[{"doi":"10.1111/nph.15932","type":"journal_article","article_processing_charge":"No","page":"761-774","publication_status":"published","publication":"New Phytologist","date_published":"2019-10-01T00:00:00Z","citation":{"ama":"Zhang Y, He P, Ma X, et al. Auxin-mediated statolith production for root gravitropism. New Phytologist. 2019;224(2):761-774. doi:10.1111/nph.15932","apa":"Zhang, Y., He, P., Ma, X., Yang, Z., Pang, C., Yu, J., … Xiao, G. (2019). Auxin-mediated statolith production for root gravitropism. New Phytologist. Wiley. https://doi.org/10.1111/nph.15932","short":"Y. Zhang, P. He, X. Ma, Z. Yang, C. Pang, J. Yu, G. Wang, J. Friml, G. Xiao, New Phytologist 224 (2019) 761–774.","chicago":"Zhang, Yuzhou, P He, X Ma, Z Yang, C Pang, J Yu, G Wang, Jiří Friml, and G Xiao. “Auxin-Mediated Statolith Production for Root Gravitropism.” New Phytologist. Wiley, 2019. https://doi.org/10.1111/nph.15932.","mla":"Zhang, Yuzhou, et al. “Auxin-Mediated Statolith Production for Root Gravitropism.” New Phytologist, vol. 224, no. 2, Wiley, 2019, pp. 761–74, doi:10.1111/nph.15932.","ista":"Zhang Y, He P, Ma X, Yang Z, Pang C, Yu J, Wang G, Friml J, Xiao G. 2019. Auxin-mediated statolith production for root gravitropism. New Phytologist. 224(2), 761–774.","ieee":"Y. Zhang et al., “Auxin-mediated statolith production for root gravitropism,” New Phytologist, vol. 224, no. 2. Wiley, pp. 761–774, 2019."},"file_date_updated":"2020-10-14T08:59:33Z","intvolume":" 224","month":"10","oa_version":"Submitted Version","scopus_import":"1","article_type":"original","has_accepted_license":"1","language":[{"iso":"eng"}],"year":"2019","day":"01","status":"public","volume":224,"department":[{"_id":"JiFr"}],"pmid":1,"author":[{"orcid":"0000-0003-2627-6956","full_name":"Zhang, Yuzhou","first_name":"Yuzhou","last_name":"Zhang","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"He, P","first_name":"P","last_name":"He"},{"full_name":"Ma, X","first_name":"X","last_name":"Ma"},{"full_name":"Yang, Z","first_name":"Z","last_name":"Yang"},{"last_name":"Pang","full_name":"Pang, C","first_name":"C"},{"full_name":"Yu, J","first_name":"J","last_name":"Yu"},{"last_name":"Wang","first_name":"G","full_name":"Wang, G"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jiří","full_name":"Friml, Jiří"},{"first_name":"G","full_name":"Xiao, G","last_name":"Xiao"}],"abstract":[{"lang":"eng","text":"Root gravitropism is one of the most important processes allowing plant adaptation to the land environment. Auxin plays a central role in mediating root gravitropism, but how auxin contributes to gravitational perception and the subsequent response is still unclear.\r\n\r\nHere, we showed that the local auxin maximum/gradient within the root apex, which is generated by the PIN directional auxin transporters, regulates the expression of three key starch granule synthesis genes, SS4, PGM and ADG1, which in turn influence the accumulation of starch granules that serve as a statolith perceiving gravity.\r\n\r\nMoreover, using the cvxIAA‐ccvTIR1 system, we also showed that TIR1‐mediated auxin signaling is required for starch granule formation and gravitropic response within root tips. In addition, axr3 mutants showed reduced auxin‐mediated starch granule accumulation and disruption of gravitropism within the root apex.\r\n\r\nOur results indicate that auxin‐mediated statolith production relies on the TIR1/AFB‐AXR3‐mediated auxin signaling pathway. In summary, we propose a dual role for auxin in gravitropism: the regulation of both gravity perception and response."}],"ddc":["580"],"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"issue":"2","oa":1,"publisher":"Wiley","date_created":"2019-05-28T14:33:26Z","external_id":{"isi":["000487184200024"],"pmid":["31111487"]},"date_updated":"2023-08-28T08:40:13Z","quality_controlled":"1","_id":"6504","file":[{"file_name":"2019_NewPhytologist_Zhang_accepted.pdf","content_type":"application/pdf","access_level":"open_access","success":1,"date_created":"2020-10-14T08:59:33Z","checksum":"6488243334538f5c39099a701cbf76b9","file_size":1099061,"creator":"dernst","file_id":"8661","date_updated":"2020-10-14T08:59:33Z","relation":"main_file"}],"isi":1,"title":"Auxin-mediated statolith production for root gravitropism","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"article_processing_charge":"No","doi":"10.1038/s41564-019-0412-y","type":"journal_article","publication_status":"published","page":"1221–1230","oa_version":"Preprint","scopus_import":"1","intvolume":" 4","month":"07","citation":{"ama":"Noda-García L, Davidi D, Korenblum E, et al. Chance and pleiotropy dominate genetic diversity in complex bacterial environments. Nature Microbiology. 2019;4(7):1221–1230. doi:10.1038/s41564-019-0412-y","apa":"Noda-García, L., Davidi, D., Korenblum, E., Elazar, A., Putintseva, E., Aharoni, A., & Tawfik, D. S. (2019). Chance and pleiotropy dominate genetic diversity in complex bacterial environments. Nature Microbiology. Springer Nature. https://doi.org/10.1038/s41564-019-0412-y","short":"L. Noda-García, D. Davidi, E. Korenblum, A. Elazar, E. Putintseva, A. Aharoni, D.S. Tawfik, Nature Microbiology 4 (2019) 1221–1230.","chicago":"Noda-García, Lianet, Dan Davidi, Elisa Korenblum, Assaf Elazar, Ekaterina Putintseva, Asaph Aharoni, and Dan S. Tawfik. “Chance and Pleiotropy Dominate Genetic Diversity in Complex Bacterial Environments.” Nature Microbiology. Springer Nature, 2019. https://doi.org/10.1038/s41564-019-0412-y.","ieee":"L. Noda-García et al., “Chance and pleiotropy dominate genetic diversity in complex bacterial environments,” Nature Microbiology, vol. 4, no. 7. Springer Nature, pp. 1221–1230, 2019.","ista":"Noda-García L, Davidi D, Korenblum E, Elazar A, Putintseva E, Aharoni A, Tawfik DS. 2019. Chance and pleiotropy dominate genetic diversity in complex bacterial environments. Nature Microbiology. 4(7), 1221–1230.","mla":"Noda-García, Lianet, et al. “Chance and Pleiotropy Dominate Genetic Diversity in Complex Bacterial Environments.” Nature Microbiology, vol. 4, no. 7, Springer Nature, 2019, pp. 1221–1230, doi:10.1038/s41564-019-0412-y."},"date_published":"2019-07-01T00:00:00Z","publication":"Nature Microbiology","article_type":"original","status":"public","language":[{"iso":"eng"}],"day":"01","year":"2019","department":[{"_id":"FyKo"}],"volume":4,"author":[{"last_name":"Noda-García","first_name":"Lianet","full_name":"Noda-García, Lianet"},{"first_name":"Dan","full_name":"Davidi, Dan","last_name":"Davidi"},{"last_name":"Korenblum","full_name":"Korenblum, Elisa","first_name":"Elisa"},{"first_name":"Assaf","full_name":"Elazar, Assaf","last_name":"Elazar"},{"last_name":"Putintseva","id":"2EF67C84-F248-11E8-B48F-1D18A9856A87","full_name":"Putintseva, Ekaterina","first_name":"Ekaterina"},{"last_name":"Aharoni","first_name":"Asaph","full_name":"Aharoni, Asaph"},{"last_name":"Tawfik","first_name":"Dan S.","full_name":"Tawfik, Dan S."}],"publication_identifier":{"issn":["2058-5276"]},"abstract":[{"text":"How does environmental complexity affect the evolution of single genes? Here, we measured the effects of a set of Bacillus subtilis glutamate dehydrogenase mutants across 19 different environments—from phenotypically homogeneous single-cell populations in liquid media to heterogeneous biofilms, plant roots and soil populations. The effects of individual gene mutations on organismal fitness were highly reproducible in liquid cultures. However, 84% of the tested alleles showed opposing fitness effects under different growth conditions (sign environmental pleiotropy). In colony biofilms and soil samples, different alleles dominated in parallel replica experiments. Accordingly, we found that in these heterogeneous cell populations the fate of mutations was dictated by a combination of selection and drift. The latter relates to programmed prophage excisions that occurred during biofilm development. Overall, for each condition, a wide range of glutamate dehydrogenase mutations persisted and sometimes fixated as a result of the combined action of selection, pleiotropy and chance. However, over longer periods and in multiple environments, nearly all of this diversity would be lost—across all the environments and conditions that we tested, the wild type was the fittest allele.","lang":"eng"}],"oa":1,"issue":"7","date_created":"2019-05-29T13:03:30Z","publisher":"Springer Nature","date_updated":"2023-08-28T08:39:47Z","external_id":{"isi":["000480348200017"]},"main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/340828v2","open_access":"1"}],"quality_controlled":"1","_id":"6506","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Chance and pleiotropy dominate genetic diversity in complex bacterial environments"},{"oa":1,"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"International IST Doctoral Program","grant_number":"665385"},{"call_identifier":"H2020","_id":"25D4A630-B435-11E9-9278-68D0E5697425","grant_number":"715571","name":"Microglia action towards neuronal circuit formation and function in health and disease"},{"_id":"267F75D8-B435-11E9-9278-68D0E5697425","name":"Modulating microglia through G protein-coupled receptor (GPCR) signaling"}],"publication_identifier":{"issn":["0304-3940"]},"ec_funded":1,"abstract":[{"text":"Microglia have emerged as a critical component of neurodegenerative diseases. Genetic manipulation of microglia can elucidate their functional impact in disease. In neuroscience, recombinant viruses such as lentiviruses and adeno-associated viruses (AAVs) have been successfully used to target various cell types in the brain, although effective transduction of microglia is rare. In this review, we provide a short background of lentiviruses and AAVs, and strategies for designing recombinant viral vectors. Then, we will summarize recent literature on successful microglial transductions in vitro and in vivo, and discuss the current challenges. Finally, we provide guidelines for reporting the efficiency and specificity of viral targeting in microglia, which will enable the microglial research community to assess and improve methodologies for future studies.","lang":"eng"}],"ddc":["570"],"date_updated":"2023-08-28T09:30:57Z","external_id":{"pmid":["31158432"],"isi":["000486094600037"]},"date_created":"2019-06-05T13:16:24Z","publisher":"Elsevier","_id":"6521","quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Targeting microglia with lentivirus and AAV: Recent advances and remaining challenges","isi":1,"file":[{"checksum":"553c9dbd39727fbed55ee991c51ca4d1","date_created":"2019-06-08T11:44:20Z","file_size":1779287,"relation":"main_file","date_updated":"2020-07-14T12:47:33Z","creator":"dernst","file_id":"6551","file_name":"2019_Neuroscience_Maes.pdf","access_level":"open_access","content_type":"application/pdf"}],"publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","type":"journal_article","doi":"10.1016/j.neulet.2019.134310","oa_version":"Published Version","scopus_import":"1","file_date_updated":"2020-07-14T12:47:33Z","month":"08","intvolume":" 707","citation":{"apa":"Maes, M. E., Colombo, G., Schulz, R., & Siegert, S. (2019). Targeting microglia with lentivirus and AAV: Recent advances and remaining challenges. Neuroscience Letters. Elsevier. https://doi.org/10.1016/j.neulet.2019.134310","ama":"Maes ME, Colombo G, Schulz R, Siegert S. Targeting microglia with lentivirus and AAV: Recent advances and remaining challenges. Neuroscience Letters. 2019;707. doi:10.1016/j.neulet.2019.134310","short":"M.E. Maes, G. Colombo, R. Schulz, S. Siegert, Neuroscience Letters 707 (2019).","chicago":"Maes, Margaret E, Gloria Colombo, Rouven Schulz, and Sandra Siegert. “Targeting Microglia with Lentivirus and AAV: Recent Advances and Remaining Challenges.” Neuroscience Letters. Elsevier, 2019. https://doi.org/10.1016/j.neulet.2019.134310.","ieee":"M. E. Maes, G. Colombo, R. Schulz, and S. Siegert, “Targeting microglia with lentivirus and AAV: Recent advances and remaining challenges,” Neuroscience Letters, vol. 707. Elsevier, 2019.","mla":"Maes, Margaret E., et al. “Targeting Microglia with Lentivirus and AAV: Recent Advances and Remaining Challenges.” Neuroscience Letters, vol. 707, 134310, Elsevier, 2019, doi:10.1016/j.neulet.2019.134310.","ista":"Maes ME, Colombo G, Schulz R, Siegert S. 2019. Targeting microglia with lentivirus and AAV: Recent advances and remaining challenges. Neuroscience Letters. 707, 134310."},"date_published":"2019-08-10T00:00:00Z","publication":"Neuroscience Letters","status":"public","language":[{"iso":"eng"}],"year":"2019","day":"10","has_accepted_license":"1","article_type":"original","author":[{"last_name":"Maes","id":"3838F452-F248-11E8-B48F-1D18A9856A87","full_name":"Maes, Margaret E","first_name":"Margaret E","orcid":"0000-0001-9642-1085"},{"orcid":"0000-0001-9434-8902","first_name":"Gloria","full_name":"Colombo, Gloria","id":"3483CF6C-F248-11E8-B48F-1D18A9856A87","last_name":"Colombo"},{"orcid":"0000-0001-5297-733X","full_name":"Schulz, Rouven","first_name":"Rouven","last_name":"Schulz","id":"4C5E7B96-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-8635-0877","first_name":"Sandra","full_name":"Siegert, Sandra","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87","last_name":"Siegert"}],"article_number":"134310","department":[{"_id":"SaSi"}],"pmid":1,"volume":707},{"publication":"Nature","date_published":"2019-06-06T00:00:00Z","citation":{"chicago":"Guiu, Jordi, Edouard B Hannezo, Shiro Yui, Samuel Demharter, Svetlana Ulyanchenko, Martti Maimets, Anne Jørgensen, et al. “Tracing the Origin of Adult Intestinal Stem Cells.” Nature. Springer Nature, 2019. https://doi.org/10.1038/s41586-019-1212-5.","short":"J. Guiu, E.B. Hannezo, S. Yui, S. Demharter, S. Ulyanchenko, M. Maimets, A. Jørgensen, S. Perlman, L. Lundvall, L.S. Mamsen, A. Larsen, R.H. Olesen, C.Y. Andersen, L.L. Thuesen, K.J. Hare, T.H. Pers, K. Khodosevich, B.D. Simons, K.B. Jensen, Nature 570 (2019) 107–111.","ama":"Guiu J, Hannezo EB, Yui S, et al. Tracing the origin of adult intestinal stem cells. Nature. 2019;570:107-111. doi:10.1038/s41586-019-1212-5","apa":"Guiu, J., Hannezo, E. B., Yui, S., Demharter, S., Ulyanchenko, S., Maimets, M., … Jensen, K. B. (2019). Tracing the origin of adult intestinal stem cells. Nature. Springer Nature. https://doi.org/10.1038/s41586-019-1212-5","ista":"Guiu J, Hannezo EB, Yui S, Demharter S, Ulyanchenko S, Maimets M, Jørgensen A, Perlman S, Lundvall L, Mamsen LS, Larsen A, Olesen RH, Andersen CY, Thuesen LL, Hare KJ, Pers TH, Khodosevich K, Simons BD, Jensen KB. 2019. Tracing the origin of adult intestinal stem cells. Nature. 570, 107–111.","mla":"Guiu, Jordi, et al. “Tracing the Origin of Adult Intestinal Stem Cells.” Nature, vol. 570, Springer Nature, 2019, pp. 107–11, doi:10.1038/s41586-019-1212-5.","ieee":"J. Guiu et al., “Tracing the origin of adult intestinal stem cells,” Nature, vol. 570. Springer Nature, pp. 107–111, 2019."},"month":"06","intvolume":" 570","scopus_import":"1","oa_version":"Submitted Version","type":"journal_article","doi":"10.1038/s41586-019-1212-5","article_processing_charge":"No","page":"107-111","publication_status":"published","volume":570,"pmid":1,"department":[{"_id":"EdHa"}],"author":[{"last_name":"Guiu","first_name":"Jordi","full_name":"Guiu, Jordi"},{"last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","first_name":"Edouard B"},{"last_name":"Yui","full_name":"Yui, Shiro","first_name":"Shiro"},{"first_name":"Samuel","full_name":"Demharter, Samuel","last_name":"Demharter"},{"last_name":"Ulyanchenko","first_name":"Svetlana","full_name":"Ulyanchenko, Svetlana"},{"first_name":"Martti","full_name":"Maimets, Martti","last_name":"Maimets"},{"last_name":"Jørgensen","full_name":"Jørgensen, Anne","first_name":"Anne"},{"first_name":"Signe","full_name":"Perlman, Signe","last_name":"Perlman"},{"first_name":"Lene","full_name":"Lundvall, Lene","last_name":"Lundvall"},{"last_name":"Mamsen","first_name":"Linn Salto","full_name":"Mamsen, Linn Salto"},{"last_name":"Larsen","first_name":"Agnete","full_name":"Larsen, Agnete"},{"last_name":"Olesen","first_name":"Rasmus H.","full_name":"Olesen, Rasmus H."},{"last_name":"Andersen","full_name":"Andersen, Claus Yding","first_name":"Claus Yding"},{"last_name":"Thuesen","first_name":"Lea Langhoff","full_name":"Thuesen, Lea Langhoff"},{"last_name":"Hare","full_name":"Hare, Kristine Juul","first_name":"Kristine Juul"},{"last_name":"Pers","first_name":"Tune H.","full_name":"Pers, Tune H."},{"last_name":"Khodosevich","full_name":"Khodosevich, Konstantin","first_name":"Konstantin"},{"last_name":"Simons","full_name":"Simons, Benjamin D.","first_name":"Benjamin D."},{"first_name":"Kim B.","full_name":"Jensen, Kim B.","last_name":"Jensen"}],"article_type":"original","day":"06","year":"2019","language":[{"iso":"eng"}],"status":"public","publisher":"Springer Nature","date_created":"2019-06-02T21:59:14Z","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6986928","open_access":"1"}],"external_id":{"pmid":["31092921"],"isi":["000470149000048"]},"date_updated":"2023-08-28T09:30:23Z","abstract":[{"text":"Adult intestinal stem cells are located at the bottom of crypts of Lieberkühn, where they express markers such as LGR5 1,2 and fuel the constant replenishment of the intestinal epithelium1. Although fetal LGR5-expressing cells can give rise to adult intestinal stem cells3,4, it remains unclear whether this population in the patterned epithelium represents unique intestinal stem-cell precursors. Here we show, using unbiased quantitative lineage-tracing approaches, biophysical modelling and intestinal transplantation, that all cells of the mouse intestinal epithelium—irrespective of their location and pattern of LGR5 expression in the fetal gut tube—contribute actively to the adult intestinal stem cell pool. Using 3D imaging, we find that during fetal development the villus undergoes gross remodelling and fission. This brings epithelial cells from the non-proliferative villus into the proliferative intervillus region, which enables them to contribute to the adult stem-cell niche. Our results demonstrate that large-scale remodelling of the intestinal wall and cell-fate specification are closely linked. Moreover, these findings provide a direct link between the observed plasticity and cellular reprogramming of differentiating cells in adult tissues following damage5,6,7,8,9, revealing that stem-cell identity is an induced rather than a hardwired property.","lang":"eng"}],"publication_identifier":{"eissn":["14764687"],"issn":["00280836"]},"oa":1,"isi":1,"title":"Tracing the origin of adult intestinal stem cells","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","_id":"6513"},{"title":"Engineering strategy and vector library for the rapid generation of modular light-controlled protein–protein interactions","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"_id":"6564","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"http://www.biorxiv.org/content/10.1101/583369v1"}],"date_updated":"2023-08-28T09:39:22Z","external_id":{"isi":["000482872100002"]},"date_created":"2019-06-16T21:59:14Z","publisher":"Elsevier","issue":"17","oa":1,"abstract":[{"lang":"eng","text":"Optogenetics enables the spatio-temporally precise control of cell and animal behavior. Many optogenetic tools are driven by light-controlled protein–protein interactions (PPIs) that are repurposed from natural light-sensitive domains (LSDs). Applying light-controlled PPIs to new target proteins is challenging because it is difficult to predict which of the many available LSDs, if any, will yield robust light regulation. As a consequence, fusion protein libraries need to be prepared and tested, but methods and platforms to facilitate this process are currently not available. Here, we developed a genetic engineering strategy and vector library for the rapid generation of light-controlled PPIs. The strategy permits fusing a target protein to multiple LSDs efficiently and in two orientations. The public and expandable library contains 29 vectors with blue, green or red light-responsive LSDs, many of which have been previously applied ex vivo and in vivo. We demonstrate the versatility of the approach and the necessity for sampling LSDs by generating light-activated caspase-9 (casp9) enzymes. Collectively, this work provides a new resource for optical regulation of a broad range of target proteins in cell and developmental biology."}],"publication_identifier":{"eissn":["10898638"],"issn":["00222836"]},"author":[{"id":"29D8BB2C-F248-11E8-B48F-1D18A9856A87","last_name":"Tichy","first_name":"Alexandra-Madelaine","full_name":"Tichy, Alexandra-Madelaine"},{"last_name":"Gerrard","full_name":"Gerrard, Elliot J.","first_name":"Elliot J."},{"last_name":"Legrand","full_name":"Legrand, Julien M.D.","first_name":"Julien M.D."},{"last_name":"Hobbs","full_name":"Hobbs, Robin M.","first_name":"Robin M."},{"last_name":"Janovjak","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","full_name":"Janovjak, Harald L","first_name":"Harald L","orcid":"0000-0002-8023-9315"}],"volume":431,"department":[{"_id":"HaJa"}],"status":"public","day":"09","year":"2019","language":[{"iso":"eng"}],"article_type":"original","citation":{"chicago":"Tichy, Alexandra-Madelaine, Elliot J. Gerrard, Julien M.D. Legrand, Robin M. Hobbs, and Harald L Janovjak. “Engineering Strategy and Vector Library for the Rapid Generation of Modular Light-Controlled Protein–Protein Interactions.” Journal of Molecular Biology. Elsevier, 2019. https://doi.org/10.1016/j.jmb.2019.05.033.","apa":"Tichy, A.-M., Gerrard, E. J., Legrand, J. M. D., Hobbs, R. M., & Janovjak, H. L. (2019). Engineering strategy and vector library for the rapid generation of modular light-controlled protein–protein interactions. Journal of Molecular Biology. Elsevier. https://doi.org/10.1016/j.jmb.2019.05.033","ama":"Tichy A-M, Gerrard EJ, Legrand JMD, Hobbs RM, Janovjak HL. Engineering strategy and vector library for the rapid generation of modular light-controlled protein–protein interactions. Journal of Molecular Biology. 2019;431(17):3046-3055. doi:10.1016/j.jmb.2019.05.033","short":"A.-M. Tichy, E.J. Gerrard, J.M.D. Legrand, R.M. Hobbs, H.L. Janovjak, Journal of Molecular Biology 431 (2019) 3046–3055.","ieee":"A.-M. Tichy, E. J. Gerrard, J. M. D. Legrand, R. M. Hobbs, and H. L. Janovjak, “Engineering strategy and vector library for the rapid generation of modular light-controlled protein–protein interactions,” Journal of Molecular Biology, vol. 431, no. 17. Elsevier, pp. 3046–3055, 2019.","mla":"Tichy, Alexandra-Madelaine, et al. “Engineering Strategy and Vector Library for the Rapid Generation of Modular Light-Controlled Protein–Protein Interactions.” Journal of Molecular Biology, vol. 431, no. 17, Elsevier, 2019, pp. 3046–55, doi:10.1016/j.jmb.2019.05.033.","ista":"Tichy A-M, Gerrard EJ, Legrand JMD, Hobbs RM, Janovjak HL. 2019. Engineering strategy and vector library for the rapid generation of modular light-controlled protein–protein interactions. Journal of Molecular Biology. 431(17), 3046–3055."},"publication":"Journal of Molecular Biology","date_published":"2019-08-09T00:00:00Z","scopus_import":"1","oa_version":"Preprint","month":"08","intvolume":" 431","publication_status":"published","page":"3046-3055","doi":"10.1016/j.jmb.2019.05.033","type":"journal_article","article_processing_charge":"No"},{"publication_identifier":{"issn":["09609822"]},"abstract":[{"lang":"eng","text":"When animals become sick, infected cells and an armada of activated immune cells attempt to eliminate the pathogen from the body. Once infectious particles have breached the body's physical barriers of the skin or gut lining, an initially local response quickly escalates into a systemic response, attracting mobile immune cells to the site of infection. These cells complement the initial, unspecific defense with a more specialized, targeted response. This can also provide long-term immune memory and protection against future infection. The cell-autonomous defenses of the infected cells are thus aided by the actions of recruited immune cells. These specialized cells are the most mobile cells in the body, constantly patrolling through the otherwise static tissue to detect incoming pathogens. Such constant immune surveillance means infections are noticed immediately and can be rapidly cleared from the body. Some immune cells also remove infected cells that have succumbed to infection. All this prevents pathogen replication and spread to healthy tissues. Although this may involve the sacrifice of some somatic tissue, this is typically replaced quickly. Particular care is, however, given to the reproductive organs, which should always remain disease free (immune privilege). "}],"oa":1,"issue":"11","publisher":"Elsevier","date_created":"2019-06-09T21:59:10Z","external_id":{"pmid":["31163158"],"isi":["000470902000023"]},"date_updated":"2023-08-28T09:38:00Z","main_file_link":[{"url":"https://doi.org/10.1016/j.cub.2019.03.035","open_access":"1"}],"quality_controlled":"1","_id":"6552","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Social immunity in insects","article_processing_charge":"No","type":"journal_article","doi":"10.1016/j.cub.2019.03.035","page":"R458-R463","publication_status":"published","month":"06","intvolume":" 29","oa_version":"Published Version","scopus_import":"1","publication":"Current Biology","date_published":"2019-06-03T00:00:00Z","citation":{"short":"S. Cremer, Current Biology 29 (2019) R458–R463.","apa":"Cremer, S. (2019). Social immunity in insects. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2019.03.035","ama":"Cremer S. Social immunity in insects. Current Biology. 2019;29(11):R458-R463. doi:10.1016/j.cub.2019.03.035","chicago":"Cremer, Sylvia. “Social Immunity in Insects.” Current Biology. Elsevier, 2019. https://doi.org/10.1016/j.cub.2019.03.035.","ista":"Cremer S. 2019. Social immunity in insects. Current Biology. 