the budgets. We give a complete classification of mean-payoff taxman games that is based on a probabilistic connection: the value of a taxman bidding game with parameter tau and initial ratio r, equals the value of a random-turn game that uses a coin with bias F(tau, r) = (r+tau * (1-r))/(1+tau). Thus, we show that Richman bidding is the exception; namely, for every tau <1, the value of the game depends on the initial ratio. Our proof technique simplifies and unifies the previous proof techniques for both Richman and poorman bidding. ","lang":"eng"}],"_id":"6884","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Bidding mechanisms in graph games","ddc":["004"],"intvolume":" 138","file":[{"creator":"kschuh","content_type":"application/pdf","file_size":554457,"file_name":"2019_LIPIcs_Avni.pdf","access_level":"open_access","date_updated":"2020-07-14T12:47:42Z","date_created":"2019-09-27T11:45:15Z","checksum":"6346e116a4f4ed1414174d96d2c4fbd7","file_id":"6913","relation":"main_file"}],"oa_version":"Published Version"},{"external_id":{"arxiv":["1804.09164"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1051/0004-6361/201833297"}],"oa":1,"quality_controlled":"1","doi":"10.1051/0004-6361/201833297","language":[{"iso":"eng"}],"month":"04","publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"year":"2019","publication_status":"published","publisher":"EDP Sciences","author":[{"full_name":"Renzo, M.","last_name":"Renzo","first_name":"M."},{"last_name":"Zapartas","first_name":"E.","full_name":"Zapartas, E."},{"last_name":"de Mink","first_name":"S. E.","full_name":"de Mink, S. E."},{"last_name":"Götberg","first_name":"Ylva Louise Linsdotter","orcid":"0000-0002-6960-6911","id":"d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d","full_name":"Götberg, Ylva Louise Linsdotter"},{"last_name":"Justham","first_name":"S.","full_name":"Justham, S."},{"full_name":"Farmer, R. J.","first_name":"R. J.","last_name":"Farmer"},{"full_name":"Izzard, R. G.","first_name":"R. G.","last_name":"Izzard"},{"last_name":"Toonen","first_name":"S.","full_name":"Toonen, S."},{"first_name":"H.","last_name":"Sana","full_name":"Sana, H."}],"date_created":"2023-08-03T10:14:18Z","date_updated":"2023-08-09T12:26:08Z","volume":624,"article_number":"A66","extern":"1","publication":"Astronomy & Astrophysics","citation":{"chicago":"Renzo, M., E. Zapartas, S. E. de Mink, Ylva Louise Linsdotter Götberg, S. Justham, R. J. Farmer, R. G. Izzard, S. Toonen, and H. Sana. “Massive Runaway and Walkaway Stars.” Astronomy & Astrophysics. EDP Sciences, 2019. https://doi.org/10.1051/0004-6361/201833297.","mla":"Renzo, M., et al. “Massive Runaway and Walkaway Stars.” Astronomy & Astrophysics, vol. 624, A66, EDP Sciences, 2019, doi:10.1051/0004-6361/201833297.","short":"M. Renzo, E. Zapartas, S.E. de Mink, Y.L.L. Götberg, S. Justham, R.J. Farmer, R.G. Izzard, S. Toonen, H. Sana, Astronomy & Astrophysics 624 (2019).","ista":"Renzo M, Zapartas E, de Mink SE, Götberg YLL, Justham S, Farmer RJ, Izzard RG, Toonen S, Sana H. 2019. Massive runaway and walkaway stars. Astronomy & Astrophysics. 624, A66.","ieee":"M. Renzo et al., “Massive runaway and walkaway stars,” Astronomy & Astrophysics, vol. 624. EDP Sciences, 2019.","apa":"Renzo, M., Zapartas, E., de Mink, S. E., Götberg, Y. L. L., Justham, S., Farmer, R. J., … Sana, H. (2019). Massive runaway and walkaway stars. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201833297","ama":"Renzo M, Zapartas E, de Mink SE, et al. Massive runaway and walkaway stars. Astronomy & Astrophysics. 2019;624. doi:10.1051/0004-6361/201833297"},"article_type":"original","date_published":"2019-04-11T00:00:00Z","scopus_import":"1","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"day":"11","article_processing_charge":"No","_id":"13471","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Massive runaway and walkaway stars","status":"public","intvolume":" 624","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"We perform an extensive numerical study of the evolution of massive binary systems to predict the peculiar velocities that stars obtain when their companion collapses and disrupts the system. Our aim is to (i) identify which predictions are robust against model uncertainties and assess their implications, (ii) investigate which physical processes leave a clear imprint and may therefore be constrained observationally, and (iii) provide a suite of publicly available model predictions to allow for the use of kinematic constraints from the Gaia mission. We find that 22+26−8% of all massive binary systems merge prior to the first core-collapse in the system. Of the remainder, 86+11−9% become unbound because of the core-collapse. Remarkably, this rarely produces runaway stars (observationally defined as stars with velocities above 30 km s−1). These are outnumbered by more than an order of magnitude by slower unbound companions, or “walkaway stars”. This is a robust outcome of our simulations and is due to the reversal of the mass ratio prior to the explosion and widening of the orbit, as we show analytically and numerically. For stars more massive than 15 M⊙, we estimate that 10+5−8% are walkaways and only 0.5+1.0−0.4% are runaways, nearly all of which have accreted mass from their companion. Our findings are consistent with earlier studies; however, the low runaway fraction we find is in tension with observed fractions of about 10%. Thus, astrometric data on presently single massive stars can potentially constrain the physics of massive binary evolution. Finally, we show that the high end of the mass distributions of runaway stars is very sensitive to the assumed black hole natal kicks, and we propose this as a potentially stringent test for the explosion mechanism. We also discuss companions remaining bound that can evolve into X-ray and gravitational wave sources.","lang":"eng"}]},{"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1051/0004-6361/201935684e"}]},"author":[{"first_name":"T.","last_name":"Shenar","full_name":"Shenar, T."},{"full_name":"Sablowski, D. P.","last_name":"Sablowski","first_name":"D. P."},{"full_name":"Hainich, R.","first_name":"R.","last_name":"Hainich"},{"full_name":"Todt, H.","last_name":"Todt","first_name":"H."},{"last_name":"Moffat","first_name":"A. F. J.","full_name":"Moffat, A. F. J."},{"full_name":"Oskinova, L. M.","last_name":"Oskinova","first_name":"L. M."},{"full_name":"Ramachandran, V.","first_name":"V.","last_name":"Ramachandran"},{"full_name":"Sana, H.","last_name":"Sana","first_name":"H."},{"full_name":"Sander, A. A. C.","last_name":"Sander","first_name":"A. A. C."},{"last_name":"Schnurr","first_name":"O.","full_name":"Schnurr, O."},{"full_name":"St-Louis, N.","last_name":"St-Louis","first_name":"N."},{"full_name":"Vanbeveren, D.","first_name":"D.","last_name":"Vanbeveren"},{"last_name":"Götberg","first_name":"Ylva Louise Linsdotter","orcid":"0000-0002-6960-6911","id":"d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d","full_name":"Götberg, Ylva Louise Linsdotter"},{"full_name":"Hamann, W.-R.","last_name":"Hamann","first_name":"W.-R."}],"volume":627,"date_created":"2023-08-03T10:14:09Z","date_updated":"2023-08-09T12:29:58Z","year":"2019","publisher":"EDP Sciences","publication_status":"published","extern":"1","article_number":"A151","doi":"10.1051/0004-6361/201935684","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1051/0004-6361/201935684"}],"oa":1,"quality_controlled":"1","publication_identifier":{"eissn":["1432-0746"],"issn":["0004-6361"]},"month":"07","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"13470","intvolume":" 627","status":"public","title":"The Wolf–Rayet binaries of the nitrogen sequence in the Large Magellanic Cloud","abstract":[{"text":"Context. Massive Wolf–Rayet (WR) stars dominate the radiative and mechanical energy budget of galaxies and probe a critical phase in the evolution of massive stars prior to core collapse. It is not known whether core He-burning WR stars (classical WR; cWR) form predominantly through wind stripping (w-WR) or binary stripping (b-WR). Whereas spectroscopy of WR binaries has so-far largely been avoided because of its complexity, our study focuses on the 44 WR binaries and binary candidates of the Large Magellanic Cloud (LMC; metallicity Z ≈ 0.5 Z⊙), which were identified on the basis of radial velocity variations, composite spectra, or high X-ray luminosities.\r\n\r\nAims. Relying on a diverse spectroscopic database, we aim to derive the physical and orbital parameters of our targets, confronting evolution models of evolved massive stars at subsolar metallicity and constraining the impact of binary interaction in forming these stars.\r\n\r\nMethods. Spectroscopy was performed using the Potsdam Wolf–Rayet (PoWR) code and cross-correlation techniques. Disentanglement was performed using the code Spectangular or the shift-and-add algorithm. Evolutionary status was interpreted using the Binary Population and Spectral Synthesis (BPASS) code, exploring binary interaction and chemically homogeneous evolution.\r\n\r\nResults. Among our sample, 28/44 objects show composite spectra and are analyzed as such. An additional five targets show periodically moving WR primaries but no detected companions (SB1); two (BAT99 99 and 112) are potential WR + compact-object candidates owing to their high X-ray luminosities. We cannot confirm the binary nature of the remaining 11 candidates. About two-thirds of the WN components in binaries are identified as cWR, and one-third as hydrogen-burning WR stars. We establish metallicity-dependent mass-loss recipes, which broadly agree with those recently derived for single WN stars, and in which so-called WN3/O3 stars are clear outliers. We estimate that 45 ± 30% of the cWR stars in our sample have interacted with a companion via mass transfer. However, only ≈12 ± 7% of the cWR stars in our sample naively appear to have formed purely owing to stripping via a companion (12% b-WR). Assuming that apparently single WR stars truly formed as single stars, this comprises ≈4% of the whole LMC WN population, which is about ten times less than expected. No obvious differences in the properties of single and binary WN stars, whose luminosities extend down to log L ≈ 5.2 [L⊙], are apparent. With the exception of a few systems (BAT99 19, 49, and 103), the equatorial rotational velocities of the OB-type companions are moderate (veq ≲ 250 km s−1) and challenge standard formalisms of angular-momentum accretion. For most objects, chemically homogeneous evolution can be rejected for the secondary, but not for the WR progenitor.\r\n\r\nConclusions. No obvious dichotomy in the locations of apparently single and binary WN stars on the Hertzsprung-Russell diagram is apparent. According to commonly used stellar evolution models (BPASS, Geneva), most apparently single WN stars could not have formed as single stars, implying that they were stripped by an undetected companion. Otherwise, it must follow that pre-WR mass-loss/mixing (e.g., during the red supergiant phase) are strongly underestimated in standard stellar evolution models.","lang":"eng"}],"type":"journal_article","date_published":"2019-07-16T00:00:00Z","citation":{"chicago":"Shenar, T., D. P. Sablowski, R. Hainich, H. Todt, A. F. J. Moffat, L. M. Oskinova, V. Ramachandran, et al. “The Wolf–Rayet Binaries of the Nitrogen Sequence in the Large Magellanic Cloud.” Astronomy & Astrophysics. EDP Sciences, 2019. https://doi.org/10.1051/0004-6361/201935684.","short":"T. Shenar, D.P. Sablowski, R. Hainich, H. Todt, A.F.J. Moffat, L.M. Oskinova, V. Ramachandran, H. Sana, A.A.C. Sander, O. Schnurr, N. St-Louis, D. Vanbeveren, Y.L.L. Götberg, W.-R. Hamann, Astronomy & Astrophysics 627 (2019).","mla":"Shenar, T., et al. “The Wolf–Rayet Binaries of the Nitrogen Sequence in the Large Magellanic Cloud.” Astronomy & Astrophysics, vol. 627, A151, EDP Sciences, 2019, doi:10.1051/0004-6361/201935684.","apa":"Shenar, T., Sablowski, D. P., Hainich, R., Todt, H., Moffat, A. F. J., Oskinova, L. M., … Hamann, W.-R. (2019). The Wolf–Rayet binaries of the nitrogen sequence in the Large Magellanic Cloud. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201935684","ieee":"T. Shenar et al., “The Wolf–Rayet binaries of the nitrogen sequence in the Large Magellanic Cloud,” Astronomy & Astrophysics, vol. 627. EDP Sciences, 2019.","ista":"Shenar T, Sablowski DP, Hainich R, Todt H, Moffat AFJ, Oskinova LM, Ramachandran V, Sana H, Sander AAC, Schnurr O, St-Louis N, Vanbeveren D, Götberg YLL, Hamann W-R. 2019. The Wolf–Rayet binaries of the nitrogen sequence in the Large Magellanic Cloud. Astronomy & Astrophysics. 627, A151.","ama":"Shenar T, Sablowski DP, Hainich R, et al. The Wolf–Rayet binaries of the nitrogen sequence in the Large Magellanic Cloud. Astronomy & Astrophysics. 2019;627. doi:10.1051/0004-6361/201935684"},"publication":"Astronomy & Astrophysics","article_type":"original","article_processing_charge":"No","day":"16","scopus_import":"1","keyword":["Space and Planetary Science","Astronomy and Astrophysics"]},{"main_file_link":[{"url":"https://doi.org/10.1051/0004-6361/201732206","open_access":"1"}],"external_id":{"arxiv":["1711.00055"]},"oa":1,"quality_controlled":"1","doi":"10.1051/0004-6361/201732206","language":[{"iso":"eng"}],"month":"03","publication_identifier":{"eissn":["1432-0746"],"issn":["0004-6361"]},"year":"2019","publication_status":"published","publisher":"EDP Sciences","author":[{"full_name":"Kerzendorf, Wolfgang E.","first_name":"Wolfgang E.","last_name":"Kerzendorf"},{"first_name":"Tuan","last_name":"Do","full_name":"Do, Tuan"},{"last_name":"de Mink","first_name":"Selma E.","full_name":"de Mink, Selma E."