29(11), R458–R463.","mla":"Cremer, Sylvia. “Social Immunity in Insects.” Current Biology, vol. 29, no. 11, Elsevier, 2019, pp. R458–63, doi:10.1016/j.cub.2019.03.035.","ieee":"S. Cremer, “Social immunity in insects,” Current Biology, vol. 29, no. 11. Elsevier, pp. R458–R463, 2019."},"article_type":"original","year":"2019","language":[{"iso":"eng"}],"day":"03","status":"public","department":[{"_id":"SyCr"}],"pmid":1,"volume":29,"author":[{"last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2193-3868","full_name":"Cremer, Sylvia","first_name":"Sylvia"}]},{"issue":"3","project":[{"call_identifier":"FP7","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","grant_number":"338804"}],"oa":1,"ec_funded":1,"abstract":[{"text":"Let U and V be two independent N by N random matrices that are distributed according to Haar measure on U(N). Let Σ be a nonnegative deterministic N by N matrix. The single ring theorem [Ann. of Math. (2) 174 (2011) 1189–1217] asserts that the empirical eigenvalue distribution of the matrix X:=UΣV∗ converges weakly, in the limit of large N, to a deterministic measure which is supported on a single ring centered at the origin in ℂ. Within the bulk regime, that is, in the interior of the single ring, we establish the convergence of the empirical eigenvalue distribution on the optimal local scale of order N−1/2+ε and establish the optimal convergence rate. The same results hold true when U and V are Haar distributed on O(N).","lang":"eng"}],"publication_identifier":{"issn":["00911798"]},"main_file_link":[{"url":"https://arxiv.org/abs/1612.05920","open_access":"1"}],"date_updated":"2023-08-28T09:32:29Z","external_id":{"arxiv":["1612.05920"],"isi":["000466616100003"]},"date_created":"2019-06-02T21:59:13Z","publisher":"Institute of Mathematical Statistics","_id":"6511","quality_controlled":"1","title":"Local single ring theorem on optimal scale","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"publication_status":"published","page":"1270-1334","type":"journal_article","doi":"10.1214/18-AOP1284","article_processing_charge":"No","citation":{"short":"Z. Bao, L. Erdös, K. Schnelli, Annals of Probability 47 (2019) 1270–1334.","apa":"Bao, Z., Erdös, L., & Schnelli, K. (2019). Local single ring theorem on optimal scale. Annals of Probability. Institute of Mathematical Statistics. https://doi.org/10.1214/18-AOP1284","ama":"Bao Z, Erdös L, Schnelli K. Local single ring theorem on optimal scale. Annals of Probability. 2019;47(3):1270-1334. doi:10.1214/18-AOP1284","chicago":"Bao, Zhigang, László Erdös, and Kevin Schnelli. “Local Single Ring Theorem on Optimal Scale.” Annals of Probability. Institute of Mathematical Statistics, 2019. https://doi.org/10.1214/18-AOP1284.","mla":"Bao, Zhigang, et al. “Local Single Ring Theorem on Optimal Scale.” Annals of Probability, vol. 47, no. 3, Institute of Mathematical Statistics, 2019, pp. 1270–334, doi:10.1214/18-AOP1284.","ieee":"Z. Bao, L. Erdös, and K. Schnelli, “Local single ring theorem on optimal scale,” Annals of Probability, vol. 47, no. 3. Institute of Mathematical Statistics, pp. 1270–1334, 2019.","ista":"Bao Z, Erdös L, Schnelli K. 2019. Local single ring theorem on optimal scale. Annals of Probability. 47(3), 1270–1334."},"publication":"Annals of Probability","date_published":"2019-05-01T00:00:00Z","scopus_import":"1","oa_version":"Preprint","intvolume":" 47","month":"05","status":"public","year":"2019","day":"01","language":[{"iso":"eng"}],"author":[{"full_name":"Bao, Zhigang","first_name":"Zhigang","orcid":"0000-0003-3036-1475","last_name":"Bao","id":"442E6A6C-F248-11E8-B48F-1D18A9856A87"},{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","orcid":"0000-0001-5366-9603","first_name":"László","full_name":"Erdös, László"},{"orcid":"0000-0003-0954-3231","first_name":"Kevin","full_name":"Schnelli, Kevin","id":"434AD0AE-F248-11E8-B48F-1D18A9856A87","last_name":"Schnelli"}],"volume":47,"department":[{"_id":"LaEr"}]},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Multiscale dynamics of branching morphogenesis","isi":1,"_id":"6559","quality_controlled":"1","date_updated":"2023-08-28T09:38:57Z","external_id":{"isi":["000486545800014"],"pmid":["31181348"]},"date_created":"2019-06-16T21:59:12Z","publisher":"Elsevier","publication_identifier":{"issn":["09550674"],"eissn":["18790410"]},"abstract":[{"text":"Branching morphogenesis is a prototypical example of complex three-dimensional organ sculpting, required in multiple developmental settings to maximize the area of exchange surfaces. It requires, in particular, the coordinated growth of different cell types together with complex patterning to lead to robust macroscopic outputs. In recent years, novel multiscale quantitative biology approaches, together with biophysical modelling, have begun to shed new light of this topic. Here, we wish to review some of these recent developments, highlighting the generic design principles that can be abstracted across different branched organs, as well as the implications for the broader fields of stem cell, developmental and systems biology.","lang":"eng"}],"author":[{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","orcid":"0000-0001-6005-1561","first_name":"Edouard B","full_name":"Hannezo, Edouard B"},{"full_name":"Simons, Benjamin D.","first_name":"Benjamin D.","last_name":"Simons"}],"department":[{"_id":"EdHa"}],"pmid":1,"volume":60,"status":"public","year":"2019","day":"01","language":[{"iso":"eng"}],"article_type":"original","oa_version":"None","scopus_import":"1","month":"10","intvolume":" 60","citation":{"mla":"Hannezo, Edouard B., and Benjamin D. Simons. “Multiscale Dynamics of Branching Morphogenesis.” Current Opinion in Cell Biology, vol. 60, Elsevier, 2019, pp. 99–105, doi:10.1016/j.ceb.2019.04.008.","ieee":"E. B. Hannezo and B. D. Simons, “Multiscale dynamics of branching morphogenesis,” Current Opinion in Cell Biology, vol. 60. Elsevier, pp. 99–105, 2019.","ista":"Hannezo EB, Simons BD. 2019. Multiscale dynamics of branching morphogenesis. Current Opinion in Cell Biology. 60, 99–105.","short":"E.B. Hannezo, B.D. Simons, Current Opinion in Cell Biology 60 (2019) 99–105.","apa":"Hannezo, E. B., & Simons, B. D. (2019). Multiscale dynamics of branching morphogenesis. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2019.04.008","ama":"Hannezo EB, Simons BD. Multiscale dynamics of branching morphogenesis. Current Opinion in Cell Biology. 2019;60:99-105. doi:10.1016/j.ceb.2019.04.008","chicago":"Hannezo, Edouard B, and Benjamin D. Simons. “Multiscale Dynamics of Branching Morphogenesis.” Current Opinion in Cell Biology. Elsevier, 2019. https://doi.org/10.1016/j.ceb.2019.04.008."},"publication":"Current Opinion in Cell Biology","date_published":"2019-10-01T00:00:00Z","publication_status":"published","page":"99-105","article_processing_charge":"No","doi":"10.1016/j.ceb.2019.04.008","type":"journal_article"},{"citation":{"chicago":"Ibáñez, Maria, Aziz Genç, Roger Hasler, Yu Liu, Oleksandr Dobrozhan, Olga Nazarenko, María de la Mata, Jordi Arbiol, Andreu Cabot, and Maksym V. Kovalenko. “Tuning Transport Properties in Thermoelectric Nanocomposites through Inorganic Ligands and Heterostructured Building Blocks.” ACS Nano. American Chemical Society, 2019. https://doi.org/10.1021/acsnano.9b00346.","short":"M. Ibáñez, A. Genç, R. Hasler, Y. Liu, O. Dobrozhan, O. Nazarenko, M. de la Mata, J. Arbiol, A. Cabot, M.V. Kovalenko, ACS Nano 13 (2019) 6572–6580.","ama":"Ibáñez M, Genç A, Hasler R, et al. Tuning transport properties in thermoelectric nanocomposites through inorganic ligands and heterostructured building blocks. ACS Nano. 2019;13(6):6572-6580. doi:10.1021/acsnano.9b00346","apa":"Ibáñez, M., Genç, A., Hasler, R., Liu, Y., Dobrozhan, O., Nazarenko, O., … Kovalenko, M. V. (2019). Tuning transport properties in thermoelectric nanocomposites through inorganic ligands and heterostructured building blocks. ACS Nano. American Chemical Society. https://doi.org/10.1021/acsnano.9b00346","mla":"Ibáñez, Maria, et al. “Tuning Transport Properties in Thermoelectric Nanocomposites through Inorganic Ligands and Heterostructured Building Blocks.” ACS Nano, vol. 13, no. 6, American Chemical Society, 2019, pp. 6572–80, doi:10.1021/acsnano.9b00346.","ieee":"M. Ibáñez et al., “Tuning transport properties in thermoelectric nanocomposites through inorganic ligands and heterostructured building blocks,” ACS Nano, vol. 13, no. 6. American Chemical Society, pp. 6572–6580, 2019.","ista":"Ibáñez M, Genç A, Hasler R, Liu Y, Dobrozhan O, Nazarenko O, Mata M de la, Arbiol J, Cabot A, Kovalenko MV. 2019. Tuning transport properties in thermoelectric nanocomposites through inorganic ligands and heterostructured building blocks. ACS Nano. 13(6), 6572–6580."},"publication":"ACS Nano","date_published":"2019-06-25T00:00:00Z","scopus_import":"1","oa_version":"Published Version","intvolume":" 13","file_date_updated":"2020-07-14T12:47:33Z","month":"06","doi":"10.1021/acsnano.9b00346","type":"journal_article","article_processing_charge":"Yes (in subscription journal)","publication_status":"published","page":"6572-6580","volume":13,"department":[{"_id":"MaIb"}],"pmid":1,"author":[{"id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","orcid":"0000-0001-5013-2843","first_name":"Maria","full_name":"Ibáñez, Maria"},{"first_name":"Aziz","full_name":"Genç, Aziz","last_name":"Genç"},{"last_name":"Hasler","first_name":"Roger","full_name":"Hasler, Roger"},{"full_name":"Liu, Yu","first_name":"Yu","orcid":"0000-0001-7313-6740","last_name":"Liu","id":"2A70014E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Dobrozhan","first_name":"Oleksandr","full_name":"Dobrozhan, Oleksandr"},{"last_name":"Nazarenko","full_name":"Nazarenko, Olga","first_name":"Olga"},{"first_name":"María de la","full_name":"Mata, María de la","last_name":"Mata"},{"last_name":"Arbiol","first_name":"Jordi","full_name":"Arbiol, Jordi"},{"full_name":"Cabot, Andreu","first_name":"Andreu","last_name":"Cabot"},{"last_name":"Kovalenko","full_name":"Kovalenko, Maksym V.","first_name":"Maksym V."}],"article_type":"original","has_accepted_license":"1","status":"public","day":"25","language":[{"iso":"eng"}],"year":"2019","date_created":"2019-06-18T13:54:34Z","publisher":"American Chemical Society","date_updated":"2023-08-28T12:20:53Z","external_id":{"pmid":["31185159"],"isi":["000473248300043"]},"ec_funded":1,"ddc":["540"],"abstract":[{"lang":"eng","text":"Methodologies that involve the use of nanoparticles as “artificial atoms” to rationally build materials in a bottom-up fashion are particularly well-suited to control the matter at the nanoscale. Colloidal synthetic routes allow for an exquisite control over such “artificial atoms” in terms of size, shape, and crystal phase as well as core and surface compositions. We present here a bottom-up approach to produce Pb–Ag–K–S–Te nanocomposites, which is a highly promising system for thermoelectric energy conversion. First, we developed a high-yield and scalable colloidal synthesis route to uniform lead sulfide (PbS) nanorods, whose tips are made of silver sulfide (Ag2S). We then took advantage of the large surface-to-volume ratio to introduce a p-type dopant (K) by replacing native organic ligands with K2Te. Upon thermal consolidation, K2Te-surface modified PbS–Ag2S nanorods yield p-type doped nanocomposites with PbTe and PbS as major phases and Ag2S and Ag2Te as embedded nanoinclusions. Thermoelectric characterization of such consolidated nanosolids showed a high thermoelectric figure-of-merit of 1 at 620 K."}],"publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"issue":"6","project":[{"name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"oa":1,"isi":1,"file":[{"creator":"dernst","file_id":"6644","date_updated":"2020-07-14T12:47:33Z","relation":"main_file","date_created":"2019-07-16T14:17:09Z","file_size":8628690,"content_type":"application/pdf","access_level":"open_access","file_name":"2019_ACSNano_Ibanez.pdf"}],"title":"Tuning transport properties in thermoelectric nanocomposites through inorganic ligands and heterostructured building blocks","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","keyword":["colloidal nanoparticles","asymmetric nanoparticles","inorganic ligands","heterostructures","catalyst assisted growth","nanocomposites","thermoelectrics"],"_id":"6566"},{"date_updated":"2023-08-28T12:26:51Z","external_id":{"isi":["000472597400042"]},"date_created":"2019-07-07T21:59:19Z","publisher":"Nature Publishing Group","issue":"1","oa":1,"abstract":[{"lang":"eng","text":"Acute myeloid leukemia (AML) is a heterogeneous disease with respect to its genetic and molecular basis and to patients´ outcome. Clinical, cytogenetic, and mutational data are used to classify patients into risk groups with different survival, however, within-group heterogeneity is still an issue. Here, we used a robust likelihood-based survival modeling approach and publicly available gene expression data to identify a minimal number of genes whose combined expression values were prognostic of overall survival. The resulting gene expression signature (4-GES) consisted of 4 genes (SOCS2, IL2RA, NPDC1, PHGDH), predicted patient survival as an independent prognostic parameter in several cohorts of AML patients (total, 1272 patients), and further refined prognostication based on the European Leukemia Net classification. An oncogenic role of the top scoring gene in this signature, SOCS2, was investigated using MLL-AF9 and Flt3-ITD/NPM1c driven mouse models of AML. SOCS2 promoted leukemogenesis as well as the abundance, quiescence, and activity of AML stem cells. Overall, the 4-GES represents a highly discriminating prognostic parameter in AML, whose clinical applicability is greatly enhanced by its small number of genes. The newly established role of SOCS2 in leukemia aggressiveness and stemness raises the possibility that the signature might even be exploitable therapeutically."}],"ddc":["576"],"title":"SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"file":[{"access_level":"open_access","content_type":"application/pdf","file_name":"nature_2019_Nguyen.pdf","date_updated":"2020-07-14T12:47:34Z","relation":"main_file","creator":"kschuh","file_id":"6623","checksum":"3283522fffadf4b5fc8c7adfe3ba4564","date_created":"2019-07-08T15:15:28Z","file_size":2017352}],"_id":"6607","quality_controlled":"1","citation":{"ista":"Nguyen CH, Glüxam T, Schlerka A, Bauer K, Grandits AM, Hackl H, Dovey O, Zöchbauer-Müller S, Cooper JL, Vassiliou GS, Stoiber D, Wieser R, Heller G. 2019. SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. Scientific Reports. 9(1), 9139.","ieee":"C. H. Nguyen et al., “SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness,” Scientific Reports, vol. 9, no. 1. Nature Publishing Group, 2019.","mla":"Nguyen, Chi Huu, et al. “SOCS2 Is Part of a Highly Prognostic 4-Gene Signature in AML and Promotes Disease Aggressiveness.” Scientific Reports, vol. 9, no. 1, 9139, Nature Publishing Group, 2019, doi:10.1038/s41598-019-45579-0.","short":"C.H. Nguyen, T. Glüxam, A. Schlerka, K. Bauer, A.M. Grandits, H. Hackl, O. Dovey, S. Zöchbauer-Müller, J.L. Cooper, G.S. Vassiliou, D. Stoiber, R. Wieser, G. Heller, Scientific Reports 9 (2019).","ama":"Nguyen CH, Glüxam T, Schlerka A, et al. SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. Scientific Reports. 2019;9(1). doi:10.1038/s41598-019-45579-0","apa":"Nguyen, C. H., Glüxam, T., Schlerka, A., Bauer, K., Grandits, A. M., Hackl, H., … Heller, G. (2019). SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/s41598-019-45579-0","chicago":"Nguyen, Chi Huu, Tobias Glüxam, Angela Schlerka, Katharina Bauer, Alexander M. Grandits, Hubert Hackl, Oliver Dovey, et al. “SOCS2 Is Part of a Highly Prognostic 4-Gene Signature in AML and Promotes Disease Aggressiveness.” Scientific Reports. Nature Publishing Group, 2019. https://doi.org/10.1038/s41598-019-45579-0."},"date_published":"2019-06-24T00:00:00Z","publication":"Scientific Reports","oa_version":"Published Version","scopus_import":"1","intvolume":" 9","month":"06","file_date_updated":"2020-07-14T12:47:34Z","publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"type":"journal_article","doi":"10.1038/s41598-019-45579-0","article_processing_charge":"No","article_number":"9139","author":[{"full_name":"Nguyen, Chi Huu","first_name":"Chi Huu","last_name":"Nguyen"},{"first_name":"Tobias","full_name":"Glüxam, Tobias","last_name":"Glüxam"},{"last_name":"Schlerka","first_name":"Angela","full_name":"Schlerka, Angela"},{"id":"2ED6B14C-F248-11E8-B48F-1D18A9856A87","last_name":"Bauer","first_name":"Katharina","full_name":"Bauer, Katharina"},{"last_name":"Grandits","first_name":"Alexander M.","full_name":"Grandits, Alexander M."},{"last_name":"Hackl","full_name":"Hackl, Hubert","first_name":"Hubert"},{"last_name":"Dovey","first_name":"Oliver","full_name":"Dovey, Oliver"},{"last_name":"Zöchbauer-Müller","first_name":"Sabine","full_name":"Zöchbauer-Müller, Sabine"},{"first_name":"Jonathan L.","full_name":"Cooper, Jonathan L.","last_name":"Cooper"},{"last_name":"Vassiliou","full_name":"Vassiliou, George S.","first_name":"George S."},{"first_name":"Dagmar","full_name":"Stoiber, Dagmar","last_name":"Stoiber"},{"first_name":"Rotraud","full_name":"Wieser, Rotraud","last_name":"Wieser"},{"first_name":"Gerwin","full_name":"Heller, Gerwin","last_name":"Heller"}],"volume":9,"department":[{"_id":"PreCl"}],"status":"public","year":"2019","language":[{"iso":"eng"}],"day":"24","has_accepted_license":"1"},{"_id":"6609","quality_controlled":"1","title":"Stationary entangled radiation from micromechanical motion","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"oa":1,"project":[{"_id":"257EB838-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"732894","name":"Hybrid Optomechanical Technologies"},{"call_identifier":"H2020","_id":"26336814-B435-11E9-9278-68D0E5697425","name":"A Fiber Optic Transceiver for Superconducting Qubits","grant_number":"758053"},{"_id":"258047B6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"707438","name":"Microwave-to-Optical Quantum Link: Quantum Teleportation and Quantum Illumination with cavity Optomechanics"},{"_id":"2671EB66-B435-11E9-9278-68D0E5697425","name":"Coherent on-chip conversion of superconducting qubit signals from microwaves to optical frequencies"}],"abstract":[{"lang":"eng","text":"Mechanical systems facilitate the development of a hybrid quantum technology comprising electrical, optical, atomic and acoustic degrees of freedom1, and entanglement is essential to realize quantum-enabled devices. Continuous-variable entangled fields—known as Einstein–Podolsky–Rosen (EPR) states—are spatially separated two-mode squeezed states that can be used for quantum teleportation and quantum communication2. In the optical domain, EPR states are typically generated using nondegenerate optical amplifiers3, and at microwave frequencies Josephson circuits can serve as a nonlinear medium4,5,6. An outstanding goal is to deterministically generate and distribute entangled states with a mechanical oscillator, which requires a carefully arranged balance between excitation, cooling and dissipation in an ultralow noise environment. Here we observe stationary emission of path-entangled microwave radiation from a parametrically driven 30-micrometre-long silicon nanostring oscillator, squeezing the joint field operators of two thermal modes by 3.40 decibels below the vacuum level. The motion of this micromechanical system correlates up to 50 photons per second per hertz, giving rise to a quantum discord that is robust with respect to microwave noise7. Such generalized quantum correlations of separable states are important for quantum-enhanced detection8 and provide direct evidence of the non-classical nature of the mechanical oscillator without directly measuring its state9. This noninvasive measurement scheme allows to infer information about otherwise inaccessible objects, with potential implications for sensing, open-system dynamics and fundamental tests of quantum gravity. In the future, similar on-chip devices could be used to entangle subsystems on very different energy scales, such as microwave and optical photons."}],"ec_funded":1,"main_file_link":[{"url":"https://arxiv.org/abs/1809.05865","open_access":"1"}],"external_id":{"isi":["000472860000042"],"arxiv":["1809.05865"]},"date_updated":"2023-08-28T12:29:56Z","publisher":"Nature Publishing Group","date_created":"2019-07-07T21:59:20Z","language":[{"iso":"eng"}],"day":"27","year":"2019","status":"public","author":[{"id":"2D25E1F6-F248-11E8-B48F-1D18A9856A87","last_name":"Barzanjeh","first_name":"Shabir","full_name":"Barzanjeh, Shabir","orcid":"0000-0003-0415-1423"},{"last_name":"Redchenko","id":"2C21D6E8-F248-11E8-B48F-1D18A9856A87","full_name":"Redchenko, Elena","first_name":"Elena"},{"last_name":"Peruzzo","id":"3F920B30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3415-4628","full_name":"Peruzzo, Matilda","first_name":"Matilda"},{"first_name":"Matthias","full_name":"Wulf, Matthias","orcid":"0000-0001-6613-1378","id":"45598606-F248-11E8-B48F-1D18A9856A87","last_name":"Wulf"},{"last_name":"Lewis","full_name":"Lewis, Dylan","first_name":"Dylan"},{"last_name":"Arnold","id":"3770C838-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1397-7876","full_name":"Arnold, Georg M","first_name":"Georg M"},{"first_name":"Johannes M","full_name":"Fink, Johannes M","orcid":"0000-0001-8112-028X","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","last_name":"Fink"}],"volume":570,"department":[{"_id":"JoFi"}],"acknowledged_ssus":[{"_id":"NanoFab"}],"page":"480-483","publication_status":"published","doi":"10.1038/s41586-019-1320-2","type":"journal_article","article_processing_charge":"No","publication":"Nature","date_published":"2019-06-27T00:00:00Z","citation":{"short":"S. Barzanjeh, E. Redchenko, M. Peruzzo, M. Wulf, D. Lewis, G.M. Arnold, J.M. Fink, Nature 570 (2019) 480–483.","ama":"Barzanjeh S, Redchenko E, Peruzzo M, et al. Stationary entangled radiation from micromechanical motion. Nature. 2019;570:480-483. doi:10.1038/s41586-019-1320-2","apa":"Barzanjeh, S., Redchenko, E., Peruzzo, M., Wulf, M., Lewis, D., Arnold, G. M., & Fink, J. M. (2019). Stationary entangled radiation from micromechanical motion. Nature. Nature Publishing Group. https://doi.org/10.1038/s41586-019-1320-2","chicago":"Barzanjeh, Shabir, Elena Redchenko, Matilda Peruzzo, Matthias Wulf, Dylan Lewis, Georg M Arnold, and Johannes M Fink. “Stationary Entangled Radiation from Micromechanical Motion.” Nature. Nature Publishing Group, 2019. https://doi.org/10.1038/s41586-019-1320-2.","mla":"Barzanjeh, Shabir, et al. “Stationary Entangled Radiation from Micromechanical Motion.” Nature, vol. 570, Nature Publishing Group, 2019, pp. 480–83, doi:10.1038/s41586-019-1320-2.","ista":"Barzanjeh S, Redchenko E, Peruzzo M, Wulf M, Lewis D, Arnold GM, Fink JM. 2019. Stationary entangled radiation from micromechanical motion. Nature. 570, 480–483.","ieee":"S. Barzanjeh et al., “Stationary entangled radiation from micromechanical motion,” Nature, vol. 570. Nature Publishing Group, pp. 480–483, 2019."},"month":"06","intvolume":" 570","oa_version":"Preprint","scopus_import":"1"},{"status":"public","day":"01","language":[{"iso":"eng"}],"year":"2019","article_type":"original","has_accepted_license":"1","article_number":"138","author":[{"first_name":"Yekini","full_name":"Shehu, Yekini","orcid":"0000-0001-9224-7139","id":"3FC7CB58-F248-11E8-B48F-1D18A9856A87","last_name":"Shehu"}],"volume":74,"department":[{"_id":"VlKo"}],"publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.1007/s00025-019-1061-4","type":"journal_article","article_processing_charge":"Yes (via OA deal)","citation":{"apa":"Shehu, Y. (2019). Convergence results of forward-backward algorithms for sum of monotone operators in Banach spaces. Results in Mathematics. Springer. https://doi.org/10.1007/s00025-019-1061-4","ama":"Shehu Y. Convergence results of forward-backward algorithms for sum of monotone operators in Banach spaces. Results in Mathematics. 2019;74(4). doi:10.1007/s00025-019-1061-4","short":"Y. Shehu, Results in Mathematics 74 (2019).","chicago":"Shehu, Yekini. “Convergence Results of Forward-Backward Algorithms for Sum of Monotone Operators in Banach Spaces.” Results in Mathematics. Springer, 2019. https://doi.org/10.1007/s00025-019-1061-4.","mla":"Shehu, Yekini. “Convergence Results of Forward-Backward Algorithms for Sum of Monotone Operators in Banach Spaces.” Results in Mathematics, vol. 74, no. 4, 138, Springer, 2019, doi:10.1007/s00025-019-1061-4.","ista":"Shehu Y. 2019. Convergence results of forward-backward algorithms for sum of monotone operators in Banach spaces. Results in Mathematics. 74(4), 138.","ieee":"Y. Shehu, “Convergence results of forward-backward algorithms for sum of monotone operators in Banach spaces,” Results in Mathematics, vol. 74, no. 4. Springer, 2019."