},{"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"},{"last_name":"Milisavljevic","first_name":"Dan","full_name":"Milisavljevic, Dan"},{"full_name":"Zapartas, Emmanouil","last_name":"Zapartas","first_name":"Emmanouil"},{"full_name":"Renzo, Mathieu","last_name":"Renzo","first_name":"Mathieu"},{"first_name":"Stephen","last_name":"Justham","full_name":"Justham, Stephen"},{"last_name":"Podsiadlowski","first_name":"Philipp","full_name":"Podsiadlowski, Philipp"},{"first_name":"Robert A.","last_name":"Fesen","full_name":"Fesen, Robert A."}],"date_created":"2023-08-03T10:14:27Z","date_updated":"2023-08-09T12:28:17Z","volume":623,"article_number":"A34","extern":"1","publication":"Astronomy & Astrophysics","citation":{"mla":"Kerzendorf, Wolfgang E., et al. “No Surviving Non-Compact Stellar Companion to Cassiopeia A.” Astronomy & Astrophysics, vol. 623, A34, EDP Sciences, 2019, doi:10.1051/0004-6361/201732206.","short":"W.E. Kerzendorf, T. Do, S.E. de Mink, Y.L.L. Götberg, D. Milisavljevic, E. Zapartas, M. Renzo, S. Justham, P. Podsiadlowski, R.A. Fesen, Astronomy & Astrophysics 623 (2019).","chicago":"Kerzendorf, Wolfgang E., Tuan Do, Selma E. de Mink, Ylva Louise Linsdotter Götberg, Dan Milisavljevic, Emmanouil Zapartas, Mathieu Renzo, Stephen Justham, Philipp Podsiadlowski, and Robert A. Fesen. “No Surviving Non-Compact Stellar Companion to Cassiopeia A.” Astronomy & Astrophysics. EDP Sciences, 2019. https://doi.org/10.1051/0004-6361/201732206.","ama":"Kerzendorf WE, Do T, de Mink SE, et al. No surviving non-compact stellar companion to Cassiopeia A. Astronomy & Astrophysics. 2019;623. doi:10.1051/0004-6361/201732206","ista":"Kerzendorf WE, Do T, de Mink SE, Götberg YLL, Milisavljevic D, Zapartas E, Renzo M, Justham S, Podsiadlowski P, Fesen RA. 2019. No surviving non-compact stellar companion to Cassiopeia A. Astronomy & Astrophysics. 623, A34.","apa":"Kerzendorf, W. E., Do, T., de Mink, S. E., Götberg, Y. L. L., Milisavljevic, D., Zapartas, E., … Fesen, R. A. (2019). No surviving non-compact stellar companion to Cassiopeia A. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201732206","ieee":"W. E. Kerzendorf et al., “No surviving non-compact stellar companion to Cassiopeia A,” Astronomy & Astrophysics, vol. 623. EDP Sciences, 2019."},"article_type":"original","date_published":"2019-03-27T00:00:00Z","scopus_import":"1","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"day":"27","article_processing_charge":"No","_id":"13472","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"No surviving non-compact stellar companion to Cassiopeia A","intvolume":" 623","oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"Massive stars in binaries can give rise to extreme phenomena such as X-ray binaries and gravitational wave sources after one or both stars end their lives as core-collapse supernovae. Stars in close orbit around a stellar or compact companion are expected to explode as “stripped-envelope supernovae”, showing no (Type Ib/c) or little (Type IIb) signs of hydrogen in the spectra, because hydrogen-rich progenitors are too large to fit. The physical processes responsible for the stripping process and the fate of the companion are still very poorly understood. Aiming to find new clues, we investigate Cas A, which is a very young (∼340 yr) and near (∼3.4 kpc) remnant of a core-collapse supernova. Cas A has been subject to several searches for possible companions, all unsuccessfully. We present new measurements of the proper motions and photometry of stars in the vicinity based on deep HST ACS/WFC and WFC3-IR data. We identify stellar sources that are close enough in projection but using their proper motions we show that none are compatible with being at the location of center at the time of explosion, in agreement with earlier findings. Our photometric measurements allow us to place much deeper (order-of-magnitude) upper limits on the brightness of possible undetected companions. We systematically compare them with model predictions for a wide variety of scenarios. We can confidently rule out the presence of any stellar companion of any reasonable mass and age (main sequence, pre main sequence or stripped) ruling out what many considered to be likely evolutionary scenarios for Type IIb supernova (SN IIb). More exotic scenarios that predict the presence of a compact companion (white dwarf, neutron star or black hole) are still possible as well as scenarios where the progenitor of Cas A was single at the moment of explosion (either because it was truly single, or resulted from a binary that was disrupted, or from a binary merger). The presence of a compact companion would imply that Cas A is of interest to study exotic outcomes of binary evolution. The single-at-death solution would still require fine-tuning of the process that removed most of the envelope through a mass-loss mechanism yet to be identified. We discuss how future constraints from Gaia and even deeper photometric studies may help to place further constraints."}]},{"type":"journal_article","abstract":[{"lang":"eng","text":"Hydrogen-rich supernovae, known as Type II (SNe II), are the most common class of explosions observed following the collapse of the core of massive stars. We used analytical estimates and population synthesis simulations to assess the fraction of SNe II progenitors that are expected to have exchanged mass with a companion prior to explosion. We estimate that 1/3 to 1/2 of SN II progenitors have a history of mass exchange with a binary companion before exploding. The dominant binary channels leading to SN II progenitors involve the merger of binary stars. Mergers are expected to produce a diversity of SN II progenitor characteristics, depending on the evolutionary timing and properties of the merger. Alternatively, SN II progenitors from interacting binaries may have accreted mass from their companion, and subsequently been ejected from the binary system after their companion exploded. We show that the overall fraction of SN II progenitors that are predicted to have experienced binary interaction is robust against the main physical uncertainties in our models. However, the relative importance of different binary evolutionary channels is affected by changing physical assumptions. We further discuss ways in which binarity might contribute to the observed diversity of SNe II by considering potential observational signatures arising from each binary channel. For supernovae which have a substantial H-rich envelope at explosion (i.e., excluding Type IIb SNe), a surviving non-compact companion would typically indicate that the supernova progenitor star was in a wide, non-interacting binary. We argue that a significant fraction of even Type II-P SNe are expected to have gained mass from a companion prior to explosion."}],"title":"The diverse lives of progenitors of hydrogen-rich core-collapse supernovae: The role of binary interaction","status":"public","intvolume":" 631","_id":"13468","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"scopus_import":"1","day":"20","article_processing_charge":"No","article_type":"original","publication":"Astronomy & Astrophysics","citation":{"ieee":"E. Zapartas et al., “The diverse lives of progenitors of hydrogen-rich core-collapse supernovae: The role of binary interaction,” Astronomy & Astrophysics, vol. 631. EDP Sciences, 2019.","apa":"Zapartas, E., de Mink, S. E., Justham, S., Smith, N., de Koter, A., Renzo, M., … Toonen, S. (2019). The diverse lives of progenitors of hydrogen-rich core-collapse supernovae: The role of binary interaction. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201935854","ista":"Zapartas E, de Mink SE, Justham S, Smith N, de Koter A, Renzo M, Arcavi I, Farmer R, Götberg YLL, Toonen S. 2019. The diverse lives of progenitors of hydrogen-rich core-collapse supernovae: The role of binary interaction. Astronomy & Astrophysics. 631, A5.","ama":"Zapartas E, de Mink SE, Justham S, et al. The diverse lives of progenitors of hydrogen-rich core-collapse supernovae: The role of binary interaction. Astronomy & Astrophysics. 2019;631. doi:10.1051/0004-6361/201935854","chicago":"Zapartas, Emmanouil, Selma E. de Mink, Stephen Justham, Nathan Smith, Alex de Koter, Mathieu Renzo, Iair Arcavi, Rob Farmer, Ylva Louise Linsdotter Götberg, and Silvia Toonen. “The Diverse Lives of Progenitors of Hydrogen-Rich Core-Collapse Supernovae: The Role of Binary Interaction.” Astronomy & Astrophysics. EDP Sciences, 2019. https://doi.org/10.1051/0004-6361/201935854.","short":"E. Zapartas, S.E. de Mink, S. Justham, N. Smith, A. de Koter, M. Renzo, I. Arcavi, R. Farmer, Y.L.L. Götberg, S. Toonen, Astronomy & Astrophysics 631 (2019).","mla":"Zapartas, Emmanouil, et al. “The Diverse Lives of Progenitors of Hydrogen-Rich Core-Collapse Supernovae: The Role of Binary Interaction.” Astronomy & Astrophysics, vol. 631, A5, EDP Sciences, 2019, doi:10.1051/0004-6361/201935854."},"date_published":"2019-11-20T00:00:00Z","article_number":"A5","extern":"1","publication_status":"published","publisher":"EDP Sciences","year":"2019","date_created":"2023-08-03T10:13:52Z","date_updated":"2023-08-09T12:36:09Z","volume":631,"author":[{"full_name":"Zapartas, Emmanouil","last_name":"Zapartas","first_name":"Emmanouil"},{"full_name":"de Mink, Selma E.","last_name":"de Mink","first_name":"Selma E."},{"full_name":"Justham, Stephen","first_name":"Stephen","last_name":"Justham"},{"full_name":"Smith, Nathan","last_name":"Smith","first_name":"Nathan"},{"last_name":"de Koter","first_name":"Alex","full_name":"de Koter, Alex"},{"full_name":"Renzo, Mathieu","first_name":"Mathieu","last_name":"Renzo"},{"last_name":"Arcavi","first_name":"Iair","full_name":"Arcavi, Iair"},{"full_name":"Farmer, Rob","last_name":"Farmer","first_name":"Rob"},{"id":"d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d","orcid":"0000-0002-6960-6911","first_name":"Ylva Louise Linsdotter","last_name":"Götberg","full_name":"Götberg, Ylva Louise Linsdotter"},{"full_name":"Toonen, Silvia","last_name":"Toonen","first_name":"Silvia"}],"month":"11","publication_identifier":{"eissn":["1432-0746"],"issn":["0004-6361"]},"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1051/0004-6361/201935854"}],"oa":1,"external_id":{"arxiv":["1907.06687"]},"language":[{"iso":"eng"}],"doi":"10.1051/0004-6361/201935854"},{"article_number":"A134","extern":"1","year":"2019","publisher":"EDP Sciences","publication_status":"published","author":[{"first_name":"Ylva Louise Linsdotter","last_name":"Götberg","id":"d0648d0c-0f64-11ee-a2e0-dd0faa2e4f7d","orcid":"0000-0002-6960-6911","full_name":"Götberg, Ylva Louise Linsdotter"},{"full_name":"de Mink, S. E.","last_name":"de Mink","first_name":"S. E."},{"first_name":"J. H.","last_name":"Groh","full_name":"Groh, J. H."},{"full_name":"Leitherer, C.","first_name":"C.","last_name":"Leitherer"},{"last_name":"Norman","first_name":"C.","full_name":"Norman, C."}],"volume":629,"date_created":"2023-08-03T10:14:00Z","date_updated":"2023-08-09T12:34:11Z","publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"month":"09","external_id":{"arxiv":["1908.06102"]},"main_file_link":[{"url":"https://doi.org/10.1051/0004-6361/201834525","open_access":"1"}],"oa":1,"quality_controlled":"1","doi":"10.1051/0004-6361/201834525","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"text":"Stars stripped of their envelopes from interaction with a binary companion emit a significant fraction of their radiation as ionizing photons. They are potentially important stellar sources of ionizing radiation, however, they are still often neglected in spectral synthesis simulations or simulations of stellar feedback. In anticipating the large datasets of galaxy spectra from the upcoming James Webb Space Telescope, we modeled the radiative contribution from stripped stars by using detailed evolutionary and spectral models. We estimated their impact on the integrated spectra and specifically on the emission rates of H I-, He I-, and He II-ionizing photons from stellar populations. We find that stripped stars have the largest impact on the ionizing spectrum of a population in which star formation halted several Myr ago. In such stellar populations, stripped stars dominate the emission of ionizing photons, mimicking a younger stellar population in which massive stars are still present. Our models also suggest that stripped stars have harder ionizing spectra than massive stars. The additional ionizing radiation, with which stripped stars contribute affects observable properties that are related to the emission of ionizing photons from stellar populations. In co-eval stellar populations, the ionizing radiation from stripped stars increases the ionization parameter and the production efficiency of hydrogen ionizing photons. They also cause high values for these parameters for about ten times longer than what is predicted for massive stars. The effect on properties related to non-ionizing wavelengths is less pronounced, such as on the ultraviolet continuum slope or stellar contribution to emission lines. However, the hard ionizing radiation from stripped stars likely introduces a characteristic ionization structure of the nebula, which leads to the emission of highly ionized elements such as O2+ and C3+. We, therefore, expect that the presence of stripped stars affects the location in the BPT diagram and the diagnostic ratio of O III to O II nebular emission lines. Our models are publicly available through CDS database and on the STARBURST99 website.","lang":"eng"}],"_id":"13469","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 629","title":"The impact of stars stripped in binaries on the integrated spectra of stellar populations","status":"public","oa_version":"Published Version","scopus_import":"1","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"article_processing_charge":"No","day":"17","citation":{"apa":"Götberg, Y. L. L., de Mink, S. E., Groh, J. H., Leitherer, C., & Norman, C. (2019). The impact of stars stripped in binaries on the integrated spectra of stellar populations. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201834525","ieee":"Y. L. L. Götberg, S. E. de Mink, J. H. Groh, C. Leitherer, and C. Norman, “The impact of stars stripped in binaries on the integrated spectra of stellar populations,” Astronomy & Astrophysics, vol. 629. EDP Sciences, 2019.","ista":"Götberg YLL, de Mink SE, Groh JH, Leitherer C, Norman C. 2019. The impact of stars stripped in binaries on the integrated spectra of stellar populations. Astronomy & Astrophysics. 629, A134.","ama":"Götberg YLL, de Mink SE, Groh JH, Leitherer C, Norman C. The impact of stars stripped in binaries on the integrated spectra of stellar populations. Astronomy & Astrophysics. 2019;629. doi:10.1051/0004-6361/201834525","chicago":"Götberg, Ylva Louise Linsdotter, S. E. de Mink, J. H. Groh, C. Leitherer, and C. Norman. “The Impact of Stars Stripped in Binaries on the Integrated Spectra of Stellar Populations.” Astronomy & Astrophysics. EDP Sciences, 2019. https://doi.org/10.1051/0004-6361/201834525.","short":"Y.L.L. Götberg, S.E. de Mink, J.H. Groh, C. Leitherer, C. Norman, Astronomy & Astrophysics 629 (2019).","mla":"Götberg, Ylva Louise Linsdotter, et al. “The Impact of Stars Stripped in Binaries on the Integrated Spectra of Stellar Populations.” Astronomy & Astrophysics, vol. 629, A134, EDP Sciences, 2019, doi:10.1051/0004-6361/201834525."},"publication":"Astronomy & Astrophysics","article_type":"original","date_published":"2019-09-17T00:00:00Z"},{"type":"research_data_reference","abstract":[{"text":"A detailed description of the two stochastic models, table of parameters, supplementary data for Figures 4 and 5, parameter dependence of the results, and an analysis on motors with different force–velocity functions (PDF)","lang":"eng"}],"_id":"9726","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","year":"2019","publisher":"American Chemical Society ","department":[{"_id":"EdHa"}],"title":"Supplementary information - Collective force generation by molecular motors is determined by strain-induced unbinding","status":"public","related_material":{"record":[{"id":"7166","relation":"used_in_publication","status":"public"}]},"author":[{"last_name":"Ucar","first_name":"Mehmet C","orcid":"0000-0003-0506-4217","id":"50B2A802-6007-11E9-A42B-EB23E6697425","full_name":"Ucar, Mehmet C"},{"full_name":"Lipowsky, Reinhard","first_name":"Reinhard","last_name":"Lipowsky"}],"oa_version":"Published Version","date_updated":"2023-08-17T14:07:52Z","date_created":"2021-07-27T09:51:46Z","article_processing_charge":"No","day":"19","month":"12","citation":{"chicago":"Ucar, Mehmet C, and Reinhard Lipowsky. “Supplementary Information - Collective Force Generation by Molecular Motors Is Determined by Strain-Induced Unbinding.” American Chemical Society , 2019. https://doi.org/10.1021/acs.nanolett.9b04445.s001.","mla":"Ucar, Mehmet C., and Reinhard Lipowsky. Supplementary Information - Collective Force Generation by Molecular Motors Is Determined by Strain-Induced Unbinding. American Chemical Society , 2019, doi:10.1021/acs.nanolett.9b04445.s001.","short":"M.C. Ucar, R. Lipowsky, (2019).","ista":"Ucar MC, Lipowsky R. 2019. Supplementary information - Collective force generation by molecular motors is determined by strain-induced unbinding, American Chemical Society , 10.1021/acs.nanolett.9b04445.s001.","ieee":"M. C. Ucar and R. Lipowsky, “Supplementary information - Collective force generation by molecular motors is determined by strain-induced unbinding.” American Chemical Society , 2019.","apa":"Ucar, M. C., & Lipowsky, R. (2019). Supplementary information - Collective force generation by molecular motors is determined by strain-induced unbinding. American Chemical Society . https://doi.org/10.1021/acs.nanolett.9b04445.s001","ama":"Ucar MC, Lipowsky R. Supplementary information - Collective force generation by molecular motors is determined by strain-induced unbinding. 2019. doi:10.1021/acs.nanolett.9b04445.s001"},"doi":"10.1021/acs.nanolett.9b04445.s001","date_published":"2019-12-19T00:00:00Z"},{"date_published":"2019-11-13T00:00:00Z","article_type":"original","page":"23923-23929","publication":"Proceedings of the National Academy of Sciences","citation":{"ieee":"D. R. Baykusheva et al., “Real-time probing of chirality during a chemical reaction,” Proceedings of the National Academy of Sciences, vol. 116, no. 48. Proceedings of the National Academy of Sciences, pp. 23923–23929, 2019.","apa":"Baykusheva, D. R., Zindel, D., Svoboda, V., Bommeli, E., Ochsner, M., Tehlar, A., & Wörner, H. J. (2019). Real-time probing of chirality during a chemical reaction. Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1907189116","ista":"Baykusheva DR, Zindel D, Svoboda V, Bommeli E, Ochsner M, Tehlar A, Wörner HJ. 2019. Real-time probing of chirality during a chemical reaction. Proceedings of the National Academy of Sciences. 116(48), 23923–23929.","ama":"Baykusheva DR, Zindel D, Svoboda V, et al. Real-time probing of chirality during a chemical reaction. Proceedings of the National Academy of Sciences. 2019;116(48):23923-23929. doi:10.1073/pnas.1907189116","chicago":"Baykusheva, Denitsa Rangelova, Daniel Zindel, Vít Svoboda, Elias Bommeli, Manuel Ochsner, Andres Tehlar, and Hans Jakob Wörner. “Real-Time Probing of Chirality during a Chemical Reaction.” Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1907189116.","short":"D.R. Baykusheva, D. Zindel, V. Svoboda, E. Bommeli, M. Ochsner, A. Tehlar, H.J. Wörner, Proceedings of the National Academy of Sciences 116 (2019) 23923–23929.","mla":"Baykusheva, Denitsa Rangelova, et al. “Real-Time Probing of Chirality during a Chemical Reaction.” Proceedings of the National Academy of Sciences, vol. 116, no. 48, Proceedings of the National Academy of Sciences, 2019, pp. 23923–29, doi:10.1073/pnas.1907189116."