},"date_published":"2019-12-01T00:00:00Z","publication":"Results in Mathematics","scopus_import":"1","oa_version":"Published Version","intvolume":" 74","month":"12","file_date_updated":"2020-07-14T12:47:34Z","_id":"6596","quality_controlled":"1","title":"Convergence results of forward-backward algorithms for sum of monotone operators in Banach spaces","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"file":[{"relation":"main_file","date_updated":"2020-07-14T12:47:34Z","creator":"kschuh","file_id":"6605","checksum":"c6d18cb1e16fc0c36a0e0f30b4ebbc2d","date_created":"2019-07-03T15:20:40Z","file_size":466942,"access_level":"open_access","content_type":"application/pdf","file_name":"Springer_2019_Shehu.pdf"}],"issue":"4","oa":1,"project":[{"call_identifier":"FP7","_id":"25FBA906-B435-11E9-9278-68D0E5697425","name":"Discrete Optimization in Computer Vision: Theory and Practice","grant_number":"616160"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"ec_funded":1,"ddc":["000"],"abstract":[{"lang":"eng","text":"It is well known that many problems in image recovery, signal processing, and machine learning can be modeled as finding zeros of the sum of maximal monotone and Lipschitz continuous monotone operators. Many papers have studied forward-backward splitting methods for finding zeros of the sum of two monotone operators in Hilbert spaces. Most of the proposed splitting methods in the literature have been proposed for the sum of maximal monotone and inverse-strongly monotone operators in Hilbert spaces. In this paper, we consider splitting methods for finding zeros of the sum of maximal monotone operators and Lipschitz continuous monotone operators in Banach spaces. We obtain weak and strong convergence results for the zeros of the sum of maximal monotone and Lipschitz continuous monotone operators in Banach spaces. Many already studied problems in the literature can be considered as special cases of this paper."}],"publication_identifier":{"issn":["1422-6383"],"eissn":["1420-9012"]},"date_updated":"2023-08-28T12:26:22Z","external_id":{"isi":["000473237500002"],"arxiv":["2101.09068"]},"date_created":"2019-06-29T10:11:30Z","publisher":"Springer"},{"external_id":{"isi":["000473002700005"],"pmid":["31251912"]},"date_updated":"2023-08-28T12:25:21Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cell.2019.05.052"}],"publisher":"Elsevier","date_created":"2019-06-30T21:59:11Z","project":[{"_id":"260F1432-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"742573","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation"},{"call_identifier":"FWF","_id":"268294B6-B435-11E9-9278-68D0E5697425","grant_number":"P31639","name":"Active mechano-chemical description of the cell cytoskeleton"}],"oa":1,"issue":"1","publication_identifier":{"issn":["00928674"]},"abstract":[{"text":"There is increasing evidence that both mechanical and biochemical signals play important roles in development and disease. The development of complex organisms, in particular, has been proposed to rely on the feedback between mechanical and biochemical patterning events. This feedback occurs at the molecular level via mechanosensation but can also arise as an emergent property of the system at the cellular and tissue level. In recent years, dynamic changes in tissue geometry, flow, rheology, and cell fate specification have emerged as key platforms of mechanochemical feedback loops in multiple processes. Here, we review recent experimental and theoretical advances in understanding how these feedbacks function in development and disease.","lang":"eng"}],"ec_funded":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Mechanochemical feedback loops in development and disease","isi":1,"_id":"6601","quality_controlled":"1","month":"07","intvolume":" 178","scopus_import":"1","oa_version":"Published Version","publication":"Cell","date_published":"2019-07-27T00:00:00Z","citation":{"ieee":"E. B. Hannezo and C.-P. J. Heisenberg, “Mechanochemical feedback loops in development and disease,” Cell, vol. 178, no. 1. Elsevier, pp. 12–25, 2019.","ista":"Hannezo EB, Heisenberg C-PJ. 2019. Mechanochemical feedback loops in development and disease. Cell. 178(1), 12–25.","mla":"Hannezo, Edouard B., and Carl-Philipp J. Heisenberg. “Mechanochemical Feedback Loops in Development and Disease.” Cell, vol. 178, no. 1, Elsevier, 2019, pp. 12–25, doi:10.1016/j.cell.2019.05.052.","apa":"Hannezo, E. B., & Heisenberg, C.-P. J. (2019). Mechanochemical feedback loops in development and disease. Cell. Elsevier. https://doi.org/10.1016/j.cell.2019.05.052","ama":"Hannezo EB, Heisenberg C-PJ. Mechanochemical feedback loops in development and disease. Cell. 2019;178(1):12-25. doi:10.1016/j.cell.2019.05.052","short":"E.B. Hannezo, C.-P.J. Heisenberg, Cell 178 (2019) 12–25.","chicago":"Hannezo, Edouard B, and Carl-Philipp J Heisenberg. “Mechanochemical Feedback Loops in Development and Disease.” Cell. Elsevier, 2019. https://doi.org/10.1016/j.cell.2019.05.052."},"page":"12-25","publication_status":"published","article_processing_charge":"No","doi":"10.1016/j.cell.2019.05.052","type":"journal_article","author":[{"orcid":"0000-0001-6005-1561","first_name":"Edouard B","full_name":"Hannezo, Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566"}],"department":[{"_id":"CaHe"},{"_id":"EdHa"}],"pmid":1,"volume":178,"year":"2019","language":[{"iso":"eng"}],"day":"27","status":"public","article_type":"review"},{"file_date_updated":"2020-07-14T12:47:34Z","intvolume":" 234","month":"11","oa_version":"Published Version","scopus_import":"1","date_published":"2019-11-01T00:00:00Z","publication":"Archive for Rational Mechanics and Analysis","citation":{"apa":"Fischer, J. L. (2019). The choice of representative volumes in the approximation of effective properties of random materials. Archive for Rational Mechanics and Analysis. Springer. https://doi.org/10.1007/s00205-019-01400-w","ama":"Fischer JL. The choice of representative volumes in the approximation of effective properties of random materials. Archive for Rational Mechanics and Analysis. 2019;234(2):635–726. doi:10.1007/s00205-019-01400-w","short":"J.L. Fischer, Archive for Rational Mechanics and Analysis 234 (2019) 635–726.","chicago":"Fischer, Julian L. “The Choice of Representative Volumes in the Approximation of Effective Properties of Random Materials.” Archive for Rational Mechanics and Analysis. Springer, 2019. https://doi.org/10.1007/s00205-019-01400-w.","ieee":"J. L. Fischer, “The choice of representative volumes in the approximation of effective properties of random materials,” Archive for Rational Mechanics and Analysis, vol. 234, no. 2. Springer, pp. 635–726, 2019.","ista":"Fischer JL. 2019. The choice of representative volumes in the approximation of effective properties of random materials. Archive for Rational Mechanics and Analysis. 234(2), 635–726.","mla":"Fischer, Julian L. “The Choice of Representative Volumes in the Approximation of Effective Properties of Random Materials.” Archive for Rational Mechanics and Analysis, vol. 234, no. 2, Springer, 2019, pp. 635–726, doi:10.1007/s00205-019-01400-w."},"article_processing_charge":"Yes (via OA deal)","doi":"10.1007/s00205-019-01400-w","type":"journal_article","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"page":"635–726","publication_status":"published","department":[{"_id":"JuFi"}],"volume":234,"author":[{"orcid":"0000-0002-0479-558X","first_name":"Julian L","full_name":"Fischer, Julian L","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","last_name":"Fischer"}],"has_accepted_license":"1","article_type":"original","year":"2019","language":[{"iso":"eng"}],"day":"01","status":"public","publisher":"Springer","date_created":"2019-07-07T21:59:23Z","external_id":{"isi":["000482386000006"],"arxiv":["1807.00834"]},"date_updated":"2023-08-28T12:31:21Z","publication_identifier":{"eissn":["1432-0673"],"issn":["0003-9527"]},"ddc":["500"],"abstract":[{"lang":"eng","text":"The effective large-scale properties of materials with random heterogeneities on a small scale are typically determined by the method of representative volumes: a sample of the random material is chosen—the representative volume—and its effective properties are computed by the cell formula. Intuitively, for a fixed sample size it should be possible to increase the accuracy of the method by choosing a material sample which captures the statistical properties of the material particularly well; for example, for a composite material consisting of two constituents, one would select a representative volume in which the volume fraction of the constituents matches closely with their volume fraction in the overall material. Inspired by similar attempts in materials science, Le Bris, Legoll and Minvielle have designed a selection approach for representative volumes which performs remarkably well in numerical examples of linear materials with moderate contrast. In the present work, we provide a rigorous analysis of this selection approach for representative volumes in the context of stochastic homogenization of linear elliptic equations. In particular, we prove that the method essentially never performs worse than a random selection of the material sample and may perform much better if the selection criterion for the material samples is chosen suitably."}],"oa":1,"project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"issue":"2","file":[{"file_size":1377659,"checksum":"4cff75fa6addb0770991ad9c474ab404","date_created":"2019-07-08T15:56:47Z","date_updated":"2020-07-14T12:47:34Z","relation":"main_file","file_id":"6626","creator":"kschuh","file_name":"Springer_2019_Fischer.pdf","access_level":"open_access","content_type":"application/pdf"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"The choice of representative volumes in the approximation of effective properties of random materials","quality_controlled":"1","_id":"6617"},{"file":[{"relation":"main_file","date_updated":"2020-07-14T12:47:34Z","creator":"kschuh","file_id":"6625","date_created":"2019-07-08T15:46:32Z","checksum":"1ce1bd36038fe5381057a1bcc6760083","file_size":1066773,"access_level":"open_access","content_type":"application/pdf","file_name":"biomolecules-2019-Matous.pdf"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton","quality_controlled":"1","_id":"6611","publisher":"MDPI","date_created":"2019-07-07T21:59:21Z","external_id":{"isi":["000475301500018"],"pmid":["31181636"]},"date_updated":"2023-08-28T12:30:24Z","ddc":["580"],"abstract":[{"text":"Cell polarity is crucial for the coordinated development of all multicellular organisms. In plants, this is exemplified by the PIN-FORMED (PIN) efflux carriers of the phytohormone auxin: The polar subcellular localization of the PINs is instructive to the directional intercellular auxin transport, and thus to a plethora of auxin-regulated growth and developmental processes. Despite its importance, the regulation of PIN polar subcellular localization remains poorly understood. Here, we have employed advanced live-cell imaging techniques to study the roles of microtubules and actin microfilaments in the establishment of apical polar localization of PIN2 in the epidermis of the Arabidopsis root meristem. We report that apical PIN2 polarity requires neither intact actin microfilaments nor microtubules, suggesting that the primary spatial cue for polar PIN distribution is likely independent of cytoskeleton-guided endomembrane trafficking.","lang":"eng"}],"ec_funded":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"oa":1,"issue":"6","department":[{"_id":"JiFr"}],"pmid":1,"volume":9,"author":[{"last_name":"Glanc","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783","full_name":"Glanc, Matous","first_name":"Matous"},{"full_name":"Fendrych, Matyas","first_name":"Matyas","orcid":"0000-0002-9767-8699","last_name":"Fendrych","id":"43905548-F248-11E8-B48F-1D18A9856A87"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jiří","full_name":"Friml, Jiří"}],"article_number":"222","has_accepted_license":"1","year":"2019","language":[{"iso":"eng"}],"day":"07","status":"public","intvolume":" 9","file_date_updated":"2020-07-14T12:47:34Z","month":"06","oa_version":"Published Version","scopus_import":"1","date_published":"2019-06-07T00:00:00Z","publication":"Biomolecules","citation":{"ieee":"M. Glanc, M. Fendrych, and J. Friml, “PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton,” Biomolecules, vol. 9, no. 6. MDPI, 2019.","mla":"Glanc, Matous, et al. “PIN2 Polarity Establishment in Arabidopsis in the Absence of an Intact Cytoskeleton.” Biomolecules, vol. 9, no. 6, 222, MDPI, 2019, doi:10.3390/biom9060222.","ista":"Glanc M, Fendrych M, Friml J. 2019. PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. 9(6), 222.","chicago":"Glanc, Matous, Matyas Fendrych, and Jiří Friml. “PIN2 Polarity Establishment in Arabidopsis in the Absence of an Intact Cytoskeleton.” Biomolecules. MDPI, 2019. https://doi.org/10.3390/biom9060222.","short":"M. Glanc, M. Fendrych, J. Friml, Biomolecules 9 (2019).","ama":"Glanc M, Fendrych M, Friml J. PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. 2019;9(6). doi:10.3390/biom9060222","apa":"Glanc, M., Fendrych, M., & Friml, J. (2019). PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. MDPI. https://doi.org/10.3390/biom9060222"},"article_processing_charge":"No","type":"journal_article","doi":"10.3390/biom9060222","acknowledged_ssus":[{"_id":"Bio"}],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published"},{"publication_status":"published","page":"2435–2446","type":"journal_article","doi":"10.1007/s11425-018-9543-8","article_processing_charge":"No","citation":{"mla":"De La Bretèche, Régis, et al. “On a Certain Non-Split Cubic Surface.” Science China Mathematics, vol. 62, no. 12, Springer, 2019, pp. 2435–2446, doi:10.1007/s11425-018-9543-8.","ieee":"R. De La Bretèche, K. N. Destagnol, J. Liu, J. Wu, and Y. Zhao, “On a certain non-split cubic surface,” Science China Mathematics, vol. 62, no. 12. Springer, pp. 2435–2446, 2019.","ista":"De La Bretèche R, Destagnol KN, Liu J, Wu J, Zhao Y. 2019. On a certain non-split cubic surface. Science China Mathematics. 62(12), 2435–2446.","chicago":"De La Bretèche, Régis, Kevin N Destagnol, Jianya Liu, Jie Wu, and Yongqiang Zhao. “On a Certain Non-Split Cubic Surface.” Science China Mathematics. Springer, 2019. https://doi.org/10.1007/s11425-018-9543-8.","apa":"De La Bretèche, R., Destagnol, K. N., Liu, J., Wu, J., & Zhao, Y. (2019). On a certain non-split cubic surface. Science China Mathematics. Springer. https://doi.org/10.1007/s11425-018-9543-8","ama":"De La Bretèche R, Destagnol KN, Liu J, Wu J, Zhao Y. On a certain non-split cubic surface. Science China Mathematics. 2019;62(12):2435–2446. doi:10.1007/s11425-018-9543-8","short":"R. De La Bretèche, K.N. Destagnol, J. Liu, J. Wu, Y. Zhao, Science China Mathematics 62 (2019) 2435–2446."},"publication":"Science China Mathematics","date_published":"2019-12-01T00:00:00Z","scopus_import":"1","oa_version":"Preprint","intvolume":" 62","month":"12","status":"public","language":[{"iso":"eng"}],"year":"2019","day":"01","article_type":"original","author":[{"full_name":"De La Bretèche, Régis","first_name":"Régis","last_name":"De La Bretèche"},{"first_name":"Kevin N","full_name":"Destagnol, Kevin N","id":"44DDECBC-F248-11E8-B48F-1D18A9856A87","last_name":"Destagnol"},{"first_name":"Jianya","full_name":"Liu, Jianya","last_name":"Liu"},{"full_name":"Wu, Jie","first_name":"Jie","last_name":"Wu"},{"last_name":"Zhao","first_name":"Yongqiang","full_name":"Zhao, Yongqiang"}],"volume":62,"department":[{"_id":"TiBr"}],"issue":"12","oa":1,"abstract":[{"lang":"eng","text":"This paper establishes an asymptotic formula with a power-saving error term for the number of rational points of bounded height on the singular cubic surface of ℙ3ℚ given by the following equation 𝑥0(𝑥21+𝑥22)−𝑥33=0 in agreement with the Manin-Peyre conjectures.\r\n"}],"publication_identifier":{"issn":["16747283"]},"main_file_link":[{"url":"https://arxiv.org/abs/1709.09476","open_access":"1"}],"date_updated":"2023-08-28T12:32:20Z","external_id":{"arxiv":["1709.09476"],"isi":["000509102200001"]},"date_created":"2019-07-07T21:59:25Z","publisher":"Springer","_id":"6620","quality_controlled":"1","title":"On a certain non-split cubic surface","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1},{"publication_status":"published","page":"1356-1374","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","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"},"type":"journal_article","doi":"10.1111/evo.13784","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","article_processing_charge":"Yes (via OA deal)","citation":{"short":"B. Trubenova, M. Krejca, P.K. Lehre, T. Kötzing, Evolution 73 (2019) 1356–1374.","ama":"Trubenova B, Krejca M, Lehre PK, Kötzing T. Surfing on the seascape: Adaptation in a changing environment. Evolution. 2019;73(7):1356-1374. doi:10.1111/evo.13784","apa":"Trubenova, B., Krejca, M., Lehre, P. K., & Kötzing, T. (2019). Surfing on the seascape: Adaptation in a changing environment. Evolution. Wiley. https://doi.org/10.1111/evo.13784","chicago":"Trubenova, Barbora, Martin Krejca, Per Kristian Lehre, and Timo Kötzing. “Surfing on the Seascape: Adaptation in a Changing Environment.” Evolution. Wiley, 2019. https://doi.org/10.1111/evo.13784.","ista":"Trubenova B, Krejca M, Lehre PK, Kötzing T. 2019. Surfing on the seascape: Adaptation in a changing environment. Evolution. 73(7), 1356–1374.","mla":"Trubenova, Barbora, et al. “Surfing on the Seascape: Adaptation in a Changing Environment.” Evolution, vol. 73, no. 7, Wiley, 2019, pp. 1356–74, doi:10.1111/evo.13784.","ieee":"B. Trubenova, M. Krejca, P. K. Lehre, and T. Kötzing, “Surfing on the seascape: Adaptation in a changing environment,” Evolution, vol. 73, no. 7. Wiley, pp. 1356–1374, 2019."},"date_published":"2019-07-01T00:00:00Z","publication":"Evolution","scopus_import":"1","oa_version":"Published Version","intvolume":" 73","month":"07","file_date_updated":"2020-07-14T12:47:34Z","status":"public","day":"01","year":"2019","language":[{"iso":"eng"}],"article_type":"original","has_accepted_license":"1","author":[{"orcid":"0000-0002-6873-2967","full_name":"Trubenova, Barbora","first_name":"Barbora","last_name":"Trubenova","id":"42302D54-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Martin ","full_name":"Krejca, Martin ","last_name":"Krejca"},{"last_name":"Lehre","full_name":"Lehre, Per Kristian","first_name":"Per Kristian"},{"last_name":"Kötzing","full_name":"Kötzing, Timo","first_name":"Timo"}],"volume":73,"department":[{"_id":"NiBa"}],"issue":"7","oa":1,"project":[{"_id":"25AEDD42-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Rate of Adaptation in Changing Environment","grant_number":"704172"},{"call_identifier":"FP7","_id":"25B1EC9E-B435-11E9-9278-68D0E5697425","name":"Speed of Adaptation in Population Genetics and Evolutionary Computation","grant_number":"618091"}],"ec_funded":1,"abstract":[{"text":"The environment changes constantly at various time scales and, in order to survive, species need to keep adapting. Whether these species succeed in avoiding extinction is a major evolutionary question. Using a multilocus evolutionary model of a mutation‐limited population adapting under strong selection, we investigate the effects of the frequency of environmental fluctuations on adaptation. Our results rely on an “adaptive‐walk” approximation and use mathematical methods from evolutionary computation theory to investigate the interplay between fluctuation frequency, the similarity of environments, and the number of loci contributing to adaptation. First, we assume a linear additive fitness function, but later generalize our results to include several types of epistasis. We show that frequent environmental changes prevent populations from reaching a fitness peak, but they may also prevent the large fitness loss that occurs after a single environmental change. Thus, the population can survive, although not thrive, in a wide range of conditions. Furthermore, we show that in a frequently changing environment, the similarity of threats that a population faces affects the level of adaptation that it is able to achieve. We check and supplement our analytical results with simulations.","lang":"eng"}],"ddc":["576"],"acknowledgement":"The authors would like to thank to Tiago Paixao and Nick Barton for useful comments and advice.","date_updated":"2023-08-29T06:31:14Z","external_id":{"isi":["000474031600001"]},"date_created":"2019-07-14T21:59:20Z","publisher":"Wiley","_id":"6637","quality_controlled":"1","title":"Surfing on the seascape: Adaptation in a changing environment","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"file":[{"file_id":"6643","creator":"apreinsp","relation":"main_file","date_updated":"2020-07-14T12:47:34Z","file_size":815416,"checksum":"9831ca65def2d62498c7b08338b6d237","date_created":"2019-07-16T06:08:31Z","content_type":"application/pdf","access_level":"open_access","file_name":"2019_Evolution_TrubenovaBarbora.pdf"}]},{"department":[{"_id":"HeEd"}],"volume":53,"author":[{"id":"430D2C90-F248-11E8-B48F-1D18A9856A87","last_name":"Akopyan","orcid":"0000-0002-2548-617X","first_name":"Arseniy","full_name":"Akopyan, Arseniy"},{"first_name":"Alfredo","full_name":"Hubard, Alfredo","last_name":"Hubard"},{"first_name":"Roman","full_name":"Karasev, Roman","last_name":"Karasev"}],"year":"2019","language":[{"iso":"eng"}],"day":"01","status":"public","month":"06","intvolume":" 53","oa_version":"Preprint","scopus_import":"1","publication":"Topological Methods in Nonlinear Analysis","date_published":"2019-06-01T00:00:00Z","citation":{"ama":"Akopyan A, Hubard A, Karasev R. Lower and upper bounds for the waists of different spaces. Topological Methods in Nonlinear Analysis. 2019;53(2):457-490. doi:10.12775/TMNA.2019.008","apa":"Akopyan, A., Hubard, A., & Karasev, R. (2019). Lower and upper bounds for the waists of different spaces. Topological Methods in Nonlinear Analysis. Akademicka Platforma Czasopism. https://doi.org/10.12775/TMNA.2019.008","short":"A. Akopyan, A. Hubard, R. Karasev, Topological Methods in Nonlinear Analysis 53 (2019) 457–490.","chicago":"Akopyan, Arseniy, Alfredo Hubard, and Roman Karasev. “Lower and Upper Bounds for the Waists of Different Spaces.” Topological Methods in Nonlinear Analysis. Akademicka Platforma Czasopism, 2019. https://doi.org/10.12775/TMNA.2019.008.","mla":"Akopyan, Arseniy, et al. “Lower and Upper Bounds for the Waists of Different Spaces.” Topological Methods in Nonlinear Analysis, vol. 53, no. 2, Akademicka Platforma Czasopism, 2019, pp. 457–90, doi:10.12775/TMNA.2019.008.","ista":"Akopyan A, Hubard A, Karasev R. 2019. Lower and upper bounds for the waists of different spaces. Topological Methods in Nonlinear Analysis. 53(2), 457–490.","ieee":"A. Akopyan, A. Hubard, and R. Karasev, “Lower and upper bounds for the waists of different spaces,” Topological Methods in Nonlinear Analysis, vol. 53, no. 2. Akademicka Platforma Czasopism, pp. 457–490, 2019."},"article_processing_charge":"No","type":"journal_article","doi":"10.12775/TMNA.2019.008","page":"457-490","publication_status":"published","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Lower and upper bounds for the waists of different spaces","quality_controlled":"1","_id":"6634","publisher":"Akademicka Platforma Czasopism","date_created":"2019-07-14T21:59:19Z","external_id":{"isi":["000472541600004"],"arxiv":["1612.06926"]},"date_updated":"2023-08-29T06:32:48Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1612.06926"}],"abstract":[{"lang":"eng","text":"In this paper we prove several new results around Gromov's waist theorem. We give a simple proof of Vaaler's theorem on sections of the unit cube using the Borsuk-Ulam-Crofton technique, consider waists of real and complex projective spaces, flat tori, convex bodies in Euclidean space; and establish waist-type results in terms of the Hausdorff measure."}],"ec_funded":1,"project":[{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"oa":1,"issue":"2"},{"status":"public","day":"01","year":"2019","language":[{"iso":"eng"}],"department":[{"_id":"UlWa"}],"volume":342,"author":[{"full_name":"Silva, André ","first_name":"André ","last_name":"Silva"},{"last_name":"Arroyo Guevara","id":"3207FDC6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2401-8670","full_name":"Arroyo Guevara, Alan M","first_name":"Alan M"},{"last_name":"Richter","first_name":"Bruce","full_name":"Richter, Bruce"},{"last_name":"Lee","first_name":"Orlando","full_name":"Lee, Orlando"}],"article_processing_charge":"No","type":"journal_article","doi":"10.1016/j.disc.2019.06.031","publication_status":"published","page":"3201-3207","scopus_import":"1","oa_version":"Preprint","month":"11","intvolume":" 342","citation":{"ieee":"A. Silva, A. M. Arroyo Guevara, B. Richter, and O. Lee, “Graphs with at most one crossing,” Discrete Mathematics, vol. 342, no. 11. Elsevier, pp. 3201–3207, 2019.","ista":"Silva A, Arroyo Guevara AM, Richter B, Lee O. 2019. Graphs with at most one crossing. Discrete Mathematics. 342(11), 3201–3207.","mla":"Silva, André, et al. “Graphs with at Most One Crossing.” Discrete Mathematics, vol. 342, no. 11, Elsevier, 2019, pp. 3201–07, doi:10.1016/j.disc.2019.06.031.","chicago":"Silva, André , Alan M Arroyo Guevara, Bruce Richter, and Orlando Lee. “Graphs with at Most One Crossing.” Discrete Mathematics. Elsevier, 2019. https://doi.org/10.1016/j.disc.2019.06.031.","apa":"Silva, A., Arroyo Guevara, A. M., Richter, B., & Lee, O. (2019). Graphs with at most one crossing. Discrete Mathematics. Elsevier. https://doi.org/10.1016/j.disc.2019.06.031","ama":"Silva A, Arroyo Guevara AM, Richter B, Lee O. Graphs with at most one crossing. Discrete Mathematics. 2019;342(11):3201-3207. doi:10.1016/j.disc.2019.06.031","short":"A. Silva, A.M. Arroyo Guevara, B. Richter, O. Lee, Discrete Mathematics 342 (2019) 3201–3207."},"date_published":"2019-11-01T00:00:00Z","publication":"Discrete Mathematics","quality_controlled":"1","_id":"6638","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Graphs with at most one crossing","publication_identifier":{"issn":["0012-365X"]},"ec_funded":1,"abstract":[{"text":"The crossing number of a graph G is the least number of crossings over all possible drawings of G. We present a structural characterization of graphs with crossing number one.","lang":"eng"}],"project":[{"_id":"26366136-B435-11E9-9278-68D0E5697425","name":"Reglas de Conectividad funcional en el hipocampo"},{"_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships"}],"oa":1,"issue":"11","date_created":"2019-07-14T21:59:20Z","publisher":"Elsevier","date_updated":"2023-08-29T06:31:41Z","external_id":{"isi":["000486358100025"],"arxiv":["1901.09955"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1901.09955"}]},{"title":"Cell division and tissue mechanics","author":[{"id":"33280250-F248-11E8-B48F-1D18A9856A87","last_name":"Godard","first_name":"Benoit G","full_name":"Godard, Benoit G"},{"full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","volume":60,"department":[{"_id":"CaHe"}],"isi":1,"language":[{"iso":"eng"}],"year":"2019","day":"01","status":"public","_id":"6631","quality_controlled":"1","external_id":{"isi":["000486545800016"]},"date_updated":"2023-08-29T06:33:14Z","publication":"Current Opinion in Cell Biology","date_published":"2019-10-01T00:00:00Z","citation":{"short":"B.G. Godard, C.-P.J. Heisenberg, Current Opinion in Cell Biology 60 (2019) 114–120.","ama":"Godard BG, Heisenberg C-PJ. Cell division and tissue mechanics. Current Opinion in Cell Biology. 2019;60:114-120. doi:10.1016/j.ceb.2019.05.007","apa":"Godard, B. G., & Heisenberg, C.-P. J. (2019). Cell division and tissue mechanics. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2019.05.007","chicago":"Godard, Benoit G, and Carl-Philipp J Heisenberg. “Cell Division and Tissue Mechanics.” Current Opinion in Cell Biology. Elsevier, 2019. https://doi.org/10.1016/j.ceb.2019.05.007.","ista":"Godard BG, Heisenberg C-PJ. 2019. Cell division and tissue mechanics. Current Opinion in Cell Biology. 60, 114–120.","ieee":"B. G. Godard and C.-P. J. Heisenberg, “Cell division and tissue mechanics,” Current Opinion in Cell Biology, vol. 60. Elsevier, pp. 114–120, 2019.","mla":"Godard, Benoit G., and Carl-Philipp J. Heisenberg. “Cell Division and Tissue Mechanics.” Current Opinion in Cell Biology, vol. 60, Elsevier, 2019, pp. 114–20, doi:10.1016/j.ceb.2019.05.007."},"publisher":"Elsevier","intvolume":" 60","month":"10","date_created":"2019-07-14T21:59:17Z","scopus_import":"1","oa_version":"None","page":"114-120","publication_status":"published","abstract":[{"text":"The spatiotemporal organization of cell divisions constitutes an integral part in the development of multicellular organisms, and mis-regulation of cell divisions can lead to severe developmental defects. Cell divisions have an important morphogenetic function in development by regulating growth and shape acquisition of developing tissues, and, conversely, tissue morphogenesis is known to affect both the rate and orientation of cell divisions. Moreover, cell divisions are associated with an extensive reorganization of the cytoskeleton and adhesion apparatus in the dividing cells that in turn can affect large-scale tissue rheological properties. Thus, the interplay between cell divisions and tissue morphogenesis plays a key role in embryo and tissue morphogenesis.","lang":"eng"}],"doi":"10.1016/j.ceb.2019.05.007","type":"journal_article","article_processing_charge":"No","publication_identifier":{"issn":["0955-0674"]}},{"_id":"6660","quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Geometry-aware scattering compensation for 3D printing","file":[{"access_level":"open_access","content_type":"application/pdf","file_name":"2019_ACM_Sumin_AuthorVersion.pdf","date_updated":"2020-07-14T12:47:36Z","relation":"main_file","creator":"dernst","file_id":"6669","checksum":"43c2019d6b48ed9c56e31686c4c2d1f5","date_created":"2019-07-24T07:36:08Z","file_size":10109800},{"date_updated":"2020-07-14T12:47:36Z","relation":"supplementary_material","creator":"dernst","file_id":"6938","checksum":"f80f365a04e35855fa467ea7ab26b16c","date_created":"2019-10-11T06:51:07Z","file_size":11051245,"access_level":"open_access","content_type":"application/zip","file_name":"sumin19geometry-aware-suppl.zip"}],"isi":1,"oa":1,"project":[{"call_identifier":"H2020","_id":"2508E324-B435-11E9-9278-68D0E5697425","grant_number":"642841","name":"Distributed 3D Object Design"},{"_id":"24F9549A-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"715767","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"}],"issue":"4","publication_identifier":{"issn":["0730-0301"]},"abstract":[{"lang":"eng","text":"Commercially available full-color 3D printing allows for detailed control of material deposition in a volume, but an exact reproduction of a target surface appearance is hampered by the strong subsurface scattering that causes nontrivial volumetric cross-talk at the print surface. Previous work showed how an iterative optimization scheme based on accumulating absorptive materials at the surface can be used to find a volumetric distribution of print materials that closely approximates a given target appearance.\r\n\r\nIn this work, we first revisit the assumption that pushing the absorptive materials to the surface results in minimal volumetric cross-talk. We design a full-fledged optimization on a small domain for this task and confirm this previously reported heuristic. Then, we extend the above approach that is critically limited to color reproduction on planar surfaces, to arbitrary 3D shapes. Our method enables high-fidelity color texture reproduction on 3D prints by effectively compensating for internal light scattering within arbitrarily shaped objects. In addition, we propose a content-aware gamut mapping that significantly improves color reproduction for the pathological case of thin geometric features. Using a wide range of sample objects with complex textures and geometries, we demonstrate color reproduction whose fidelity is superior to state-of-the-art drivers for color 3D printers."}],"ddc":["000"],"ec_funded":1,"external_id":{"isi":["000475740600085"]},"date_updated":"2023-08-29T06:40:49Z","publisher":"ACM","date_created":"2019-07-22T07:22:28Z","language":[{"iso":"eng"}],"day":"04","year":"2019","status":"public","has_accepted_license":"1","author":[{"full_name":"Sumin, Denis","first_name":"Denis","last_name":"Sumin"},{"last_name":"Weyrich","full_name":"Weyrich, Tim","first_name":"Tim"},{"full_name":"Rittig, Tobias","first_name":"Tobias","last_name":"Rittig"},{"first_name":"Vahid","full_name":"Babaei, Vahid","last_name":"Babaei"},{"last_name":"Nindel","first_name":"Thomas","full_name":"Nindel, Thomas"},{"last_name":"Wilkie","full_name":"Wilkie, Alexander","first_name":"Alexander"},{"full_name":"Didyk, Piotr","first_name":"Piotr","last_name":"Didyk"},{"first_name":"Bernd","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel"},{"last_name":"Křivánek","first_name":"Jaroslav","full_name":"Křivánek, Jaroslav"},{"last_name":"Myszkowski","full_name":"Myszkowski, Karol","first_name":"Karol"}],"article_number":"111","department":[{"_id":"BeBi"}],"volume":38,"publication_status":"published","article_processing_charge":"No","doi":"10.1145/3306346.3322992","type":"journal_article","month":"07","intvolume":" 38","file_date_updated":"2020-07-14T12:47:36Z","scopus_import":"1","oa_version":"Submitted Version","publication":"ACM Transactions on Graphics","date_published":"2019-07-04T00:00:00Z","citation":{"apa":"Sumin, D., Weyrich, T., Rittig, T., Babaei, V., Nindel, T., Wilkie, A., … Myszkowski, K. (2019). Geometry-aware scattering compensation for 3D printing. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/3306346.3322992","ama":"Sumin D, Weyrich T, Rittig T, et al. Geometry-aware scattering compensation for 3D printing. ACM Transactions on Graphics. 2019;38(4). doi:10.1145/3306346.3322992","short":"D. Sumin, T. Weyrich, T. Rittig, V. Babaei, T. Nindel, A. Wilkie, P. Didyk, B. Bickel, J. Křivánek, K. Myszkowski, ACM Transactions on Graphics 38 (2019).","chicago":"Sumin, Denis, Tim Weyrich, Tobias Rittig, Vahid Babaei, Thomas Nindel, Alexander Wilkie, Piotr Didyk, Bernd Bickel, Jaroslav Křivánek, and Karol Myszkowski. “Geometry-Aware Scattering Compensation for 3D Printing.” ACM Transactions on Graphics. ACM, 2019. https://doi.org/10.1145/3306346.3322992.","mla":"Sumin, Denis, et al. “Geometry-Aware Scattering Compensation for 3D Printing.” ACM Transactions on Graphics, vol. 38, no. 4, 111, ACM, 2019, doi:10.1145/3306346.3322992.","ieee":"D. Sumin et al., “Geometry-aware scattering compensation for 3D printing,” ACM Transactions on Graphics, vol. 38, no. 4. ACM, 2019.","ista":"Sumin D, Weyrich T, Rittig T, Babaei V, Nindel T, Wilkie A, Didyk P, Bickel B, Křivánek J, Myszkowski K. 2019. Geometry-aware scattering compensation for 3D printing. ACM Transactions on Graphics. 38(4), 111."}},{"intvolume":" 29","month":"07","file_date_updated":"2020-07-14T12:47:35Z","oa_version":"Published Version","scopus_import":"1","date_published":"2019-07-01T00:00:00Z","publication":"Genome Research","citation":{"chicago":"Raices, Julia, Paulo Otto, and Maria Vibranovski. “Haploid Selection Drives New Gene Male Germline Expression.” Genome Research. CSH Press, 2019. https://doi.org/10.1101/gr.238824.118.","ama":"Raices J, Otto P, Vibranovski M. Haploid selection drives new gene male germline expression. Genome Research. 2019;29(7):1115-1122. doi:10.1101/gr.238824.118","apa":"Raices, J., Otto, P., & Vibranovski, M. (2019). Haploid selection drives new gene male germline expression. Genome Research. CSH Press. https://doi.org/10.1101/gr.238824.118","short":"J. Raices, P. Otto, M. Vibranovski, Genome Research 29 (2019) 1115–1122.","ieee":"J. Raices, P. Otto, and M. Vibranovski, “Haploid selection drives new gene male germline expression,” Genome Research, vol. 29, no. 7. CSH Press, pp. 1115–1122, 2019.","mla":"Raices, Julia, et al. “Haploid Selection Drives New Gene Male Germline Expression.” Genome Research, vol. 29, no. 7, CSH Press, 2019, pp. 1115–22, doi:10.1101/gr.238824.118.","ista":"Raices J, Otto P, Vibranovski M. 2019. Haploid selection drives new gene male germline expression. Genome Research. 29(7), 1115–1122."},"page":"1115-1122","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"publication_status":"published","article_processing_charge":"No","license":"https://creativecommons.org/licenses/by-nc/4.0/","doi":"10.1101/gr.238824.118","type":"journal_article","author":[{"id":"3EE67F22-F248-11E8-B48F-1D18A9856A87","last_name":"Raices","first_name":"Julia","full_name":"Raices, Julia"},{"last_name":"Otto","full_name":"Otto, Paulo","first_name":"Paulo"},{"first_name":"Maria","full_name":"Vibranovski, Maria","last_name":"Vibranovski"}],"department":[{"_id":"BeVi"}],"volume":29,"day":"01","year":"2019","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","external_id":{"isi":["000473730600007"]},"date_updated":"2023-08-29T06:35:05Z","publisher":"CSH Press","date_created":"2019-07-21T21:59:15Z","oa":1,"issue":"7","ddc":["576"],"abstract":[{"text":"New genes are a major source of novelties, and a disproportionate amount of them are known to show testis expression in later phases of male gametogenesis in different groups such as mammals and plants. Here, we propose that this enhanced expression is a consequence of haploid selection during the latter stages of male gametogenesis. Because emerging adaptive mutations will be fixed faster if their phenotypes are expressed by haploid rather than diploid genotypes, new genes with advantageous functions arising during this unique stage of development have a better chance to become fixed. To test this hypothesis, expression levels of genes of differing evolutionary age were examined at various stages of Drosophila spermatogenesis. We found, consistent with a model based on haploid selection, that new Drosophila genes are both expressed in later haploid phases of spermatogenesis and harbor a significant enrichment of adaptive mutations. Additionally, the observed overexpression of new genes in the latter phases of spermatogenesis was limited to the autosomes. Because all male cells exhibit hemizygous expression for X-linked genes (and therefore effectively haploid), there is no expectation that selection acting on late spermatogenesis will have a different effect on X-linked genes in comparison to initial diploid phases. Together, our proposed hypothesis and the analyzed data suggest that natural selection in haploid cells elucidates several aspects of the origin of new genes by explaining the general prevalence of their testis expression, and a parsimonious solution for new alleles to avoid being lost by genetic drift or pseudogenization. ","lang":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Haploid selection drives new gene male germline expression","file":[{"file_name":"2019_GenomeResearch_Raices.pdf","access_level":"open_access","content_type":"application/pdf","checksum":"4636f03a6750f90b88bf2bc3eb9d71ae","date_created":"2019-07-24T08:05:56Z","file_size":2319022,"relation":"main_file","date_updated":"2020-07-14T12:47:35Z","creator":"apreinsp","file_id":"6670"}],"isi":1,"_id":"6658","quality_controlled":"1"},{"_id":"6650","quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Volume-aware design of composite molds","file":[{"file_size":74316182,"date_created":"2019-07-19T06:18:53Z","checksum":"b4562af94672b44d2a501046427412af","date_updated":"2020-07-14T12:47:35Z","relation":"main_file","file_id":"6651","creator":"dernst","file_name":"2019_ACM_Alderighi_AuthorVersion.pdf","access_level":"open_access","content_type":"application/pdf"}],"isi":1,"oa":1,"project":[{"_id":"24F9549A-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"715767","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"}],"issue":"4","related_material":{"link":[{"description":"YouTube Video","relation":"supplementary_material","url":"https://youtu.be/SO349S8-x_w"}]},"publication_identifier":{"issn":["0730-0301"]},"abstract":[{"lang":"eng","text":"We propose a novel technique for the automatic design of molds to cast highly complex shapes. The technique generates composite, two-piece molds. Each mold piece is made up of a hard plastic shell and a flexible silicone part. Thanks to the thin, soft, and smartly shaped silicone part, which is kept in place by a hard plastic shell, we can cast objects of unprecedented complexity. An innovative algorithm based on a volumetric analysis defines the layout of the internal cuts in the silicone mold part. Our approach can robustly handle thin protruding features and intertwined topologies that have caused previous methods to fail. We compare our results with state of the art techniques, and we demonstrate the casting of shapes with extremely complex geometry."}],"ddc":["000"],"ec_funded":1,"external_id":{"isi":["000475740600084"]},"date_updated":"2023-08-29T06:35:52Z","publisher":"ACM","date_created":"2019-07-19T06:18:15Z","year":"2019","day":"01","language":[{"iso":"eng"}],"status":"public","has_accepted_license":"1","author":[{"last_name":"Alderighi","full_name":"Alderighi, Thomas","first_name":"Thomas"},{"full_name":"Malomo, Luigi","first_name":"Luigi","last_name":"Malomo"},{"last_name":"Giorgi","full_name":"Giorgi, Daniela","first_name":"Daniela"},{"id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel","first_name":"Bernd","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385"},{"last_name":"Cignoni","full_name":"Cignoni, Paolo","first_name":"Paolo"},{"first_name":"Nico","full_name":"Pietroni, Nico","last_name":"Pietroni"}],"article_number":"110","department":[{"_id":"BeBi"}],"volume":38,"publication_status":"published","article_processing_charge":"No","doi":"10.1145/3306346.3322981","type":"journal_article","file_date_updated":"2020-07-14T12:47:35Z","intvolume":" 38","month":"07","oa_version":"Submitted Version","scopus_import":"1","date_published":"2019-07-01T00:00:00Z","publication":"ACM Transactions on Graphics","citation":{"ista":"Alderighi T, Malomo L, Giorgi D, Bickel B, Cignoni P, Pietroni N. 2019. Volume-aware design of composite molds. ACM Transactions on Graphics. 38(4), 110.","mla":"Alderighi, Thomas, et al. “Volume-Aware Design of Composite Molds.” ACM Transactions on Graphics, vol. 38, no. 4, 110, ACM, 2019, doi:10.1145/3306346.3322981.","ieee":"T. Alderighi, L. Malomo, D. Giorgi, B. Bickel, P. Cignoni, and N. Pietroni, “Volume-aware design of composite molds,” ACM Transactions on Graphics, vol. 38, no. 4. ACM, 2019.","chicago":"Alderighi, Thomas, Luigi Malomo, Daniela Giorgi, Bernd Bickel, Paolo Cignoni, and Nico Pietroni. “Volume-Aware Design of Composite Molds.” ACM Transactions on Graphics. ACM, 2019. https://doi.org/10.1145/3306346.3322981.","short":"T. Alderighi, L. Malomo, D. Giorgi, B. Bickel, P. Cignoni, N. Pietroni, ACM Transactions on Graphics 38 (2019).","apa":"Alderighi, T., Malomo, L., Giorgi, D., Bickel, B., Cignoni, P., & Pietroni, N. (2019). Volume-aware design of composite molds. ACM Transactions on Graphics. ACM. https://doi.org/10.1145/3306346.3322981","ama":"Alderighi T, Malomo L, Giorgi D, Bickel B, Cignoni P, Pietroni N. Volume-aware design of composite molds. ACM Transactions on Graphics. 2019;38(4). doi:10.1145/3306346.3322981"}},{"author":[{"id":"46613666-F248-11E8-B48F-1D18A9856A87","last_name":"Igler","first_name":"Claudia","full_name":"Igler, Claudia"},{"last_name":"Abedon","first_name":"Stephen T.","full_name":"Abedon, Stephen T."}],"article_number":"1171","department":[{"_id":"CaGu"}],"volume":10,"language":[{"iso":"eng"}],"year":"2019","day":"03","status":"public","has_accepted_license":"1","month":"06","intvolume":" 10","file_date_updated":"2020-07-14T12:47:38Z","oa_version":"Published Version","scopus_import":"1","date_published":"2019-06-03T00:00:00Z","publication":"Frontiers in Microbiology","citation":{"ieee":"C. Igler and S. T. Abedon, “Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision,” Frontiers in Microbiology, vol. 10. Frontiers, 2019.","ista":"Igler C, Abedon ST. 2019. Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision. Frontiers in Microbiology. 10, 1171.","mla":"Igler, Claudia, and Stephen T. Abedon. “Commentary: A Host-Produced Quorum-Sensing Autoinducer Controls a Phage Lysis-Lysogeny Decision.” Frontiers in Microbiology, vol. 10, 1171, Frontiers, 2019, doi:10.3389/fmicb.2019.01171.","chicago":"Igler, Claudia, and Stephen T. Abedon. “Commentary: A Host-Produced Quorum-Sensing Autoinducer Controls a Phage Lysis-Lysogeny Decision.” Frontiers in Microbiology. Frontiers, 2019. https://doi.org/10.3389/fmicb.2019.01171.","short":"C. Igler, S.T. Abedon, Frontiers in Microbiology 10 (2019).","apa":"Igler, C., & Abedon, S. T. (2019). Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision. Frontiers in Microbiology. Frontiers. https://doi.org/10.3389/fmicb.2019.01171","ama":"Igler C, Abedon ST. Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision. Frontiers in Microbiology. 2019;10. doi:10.3389/fmicb.2019.01171"},"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","article_processing_charge":"Yes (via OA deal)","doi":"10.3389/fmicb.2019.01171","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Commentary: A host-produced quorum-sensing autoinducer controls a phage lysis-lysogeny decision","file":[{"file_name":"2019_Frontiers_Igler.pdf","access_level":"open_access","content_type":"application/pdf","file_size":246151,"date_created":"2019-07-29T07:51:54Z","checksum":"317a06067e9a8e717bb55f23e0d77ba7","date_updated":"2020-07-14T12:47:38Z","relation":"main_file","file_id":"6722","creator":"apreinsp"}],"isi":1,"_id":"6717","quality_controlled":"1","external_id":{"isi":["000470131200001"]},"date_updated":"2023-08-29T06:41:20Z","publisher":"Frontiers","date_created":"2019-07-28T21:59:18Z","project":[{"name":"Design principles underlying genetic switch architecture (DOC Fellowship)","grant_number":"24573","_id":"251EE76E-B435-11E9-9278-68D0E5697425"}],"oa":1,"abstract":[{"lang":"eng","text":"With the recent publication by Silpe and Bassler (2019), considering phage detection of a bacterial quorum-sensing (QS) autoinducer, we now have as many as five examples of phage-associated intercellular communication (Table 1). Each potentially involves ecological inferences by phages as to concentrations of surrounding phage-infected or uninfected bacteria. While the utility of phage detection of bacterial QS molecules may at first glance appear to be straightforward, we suggest in this commentary that the underlying ecological explanation is unlikely to be simple."}],"ddc":["570"]},{"type":"journal_article","doi":"10.1111/evo.13812","article_processing_charge":"Yes (via OA deal)","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"page":"1729-1745","publication_status":"published","publication":"Evolution","date_published":"2019-09-01T00:00:00Z","citation":{"mla":"Sachdeva, Himani. “Effect of Partial Selfing and Polygenic Selection on Establishment in a New Habitat.” Evolution, vol. 73, no. 9, Wiley, 2019, pp. 1729–45, doi:10.1111/evo.13812.","ista":"Sachdeva H. 2019. Effect of partial selfing and polygenic selection on establishment in a new habitat. Evolution. 73(9), 1729–1745.","ieee":"H. Sachdeva, “Effect of partial selfing and polygenic selection on establishment in a new habitat,” Evolution, vol. 73, no. 9. Wiley, pp. 1729–1745, 2019.","short":"H. Sachdeva, Evolution 73 (2019) 1729–1745.","apa":"Sachdeva, H. (2019). Effect of partial selfing and polygenic selection on establishment in a new habitat. Evolution. Wiley. https://doi.org/10.1111/evo.13812","ama":"Sachdeva H. Effect of partial selfing and polygenic selection on establishment in a new habitat. Evolution. 2019;73(9):1729-1745. doi:10.1111/evo.13812","chicago":"Sachdeva, Himani. “Effect of Partial Selfing and Polygenic Selection on Establishment in a New Habitat.” Evolution. Wiley, 2019. https://doi.org/10.1111/evo.13812."},"month":"09","file_date_updated":"2020-07-14T12:47:37Z","intvolume":" 73","scopus_import":"1","oa_version":"Published Version","has_accepted_license":"1","year":"2019","day":"01","language":[{"iso":"eng"}],"status":"public","volume":73,"department":[{"_id":"NiBa"}],"author":[{"full_name":"Sachdeva, Himani","first_name":"Himani","last_name":"Sachdeva","id":"42377A0A-F248-11E8-B48F-1D18A9856A87"}],"abstract":[{"lang":"eng","text":"This paper analyzes how partial selfing in a large source population influences its ability to colonize a new habitat via the introduction of a few founder individuals. Founders experience inbreeding depression due to partially recessive deleterious alleles as well as maladaptation to the new environment due to selection on a large number of additive loci. I first introduce a simplified version of the Inbreeding History Model (Kelly, 2007) in order to characterize mutation‐selection balance in a large, partially selfing source population under selection involving multiple non‐identical loci. I then use individual‐based simulations to study the eco‐evolutionary dynamics of founders establishing in the new habitat under a model of hard selection. The study explores how selfing rate shapes establishment probabilities of founders via effects on both inbreeding depression and adaptability to the new environment, and also distinguishes the effects of selfing on the initial fitness of founders from its effects on the long‐term adaptive response of the populations they found. A high rate of (but not complete) selfing is found to aid establishment over a wide range of parameters, even in the absence of mate limitation. The sensitivity of the results to assumptions about the nature of polygenic selection are discussed."}],"ddc":["576"],"publication_identifier":{"issn":["0014-3820"],"eissn":["1558-5646"]},"issue":"9","related_material":{"record":[{"status":"public","relation":"research_data","id":"9802"}]},"oa":1,"publisher":"Wiley","date_created":"2019-07-25T09:08:28Z","external_id":{"isi":["000481300600001"]},"date_updated":"2023-08-29T06:43:58Z","quality_controlled":"1","_id":"6680","file":[{"content_type":"application/pdf","access_level":"open_access","file_name":"2019_Evolution_Sachdeva.pdf","file_id":"6881","creator":"kschuh","relation":"main_file","date_updated":"2020-07-14T12:47:37Z","file_size":937573,"checksum":"772ce7035965153959b946a1033de1ca","date_created":"2019-09-17T10:56:27Z"}],"isi":1,"title":"Effect of partial selfing and polygenic selection on establishment in a new habitat","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb","isi":1,"_id":"6710","quality_controlled":"1","external_id":{"isi":["000493043500004"],"pmid":["30289430"]},"date_updated":"2023-08-29T06:42:22Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/aob/mcy183"}],"publisher":"Oxford University Press","date_created":"2019-07-28T21:59:15Z","oa":1,"issue":"7","publication_identifier":{"eissn":["1095-8290"],"issn":["0305-7364"]},"abstract":[{"text":"Sexual dimorphism in morphology, physiology or life history traits is common in dioecious plants at reproductive maturity, but it is typically inconspicuous or absent in juveniles. Although plants of different sexes probably begin to diverge in gene expression both before their reproduction commences and before dimorphism becomes readily apparent, to our knowledge transcriptome-wide differential gene expression has yet to be demonstrated for any angiosperm species.","lang":"eng"}],"author":[{"first_name":"Guillaume","full_name":"Cossard, Guillaume","last_name":"Cossard"},{"first_name":"Melissa A","full_name":"Toups, Melissa A","orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","last_name":"Toups"},{"full_name":"Pannell, John ","first_name":"John ","last_name":"Pannell"}],"department":[{"_id":"BeVi"}],"pmid":1,"volume":123,"year":"2019","day":"04","language":[{"iso":"eng"}],"status":"public","article_type":"original","month":"06","intvolume":" 123","scopus_import":"1","oa_version":"Published Version","date_published":"2019-06-04T00:00:00Z","publication":"Annals of botany","citation":{"ista":"Cossard G, Toups MA, Pannell J. 2019. Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb. Annals of botany. 