},"day":"13","article_processing_charge":"No","keyword":["Multidisciplinary"],"scopus_import":"1","oa_version":"Published Version","title":"Real-time probing of chirality during a chemical reaction","status":"public","intvolume":" 116","_id":"14001","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Chiral molecules interact and react differently with other chiral objects, depending on their handedness. Therefore, it is essential to understand and ultimately control the evolution of molecular chirality during chemical reactions. Although highly sophisticated techniques for the controlled synthesis of chiral molecules have been developed, the observation of chirality on the natural femtosecond time scale of a chemical reaction has so far remained out of reach in the gas phase. Here, we demonstrate a general experimental technique, based on high-harmonic generation in tailored laser fields, and apply it to probe the time evolution of molecular chirality during the photodissociation of 2-iodobutane. These measurements show a change in sign and a pronounced increase in the magnitude of the chiral response over the first 100 fs, followed by its decay within less than 500 fs, revealing the photodissociation to achiral products. The observed time evolution is explained in terms of the variation of the electric and magnetic transition-dipole moments between the lowest electronic states of the cation as a function of the reaction coordinate. These results open the path to investigations of the chirality of molecular-reaction pathways, light-induced chirality in chemical processes, and the control of molecular chirality through tailored laser pulses.","lang":"eng"}],"issue":"48","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1073/pnas.1907189116","quality_controlled":"1","external_id":{"pmid":["31723044"],"arxiv":["1906.10818"]},"main_file_link":[{"url":"https://doi.org/10.1073/pnas.1907189116","open_access":"1"}],"oa":1,"month":"11","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"date_created":"2023-08-09T13:10:36Z","date_updated":"2023-08-22T07:40:05Z","volume":116,"author":[{"first_name":"Denitsa Rangelova","last_name":"Baykusheva","id":"71b4d059-2a03-11ee-914d-dfa3beed6530","full_name":"Baykusheva, Denitsa Rangelova"},{"full_name":"Zindel, Daniel","first_name":"Daniel","last_name":"Zindel"},{"full_name":"Svoboda, Vít","first_name":"Vít","last_name":"Svoboda"},{"first_name":"Elias","last_name":"Bommeli","full_name":"Bommeli, Elias"},{"full_name":"Ochsner, Manuel","first_name":"Manuel","last_name":"Ochsner"},{"full_name":"Tehlar, Andres","first_name":"Andres","last_name":"Tehlar"},{"first_name":"Hans Jakob","last_name":"Wörner","full_name":"Wörner, Hans Jakob"}],"publication_status":"published","publisher":"Proceedings of the National Academy of Sciences","year":"2019","pmid":1,"extern":"1"},{"extern":"1","abstract":[{"text":"The advancement of attosecond chronoscopy has made it possible to reveal ultrashort time dynamics of photoionization [1]. Ionization delay measurements in atomic targets provide a wealth of information about the timing of the photoelectric effect [2], resonances, electron correlations and transport. The extension of this approach to molecules, however, presents great challenges. In addition to the difficulty of identifying correct ionization channels, it is hard to disentangle the role of the anisotropic molecular landscape from the delays inherent to the excitation process itself. Here, we present the measurements of ionization delays from ethyl iodide around the 4d giant dipole resonance of iodine. We employ attosecond streaking spectroscopy, which enables to disentangle the contribution to the delay from the functional ethyl group, being responsible for the characteristic chemical reactivity of the molecule. An attosecond extreme ultraviolet (XUV) pulse ionizes the molecule around the energy of the giant resonance and the released electron is exposed to the ponderomotive force of a synchronized near-infrared (NIR) field, which yields a streaking spectrogram (see figure). Comparative phase analysis of the spectrograms corresponding to iodine 4d and neon 2p emission permits extracting overall photoemission delays for ethyl iodide. The data is recorded for multiple photon energies around the iodine 4d resonance and compared to classical Wigner propagation [3] and quantum scattering [4] calculations. Here the outgoing electron, produced via inner shell ionization of the iodine atom in ethyl iodide, and thereby hardly influenced by the molecular potential during the birth process, acquires the necessary information about the influence of the functional ethyl group during its propagation. We find significant delay contributions that can distinguish between different functional groups, providing a sensitive probe of the local molecular environment [5]. This would stimulate to perform further angle resolved measurements in molecules to probe the potential landscape in three dimension.","lang":"eng"}],"article_number":"8871819","type":"conference","date_created":"2023-08-09T13:10:49Z","date_updated":"2023-08-22T09:32:56Z","oa_version":"None","author":[{"full_name":"Biswas, Shubhadeep","first_name":"Shubhadeep","last_name":"Biswas"},{"last_name":"Liontos","first_name":"I.","full_name":"Liontos, I."},{"last_name":"Kamal","first_name":"A. M.","full_name":"Kamal, A. M."},{"full_name":"Kling, N. G.","last_name":"Kling","first_name":"N. G."},{"full_name":"Alharbi, A. F.","first_name":"A. F.","last_name":"Alharbi"},{"first_name":"M.","last_name":"Alharbi","full_name":"Alharbi, M."},{"full_name":"Azzeer, A. M.","last_name":"Azzeer","first_name":"A. M."},{"last_name":"Worner","first_name":"H. J.","full_name":"Worner, H. J."},{"last_name":"Landsman","first_name":"A. S.","full_name":"Landsman, A. S."},{"full_name":"Kling, M. F.","first_name":"M. F.","last_name":"Kling"},{"full_name":"Forg, B.","last_name":"Forg","first_name":"B."},{"last_name":"Schotz","first_name":"J.","full_name":"Schotz, J."},{"full_name":"Schweinberger, W.","last_name":"Schweinberger","first_name":"W."},{"full_name":"Ortmann, L.","first_name":"L.","last_name":"Ortmann"},{"last_name":"Zimmermann","first_name":"T.","full_name":"Zimmermann, T."},{"last_name":"Pi","first_name":"L.-W.","full_name":"Pi, L.-W."},{"full_name":"Baykusheva, Denitsa Rangelova","id":"71b4d059-2a03-11ee-914d-dfa3beed6530","first_name":"Denitsa Rangelova","last_name":"Baykusheva"},{"full_name":"Masood, H. A.","first_name":"H. A.","last_name":"Masood"}],"status":"public","publication_status":"published","title":"Probing molecular influence on photoemission delays","publisher":"Institute of Electrical and Electronics Engineers","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14002","year":"2019","month":"10","day":"17","article_processing_charge":"No","publication_identifier":{"eisbn":["9781728104690"],"isbn":["9781728104706"]},"scopus_import":"1","language":[{"iso":"eng"}],"conference":{"location":"Munich, Germany","start_date":"2019-06-23","end_date":"2019-06-27","name":"CLEO: European Conference on Lasers and Electro-Optics"},"date_published":"2019-10-17T00:00:00Z","doi":"10.1109/cleoe-eqec.2019.8871819","quality_controlled":"1","publication":"2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference","citation":{"ama":"Biswas S, Liontos I, Kamal AM, et al. Probing molecular influence on photoemission delays. In: 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference. Institute of Electrical and Electronics Engineers; 2019. doi:10.1109/cleoe-eqec.2019.8871819","ista":"Biswas S, Liontos I, Kamal AM, Kling NG, Alharbi AF, Alharbi M, Azzeer AM, Worner HJ, Landsman AS, Kling MF, Forg B, Schotz J, Schweinberger W, Ortmann L, Zimmermann T, Pi L-W, Baykusheva DR, Masood HA. 2019. Probing molecular influence on photoemission delays. 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference. CLEO: European Conference on Lasers and Electro-Optics, 8871819.","ieee":"S. Biswas et al., “Probing molecular influence on photoemission delays,” in 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference, Munich, Germany, 2019.","apa":"Biswas, S., Liontos, I., Kamal, A. M., Kling, N. G., Alharbi, A. F., Alharbi, M., … Masood, H. A. (2019). Probing molecular influence on photoemission delays. In 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference. Munich, Germany: Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/cleoe-eqec.2019.8871819","mla":"Biswas, Shubhadeep, et al. “Probing Molecular Influence on Photoemission Delays.” 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference, 8871819, Institute of Electrical and Electronics Engineers, 2019, doi:10.1109/cleoe-eqec.2019.8871819.","short":"S. Biswas, I. Liontos, A.M. Kamal, N.G. Kling, A.F. Alharbi, M. Alharbi, A.M. Azzeer, H.J. Worner, A.S. Landsman, M.F. Kling, B. Forg, J. Schotz, W. Schweinberger, L. Ortmann, T. Zimmermann, L.-W. Pi, D.R. Baykusheva, H.A. Masood, in:, 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference, Institute of Electrical and Electronics Engineers, 2019.","chicago":"Biswas, Shubhadeep, I. Liontos, A. M. Kamal, N. G. Kling, A. F. Alharbi, M. Alharbi, A. M. Azzeer, et al. “Probing Molecular Influence on Photoemission Delays.” In 2019 Conference on Lasers and Electro-Optics Europe & European Quantum Electronics Conference. Institute of Electrical and Electronics Engineers, 2019. https://doi.org/10.1109/cleoe-eqec.2019.8871819."}},{"publication_identifier":{"issn":["2367-1726"],"eissn":["2367-1734"]},"month":"06","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"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"},"language":[{"iso":"eng"}],"doi":"10.1007/s41468-019-00029-8","ec_funded":1,"file_date_updated":"2020-07-14T12:47:36Z","publisher":"Springer Nature","department":[{"_id":"HeEd"}],"publication_status":"published","year":"2019","volume":3,"date_updated":"2023-08-22T12:37:47Z","date_created":"2019-07-24T08:37:29Z","author":[{"full_name":"Boissonnat, Jean-Daniel","first_name":"Jean-Daniel","last_name":"Boissonnat"},{"full_name":"Lieutier, André","first_name":"André","last_name":"Lieutier"},{"full_name":"Wintraecken, Mathijs","first_name":"Mathijs","last_name":"Wintraecken","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7472-2220"}],"has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"01","page":"29–58","article_type":"original","citation":{"mla":"Boissonnat, Jean-Daniel, et al. “The Reach, Metric Distortion, Geodesic Convexity and the Variation of Tangent Spaces.” Journal of Applied and Computational Topology, vol. 3, no. 1–2, Springer Nature, 2019, pp. 29–58, doi:10.1007/s41468-019-00029-8.","short":"J.-D. Boissonnat, A. Lieutier, M. Wintraecken, Journal of Applied and Computational Topology 3 (2019) 29–58.","chicago":"Boissonnat, Jean-Daniel, André Lieutier, and Mathijs Wintraecken. “The Reach, Metric Distortion, Geodesic Convexity and the Variation of Tangent Spaces.” Journal of Applied and Computational Topology. Springer Nature, 2019. https://doi.org/10.1007/s41468-019-00029-8.","ama":"Boissonnat J-D, Lieutier A, Wintraecken M. The reach, metric distortion, geodesic convexity and the variation of tangent spaces. Journal of Applied and Computational Topology. 2019;3(1-2):29–58. doi:10.1007/s41468-019-00029-8","ista":"Boissonnat J-D, Lieutier A, Wintraecken M. 2019. The reach, metric distortion, geodesic convexity and the variation of tangent spaces. Journal of Applied and Computational Topology. 3(1–2), 29–58.","ieee":"J.-D. Boissonnat, A. Lieutier, and M. Wintraecken, “The reach, metric distortion, geodesic convexity and the variation of tangent spaces,” Journal of Applied and Computational Topology, vol. 3, no. 1–2. Springer Nature, pp. 29–58, 2019.","apa":"Boissonnat, J.-D., Lieutier, A., & Wintraecken, M. (2019). The reach, metric distortion, geodesic convexity and the variation of tangent spaces. Journal of Applied and Computational Topology. Springer Nature. https://doi.org/10.1007/s41468-019-00029-8"},"publication":"Journal of Applied and Computational Topology","date_published":"2019-06-01T00:00:00Z","type":"journal_article","issue":"1-2","abstract":[{"lang":"eng","text":"In this paper we discuss three results. The first two concern general sets of positive reach: we first characterize the reach of a closed set by means of a bound on the metric distortion between the distance measured in the ambient Euclidean space and the shortest path distance measured in the set. Secondly, we prove that the intersection of a ball with radius less than the reach with the set is geodesically convex, meaning that the shortest path between any two points in the intersection lies itself in the intersection. For our third result we focus on manifolds with positive reach and give a bound on the angle between tangent spaces at two different points in terms of the reach and the distance between the two points."