123(7), 1119–1131.","mla":"Cossard, Guillaume, et al. “Sexual Dimorphism and Rapid Turnover in Gene Expression in Pre-Reproductive Seedlings of a Dioecious Herb.” Annals of Botany, vol. 123, no. 7, Oxford University Press, 2019, pp. 1119–31, doi:10.1093/aob/mcy183.","ieee":"G. Cossard, M. A. Toups, and J. Pannell, “Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb,” Annals of botany, vol. 123, no. 7. Oxford University Press, pp. 1119–1131, 2019.","chicago":"Cossard, Guillaume, Melissa A Toups, and John Pannell. “Sexual Dimorphism and Rapid Turnover in Gene Expression in Pre-Reproductive Seedlings of a Dioecious Herb.” Annals of Botany. Oxford University Press, 2019. https://doi.org/10.1093/aob/mcy183.","short":"G. Cossard, M.A. Toups, J. Pannell, Annals of Botany 123 (2019) 1119–1131.","ama":"Cossard G, Toups MA, Pannell J. Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb. Annals of botany. 2019;123(7):1119-1131. doi:10.1093/aob/mcy183","apa":"Cossard, G., Toups, M. A., & Pannell, J. (2019). Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb. Annals of Botany. Oxford University Press. https://doi.org/10.1093/aob/mcy183"},"page":"1119-1131","publication_status":"published","article_processing_charge":"No","doi":"10.1093/aob/mcy183","type":"journal_article"},{"oa_version":"Published Version","date_created":"2021-08-06T11:52:54Z","publisher":"Dryad","month":"06","citation":{"ista":"Castro JP, Yancoskie MN, Marchini M, Belohlavy S, Hiramatsu L, Kučka M, Beluch WH, Naumann R, Skuplik I, Cobb J, Barton NH, Rolian C, Chan YF. 2019. Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice, Dryad, 10.5061/dryad.0q2h6tk.","mla":"Castro, João Pl, et al. Data from: An Integrative Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice. Dryad, 2019, doi:10.5061/dryad.0q2h6tk.","ieee":"J. P. Castro et al., “Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice.” Dryad, 2019.","chicago":"Castro, João Pl, Michelle N. Yancoskie, Marta Marchini, Stefanie Belohlavy, Layla Hiramatsu, Marek Kučka, William H. Beluch, et al. “Data from: An Integrative Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice.” Dryad, 2019. https://doi.org/10.5061/dryad.0q2h6tk.","apa":"Castro, J. P., Yancoskie, M. N., Marchini, M., Belohlavy, S., Hiramatsu, L., Kučka, M., … Chan, Y. F. (2019). Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. Dryad. https://doi.org/10.5061/dryad.0q2h6tk","ama":"Castro JP, Yancoskie MN, Marchini M, et al. Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. 2019. doi:10.5061/dryad.0q2h6tk","short":"J.P. Castro, M.N. Yancoskie, M. Marchini, S. Belohlavy, L. Hiramatsu, M. Kučka, W.H. Beluch, R. Naumann, I. Skuplik, J. Cobb, N.H. Barton, C. Rolian, Y.F. Chan, (2019)."},"date_published":"2019-06-06T00:00:00Z","date_updated":"2023-08-29T06:41:51Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.0q2h6tk"}],"article_processing_charge":"No","doi":"10.5061/dryad.0q2h6tk","type":"research_data_reference","abstract":[{"text":"Evolutionary studies are often limited by missing data that are critical to understanding the history of selection. Selection experiments, which reproduce rapid evolution under controlled conditions, are excellent tools to study how genomes evolve under selection. Here we present a genomic dissection of the Longshanks selection experiment, in which mice were selectively bred over 20 generations for longer tibiae relative to body mass, resulting in 13% longer tibiae in two replicates. We synthesized evolutionary theory, genome sequences and molecular genetics to understand the selection response and found that it involved both polygenic adaptation and discrete loci of major effect, with the strongest loci tending to be selected in parallel between replicates. We show that selection may favor de-repression of bone growth through inactivating two limb enhancers of an inhibitor, Nkx3-2. Our integrative genomic analyses thus show that it is possible to connect individual base-pair changes to the overall selection response.","lang":"eng"}],"oa":1,"related_material":{"record":[{"id":"6713","status":"public","relation":"used_in_publication"}]},"department":[{"_id":"NiBa"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"last_name":"Castro","full_name":"Castro, João Pl","first_name":"João Pl"},{"first_name":"Michelle N.","full_name":"Yancoskie, Michelle N.","last_name":"Yancoskie"},{"first_name":"Marta","full_name":"Marchini, Marta","last_name":"Marchini"},{"orcid":"0000-0002-9849-498X","full_name":"Belohlavy, Stefanie","first_name":"Stefanie","last_name":"Belohlavy","id":"43FE426A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hiramatsu, Layla","first_name":"Layla","last_name":"Hiramatsu"},{"last_name":"Kučka","first_name":"Marek","full_name":"Kučka, Marek"},{"first_name":"William H.","full_name":"Beluch, William H.","last_name":"Beluch"},{"full_name":"Naumann, Ronald","first_name":"Ronald","last_name":"Naumann"},{"last_name":"Skuplik","first_name":"Isabella","full_name":"Skuplik, Isabella"},{"first_name":"John","full_name":"Cobb, John","last_name":"Cobb"},{"last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","first_name":"Nicholas H"},{"last_name":"Rolian","full_name":"Rolian, Campbell","first_name":"Campbell"},{"full_name":"Chan, Yingguang Frank","first_name":"Yingguang Frank","last_name":"Chan"}],"title":"Data from: An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice","_id":"9804","status":"public","day":"06","year":"2019"},{"title":"Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat","author":[{"id":"42377A0A-F248-11E8-B48F-1D18A9856A87","last_name":"Sachdeva","first_name":"Himani","full_name":"Sachdeva, Himani"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","department":[{"_id":"NiBa"}],"day":"16","year":"2019","status":"public","_id":"9802","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.8tp0900"}],"date_updated":"2023-08-29T06:43:57Z","date_published":"2019-07-16T00:00:00Z","citation":{"chicago":"Sachdeva, Himani. “Data from: Effect of Partial Selfing and Polygenic Selection on Establishment in a New Habitat.” Dryad, 2019. https://doi.org/10.5061/dryad.8tp0900.","short":"H. Sachdeva, (2019).","apa":"Sachdeva, H. (2019). Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat. Dryad. https://doi.org/10.5061/dryad.8tp0900","ama":"Sachdeva H. Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat. 2019. doi:10.5061/dryad.8tp0900","ista":"Sachdeva H. 2019. Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat, Dryad, 10.5061/dryad.8tp0900.","ieee":"H. Sachdeva, “Data from: Effect of partial selfing and polygenic selection on establishment in a new habitat.” Dryad, 2019.","mla":"Sachdeva, Himani. Data from: Effect of Partial Selfing and Polygenic Selection on Establishment in a New Habitat. Dryad, 2019, doi:10.5061/dryad.8tp0900."},"month":"07","publisher":"Dryad","date_created":"2021-08-06T11:45:11Z","oa_version":"Published Version","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"6680"}]},"oa":1,"abstract":[{"lang":"eng","text":"This paper analyzes how partial selfing in a large source population influences its ability to colonize a new habitat via the introduction of a few founder individuals. Founders experience inbreeding depression due to partially recessive deleterious alleles as well as maladaptation to the new environment due to selection on a large number of additive loci. I first introduce a simplified version of the Inbreeding History Model (Kelly, 2007) in order to characterize mutation-selection balance in a large, partially selfing source population under selection involving multiple non-identical loci. I then use individual-based simulations to study the eco-evolutionary dynamics of founders establishing in the new habitat under a model of hard selection. The study explores how selfing rate shapes establishment probabilities of founders via effects on both inbreeding depression and adaptability to the new environment, and also distinguishes the effects of selfing on the initial fitness of founders from its effects on the long-term adaptive response of the populations they found. A high rate of (but not complete) selfing is found to aid establishment over a wide range of parameters, even in the absence of mate limitation. The sensitivity of the results to assumptions about the nature of polygenic selection are discussed."}],"doi":"10.5061/dryad.8tp0900","type":"research_data_reference","article_processing_charge":"No"},{"month":"07","intvolume":" 627","file_date_updated":"2020-07-14T12:47:39Z","oa_version":"Published Version","scopus_import":"1","publication":"Astronomy and Astrophysics","date_published":"2019-07-17T00:00:00Z","citation":{"mla":"Pranav, Pratyush, et al. “Unexpected Topology of the Temperature Fluctuations in the Cosmic Microwave Background.” Astronomy and Astrophysics, vol. 627, A163, EDP Sciences, 2019, doi:10.1051/0004-6361/201834916.","ista":"Pranav P, Adler RJ, Buchert T, Edelsbrunner H, Jones BJT, Schwartzman A, Wagner H, Van De Weygaert R. 2019. Unexpected topology of the temperature fluctuations in the cosmic microwave background. Astronomy and Astrophysics. 627, A163.","ieee":"P. Pranav et al., “Unexpected topology of the temperature fluctuations in the cosmic microwave background,” Astronomy and Astrophysics, vol. 627. EDP Sciences, 2019.","chicago":"Pranav, Pratyush, Robert J. Adler, Thomas Buchert, Herbert Edelsbrunner, Bernard J.T. Jones, Armin Schwartzman, Hubert Wagner, and Rien Van De Weygaert. “Unexpected Topology of the Temperature Fluctuations in the Cosmic Microwave Background.” Astronomy and Astrophysics. EDP Sciences, 2019. https://doi.org/10.1051/0004-6361/201834916.","ama":"Pranav P, Adler RJ, Buchert T, et al. Unexpected topology of the temperature fluctuations in the cosmic microwave background. Astronomy and Astrophysics. 2019;627. doi:10.1051/0004-6361/201834916","apa":"Pranav, P., Adler, R. J., Buchert, T., Edelsbrunner, H., Jones, B. J. T., Schwartzman, A., … Van De Weygaert, R. (2019). Unexpected topology of the temperature fluctuations in the cosmic microwave background. Astronomy and Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/201834916","short":"P. Pranav, R.J. Adler, T. Buchert, H. Edelsbrunner, B.J.T. Jones, A. Schwartzman, H. Wagner, R. Van De Weygaert, Astronomy and Astrophysics 627 (2019)."},"article_processing_charge":"No","type":"journal_article","doi":"10.1051/0004-6361/201834916","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","department":[{"_id":"HeEd"}],"volume":627,"author":[{"last_name":"Pranav","full_name":"Pranav, Pratyush","first_name":"Pratyush"},{"first_name":"Robert J.","full_name":"Adler, Robert J.","last_name":"Adler"},{"last_name":"Buchert","full_name":"Buchert, Thomas","first_name":"Thomas"},{"full_name":"Edelsbrunner, Herbert","first_name":"Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Jones","full_name":"Jones, Bernard J.T.","first_name":"Bernard J.T."},{"full_name":"Schwartzman, Armin","first_name":"Armin","last_name":"Schwartzman"},{"first_name":"Hubert","full_name":"Wagner, Hubert","id":"379CA8B8-F248-11E8-B48F-1D18A9856A87","last_name":"Wagner"},{"first_name":"Rien","full_name":"Van De Weygaert, Rien","last_name":"Van De Weygaert"}],"article_number":"A163","has_accepted_license":"1","article_type":"original","year":"2019","day":"17","language":[{"iso":"eng"}],"status":"public","publisher":"EDP Sciences","date_created":"2019-08-04T21:59:18Z","external_id":{"arxiv":["1812.07678"],"isi":["000475839300003"]},"date_updated":"2023-08-29T07:01:48Z","publication_identifier":{"issn":["00046361"],"eissn":["14320746"]},"ddc":["520","530"],"abstract":[{"text":"We study the topology generated by the temperature fluctuations of the cosmic microwave background (CMB) radiation, as quantified by the number of components and holes, formally given by the Betti numbers, in the growing excursion sets. We compare CMB maps observed by the Planck satellite with a thousand simulated maps generated according to the ΛCDM paradigm with Gaussian distributed fluctuations. The comparison is multi-scale, being performed on a sequence of degraded maps with mean pixel separation ranging from 0.05 to 7.33°. The survey of the CMB over 𝕊2 is incomplete due to obfuscation effects by bright point sources and other extended foreground objects like our own galaxy. To deal with such situations, where analysis in the presence of “masks” is of importance, we introduce the concept of relative homology. The parametric χ2-test shows differences between observations and simulations, yielding p-values at percent to less than permil levels roughly between 2 and 7°, with the difference in the number of components and holes peaking at more than 3σ sporadically at these scales. The highest observed deviation between the observations and simulations for b0 and b1 is approximately between 3σ and 4σ at scales of 3–7°. There are reports of mildly unusual behaviour of the Euler characteristic at 3.66° in the literature, computed from independent measurements of the CMB temperature fluctuations by Planck’s predecessor, the Wilkinson Microwave Anisotropy Probe (WMAP) satellite. The mildly anomalous behaviour of the Euler characteristic is phenomenologically related to the strongly anomalous behaviour of components and holes, or the zeroth and first Betti numbers, respectively. Further, since these topological descriptors show consistent anomalous behaviour over independent measurements of Planck and WMAP, instrumental and systematic errors may be an unlikely source. These are also the scales at which the observed maps exhibit low variance compared to the simulations, and approximately the range of scales at which the power spectrum exhibits a dip with respect to the theoretical model. Non-parametric tests show even stronger differences at almost all scales. Crucially, Gaussian simulations based on power-spectrum matching the characteristics of the observed dipped power spectrum are not able to resolve the anomaly. Understanding the origin of the anomalies in the CMB, whether cosmological in nature or arising due to late-time effects, is an extremely challenging task. Regardless, beyond the trivial possibility that this may still be a manifestation of an extreme Gaussian case, these observations, along with the super-horizon scales involved, may motivate the study of primordial non-Gaussianity. Alternative scenarios worth exploring may be models with non-trivial topology, including topological defect models.","lang":"eng"}],"project":[{"name":"Toward Computational Information Topology","grant_number":"M62909-18-1-2038","_id":"265683E4-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","name":"Persistence and stability of geometric complexes","grant_number":"I02979-N35"}],"oa":1,"file":[{"date_updated":"2020-07-14T12:47:39Z","relation":"main_file","file_id":"6766","creator":"dernst","file_size":14420451,"checksum":"83b9209ed9eefbdcefd89019c5a97805","date_created":"2019-08-05T08:08:59Z","access_level":"open_access","content_type":"application/pdf","file_name":"2019_AstronomyAstrophysics_Pranav.pdf"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Unexpected topology of the temperature fluctuations in the cosmic microwave background","quality_controlled":"1","_id":"6756"},{"_id":"6755","quality_controlled":"1","title":"Dosage compensation throughout the Schistosoma mansoni lifecycle: Specific chromatin landscape of the Z chromosome","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"file":[{"creator":"dernst","file_id":"6765","relation":"main_file","date_updated":"2020-07-14T12:47:39Z","checksum":"f9e8f6863a406dcc5a36b2be001c138c","date_created":"2019-08-05T07:55:02Z","file_size":580205,"content_type":"application/pdf","access_level":"open_access","file_name":"2019_GenomeBiology_Picard.pdf"}],"issue":"7","oa":1,"abstract":[{"text":"Differentiated sex chromosomes are accompanied by a difference in gene dose between X/Z-specific and autosomal genes. At the transcriptomic level, these sex-linked genes can lead to expression imbalance, or gene dosage can be compensated by epigenetic mechanisms and results into expression level equalization. Schistosoma mansoni has been previously described as a ZW species (i.e., female heterogamety, in opposition to XY male heterogametic species) with a partial dosage compensation, but underlying mechanisms are still unexplored. Here, we combine transcriptomic (RNA-Seq) and epigenetic data (ChIP-Seq against H3K4me3, H3K27me3,andH4K20me1histonemarks) in free larval cercariae and intravertebrate parasitic stages. For the first time, we describe differences in dosage compensation status in ZW females, depending on the parasitic status: free cercariae display global dosage compensation, whereas intravertebrate stages show a partial dosage compensation. We also highlight regional differences of gene expression along the Z chromosome in cercariae, but not in the intravertebrate stages. Finally, we feature a consistent permissive chromatin landscape of the Z chromosome in both sexes and stages. We argue that dosage compensation in schistosomes is characterized by chromatin remodeling mechanisms in the Z-specific region.","lang":"eng"}],"ddc":["570"],"publication_identifier":{"eissn":["1759-6653"]},"date_updated":"2023-08-29T06:53:58Z","external_id":{"isi":["000484039500018"],"pmid":["31273378"]},"date_created":"2019-08-04T21:59:18Z","publisher":"Oxford Academic Press","status":"public","language":[{"iso":"eng"}],"day":"01","year":"2019","article_type":"original","has_accepted_license":"1","author":[{"first_name":"Marion A L","full_name":"Picard, Marion A L","orcid":"0000-0002-8101-2518","id":"2C921A7A-F248-11E8-B48F-1D18A9856A87","last_name":"Picard"},{"first_name":"Beatriz","full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","last_name":"Vicoso"},{"last_name":"Roquis","first_name":"David","full_name":"Roquis, David"},{"full_name":"Bulla, Ingo","first_name":"Ingo","last_name":"Bulla"},{"first_name":"Ronaldo C.","full_name":"Augusto, Ronaldo C.","last_name":"Augusto"},{"last_name":"Arancibia","full_name":"Arancibia, Nathalie","first_name":"Nathalie"},{"first_name":"Christoph","full_name":"Grunau, Christoph","last_name":"Grunau"},{"full_name":"Boissier, Jérôme","first_name":"Jérôme","last_name":"Boissier"},{"last_name":"Cosseau","full_name":"Cosseau, Céline","first_name":"Céline"}],"volume":11,"pmid":1,"department":[{"_id":"BeVi"}],"publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"page":"1909-1922","acknowledged_ssus":[{"_id":"CampIT"}],"doi":"10.1093/gbe/evz133","type":"journal_article","article_processing_charge":"No","citation":{"chicago":"Picard, Marion A L, Beatriz Vicoso, David Roquis, Ingo Bulla, Ronaldo C. Augusto, Nathalie Arancibia, Christoph Grunau, Jérôme Boissier, and Céline Cosseau. “Dosage Compensation throughout the Schistosoma Mansoni Lifecycle: Specific Chromatin Landscape of the Z Chromosome.” Genome Biology and Evolution. Oxford Academic Press, 2019. https://doi.org/10.1093/gbe/evz133.","apa":"Picard, M. A. L., Vicoso, B., Roquis, D., Bulla, I., Augusto, R. C., Arancibia, N., … Cosseau, C. (2019). Dosage compensation throughout the Schistosoma mansoni lifecycle: Specific chromatin landscape of the Z chromosome. Genome Biology and Evolution. Oxford Academic Press. https://doi.org/10.1093/gbe/evz133","ama":"Picard MAL, Vicoso B, Roquis D, et al. Dosage compensation throughout the Schistosoma mansoni lifecycle: Specific chromatin landscape of the Z chromosome. Genome biology and evolution. 2019;11(7):1909-1922. doi:10.1093/gbe/evz133","short":"M.A.L. Picard, B. Vicoso, D. Roquis, I. Bulla, R.C. Augusto, N. Arancibia, C. Grunau, J. Boissier, C. Cosseau, Genome Biology and Evolution 11 (2019) 1909–1922.","ieee":"M. A. L. Picard et al., “Dosage compensation throughout the Schistosoma mansoni lifecycle: Specific chromatin landscape of the Z chromosome,” Genome biology and evolution, vol. 11, no. 7. Oxford Academic Press, pp. 1909–1922, 2019.","ista":"Picard MAL, Vicoso B, Roquis D, Bulla I, Augusto RC, Arancibia N, Grunau C, Boissier J, Cosseau C. 2019. Dosage compensation throughout the Schistosoma mansoni lifecycle: Specific chromatin landscape of the Z chromosome. Genome biology and evolution. 11(7), 1909–1922.","mla":"Picard, Marion A. L., et al. “Dosage Compensation throughout the Schistosoma Mansoni Lifecycle: Specific Chromatin Landscape of the Z Chromosome.” Genome Biology and Evolution, vol. 11, no. 7, Oxford Academic Press, 2019, pp. 1909–22, doi:10.1093/gbe/evz133."},"date_published":"2019-07-01T00:00:00Z","publication":"Genome biology and evolution","scopus_import":"1","oa_version":"Published Version","file_date_updated":"2020-07-14T12:47:39Z","month":"07","intvolume":" 11"},{"publisher":"ACM","date_created":"2019-08-04T21:59:16Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1705.01433"}],"external_id":{"isi":["000487714900008"],"arxiv":["1705.01433"]},"date_updated":"2023-08-29T07:02:13Z","abstract":[{"text":"Two-player games on graphs are widely studied in formal methods, as they model the interaction between a system and its environment. The game is played by moving a token throughout a graph to produce an infinite path. There are several common modes to determine how the players move the token through the graph; e.g., in turn-based games the players alternate turns in moving the token. We study the bidding mode of moving the token, which, to the best of our knowledge, has never been studied in infinite-duration games. The following bidding rule was previously defined and called Richman bidding. Both players have separate budgets, which sum up to 1. In each turn, a bidding takes place: Both players submit bids simultaneously, where a bid is legal if it does not exceed the available budget, and the higher bidder pays his bid to the other player and moves the token. The central question studied in bidding games is a necessary and sufficient initial budget for winning the game: a threshold budget in a vertex is a value t ∈ [0, 1] such that if Player 1’s budget exceeds t, he can win the game; and if Player 2’s budget exceeds 1 − t, he can win the game. Threshold budgets were previously shown to exist in every vertex of a reachability game, which have an interesting connection with random-turn games—a sub-class of simple stochastic games in which the player who moves is chosen randomly. We show the existence of threshold budgets for a qualitative class of infinite-duration games, namely parity games, and a quantitative class, namely mean-payoff games. The key component of the proof is a quantitative solution to strongly connected mean-payoff bidding games in which we extend the connection with random-turn games to these games, and construct explicit optimal strategies for both players.","lang":"eng"}],"publication_identifier":{"issn":["00045411"],"eissn":["1557735X"]},"issue":"4","related_material":{"record":[{"id":"950","status":"public","relation":"earlier_version"}]},"oa":1,"project":[{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"The Wittgenstein Prize","grant_number":"Z211"},{"call_identifier":"FWF","_id":"25F2ACDE-B435-11E9-9278-68D0E5697425","grant_number":"S11402-N23","name":"Rigorous Systems Engineering"},{"grant_number":"M02369","name":"Formal Methods meets Algorithmic Game Theory","call_identifier":"FWF","_id":"264B3912-B435-11E9-9278-68D0E5697425"}],"isi":1,"title":"Infinite-duration bidding games","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","_id":"6752","publication":"Journal of the ACM","date_published":"2019-07-16T00:00:00Z","citation":{"ieee":"G. Avni, T. A. Henzinger, and V. K. Chonev, “Infinite-duration bidding games,” Journal of the ACM, vol. 66, no. 4. ACM, 2019.","ista":"Avni G, Henzinger TA, Chonev VK. 2019. Infinite-duration bidding games. Journal of the ACM. 66(4), 31.","mla":"Avni, Guy, et al. “Infinite-Duration Bidding Games.” Journal of the ACM, vol. 66, no. 4, 31, ACM, 2019, doi:10.1145/3340295.","chicago":"Avni, Guy, Thomas A Henzinger, and Ventsislav K Chonev. “Infinite-Duration Bidding Games.” Journal of the ACM. ACM, 2019. https://doi.org/10.1145/3340295.","short":"G. Avni, T.A. Henzinger, V.K. Chonev, Journal of the ACM 66 (2019).","ama":"Avni G, Henzinger TA, Chonev VK. Infinite-duration bidding games. Journal of the ACM. 2019;66(4). doi:10.1145/3340295","apa":"Avni, G., Henzinger, T. A., & Chonev, V. K. (2019). Infinite-duration bidding games. Journal of the ACM. ACM. https://doi.org/10.1145/3340295"},"intvolume":" 66","month":"07","scopus_import":"1","oa_version":"Preprint","type":"journal_article","doi":"10.1145/3340295","article_processing_charge":"No","publication_status":"published","volume":66,"department":[{"_id":"ToHe"}],"article_number":"31","author":[{"full_name":"Avni, Guy","first_name":"Guy","orcid":"0000-0001-5588-8287","last_name":"Avni","id":"463C8BC2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Henzinger, Thomas A","first_name":"Thomas A","orcid":"0000−0002−2985−7724","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Chonev","id":"36CBE2E6-F248-11E8-B48F-1D18A9856A87","full_name":"Chonev, Ventsislav K","first_name":"Ventsislav K"}],"language":[{"iso":"eng"}],"year":"2019","day":"16","status":"public"},{"volume":11076,"department":[{"_id":"MaLo"}],"article_number":"110760V","author":[{"last_name":"Davies","first_name":"Heather S.","full_name":"Davies, Heather S."},{"last_name":"Baranova","id":"38661662-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3086-9124","full_name":"Baranova, Natalia S.","first_name":"Natalia S."},{"full_name":"El Amri, Nouha","first_name":"Nouha","last_name":"El Amri"},{"last_name":"Coche-Guérente","first_name":"Liliane","full_name":"Coche-Guérente, Liliane"},{"last_name":"Verdier","full_name":"Verdier, Claude","first_name":"Claude"},{"first_name":"Lionel","full_name":"Bureau, Lionel","last_name":"Bureau"},{"last_name":"Richter","full_name":"Richter, Ralf P.","first_name":"Ralf P."},{"full_name":"Débarre, Delphine","first_name":"Delphine","last_name":"Débarre"}],"language":[{"iso":"eng"}],"year":"2019","day":"22","status":"public","date_published":"2019-07-22T00:00:00Z","publication":"Advances in Microscopic Imaging II","citation":{"mla":"Davies, Heather S., et al. “Blood Cell-Vessel Wall Interactions Probed by Reflection Interference Contrast Microscopy.” Advances in Microscopic Imaging II, vol. 11076, 110760V, SPIE, 2019, doi:10.1117/12.2527058.","ista":"Davies HS, Baranova NS, El Amri N, Coche-Guérente L, Verdier C, Bureau L, Richter RP, Débarre D. 2019. Blood cell-vessel wall interactions probed by reflection interference contrast microscopy. Advances in Microscopic Imaging II. European Conferences on Biomedical Optics vol. 11076, 110760V.","ieee":"H. S. Davies et al., “Blood cell-vessel wall interactions probed by reflection interference contrast microscopy,” in Advances in Microscopic Imaging II, Munich, Germany, 2019, vol. 11076.","chicago":"Davies, Heather S., Natalia S. Baranova, Nouha El Amri, Liliane Coche-Guérente, Claude Verdier, Lionel Bureau, Ralf P. Richter, and Delphine Débarre. “Blood Cell-Vessel Wall Interactions Probed by Reflection Interference Contrast Microscopy.” In Advances in Microscopic Imaging II, Vol. 11076. SPIE, 2019. https://doi.org/10.1117/12.2527058.","apa":"Davies, H. S., Baranova, N. S., El Amri, N., Coche-Guérente, L., Verdier, C., Bureau, L., … Débarre, D. (2019). Blood cell-vessel wall interactions probed by reflection interference contrast microscopy. In Advances in Microscopic Imaging II (Vol. 11076). Munich, Germany: SPIE. https://doi.org/10.1117/12.2527058","ama":"Davies HS, Baranova NS, El Amri N, et al. Blood cell-vessel wall interactions probed by reflection interference contrast microscopy. In: Advances in Microscopic Imaging II. Vol 11076. SPIE; 2019. doi:10.1117/12.2527058","short":"H.S. Davies, N.S. Baranova, N. El Amri, L. Coche-Guérente, C. Verdier, L. Bureau, R.P. Richter, D. Débarre, in:, Advances in Microscopic Imaging II, SPIE, 2019."},"month":"07","intvolume":" 11076","oa_version":"Published Version","scopus_import":"1","doi":"10.1117/12.2527058","type":"conference","article_processing_charge":"No","publication_status":"published","isi":1,"title":"Blood cell-vessel wall interactions probed by reflection interference contrast microscopy","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","_id":"7010","conference":{"start_date":"2019-06-26","name":"European Conferences on Biomedical Optics","location":"Munich, Germany","end_date":"2019-06-27"},"publisher":"SPIE","date_created":"2019-11-12T15:10:18Z","main_file_link":[{"url":"https://hal.archives-ouvertes.fr/hal-02368135/file/110760V.pdf","open_access":"1"}],"external_id":{"isi":["000535353000023"]},"date_updated":"2023-08-29T06:54:38Z","abstract":[{"lang":"eng","text":"Numerous biophysical questions require the quantification of short-range interactions between (functionalized) surfaces and synthetic or biological objects such as cells. Here, we present an original, custom built setup for reflection interference contrast microscopy that can assess distances between a substrate and a flowing object at high speed with nanometric accuracy. We demonstrate its use to decipher the complex biochemical and mechanical interplay regulating blood cell homing at the vessel wall in the microcirculation using an in vitro approach. We show that in the absence of specific biochemical interactions, flowing cells are repelled from the soft layer lining the vessel wall, contributing to red blood cell repulsion in vivo. In contrast, this so-called glycocalyx stabilizes rolling of cells under flow in the presence of a specific receptor naturally present on activated leucocytes and a number of cancer cell lines."}],"publication_identifier":{"isbn":["9781510628458"],"issn":["1605-7422"]},"oa":1},{"oa_version":"None","scopus_import":"1","intvolume":" 15","month":"07","citation":{"chicago":"Khattak, Hamza K., Scott R Waitukaitis, and Aaron D. Slepkov. “Microwave Induced Mechanical Activation of Hydrogel Dimers.” Soft Matter. Royal Society of Chemistry, 2019. https://doi.org/10.1039/c9sm00756c.","ama":"Khattak HK, Waitukaitis SR, Slepkov AD. Microwave induced mechanical activation of hydrogel dimers. Soft Matter. 2019;15(29):5804-5809. doi:10.1039/c9sm00756c","apa":"Khattak, H. K., Waitukaitis, S. R., & Slepkov, A. D. (2019). Microwave induced mechanical activation of hydrogel dimers. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c9sm00756c","short":"H.K. Khattak, S.R. Waitukaitis, A.D. Slepkov, Soft Matter 15 (2019) 5804–5809.","ista":"Khattak HK, Waitukaitis SR, Slepkov AD. 2019. Microwave induced mechanical activation of hydrogel dimers. Soft Matter. 15(29), 5804–5809.","mla":"Khattak, Hamza K., et al. “Microwave Induced Mechanical Activation of Hydrogel Dimers.” Soft Matter, vol. 15, no. 29, Royal Society of Chemistry, 2019, pp. 5804–09, doi:10.1039/c9sm00756c.","ieee":"H. K. Khattak, S. R. Waitukaitis, and A. D. Slepkov, “Microwave induced mechanical activation of hydrogel dimers,” Soft Matter, vol. 15, no. 29. Royal Society of Chemistry, pp. 5804–5809, 2019."},"date_published":"2019-07-15T00:00:00Z","publication":"Soft Matter","article_processing_charge":"No","doi":"10.1039/c9sm00756c","type":"journal_article","publication_status":"published","page":"5804-5809","pmid":1,"department":[{"_id":"ScWa"}],"volume":15,"author":[{"full_name":"Khattak, Hamza K.","first_name":"Hamza K.","last_name":"Khattak"},{"orcid":"0000-0002-2299-3176","first_name":"Scott R","full_name":"Waitukaitis, Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","last_name":"Waitukaitis"},{"first_name":"Aaron D.","full_name":"Slepkov, Aaron D.","last_name":"Slepkov"}],"article_type":"original","status":"public","year":"2019","day":"15","language":[{"iso":"eng"}],"date_created":"2019-08-04T21:59:21Z","publisher":"Royal Society of Chemistry","date_updated":"2023-08-29T06:53:34Z","external_id":{"isi":["000476909200002"],"pmid":["31305853"]},"publication_identifier":{"eissn":["17446848"],"issn":["1744683X"]},"abstract":[{"lang":"eng","text":"When grape-sized aqueous dimers are irradiated in a microwave oven, an intense electromagnetic hotspot forms at their point of contact, often igniting a plasma. Here we show that this irradiation can result in the injection of mechanical energy. By examining irradiated hydrogel dimers through high-speed imaging, we find that they repeatedly bounce off of each other while irradiated. We determine that an average of 1 lJ of mechanical energy is injected into the pair during each collision. Furthermore, a characteristic high-pitched audio signal is found to accompany each collision.\r\nWe show that both the audio signal and the energy injection arise via an interplay between vaporization and elastic deformations in the region of contact, the so-called ‘elastic Liedenfrost effect’. Our results establish a novel, non-contact method of injecting mechanical energy into soft matter systems, suggesting application in fields such as soft robotics."}],"issue":"29","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Microwave induced mechanical activation of hydrogel dimers","quality_controlled":"1","_id":"6763"},{"article_type":"original","has_accepted_license":"1","year":"2019","day":"02","language":[{"iso":"eng"}],"status":"public","volume":15,"department":[{"_id":"CaGu"},{"_id":"GaTk"}],"article_number":"e1007168","author":[{"orcid":"0000-0003-1615-3282","full_name":"Ruess, Jakob","first_name":"Jakob","last_name":"Ruess","id":"4A245D00-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pleska, Maros","first_name":"Maros","orcid":"0000-0001-7460-7479","last_name":"Pleska","id":"4569785E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Guet, Calin C","first_name":"Calin C","orcid":"0000-0001-6220-2052","last_name":"Guet","id":"47F8433E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tkačik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Tkačik, Gašper","first_name":"Gašper","orcid":"0000-0002-6699-1455"}],"doi":"10.1371/journal.pcbi.1007168","type":"journal_article","article_processing_charge":"No","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","date_published":"2019-07-02T00:00:00Z","publication":"PLoS Computational Biology","citation":{"ieee":"J. Ruess, M. Pleska, C. C. Guet, and G. Tkačik, “Molecular noise of innate immunity shapes bacteria-phage ecologies,” PLoS Computational Biology, vol. 15, no. 7. Public Library of Science, 2019.","mla":"Ruess, Jakob, et al. “Molecular Noise of Innate Immunity Shapes Bacteria-Phage Ecologies.” PLoS Computational Biology, vol. 15, no. 7, e1007168, Public Library of Science, 2019, doi:10.1371/journal.pcbi.1007168.","ista":"Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. 15(7), e1007168.","chicago":"Ruess, Jakob, Maros Pleska, Calin C Guet, and Gašper Tkačik. “Molecular Noise of Innate Immunity Shapes Bacteria-Phage Ecologies.” PLoS Computational Biology. Public Library of Science, 2019. https://doi.org/10.1371/journal.pcbi.1007168.","apa":"Ruess, J., Pleska, M., Guet, C. C., & Tkačik, G. (2019). Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1007168","ama":"Ruess J, Pleska M, Guet CC, Tkačik G. Molecular noise of innate immunity shapes bacteria-phage ecologies. PLoS Computational Biology. 2019;15(7). doi:10.1371/journal.pcbi.1007168","short":"J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, PLoS Computational Biology 15 (2019)."},"intvolume":" 15","month":"07","file_date_updated":"2020-07-14T12:47:40Z","scopus_import":"1","oa_version":"Published Version","quality_controlled":"1","_id":"6784","file":[{"file_id":"6803","creator":"dernst","relation":"main_file","date_updated":"2020-07-14T12:47:40Z","file_size":2200003,"checksum":"7ded4721b41c2a0fc66a1c634540416a","date_created":"2019-08-12T12:27:26Z","content_type":"application/pdf","access_level":"open_access","file_name":"2019_PlosComputBiology_Ruess.pdf"}],"isi":1,"title":"Molecular noise of innate immunity shapes bacteria-phage ecologies","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"lang":"eng","text":"Mathematical models have been used successfully at diverse scales of biological organization, ranging from ecology and population dynamics to stochastic reaction events occurring between individual molecules in single cells. Generally, many biological processes unfold across multiple scales, with mutations being the best studied example of how stochasticity at the molecular scale can influence outcomes at the population scale. In many other contexts, however, an analogous link between micro- and macro-scale remains elusive, primarily due to the challenges involved in setting up and analyzing multi-scale models. Here, we employ such a model to investigate how stochasticity propagates from individual biochemical reaction events in the bacterial innate immune system to the ecology of bacteria and bacterial viruses. We show analytically how the dynamics of bacterial populations are shaped by the activities of immunity-conferring enzymes in single cells and how the ecological consequences imply optimal bacterial defense strategies against viruses. Our results suggest that bacterial populations in the presence of viruses can either optimize their initial growth rate or their population size, with the first strategy favoring simple immunity featuring a single restriction modification system and the second strategy favoring complex bacterial innate immunity featuring several simultaneously active restriction modification systems."}],"ddc":["570"],"publication_identifier":{"eissn":["1553-7358"]},"issue":"7","related_material":{"record":[{"id":"9786","relation":"research_data","status":"public"}]},"oa":1,"project":[{"name":"Effects of Stochasticity on the Function of Restriction-Modi cation Systems at the Single-Cell Level","grant_number":"24210","_id":"251D65D8-B435-11E9-9278-68D0E5697425"},{"grant_number":"RGY0079/2011","name":"Multi-Level Conflicts in Evolutionary Dynamics of Restriction-Modification Systems","_id":"251BCBEC-B435-11E9-9278-68D0E5697425"}],"publisher":"Public Library of Science","date_created":"2019-08-11T21:59:19Z","external_id":{"isi":["000481577700032"]},"date_updated":"2023-08-29T07:10:06Z"},{"date_updated":"2023-08-29T07:02:44Z","external_id":{"pmid":["31375675"],"isi":["000478576500012"]},"date_created":"2019-08-09T08:46:26Z","publisher":"Springer Nature","related_material":{"link":[{"url":"https://ist.ac.at/en/news/when-plant-roots-learned-to-follow-gravity/","description":"News on IST Homepage","relation":"press_release"}]},"project":[{"call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"}],"oa":1,"ec_funded":1,"abstract":[{"lang":"eng","text":"An important adaptation during colonization of land by plants is gravitropic growth of roots, which enabled roots to reach water and nutrients, and firmly anchor plants in the ground. Here we provide insights into the evolution of an efficient root gravitropic mechanism in the seed plants. Architectural innovation, with gravity perception constrained in the root tips\r\nalong with a shootward transport route for the phytohormone auxin, appeared only upon the emergence of seed plants. Interspecies complementation and protein domain swapping revealed functional innovations within the PIN family of auxin transporters leading to the evolution of gravitropism-specific PINs. The unique apical/shootward subcellular localization of PIN proteins is the major evolutionary innovation that connected the anatomically separated sites of gravity perception and growth response via the mobile auxin signal. We conclude that the crucial anatomical and functional components emerged hand-in-hand to facilitate the evolution of fast gravitropic response, which is one of the major adaptations of seed plants to dry land."}],"ddc":["580"],"publication_identifier":{"issn":["2041-1723"]},"title":"Evolution of fast root gravitropism in seed plants","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"file":[{"date_updated":"2020-07-14T12:47:40Z","relation":"main_file","creator":"dernst","file_id":"6798","checksum":"d2c654fdb97f33078f606fe0c298bf6e","date_created":"2019-08-12T07:09:20Z","file_size":6406141,"access_level":"open_access","content_type":"application/pdf","file_name":"2019_NatureComm_Zhang.pdf"}],"_id":"6778","quality_controlled":"1","citation":{"chicago":"Zhang, Yuzhou, G Xiao, X Wang, Xixi Zhang, and Jiří Friml. “Evolution of Fast Root Gravitropism in Seed Plants.” Nature Communications. Springer Nature, 2019. https://doi.org/10.1038/s41467-019-11471-8.","short":"Y. Zhang, G. Xiao, X. Wang, X. Zhang, J. Friml, Nature Communications 10 (2019).","apa":"Zhang, Y., Xiao, G., Wang, X., Zhang, X., & Friml, J. (2019). Evolution of fast root gravitropism in seed plants. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-019-11471-8","ama":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. Evolution of fast root gravitropism in seed plants. Nature Communications. 2019;10. doi:10.1038/s41467-019-11471-8","ista":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. 2019. Evolution of fast root gravitropism in seed plants. Nature Communications. 10, 3480.","mla":"Zhang, Yuzhou, et al. “Evolution of Fast Root Gravitropism in Seed Plants.” Nature Communications, vol. 10, 3480, Springer Nature, 2019, doi:10.1038/s41467-019-11471-8.","ieee":"Y. Zhang, G. Xiao, X. Wang, X. Zhang, and J. Friml, “Evolution of fast root gravitropism in seed plants,” Nature Communications, vol. 10. Springer Nature, 2019."},"publication":"Nature Communications","date_published":"2019-08-02T00:00:00Z","scopus_import":"1","oa_version":"Published Version","month":"08","intvolume":" 10","file_date_updated":"2020-07-14T12:47:40Z","publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"doi":"10.1038/s41467-019-11471-8","type":"journal_article","article_processing_charge":"No","article_number":"3480","author":[{"full_name":"Zhang, Yuzhou","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","last_name":"Zhang","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Xiao","first_name":"G","full_name":"Xiao, G"},{"full_name":"Wang, X","first_name":"X","last_name":"Wang"},{"last_name":"Zhang","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627","full_name":"Zhang, Xixi","first_name":"Xixi"},{"first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}],"volume":10,"department":[{"_id":"JiFr"}],"pmid":1,"status":"public","year":"2019","language":[{"iso":"eng"}],"day":"02","article_type":"original","has_accepted_license":"1"},{"author":[{"full_name":"Yourick, Miranda R.","first_name":"Miranda R.","last_name":"Yourick"},{"last_name":"Sandkam","full_name":"Sandkam, Benjamin A.","first_name":"Benjamin A."},{"id":"3A7E01BC-F248-11E8-B48F-1D18A9856A87","last_name":"Gammerdinger","orcid":"0000-0001-9638-1220","first_name":"William J","full_name":"Gammerdinger, William J"},{"last_name":"Escobar-Camacho","first_name":"Daniel","full_name":"Escobar-Camacho, Daniel"},{"last_name":"Nandamuri","full_name":"Nandamuri, Sri Pratima","first_name":"Sri Pratima"},{"last_name":"Clark","full_name":"Clark, Frances E.","first_name":"Frances E."},{"first_name":"Brendan","full_name":"Joyce, Brendan","last_name":"Joyce"},{"first_name":"Matthew A.","full_name":"Conte, Matthew A.","last_name":"Conte"},{"last_name":"Kocher","full_name":"Kocher, Thomas D.","first_name":"Thomas D."},{"full_name":"Carleton, Karen L.","first_name":"Karen L.","last_name":"Carleton"}],"volume":19,"department":[{"_id":"BeVi"}],"pmid":1,"language":[{"iso":"eng"}],"year":"2019","day":"01","status":"public","article_type":"original","publication":"Molecular Ecology Resources","date_published":"2019-11-01T00:00:00Z","citation":{"ista":"Yourick MR, Sandkam BA, Gammerdinger WJ, Escobar-Camacho D, Nandamuri SP, Clark FE, Joyce B, Conte MA, Kocher TD, Carleton KL. 2019. Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. Molecular Ecology Resources. 19(6), 1447–1460.","mla":"Yourick, Miranda R., et al. “Diurnal Variation in Opsin Expression and Common Housekeeping Genes Necessitates Comprehensive Normalization Methods for Quantitative Real-Time PCR Analyses.” Molecular Ecology Resources, vol. 19, no. 6, Wiley, 2019, pp. 1447–60, doi:10.1111/1755-0998.13062.","ieee":"M. R. Yourick et al., “Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses,” Molecular Ecology Resources, vol. 19, no. 6. Wiley, pp. 1447–1460, 2019.","short":"M.R. Yourick, B.A. Sandkam, W.J. Gammerdinger, D. Escobar-Camacho, S.P. Nandamuri, F.E. Clark, B. Joyce, M.A. Conte, T.D. Kocher, K.L. Carleton, Molecular Ecology Resources 19 (2019) 1447–1460.","apa":"Yourick, M. R., Sandkam, B. A., Gammerdinger, W. J., Escobar-Camacho, D., Nandamuri, S. P., Clark, F. E., … Carleton, K. L. (2019). Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. Molecular Ecology Resources. Wiley. https://doi.org/10.1111/1755-0998.13062","ama":"Yourick MR, Sandkam BA, Gammerdinger WJ, et al. Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses. Molecular Ecology Resources. 2019;19(6):1447-1460. doi:10.1111/1755-0998.13062","chicago":"Yourick, Miranda R., Benjamin A. Sandkam, William J Gammerdinger, Daniel Escobar-Camacho, Sri Pratima Nandamuri, Frances E. Clark, Brendan Joyce, Matthew A. Conte, Thomas D. Kocher, and Karen L. Carleton. “Diurnal Variation in Opsin Expression and Common Housekeeping Genes Necessitates Comprehensive Normalization Methods for Quantitative Real-Time PCR Analyses.” Molecular Ecology Resources. Wiley, 2019. https://doi.org/10.1111/1755-0998.13062."},"intvolume":" 19","month":"11","scopus_import":"1","oa_version":"Submitted Version","page":"1447-1460","publication_status":"published","doi":"10.1111/1755-0998.13062","type":"journal_article","article_processing_charge":"No","title":"Diurnal variation in opsin expression and common housekeeping genes necessitates comprehensive normalization methods for quantitative real-time PCR analyses","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"_id":"6821","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6995727"}],"external_id":{"pmid":["31325910"],"isi":["000480196800001"]},"date_updated":"2023-08-29T07:10:44Z","publisher":"Wiley","date_created":"2019-08-18T22:00:41Z","issue":"6","oa":1,"abstract":[{"text":"To determine the visual sensitivities of an organism of interest, quantitative reverse transcription–polymerase chain reaction (qRT–PCR) is often used to quantify expression of the light‐sensitive opsins in the retina. While qRT–PCR is an affordable, high‐throughput method for measuring expression, it comes with inherent normalization issues that affect the interpretation of results, especially as opsin expression can vary greatly based on developmental stage, light environment or diurnal cycles. We tested for diurnal cycles of opsin expression over a period of 24 hr at 1‐hr increments and examined how normalization affects a data set with fluctuating expression levels using qRT–PCR and transcriptome data from the retinae of the cichlid Pelmatolapia mariae. We compared five methods of normalizing opsin expression relative to (a) the average of three stably expressed housekeeping genes (Ube2z, EF1‐α and β‐actin), (b) total RNA concentration, (c) GNAT2, (the cone‐specific subunit of transducin), (d) total opsin expression and (e) only opsins expressed in the same cone type. Normalizing by proportion of cone type produced the least variation and would be best for removing time‐of‐day variation. In contrast, normalizing by housekeeping genes produced the highest daily variation in expression and demonstrated that the peak of cone opsin expression was in the late afternoon. A weighted correlation network analysis showed that the expression of different cone opsins follows a very similar daily cycle. With the knowledge of how these normalization methods affect opsin expression data, we make recommendations for designing sampling approaches and quantification methods based upon the scientific question being examined.","lang":"eng"}],"publication_identifier":{"eissn":["1755-0998"]}},{"doi":"10.1007/s00023-019-00828-w","type":"journal_article","article_processing_charge":"Yes (via OA deal)","page":"3471–3508","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","publication":"Annales Henri Poincare","date_published":"2019-10-01T00:00:00Z","citation":{"chicago":"Leopold, Nikolai K, and Sören P Petrat. “Mean-Field Dynamics for the Nelson Model with Fermions.” Annales Henri Poincare. Springer Nature, 2019. https://doi.org/10.1007/s00023-019-00828-w.","apa":"Leopold, N. K., & Petrat, S. P. (2019). Mean-field dynamics for the Nelson model with fermions. Annales Henri Poincare. Springer Nature. https://doi.org/10.1007/s00023-019-00828-w","ama":"Leopold NK, Petrat SP. Mean-field dynamics for the Nelson model with fermions. Annales Henri Poincare. 2019;20(10):3471–3508. doi:10.1007/s00023-019-00828-w","short":"N.K. Leopold, S.P. Petrat, Annales Henri Poincare 20 (2019) 3471–3508.","ista":"Leopold NK, Petrat SP. 2019. Mean-field dynamics for the Nelson model with fermions. Annales Henri Poincare. 20(10), 3471–3508.","mla":"Leopold, Nikolai K., and Sören P. Petrat. “Mean-Field Dynamics for the Nelson Model with Fermions.” Annales Henri Poincare, vol. 20, no. 10, Springer Nature, 2019, pp. 3471–3508, doi:10.1007/s00023-019-00828-w.","ieee":"N. K. Leopold and S. P. Petrat, “Mean-field dynamics for the Nelson model with fermions,” Annales Henri Poincare, vol. 20, no. 10. Springer Nature, pp. 3471–3508, 2019."},"file_date_updated":"2020-07-14T12:47:40Z","month":"10","intvolume":" 20","oa_version":"Published Version","scopus_import":"1","article_type":"original","has_accepted_license":"1","year":"2019","day":"01","language":[{"iso":"eng"}],"status":"public","volume":20,"department":[{"_id":"RoSe"}],"author":[{"first_name":"Nikolai K","full_name":"Leopold, Nikolai K","orcid":"0000-0002-0495-6822","id":"4BC40BEC-F248-11E8-B48F-1D18A9856A87","last_name":"Leopold"},{"last_name":"Petrat","id":"40AC02DC-F248-11E8-B48F-1D18A9856A87","full_name":"Petrat, Sören P","first_name":"Sören P","orcid":"0000-0002-9166-5889"}],"abstract":[{"text":"We consider the Nelson model with ultraviolet cutoff, which describes the interaction between non-relativistic particles and a positive or zero mass quantized scalar field. We take the non-relativistic particles to obey Fermi statistics and discuss the time evolution in a mean-field limit of many fermions. In this case, the limit is known to be also a semiclassical limit. We prove convergence in terms of reduced density matrices of the many-body state to a tensor product of a Slater determinant with semiclassical structure and a coherent state, which evolve according to a fermionic version of the Schrödinger–Klein–Gordon equations.","lang":"eng"}],"ddc":["510"],"ec_funded":1,"publication_identifier":{"eissn":["1424-0661"],"issn":["1424-0637"]},"issue":"10","project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"694227","name":"Analysis of quantum many-body systems"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"oa":1,"publisher":"Springer Nature","date_created":"2019-08-11T21:59:21Z","external_id":{"isi":["000487036900008"],"arxiv":["1807.06781"]},"date_updated":"2023-08-29T07:09:06Z","quality_controlled":"1","_id":"6788","file":[{"file_name":"2019_AnnalesHenriPoincare_Leopold.pdf","content_type":"application/pdf","access_level":"open_access","file_size":681139,"checksum":"b6dbf0d837d809293d449adf77138904","date_created":"2019-08-12T12:05:58Z","file_id":"6801","creator":"dernst","date_updated":"2020-07-14T12:47:40Z","relation":"main_file"}],"isi":1,"title":"Mean-field dynamics for the Nelson model with fermions","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"article_type":"original","has_accepted_license":"1","status":"public","language":[{"iso":"eng"}],"year":"2019","day":"01","volume":9,"department":[{"_id":"NiBa"}],"author":[{"last_name":"Trubenova","id":"42302D54-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6873-2967","full_name":"Trubenova, Barbora","first_name":"Barbora"},{"last_name":"Hager","full_name":"Hager, Reinmar","first_name":"Reinmar"}],"type":"journal_article","doi":"10.1002/ece3.5484","article_processing_charge":"No","publication_status":"published","page":"9597-9608","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"citation":{"chicago":"Trubenova, Barbora, and Reinmar Hager. “Green Beards in the Light of Indirect Genetic Effects.” Ecology and Evolution. Wiley, 2019. https://doi.org/10.1002/ece3.5484.","short":"B. Trubenova, R. Hager, Ecology and Evolution 9 (2019) 9597–9608.","apa":"Trubenova, B., & Hager, R. (2019). Green beards in the light of indirect genetic effects. Ecology and Evolution. Wiley. https://doi.org/10.1002/ece3.5484","ama":"Trubenova B, Hager R. Green beards in the light of indirect genetic effects. Ecology and Evolution. 