}],"intvolume":" 3","ddc":["000"],"status":"public","title":"The reach, metric distortion, geodesic convexity and the variation of tangent spaces","_id":"6671","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","file":[{"file_name":"2019_JournAppliedComputTopol_Boissonnat.pdf","access_level":"open_access","content_type":"application/pdf","file_size":2215157,"creator":"dernst","relation":"main_file","file_id":"6741","date_updated":"2020-07-14T12:47:36Z","date_created":"2019-07-31T08:09:56Z","checksum":"a5b244db9f751221409cf09c97ee0935"}]},{"abstract":[{"text":"A representation formula for solutions of stochastic partial differential equations with Dirichlet boundary conditions is proved. The scope of our setting is wide enough to cover the general situation when the backward characteristics that appear in the usual formulation are not even defined in the Itô sense.","lang":"eng"}],"issue":"3","type":"journal_article","oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"301","status":"public","title":"A Feynman–Kac formula for stochastic Dirichlet problems","intvolume":" 129","day":"01","article_processing_charge":"No","scopus_import":"1","date_published":"2019-03-01T00:00:00Z","publication":"Stochastic Processes and their Applications","citation":{"short":"M. Gerencser, I. Gyöngy, Stochastic Processes and Their Applications 129 (2019) 995–1012.","mla":"Gerencser, Mate, and István Gyöngy. “A Feynman–Kac Formula for Stochastic Dirichlet Problems.” Stochastic Processes and Their Applications, vol. 129, no. 3, Elsevier, 2019, pp. 995–1012, doi:10.1016/j.spa.2018.04.003.","chicago":"Gerencser, Mate, and István Gyöngy. “A Feynman–Kac Formula for Stochastic Dirichlet Problems.” Stochastic Processes and Their Applications. Elsevier, 2019. https://doi.org/10.1016/j.spa.2018.04.003.","ama":"Gerencser M, Gyöngy I. A Feynman–Kac formula for stochastic Dirichlet problems. Stochastic Processes and their Applications. 2019;129(3):995-1012. doi:10.1016/j.spa.2018.04.003","ieee":"M. Gerencser and I. Gyöngy, “A Feynman–Kac formula for stochastic Dirichlet problems,” Stochastic Processes and their Applications, vol. 129, no. 3. Elsevier, pp. 995–1012, 2019.","apa":"Gerencser, M., & Gyöngy, I. (2019). A Feynman–Kac formula for stochastic Dirichlet problems. Stochastic Processes and Their Applications. Elsevier. https://doi.org/10.1016/j.spa.2018.04.003","ista":"Gerencser M, Gyöngy I. 2019. A Feynman–Kac formula for stochastic Dirichlet problems. Stochastic Processes and their Applications. 129(3), 995–1012."},"article_type":"original","page":"995-1012","author":[{"full_name":"Gerencser, Mate","last_name":"Gerencser","first_name":"Mate","id":"44ECEDF2-F248-11E8-B48F-1D18A9856A87"},{"first_name":"István","last_name":"Gyöngy","full_name":"Gyöngy, István"}],"date_created":"2018-12-11T11:45:42Z","date_updated":"2023-08-24T14:20:49Z","volume":129,"year":"2019","publication_status":"published","publisher":"Elsevier","department":[{"_id":"JaMa"}],"month":"03","doi":"10.1016/j.spa.2018.04.003","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://arxiv.org/abs/1611.04177","open_access":"1"}],"external_id":{"arxiv":["1611.04177"],"isi":["000458945300012"]},"oa":1,"isi":1,"quality_controlled":"1"},{"intvolume":" 368","ddc":["530"],"title":"Bose–Einstein condensation in a dilute, trapped gas at positive temperature","status":"public","_id":"80","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","file":[{"creator":"dernst","file_size":893902,"content_type":"application/pdf","file_name":"2018_CommunMathPhys_Deuchert.pdf","access_level":"open_access","date_created":"2018-12-17T10:34:06Z","date_updated":"2020-07-14T12:48:07Z","checksum":"c7e9880b43ac726712c1365e9f2f73a6","file_id":"5688","relation":"main_file"}],"type":"journal_article","issue":"2","abstract":[{"lang":"eng","text":"We consider an interacting, dilute Bose gas trapped in a harmonic potential at a positive temperature. The system is analyzed in a combination of a thermodynamic and a Gross–Pitaevskii (GP) limit where the trap frequency ω, the temperature T, and the particle number N are related by N∼ (T/ ω) 3→ ∞ while the scattering length is so small that the interaction energy per particle around the center of the trap is of the same order of magnitude as the spectral gap in the trap. We prove that the difference between the canonical free energy of the interacting gas and the one of the noninteracting system can be obtained by minimizing the GP energy functional. We also prove Bose–Einstein condensation in the following sense: The one-particle density matrix of any approximate minimizer of the canonical free energy functional is to leading order given by that of the noninteracting gas but with the free condensate wavefunction replaced by the GP minimizer."}],"page":"723-776","article_type":"original","citation":{"ama":"Deuchert A, Seiringer R, Yngvason J. Bose–Einstein condensation in a dilute, trapped gas at positive temperature. Communications in Mathematical Physics. 2019;368(2):723-776. doi:10.1007/s00220-018-3239-0","ieee":"A. Deuchert, R. Seiringer, and J. Yngvason, “Bose–Einstein condensation in a dilute, trapped gas at positive temperature,” Communications in Mathematical Physics, vol. 368, no. 2. Springer, pp. 723–776, 2019.","apa":"Deuchert, A., Seiringer, R., & Yngvason, J. (2019). Bose–Einstein condensation in a dilute, trapped gas at positive temperature. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-018-3239-0","ista":"Deuchert A, Seiringer R, Yngvason J. 2019. Bose–Einstein condensation in a dilute, trapped gas at positive temperature. Communications in Mathematical Physics. 368(2), 723–776.","short":"A. Deuchert, R. Seiringer, J. Yngvason, Communications in Mathematical Physics 368 (2019) 723–776.","mla":"Deuchert, Andreas, et al. “Bose–Einstein Condensation in a Dilute, Trapped Gas at Positive Temperature.” Communications in Mathematical Physics, vol. 368, no. 2, Springer, 2019, pp. 723–76, doi:10.1007/s00220-018-3239-0.","chicago":"Deuchert, Andreas, Robert Seiringer, and Jakob Yngvason. “Bose–Einstein Condensation in a Dilute, Trapped Gas at Positive Temperature.” Communications in Mathematical Physics. Springer, 2019. https://doi.org/10.1007/s00220-018-3239-0."},"publication":"Communications in Mathematical Physics","date_published":"2019-06-01T00:00:00Z","scopus_import":"1","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","day":"01","department":[{"_id":"RoSe"}],"publisher":"Springer","publication_status":"published","year":"2019","volume":368,"date_updated":"2023-08-24T14:27:51Z","date_created":"2018-12-11T11:44:31Z","author":[{"full_name":"Deuchert, Andreas","last_name":"Deuchert","first_name":"Andreas","orcid":"0000-0003-3146-6746","id":"4DA65CD0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert"},{"full_name":"Yngvason, Jakob","last_name":"Yngvason","first_name":"Jakob"}],"publist_id":"7974","ec_funded":1,"file_date_updated":"2020-07-14T12:48:07Z","project":[{"grant_number":"694227","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Analysis of quantum many-body systems"},{"name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","call_identifier":"FWF","grant_number":"P27533_N27","_id":"25C878CE-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","external_id":{"isi":["000467796800007"]},"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":"10.1007/s00220-018-3239-0","month":"06"}]