2019;9(17):9597-9608. doi:10.1002/ece3.5484","ista":"Trubenova B, Hager R. 2019. Green beards in the light of indirect genetic effects. Ecology and Evolution. 9(17), 9597–9608.","ieee":"B. Trubenova and R. Hager, “Green beards in the light of indirect genetic effects,” Ecology and Evolution, vol. 9, no. 17. Wiley, pp. 9597–9608, 2019.","mla":"Trubenova, Barbora, and Reinmar Hager. “Green Beards in the Light of Indirect Genetic Effects.” Ecology and Evolution, vol. 9, no. 17, Wiley, 2019, pp. 9597–608, doi:10.1002/ece3.5484."},"publication":"Ecology and Evolution","date_published":"2019-09-01T00:00:00Z","scopus_import":"1","oa_version":"Published Version","intvolume":" 9","file_date_updated":"2020-07-14T12:47:40Z","month":"09","quality_controlled":"1","_id":"6795","isi":1,"file":[{"file_size":2839636,"checksum":"adcb70af4901977d95b8747eeee01bd7","date_created":"2019-08-12T07:30:30Z","relation":"main_file","date_updated":"2020-07-14T12:47:40Z","file_id":"6799","creator":"dernst","file_name":"2019_EcologyEvolution_Trubenova.pdf","access_level":"open_access","content_type":"application/pdf"}],"title":"Green beards in the light of indirect genetic effects","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ec_funded":1,"abstract":[{"text":"The green‐beard effect is one proposed mechanism predicted to underpin the evolu‐tion of altruistic behavior. It relies on the recognition and the selective help of altruists to each other in order to promote and sustain altruistic behavior. However, this mechanism has often been dismissed as unlikely or uncommon, as it is assumed that both the signaling trait and altruistic trait need to be encoded by the same gene or through tightly linked genes. Here, we use models of indirect genetic effects (IGEs) to find the minimum correlation between the signaling and altruistic trait required for the evolution of the latter. We show that this correlation threshold depends on the strength of the interaction (influence of the green beard on the expression of the altruistic trait), as well as the costs and benefits of the altruistic behavior. We further show that this correlation does not necessarily have to be high and support our analytical results by simulations.","lang":"eng"}],"ddc":["576"],"publication_identifier":{"eissn":["20457758"]},"issue":"17","project":[{"_id":"25AEDD42-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Rate of Adaptation in Changing Environment","grant_number":"704172"}],"oa":1,"date_created":"2019-08-11T21:59:24Z","publisher":"Wiley","date_updated":"2023-08-29T07:03:10Z","external_id":{"isi":["000479973400001"]}},{"page":"765-775","publication_status":"published","type":"journal_article","doi":"10.1112/blms.12276","article_processing_charge":"No","publication":"Bulletin of the London Mathematical Society","date_published":"2019-10-01T00:00:00Z","citation":{"short":"A. Akopyan, I. Izmestiev, Bulletin of the London Mathematical Society 51 (2019) 765–775.","apa":"Akopyan, A., & Izmestiev, I. (2019). The Regge symmetry, confocal conics, and the Schläfli formula. Bulletin of the London Mathematical Society. London Mathematical Society. https://doi.org/10.1112/blms.12276","ama":"Akopyan A, Izmestiev I. The Regge symmetry, confocal conics, and the Schläfli formula. Bulletin of the London Mathematical Society. 2019;51(5):765-775. doi:10.1112/blms.12276","chicago":"Akopyan, Arseniy, and Ivan Izmestiev. “The Regge Symmetry, Confocal Conics, and the Schläfli Formula.” Bulletin of the London Mathematical Society. London Mathematical Society, 2019. https://doi.org/10.1112/blms.12276.","ista":"Akopyan A, Izmestiev I. 2019. The Regge symmetry, confocal conics, and the Schläfli formula. Bulletin of the London Mathematical Society. 51(5), 765–775.","mla":"Akopyan, Arseniy, and Ivan Izmestiev. “The Regge Symmetry, Confocal Conics, and the Schläfli Formula.” Bulletin of the London Mathematical Society, vol. 51, no. 5, London Mathematical Society, 2019, pp. 765–75, doi:10.1112/blms.12276.","ieee":"A. Akopyan and I. Izmestiev, “The Regge symmetry, confocal conics, and the Schläfli formula,” Bulletin of the London Mathematical Society, vol. 51, no. 5. London Mathematical Society, pp. 765–775, 2019."},"intvolume":" 51","month":"10","oa_version":"Preprint","scopus_import":"1","day":"01","year":"2019","language":[{"iso":"eng"}],"status":"public","article_type":"original","author":[{"full_name":"Akopyan, Arseniy","first_name":"Arseniy","orcid":"0000-0002-2548-617X","last_name":"Akopyan","id":"430D2C90-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Izmestiev","first_name":"Ivan","full_name":"Izmestiev, Ivan"}],"volume":51,"department":[{"_id":"HeEd"}],"issue":"5","project":[{"call_identifier":"H2020","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","name":"Alpha Shape Theory Extended","grant_number":"788183"}],"oa":1,"abstract":[{"lang":"eng","text":"The Regge symmetry is a set of remarkable relations between two tetrahedra whose edge lengths are related in a simple fashion. It was first discovered as a consequence of an asymptotic formula in mathematical physics. Here, we give a simple geometric proof of Regge symmetries in Euclidean, spherical, and hyperbolic geometry."}],"ec_funded":1,"publication_identifier":{"issn":["00246093"],"eissn":["14692120"]},"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1903.04929"}],"external_id":{"arxiv":["1903.04929"],"isi":["000478560200001"]},"date_updated":"2023-08-29T07:08:34Z","publisher":"London Mathematical Society","date_created":"2019-08-11T21:59:23Z","_id":"6793","quality_controlled":"1","title":"The Regge symmetry, confocal conics, and the Schläfli formula","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1},{"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"first_name":"Jakob","full_name":"Ruess, Jakob","orcid":"0000-0003-1615-3282","id":"4A245D00-F248-11E8-B48F-1D18A9856A87","last_name":"Ruess"},{"id":"4569785E-F248-11E8-B48F-1D18A9856A87","last_name":"Pleska","first_name":"Maros","full_name":"Pleska, Maros","orcid":"0000-0001-7460-7479"},{"full_name":"Guet, Calin C","first_name":"Calin C","orcid":"0000-0001-6220-2052","last_name":"Guet","id":"47F8433E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tkačik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","full_name":"Tkačik, Gašper","first_name":"Gašper"}],"title":"Supporting text and results","department":[{"_id":"CaGu"},{"_id":"GaTk"}],"_id":"9786","status":"public","year":"2019","day":"02","date_updated":"2023-08-29T07:10:05Z","date_created":"2021-08-06T08:23:43Z","oa_version":"Published Version","publisher":"Public Library of Science","month":"07","citation":{"chicago":"Ruess, Jakob, Maros Pleska, Calin C Guet, and Gašper Tkačik. “Supporting Text and Results.” Public Library of Science, 2019. https://doi.org/10.1371/journal.pcbi.1007168.s001.","apa":"Ruess, J., Pleska, M., Guet, C. C., & Tkačik, G. (2019). Supporting text and results. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1007168.s001","ama":"Ruess J, Pleska M, Guet CC, Tkačik G. Supporting text and results. 2019. doi:10.1371/journal.pcbi.1007168.s001","short":"J. Ruess, M. Pleska, C.C. Guet, G. Tkačik, (2019).","ieee":"J. Ruess, M. Pleska, C. C. Guet, and G. Tkačik, “Supporting text and results.” Public Library of Science, 2019.","ista":"Ruess J, Pleska M, Guet CC, Tkačik G. 2019. Supporting text and results, Public Library of Science, 10.1371/journal.pcbi.1007168.s001.","mla":"Ruess, Jakob, et al. Supporting Text and Results. Public Library of Science, 2019, doi:10.1371/journal.pcbi.1007168.s001."},"date_published":"2019-07-02T00:00:00Z","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"6784"}]},"article_processing_charge":"No","doi":"10.1371/journal.pcbi.1007168.s001","type":"research_data_reference"},{"issue":"3","related_material":{"record":[{"status":"public","relation":"research_data","id":"9803"},{"relation":"dissertation_contains","status":"public","id":"14058"}]},"project":[{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"oa":1,"ddc":["570"],"abstract":[{"text":"* Understanding the mechanisms causing phenotypic differences between females and males has long fascinated evolutionary biologists. An extensive literature exists on animal sexual dimorphism but less information is known about sex differences in plants, particularly the extent of geographical variation in sexual dimorphism and its life‐cycle dynamics.\r\n* Here, we investigated patterns of genetically based sexual dimorphism in vegetative and reproductive traits of a wind‐pollinated dioecious plant, Rumex hastatulus, across three life‐cycle stages using open‐pollinated families from 30 populations spanning the geographic range and chromosomal variation (XY and XY1Y2) of the species.\r\n* The direction and degree of sexual dimorphism was highly variable among populations and life‐cycle stages. Sex‐specific differences in reproductive function explained a significant amount of temporal change in sexual dimorphism. For several traits, geographical variation in sexual dimorphism was associated with bioclimatic parameters, likely due to the differential responses of the sexes to climate. We found no systematic differences in sexual dimorphism between chromosome races.\r\n* Sex‐specific trait differences in dioecious plants largely result from a balance between sexual and natural selection on resource allocation. Our results indicate that abiotic factors associated with geographical context also play a role in modifying sexual dimorphism during the plant life‐cycle.","lang":"eng"}],"ec_funded":1,"publication_identifier":{"eissn":["1469-8137"]},"external_id":{"isi":["000481376500001"]},"date_updated":"2023-08-29T07:17:07Z","publisher":"Wiley","date_created":"2019-08-25T22:00:51Z","_id":"6831","quality_controlled":"1","title":"Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"content_type":"application/pdf","access_level":"open_access","file_name":"2019_NewPhytologist_Puixeu.pdf","creator":"apreinsp","file_id":"6833","relation":"main_file","date_updated":"2020-07-14T12:47:42Z","checksum":"6370e7567d96b7b562e77d8b89653f80","date_created":"2019-08-27T12:44:54Z","file_size":2314016}],"isi":1,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"page":"1108-1120","publication_status":"published","doi":"10.1111/nph.16050","type":"journal_article","article_processing_charge":"Yes (via OA deal)","publication":"New Phytologist","date_published":"2019-11-01T00:00:00Z","citation":{"short":"G. Puixeu Sala, M. Pickup, D. Field, S.C.H. Barrett, New Phytologist 224 (2019) 1108–1120.","ama":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. 2019;224(3):1108-1120. doi:10.1111/nph.16050","apa":"Puixeu Sala, G., Pickup, M., Field, D., & Barrett, S. C. H. (2019). Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. Wiley. https://doi.org/10.1111/nph.16050","chicago":"Puixeu Sala, Gemma, Melinda Pickup, David Field, and Spencer C.H. Barrett. “Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” New Phytologist. Wiley, 2019. https://doi.org/10.1111/nph.16050.","ieee":"G. Puixeu Sala, M. Pickup, D. Field, and S. C. H. Barrett, “Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics,” New Phytologist, vol. 224, no. 3. Wiley, pp. 1108–1120, 2019.","mla":"Puixeu Sala, Gemma, et al. “Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” New Phytologist, vol. 224, no. 3, Wiley, 2019, pp. 1108–20, doi:10.1111/nph.16050.","ista":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. 2019. Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. 224(3), 1108–1120."},"intvolume":" 224","month":"11","file_date_updated":"2020-07-14T12:47:42Z","oa_version":"Published Version","scopus_import":"1","year":"2019","language":[{"iso":"eng"}],"day":"01","status":"public","article_type":"original","has_accepted_license":"1","author":[{"id":"33AB266C-F248-11E8-B48F-1D18A9856A87","last_name":"Puixeu Sala","orcid":"0000-0001-8330-1754","first_name":"Gemma","full_name":"Puixeu Sala, Gemma"},{"full_name":"Pickup, Melinda","first_name":"Melinda","orcid":"0000-0001-6118-0541","last_name":"Pickup","id":"2C78037E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"David","full_name":"Field, David","orcid":"0000-0002-4014-8478","last_name":"Field"},{"last_name":"Barrett","full_name":"Barrett, Spencer C.H.","first_name":"Spencer C.H."}],"volume":224,"department":[{"_id":"NiBa"},{"_id":"BeVi"}]},{"type":"journal_article","doi":"10.1038/s41577-019-0202-z","article_processing_charge":"No","page":"747–760","publication_status":"published","publication":"Nature Reviews Immunology","date_published":"2019-12-01T00:00:00Z","citation":{"ista":"Gärtner FR, Massberg S. 2019. Patrolling the vascular borders: Platelets in immunity to infection and cancer. Nature Reviews Immunology. 19(12), 747–760.","mla":"Gärtner, Florian R., and Steffen Massberg. “Patrolling the Vascular Borders: Platelets in Immunity to Infection and Cancer.” Nature Reviews Immunology, vol. 19, no. 12, Springer Nature, 2019, pp. 747–760, doi:10.1038/s41577-019-0202-z.","ieee":"F. R. Gärtner and S. Massberg, “Patrolling the vascular borders: Platelets in immunity to infection and cancer,” Nature Reviews Immunology, vol. 19, no. 12. Springer Nature, pp. 747–760, 2019.","ama":"Gärtner FR, Massberg S. Patrolling the vascular borders: Platelets in immunity to infection and cancer. Nature Reviews Immunology. 2019;19(12):747–760. doi:10.1038/s41577-019-0202-z","apa":"Gärtner, F. R., & Massberg, S. (2019). Patrolling the vascular borders: Platelets in immunity to infection and cancer. Nature Reviews Immunology. Springer Nature. https://doi.org/10.1038/s41577-019-0202-z","short":"F.R. Gärtner, S. Massberg, Nature Reviews Immunology 19 (2019) 747–760.","chicago":"Gärtner, Florian R, and Steffen Massberg. “Patrolling the Vascular Borders: Platelets in Immunity to Infection and Cancer.” Nature Reviews Immunology. Springer Nature, 2019. https://doi.org/10.1038/s41577-019-0202-z."},"intvolume":" 19","month":"12","oa_version":"None","scopus_import":"1","article_type":"original","language":[{"iso":"eng"}],"year":"2019","day":"01","status":"public","volume":19,"department":[{"_id":"MiSi"}],"pmid":1,"author":[{"id":"397A88EE-F248-11E8-B48F-1D18A9856A87","last_name":"Gärtner","orcid":"0000-0001-6120-3723","first_name":"Florian R","full_name":"Gärtner, Florian R"},{"last_name":"Massberg","first_name":"Steffen","full_name":"Massberg, Steffen"}],"abstract":[{"text":"Platelets are small anucleate cellular fragments that are released by megakaryocytes and safeguard vascular integrity through a process termed ‘haemostasis’. However, platelets have important roles beyond haemostasis as they contribute to the initiation and coordination of intravascular immune responses. They continuously monitor blood vessel integrity and tightly coordinate vascular trafficking and functions of multiple cell types. In this way platelets act as ‘patrolling officers of the vascular highway’ that help to establish effective immune responses to infections and cancer. Here we discuss the distinct biological features of platelets that allow them to shape immune responses to pathogens and tumour cells, highlighting the parallels between these responses.","lang":"eng"}],"ec_funded":1,"publication_identifier":{"eissn":["1474-1741"],"issn":["1474-1733"]},"issue":"12","project":[{"grant_number":"747687","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","_id":"260AA4E2-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"publisher":"Springer Nature","date_created":"2019-08-20T17:24:32Z","external_id":{"isi":["000499090600011"],"pmid":["31409920"]},"date_updated":"2023-08-29T07:16:14Z","quality_controlled":"1","_id":"6824","isi":1,"title":"Patrolling the vascular borders: Platelets in immunity to infection and cancer","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"isi":1,"title":"Active cell migration is critical for steady-state epithelial turnover in the gut","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","_id":"6832","publisher":"American Association for the Advancement of Science","date_created":"2019-08-25T22:00:51Z","external_id":{"pmid":["31416964"],"isi":["000481688700050"]},"date_updated":"2023-08-29T07:16:40Z","abstract":[{"text":"Steady-state turnover is a hallmark of epithelial tissues throughout adult life. Intestinal epithelial turnover is marked by continuous cell migration, which is assumed to be driven by mitotic pressure from the crypts. However, the balance of forces in renewal remains ill-defined. Combining biophysical modeling and quantitative three-dimensional tissue imaging with genetic and physical manipulations, we revealed the existence of an actin-related protein 2/3 complex–dependent active migratory force, which explains quantitatively the profiles of cell speed, density, and tissue tension along the villi. Cells migrate collectively with minimal rearrangements while displaying dual—apicobasal and front-back—polarity characterized by actin-rich basal protrusions oriented in the direction of migration. We propose that active migration is a critical component of gut epithelial turnover.","lang":"eng"}],"issue":"6454","volume":365,"department":[{"_id":"EdHa"}],"pmid":1,"author":[{"first_name":"Denis","full_name":"Krndija, Denis","last_name":"Krndija"},{"first_name":"Fatima El","full_name":"Marjou, Fatima El","last_name":"Marjou"},{"full_name":"Guirao, Boris","first_name":"Boris","last_name":"Guirao"},{"full_name":"Richon, Sophie","first_name":"Sophie","last_name":"Richon"},{"full_name":"Leroy, Olivier","first_name":"Olivier","last_name":"Leroy"},{"last_name":"Bellaiche","first_name":"Yohanns","full_name":"Bellaiche, Yohanns"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","first_name":"Edouard B","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561"},{"first_name":"Danijela Matic","full_name":"Vignjevic, Danijela Matic","last_name":"Vignjevic"}],"language":[{"iso":"eng"}],"day":"16","year":"2019","status":"public","publication":"Science","date_published":"2019-08-16T00:00:00Z","citation":{"ista":"Krndija D, Marjou FE, Guirao B, Richon S, Leroy O, Bellaiche Y, Hannezo EB, Vignjevic DM. 2019. Active cell migration is critical for steady-state epithelial turnover in the gut. Science. 365(6454), 705–710.","ieee":"D. Krndija et al., “Active cell migration is critical for steady-state epithelial turnover in the gut,” Science, vol. 365, no. 6454. American Association for the Advancement of Science, pp. 705–710, 2019.","mla":"Krndija, Denis, et al. “Active Cell Migration Is Critical for Steady-State Epithelial Turnover in the Gut.” Science, vol. 365, no. 6454, American Association for the Advancement of Science, 2019, pp. 705–10, doi:10.1126/science.aau3429.","short":"D. Krndija, F.E. Marjou, B. Guirao, S. Richon, O. Leroy, Y. Bellaiche, E.B. Hannezo, D.M. Vignjevic, Science 365 (2019) 705–710.","apa":"Krndija, D., Marjou, F. E., Guirao, B., Richon, S., Leroy, O., Bellaiche, Y., … Vignjevic, D. M. (2019). Active cell migration is critical for steady-state epithelial turnover in the gut. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aau3429","ama":"Krndija D, Marjou FE, Guirao B, et al. Active cell migration is critical for steady-state epithelial turnover in the gut. Science. 2019;365(6454):705-710. doi:10.1126/science.aau3429","chicago":"Krndija, Denis, Fatima El Marjou, Boris Guirao, Sophie Richon, Olivier Leroy, Yohanns Bellaiche, Edouard B Hannezo, and Danijela Matic Vignjevic. “Active Cell Migration Is Critical for Steady-State Epithelial Turnover in the Gut.” Science. American Association for the Advancement of Science, 2019. https://doi.org/10.1126/science.aau3429."},"intvolume":" 365","month":"08","scopus_import":"1","oa_version":"None","doi":"10.1126/science.aau3429","type":"journal_article","article_processing_charge":"No","page":"705-710","publication_status":"published"},{"volume":171,"department":[{"_id":"MaIb"}],"article_number":"107768","author":[{"last_name":"Yumusak","first_name":"Cigdem","full_name":"Yumusak, Cigdem"},{"first_name":"Anna Jancik","full_name":"Prochazkova, Anna Jancik","last_name":"Prochazkova"},{"orcid":"0000-0002-1075-8857","full_name":"Apaydin, Dogukan H","first_name":"Dogukan H","last_name":"Apaydin","id":"2FF891BC-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Seelajaroen, Hathaichanok","first_name":"Hathaichanok","last_name":"Seelajaroen"},{"last_name":"Sariciftci","full_name":"Sariciftci, Niyazi Serdar","first_name":"Niyazi Serdar"},{"first_name":"Martin","full_name":"Weiter, Martin","last_name":"Weiter"},{"first_name":"Jozef","full_name":"Krajcovic, Jozef","last_name":"Krajcovic"},{"full_name":"Qin, Yong","first_name":"Yong","last_name":"Qin"},{"last_name":"Zhang","first_name":"Wei","full_name":"Zhang, Wei"},{"last_name":"Zhan","full_name":"Zhan, Jixun","first_name":"Jixun"},{"last_name":"Kovalenko","first_name":"Alexander","full_name":"Kovalenko, Alexander"}],"article_type":"original","status":"public","language":[{"iso":"eng"}],"day":"01","year":"2019","citation":{"mla":"Yumusak, Cigdem, et al. “Indigoidine - Biosynthesized Organic Semiconductor.” Dyes and Pigments, vol. 171, 107768, Elsevier, 2019, doi:10.1016/j.dyepig.2019.107768.","ista":"Yumusak C, Prochazkova AJ, Apaydin DH, Seelajaroen H, Sariciftci NS, Weiter M, Krajcovic J, Qin Y, Zhang W, Zhan J, Kovalenko A. 2019. Indigoidine - Biosynthesized organic semiconductor. Dyes and Pigments. 171, 107768.","ieee":"C. Yumusak et al., “Indigoidine - Biosynthesized organic semiconductor,” Dyes and Pigments, vol. 171. Elsevier, 2019.","ama":"Yumusak C, Prochazkova AJ, Apaydin DH, et al. Indigoidine - Biosynthesized organic semiconductor. Dyes and Pigments. 2019;171. doi:10.1016/j.dyepig.2019.107768","apa":"Yumusak, C., Prochazkova, A. J., Apaydin, D. H., Seelajaroen, H., Sariciftci, N. S., Weiter, M., … Kovalenko, A. (2019). Indigoidine - Biosynthesized organic semiconductor. Dyes and Pigments. Elsevier. https://doi.org/10.1016/j.dyepig.2019.107768","short":"C. Yumusak, A.J. Prochazkova, D.H. Apaydin, H. Seelajaroen, N.S. Sariciftci, M. Weiter, J. Krajcovic, Y. Qin, W. Zhang, J. Zhan, A. Kovalenko, Dyes and Pigments 171 (2019).","chicago":"Yumusak, Cigdem, Anna Jancik Prochazkova, Dogukan H Apaydin, Hathaichanok Seelajaroen, Niyazi Serdar Sariciftci, Martin Weiter, Jozef Krajcovic, et al. “Indigoidine - Biosynthesized Organic Semiconductor.” Dyes and Pigments. Elsevier, 2019. https://doi.org/10.1016/j.dyepig.2019.107768."},"publication":"Dyes and Pigments","date_published":"2019-12-01T00:00:00Z","scopus_import":"1","oa_version":"None","month":"12","intvolume":" 171","type":"journal_article","doi":"10.1016/j.dyepig.2019.107768","article_processing_charge":"No","publication_status":"published","isi":1,"title":"Indigoidine - Biosynthesized organic semiconductor","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","quality_controlled":"1","_id":"6818","date_created":"2019-08-18T22:00:39Z","publisher":"Elsevier","date_updated":"2023-08-29T07:11:09Z","external_id":{"isi":["000484870700099"]},"abstract":[{"text":"Indigoidine is a blue natural pigment, which can be efficiently synthetized in E. coli. In addition to its antioxidant and antimicrobial activities indigoidine due to its stability and deep blue color can find an application as an industrial, environmentally friendly dye. Moreover, similarly to its counterpart regular indigo dye, due to its molecular structure, indigoidine is an organic semiconductor. Fully conjugated aromatic moiety and intermolecular hydrogen bonding of indigoidine result in an unusually narrow bandgap for such a small molecule. This, in its turn, result is tight molecular packing in the solid state and opens a path for a wide range of application in organic and bio-electronics, such as electrochemical and field effect transistors, organic solar cells, light and bio-sensors etc.","lang":"eng"}],"publication_identifier":{"issn":["0143-7208"]}},{"publication":"Journal of Algebra","date_published":"2019-11-15T00:00:00Z","citation":{"apa":"Brown, A. (2019). Arakawa-Suzuki functors for Whittaker modules. Journal of Algebra. Elsevier. https://doi.org/10.1016/j.jalgebra.2019.07.027","ama":"Brown A. Arakawa-Suzuki functors for Whittaker modules. Journal of Algebra. 2019;538:261-289. doi:10.1016/j.jalgebra.2019.07.027","short":"A. Brown, Journal of Algebra 538 (2019) 261–289.","chicago":"Brown, Adam. “Arakawa-Suzuki Functors for Whittaker Modules.” Journal of Algebra. Elsevier, 2019. https://doi.org/10.1016/j.jalgebra.2019.07.027.","ista":"Brown A. 2019. Arakawa-Suzuki functors for Whittaker modules. Journal of Algebra. 538, 261–289.","mla":"Brown, Adam. “Arakawa-Suzuki Functors for Whittaker Modules.” Journal of Algebra, vol. 538, Elsevier, 2019, pp. 261–89, doi:10.1016/j.jalgebra.2019.07.027.","ieee":"A. Brown, “Arakawa-Suzuki functors for Whittaker modules,” Journal of Algebra, vol. 538. Elsevier, pp. 261–289, 2019."},"month":"11","intvolume":" 538","oa_version":"Preprint","page":"261-289","publication_status":"published","doi":"10.1016/j.jalgebra.2019.07.027","type":"journal_article","article_processing_charge":"No","author":[{"full_name":"Brown, Adam","first_name":"Adam","last_name":"Brown","id":"70B7FDF6-608D-11E9-9333-8535E6697425"}],"volume":538,"department":[{"_id":"HeEd"}],"day":"15","year":"2019","language":[{"iso":"eng"}],"status":"public","article_type":"original","main_file_link":[{"url":"https://arxiv.org/abs/1805.04676","open_access":"1"}],"external_id":{"isi":["000487176300011"],"arxiv":["1805.04676"]},"date_updated":"2023-08-29T07:11:47Z","publisher":"Elsevier","date_created":"2019-08-22T07:54:13Z","oa":1,"abstract":[{"text":"In this paper we construct a family of exact functors from the category of Whittaker modules of the simple complex Lie algebra of type to the category of finite-dimensional modules of the graded affine Hecke algebra of type . Using results of Backelin [2] and of Arakawa-Suzuki [1], we prove that these functors map standard modules to standard modules (or zero) and simple modules to simple modules (or zero). Moreover, we show that each simple module of the graded affine Hecke algebra appears as the image of a simple Whittaker module. Since the Whittaker category contains the BGG category as a full subcategory, our results generalize results of Arakawa-Suzuki [1], which in turn generalize Schur-Weyl duality between finite-dimensional representations of and representations of the symmetric group .","lang":"eng"}],"publication_identifier":{"issn":["0021-8693"]},"title":"Arakawa-Suzuki functors for Whittaker modules","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"_id":"6828","quality_controlled":"1"},{"status":"public","year":"2019","day":"22","_id":"9803","title":"Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"id":"33AB266C-F248-11E8-B48F-1D18A9856A87","last_name":"Puixeu Sala","first_name":"Gemma","full_name":"Puixeu Sala, Gemma","orcid":"0000-0001-8330-1754"},{"orcid":"0000-0001-6118-0541","first_name":"Melinda","full_name":"Pickup, Melinda","id":"2C78037E-F248-11E8-B48F-1D18A9856A87","last_name":"Pickup"},{"first_name":"David","full_name":"Field, David","last_name":"Field"},{"last_name":"Barrett","first_name":"Spencer C.H.","full_name":"Barrett, Spencer C.H."}],"department":[{"_id":"NiBa"},{"_id":"BeVi"}],"related_material":{"record":[{"id":"14058","status":"public","relation":"used_in_publication"},{"id":"6831","status":"public","relation":"used_in_publication"}]},"oa":1,"type":"research_data_reference","doi":"10.5061/dryad.n1701c9","abstract":[{"lang":"eng","text":"Understanding the mechanisms causing phenotypic differences between females and males has long fascinated evolutionary biologists. An extensive literature exists on animal sexual dimorphism but less is known about sex differences in plants, particularly the extent of geographical variation in sexual dimorphism and its life-cycle dynamics. Here, we investigate patterns of genetically-based sexual dimorphism in vegetative and reproductive traits of a wind-pollinated dioecious plant, Rumex hastatulus, across three life-cycle stages using open-pollinated families from 30 populations spanning the geographic range and chromosomal variation (XY and XY1Y2) of the species. The direction and degree of sexual dimorphism was highly variable among populations and life-cycle stages. Sex-specific differences in reproductive function explained a significant amount of temporal change in sexual dimorphism. For several traits, geographical variation in sexual dimorphism was associated with bioclimatic parameters, likely due to the differential responses of the sexes to climate. We found no systematic differences in sexual dimorphism between chromosome races. Sex-specific trait differences in dioecious plants largely result from a balance between sexual and natural selection on resource allocation. Our results indicate that abiotic factors associated with geographical context also play a role in modifying sexual dimorphism during the plant life cycle."}],"article_processing_charge":"No","main_file_link":[{"url":"https://doi.org/10.5061/dryad.n1701c9","open_access":"1"}],"date_updated":"2023-08-29T07:17:07Z","citation":{"chicago":"Puixeu Sala, Gemma, Melinda Pickup, David Field, and Spencer C.H. Barrett. “Data from: Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” Dryad, 2019. https://doi.org/10.5061/dryad.n1701c9.","ama":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics. 2019. doi:10.5061/dryad.n1701c9","apa":"Puixeu Sala, G., Pickup, M., Field, D., & Barrett, S. C. H. (2019). Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics. Dryad. https://doi.org/10.5061/dryad.n1701c9","short":"G. Puixeu Sala, M. Pickup, D. Field, S.C.H. Barrett, (2019).","mla":"Puixeu Sala, Gemma, et al. Data from: Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics. Dryad, 2019, doi:10.5061/dryad.n1701c9.","ieee":"G. Puixeu Sala, M. Pickup, D. Field, and S. C. H. Barrett, “Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics.” Dryad, 2019.","ista":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. 2019. Data from: Variation in sexual dimorphism in a wind-pollinated plant: the influence of geographical context and life-cycle dynamics, Dryad, 10.5061/dryad.n1701c9."},"date_published":"2019-07-22T00:00:00Z","oa_version":"Published Version","date_created":"2021-08-06T11:48:42Z","month":"07","publisher":"Dryad"},{"article_type":"letter_note","has_accepted_license":"1","status":"public","year":"2019","day":"22","language":[{"iso":"eng"}],"volume":572,"department":[{"_id":"KrCh"}],"author":[{"full_name":"Hauser, Oliver P.","first_name":"Oliver P.","last_name":"Hauser"},{"id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","last_name":"Hilbe","orcid":"0000-0001-5116-955X","first_name":"Christian","full_name":"Hilbe, Christian"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Nowak, Martin A.","first_name":"Martin A.","last_name":"Nowak"}],"doi":"10.1038/s41586-019-1488-5","type":"journal_article","article_processing_charge":"No","publication_status":"published","page":"524-527","citation":{"mla":"Hauser, Oliver P., et al. “Social Dilemmas among Unequals.” Nature, vol. 572, no. 7770, Springer Nature, 2019, pp. 524–27, doi:10.1038/s41586-019-1488-5.","ista":"Hauser OP, Hilbe C, Chatterjee K, Nowak MA. 2019. Social dilemmas among unequals. Nature. 572(7770), 524–527.","ieee":"O. P. Hauser, C. Hilbe, K. Chatterjee, and M. A. Nowak, “Social dilemmas among unequals,” Nature, vol. 572, no. 7770. Springer Nature, pp. 524–527, 2019.","chicago":"Hauser, Oliver P., Christian Hilbe, Krishnendu Chatterjee, and Martin A. Nowak. “Social Dilemmas among Unequals.” Nature. Springer Nature, 2019. https://doi.org/10.1038/s41586-019-1488-5.","apa":"Hauser, O. P., Hilbe, C., Chatterjee, K., & Nowak, M. A. (2019). Social dilemmas among unequals. Nature. Springer Nature. https://doi.org/10.1038/s41586-019-1488-5","ama":"Hauser OP, Hilbe C, Chatterjee K, Nowak MA. Social dilemmas among unequals. Nature. 2019;572(7770):524-527. doi:10.1038/s41586-019-1488-5","short":"O.P. Hauser, C. Hilbe, K. Chatterjee, M.A. Nowak, Nature 572 (2019) 524–527."},"date_published":"2019-08-22T00:00:00Z","publication":"Nature","scopus_import":"1","oa_version":"Submitted Version","intvolume":" 572","month":"08","file_date_updated":"2020-07-14T12:47:42Z","quality_controlled":"1","_id":"6836","isi":1,"file":[{"file_name":"2019_Nature_Hauser.pdf","access_level":"open_access","content_type":"application/pdf","date_created":"2020-05-14T10:00:32Z","checksum":"a6e0e3168bf62de624e7772cdfaeb26f","file_size":18577756,"date_updated":"2020-07-14T12:47:42Z","relation":"main_file","creator":"dernst","file_id":"7828"}],"title":"Social dilemmas among unequals","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ec_funded":1,"ddc":["000"],"abstract":[{"text":"Direct reciprocity is a powerful mechanism for the evolution of cooperation on the basis of repeated interactions1,2,3,4. It requires that interacting individuals are sufficiently equal, such that everyone faces similar consequences when they cooperate or defect. Yet inequality is ubiquitous among humans5,6 and is generally considered to undermine cooperation and welfare7,8,9,10. Most previous models of reciprocity do not include inequality11,12,13,14,15. These models assume that individuals are the same in all relevant aspects. Here we introduce a general framework to study direct reciprocity among unequal individuals. Our model allows for multiple sources of inequality. Subjects can differ in their endowments, their productivities and in how much they benefit from public goods. We find that extreme inequality prevents cooperation. But if subjects differ in productivity, some endowment inequality can be necessary for cooperation to prevail. Our mathematical predictions are supported by a behavioural experiment in which we vary the endowments and productivities of the subjects. We observe that overall welfare is maximized when the two sources of heterogeneity are aligned, such that more productive individuals receive higher endowments. By contrast, when endowments and productivities are misaligned, cooperation quickly breaks down. Our findings have implications for policy-makers concerned with equity, efficiency and the provisioning of public goods.","lang":"eng"}],"publication_identifier":{"issn":["00280836"],"eissn":["14764687"]},"related_material":{"link":[{"url":"https://ist.ac.at/en/news/too-much-inequality-impedes-support-for-public-goods-according-to-research-published-in-nature/","description":"News on IST Homepage","relation":"press_release"}]},"issue":"7770","oa":1,"project":[{"call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications"},{"grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"}],"date_created":"2019-09-01T22:00:56Z","publisher":"Springer Nature","date_updated":"2023-08-29T07:42:54Z","external_id":{"isi":["000482219600045"]}},{"page":"686-696","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"},"publication_status":"published","doi":"10.1111/joa.13001","type":"journal_article","article_processing_charge":"No","publication":"Journal of Anatomy","date_published":"2019-09-01T00:00:00Z","citation":{"short":"N. Picco, S. Hippenmeyer, J. Rodarte, C. Streicher, Z. Molnár, P.K. Maini, T.E. Woolley, Journal of Anatomy 235 (2019) 686–696.","ama":"Picco N, Hippenmeyer S, Rodarte J, et al. A mathematical insight into cell labelling experiments for clonal analysis. Journal of Anatomy. 2019;235(3):686-696. doi:10.1111/joa.13001","apa":"Picco, N., Hippenmeyer, S., Rodarte, J., Streicher, C., Molnár, Z., Maini, P. K., & Woolley, T. E. (2019). A mathematical insight into cell labelling experiments for clonal analysis. Journal of Anatomy. Wiley. https://doi.org/10.1111/joa.13001","chicago":"Picco, Noemi, Simon Hippenmeyer, Julio Rodarte, Carmen Streicher, Zoltán Molnár, Philip K. Maini, and Thomas E. Woolley. “A Mathematical Insight into Cell Labelling Experiments for Clonal Analysis.” Journal of Anatomy. Wiley, 2019. https://doi.org/10.1111/joa.13001.","mla":"Picco, Noemi, et al. “A Mathematical Insight into Cell Labelling Experiments for Clonal Analysis.” Journal of Anatomy, vol. 235, no. 3, Wiley, 2019, pp. 686–96, doi:10.1111/joa.13001.","ieee":"N. Picco et al., “A mathematical insight into cell labelling experiments for clonal analysis,” Journal of Anatomy, vol. 235, no. 3. Wiley, pp. 686–696, 2019.","ista":"Picco N, Hippenmeyer S, Rodarte J, Streicher C, Molnár Z, Maini PK, Woolley TE. 2019. A mathematical insight into cell labelling experiments for clonal analysis. Journal of Anatomy. 235(3), 686–696."},"intvolume":" 235","file_date_updated":"2020-07-14T12:47:42Z","month":"09","scopus_import":"1","oa_version":"Published Version","year":"2019","day":"01","language":[{"iso":"eng"}],"status":"public","article_type":"original","has_accepted_license":"1","author":[{"first_name":"Noemi","full_name":"Picco, Noemi","last_name":"Picco"},{"id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","first_name":"Simon","full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061"},{"first_name":"Julio","full_name":"Rodarte, Julio","id":"3C70A038-F248-11E8-B48F-1D18A9856A87","last_name":"Rodarte"},{"last_name":"Streicher","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","full_name":"Streicher, Carmen","first_name":"Carmen"},{"first_name":"Zoltán","full_name":"Molnár, Zoltán","last_name":"Molnár"},{"last_name":"Maini","full_name":"Maini, Philip K.","first_name":"Philip K."},{"last_name":"Woolley","first_name":"Thomas E.","full_name":"Woolley, Thomas E."}],"volume":235,"department":[{"_id":"SiHi"}],"issue":"3","project":[{"call_identifier":"H2020","_id":"260018B0-B435-11E9-9278-68D0E5697425","grant_number":"725780","name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development"}],"oa":1,"ddc":["570"],"abstract":[{"text":"Studying the progression of the proliferative and differentiative patterns of neural stem cells at the individual cell level is crucial to the understanding of cortex development and how the disruption of such patterns can lead to malformations and neurodevelopmental diseases. However, our understanding of the precise lineage progression programme at single-cell resolution is still incomplete due to the technical variations in lineage- tracing approaches. One of the key challenges involves developing a robust theoretical framework in which we can integrate experimental observations and introduce correction factors to obtain a reliable and representative description of the temporal modulation of proliferation and differentiation. In order to obtain more conclusive insights, we carry out virtual clonal analysis using mathematical modelling and compare our results against experimental data. Using a dataset obtained with Mosaic Analysis with Double Markers, we illustrate how the theoretical description can be exploited to interpret and reconcile the disparity between virtual and experimental results.","lang":"eng"}],"ec_funded":1,"publication_identifier":{"issn":["0021-8782"],"eissn":["1469-7580"]},"external_id":{"isi":["000482426800017"]},"date_updated":"2023-08-29T07:19:39Z","publisher":"Wiley","date_created":"2019-09-02T11:57:28Z","_id":"6844","quality_controlled":"1","title":"A mathematical insight into cell labelling experiments for clonal analysis","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"file_name":"2019_JournalAnatomy_Picco.pdf","access_level":"open_access","content_type":"application/pdf","file_size":1192994,"date_created":"2019-09-02T12:05:18Z","checksum":"160f960844b204057f20896e0e1f8ee7","relation":"main_file","date_updated":"2020-07-14T12:47:42Z","file_id":"6845","creator":"dernst"}],"isi":1},{"publication_status":"published","page":"461-493","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","type":"journal_article","doi":"10.1146/annurev-genom-083115-022316","scopus_import":"1","oa_version":"Published Version","month":"07","file_date_updated":"2020-07-14T12:47:42Z","intvolume":" 20","citation":{"ista":"Sella G, Barton NH. 2019. Thinking about the evolution of complex traits in the era of genome-wide association studies. Annual Review of Genomics and Human Genetics. 20, 461–493.","mla":"Sella, Guy, and Nicholas H. Barton. “Thinking about the Evolution of Complex Traits in the Era of Genome-Wide Association Studies.” Annual Review of Genomics and Human Genetics, vol. 20, Annual Reviews, 2019, pp. 461–93, doi:10.1146/annurev-genom-083115-022316.","ieee":"G. Sella and N. H. Barton, “Thinking about the evolution of complex traits in the era of genome-wide association studies,” Annual Review of Genomics and Human Genetics, vol. 20. Annual Reviews, pp. 461–493, 2019.","short":"G. Sella, N.H. Barton, Annual Review of Genomics and Human Genetics 20 (2019) 461–493.","apa":"Sella, G., & Barton, N. H. (2019). Thinking about the evolution of complex traits in the era of genome-wide association studies. Annual Review of Genomics and Human Genetics. Annual Reviews. https://doi.org/10.1146/annurev-genom-083115-022316","ama":"Sella G, Barton NH. Thinking about the evolution of complex traits in the era of genome-wide association studies. Annual Review of Genomics and Human Genetics. 2019;20:461-493. doi:10.1146/annurev-genom-083115-022316","chicago":"Sella, Guy, and Nicholas H Barton. “Thinking about the Evolution of Complex Traits in the Era of Genome-Wide Association Studies.” Annual Review of Genomics and Human Genetics. Annual Reviews, 2019. https://doi.org/10.1146/annurev-genom-083115-022316."},"publication":"Annual Review of Genomics and Human Genetics","date_published":"2019-07-05T00:00:00Z","status":"public","language":[{"iso":"eng"}],"day":"05","year":"2019","has_accepted_license":"1","author":[{"first_name":"Guy","full_name":"Sella, Guy","last_name":"Sella"},{"full_name":"Barton, Nicholas H","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"pmid":1,"department":[{"_id":"NiBa"}],"volume":20,"oa":1,"publication_identifier":{"eissn":["1545-293X"],"issn":["1527-8204"]},"ddc":["576"],"abstract":[{"lang":"eng","text":"Many traits of interest are highly heritable and genetically complex, meaning that much of the variation they exhibit arises from differences at numerous loci in the genome. Complex traits and their evolution have been studied for more than a century, but only in the last decade have genome-wide association studies (GWASs) in humans begun to reveal their genetic basis. Here, we bring these threads of research together to ask how findings from GWASs can further our understanding of the processes that give rise to heritable variation in complex traits and of the genetic basis of complex trait evolution in response to changing selection pressures (i.e., of polygenic adaptation). Conversely, we ask how evolutionary thinking helps us to interpret findings from GWASs and informs related efforts of practical importance."}],"date_updated":"2023-08-29T07:49:38Z","external_id":{"isi":["000485148400020"],"pmid":["31283361"]},"date_created":"2019-09-07T14:28:29Z","publisher":"Annual Reviews","_id":"6855","quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Thinking about the evolution of complex traits in the era of genome-wide association studies","isi":1,"file":[{"checksum":"23d3978cf4739a89ce2c3e779f9305ca","date_created":"2019-09-09T07:22:12Z","file_size":411491,"creator":"dernst","file_id":"6862","date_updated":"2020-07-14T12:47:42Z","relation":"main_file","file_name":"2019_AnnualReview_Sella.pdf","content_type":"application/pdf","access_level":"open_access"}]},{"intvolume":" 2019","month":"06","scopus_import":"1","oa_version":"Preprint","publication":"Journal of Statistical Mechanics: Theory and Experiment","date_published":"2019-06-13T00:00:00Z","citation":{"chicago":"Mysliwy, Krzysztof, and Marek Napiórkowski. “Thermodynamics of Inhomogeneous Imperfect Quantum Gases in Harmonic Traps.” Journal of Statistical Mechanics: Theory and Experiment. IOP Publishing, 2019. https://doi.org/10.1088/1742-5468/ab190d.","short":"K. Mysliwy, M. Napiórkowski, Journal of Statistical Mechanics: Theory and Experiment 2019 (2019).","ama":"Mysliwy K, Napiórkowski M. Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps. Journal of Statistical Mechanics: Theory and Experiment. 2019;2019(6). doi:10.1088/1742-5468/ab190d","apa":"Mysliwy, K., & Napiórkowski, M. (2019). Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps. Journal of Statistical Mechanics: Theory and Experiment. IOP Publishing. https://doi.org/10.1088/1742-5468/ab190d","mla":"Mysliwy, Krzysztof, and Marek Napiórkowski. “Thermodynamics of Inhomogeneous Imperfect Quantum Gases in Harmonic Traps.” Journal of Statistical Mechanics: Theory and Experiment, vol. 2019, no. 6, 063101, IOP Publishing, 2019, doi:10.1088/1742-5468/ab190d.","ieee":"K. Mysliwy and M. Napiórkowski, “Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps,” Journal of Statistical Mechanics: Theory and Experiment, vol. 2019, no. 6. IOP Publishing, 2019.","ista":"Mysliwy K, Napiórkowski M. 2019. Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps. Journal of Statistical Mechanics: Theory and Experiment. 2019(6), 063101."},"article_processing_charge":"No","type":"journal_article","doi":"10.1088/1742-5468/ab190d","publication_status":"published","department":[{"_id":"RoSe"}],"volume":2019,"author":[{"first_name":"Krzysztof","full_name":"Mysliwy, Krzysztof","id":"316457FC-F248-11E8-B48F-1D18A9856A87","last_name":"Mysliwy"},{"first_name":"Marek","full_name":"Napiórkowski, Marek","last_name":"Napiórkowski"}],"article_number":"063101","language":[{"iso":"eng"}],"day":"13","year":"2019","status":"public","publisher":"IOP Publishing","date_created":"2019-09-01T22:00:59Z","external_id":{"isi":["000471650100001"],"arxiv":["1810.02209"]},"date_updated":"2023-08-29T07:19:13Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1810.02209"}],"publication_identifier":{"eissn":["1742-5468"]},"abstract":[{"lang":"eng","text":"We discuss thermodynamic properties of harmonically trapped\r\nimperfect quantum gases. The spatial inhomogeneity of these systems imposes\r\na redefinition of the mean-field interparticle potential energy as compared\r\nto the homogeneous case. In our approach, it takes the form a\r\n2N2 ωd, where\r\nN is the number of particles, ω—the harmonic trap frequency, d—system’s\r\ndimensionality, and a is a parameter characterizing the interparticle interaction.\r\nWe provide arguments that this model corresponds to the limiting case of\r\na long-ranged interparticle potential of vanishingly small amplitude. This\r\nconclusion is drawn from a computation similar to the well-known Kac scaling\r\nprocedure, which is presented here in a form adapted to the case of an isotropic\r\nharmonic trap. We show that within the model, the imperfect gas of trapped\r\nrepulsive bosons undergoes the Bose–Einstein condensation provided d > 1.\r\nThe main result of our analysis is that in d = 1 the gas of attractive imperfect\r\nfermions with a = −aF < 0 is thermodynamically equivalent to the gas of\r\nrepulsive bosons with a = aB > 0 provided the parameters aF and aB fulfill\r\nthe relation aB + aF = \u001f. This result supplements similar recent conclusion\r\nabout thermodynamic equivalence of two-dimensional (2D) uniform imperfect\r\nrepulsive Bose and attractive Fermi gases."}],"ec_funded":1,"oa":1,"project":[{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"issue":"6","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Thermodynamics of inhomogeneous imperfect quantum gases in harmonic traps","quality_controlled":"1","_id":"6840"},{"year":"2019","language":[{"iso":"eng"}],"day":"15","status":"public","article_type":"original","article_number":"123435","author":[{"first_name":"György Pál","full_name":"Gehér, György Pál","last_name":"Gehér"},{"last_name":"Titkos","full_name":"Titkos, Tamás","first_name":"Tamás"},{"last_name":"Virosztek","id":"48DB45DA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1109-5511","full_name":"Virosztek, Daniel","first_name":"Daniel"}],"volume":480,"department":[{"_id":"LaEr"}],"publication_status":"published","type":"journal_article","doi":"10.1016/j.jmaa.2019.123435","article_processing_charge":"No","date_published":"2019-12-15T00:00:00Z","publication":"Journal of Mathematical Analysis and Applications","citation":{"chicago":"Gehér, György Pál, Tamás Titkos, and Daniel Virosztek. “On Isometric Embeddings of Wasserstein Spaces – the Discrete Case.” Journal of Mathematical Analysis and Applications. Elsevier, 2019. https://doi.org/10.1016/j.jmaa.2019.123435.","apa":"Gehér, G. P., Titkos, T., & Virosztek, D. (2019). On isometric embeddings of Wasserstein spaces – the discrete case. Journal of Mathematical Analysis and Applications. Elsevier. https://doi.org/10.1016/j.jmaa.2019.123435","ama":"Gehér GP, Titkos T, Virosztek D. On isometric embeddings of Wasserstein spaces – the discrete case. Journal of Mathematical Analysis and Applications. 2019;480(2). doi:10.1016/j.jmaa.2019.123435","short":"G.P. Gehér, T. Titkos, D. Virosztek, Journal of Mathematical Analysis and Applications 480 (2019).","ista":"Gehér GP, Titkos T, Virosztek D. 2019. On isometric embeddings of Wasserstein spaces – the discrete case. Journal of Mathematical Analysis and Applications. 480(2), 123435.","ieee":"G. P. Gehér, T. Titkos, and D. Virosztek, “On isometric embeddings of Wasserstein spaces – the discrete case,” Journal of Mathematical Analysis and Applications, vol. 480, no. 2. Elsevier, 2019.","mla":"Gehér, György Pál, et al. “On Isometric Embeddings of Wasserstein Spaces – the Discrete Case.” Journal of Mathematical Analysis and Applications, vol. 480, no. 2, 123435, Elsevier, 2019, doi:10.1016/j.jmaa.2019.123435."},"month":"12","intvolume":" 480","scopus_import":"1","oa_version":"Preprint","_id":"6843","quality_controlled":"1","title":"On isometric embeddings of Wasserstein spaces – the discrete case","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"issue":"2","oa":1,"project":[{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","grant_number":"291734"}],"abstract":[{"text":"The aim of this short paper is to offer a complete characterization of all (not necessarily surjective) isometric embeddings of the Wasserstein space Wp(X), where S is a countable discrete metric space and 0
Bulletin des Sciences Mathematiques, vol. 156, no. 11. Elsevier, 2019.","mla":"Destagnol, Kevin N., and Efthymios Sofos. “Rational Points and Prime Values of Polynomials in Moderately Many Variables.” Bulletin Des Sciences Mathematiques, vol. 156, no. 11, 102794, Elsevier, 2019, doi:10.1016/j.bulsci.2019.102794.","short":"K.N. Destagnol, E. Sofos, Bulletin Des Sciences Mathematiques 156 (2019).","ama":"Destagnol KN, Sofos E. Rational points and prime values of polynomials in moderately many variables. Bulletin des Sciences Mathematiques. 2019;156(11). doi:10.1016/j.bulsci.2019.102794","apa":"Destagnol, K. N., & Sofos, E. (2019). Rational points and prime values of polynomials in moderately many variables. Bulletin Des Sciences Mathematiques. Elsevier. https://doi.org/10.1016/j.bulsci.2019.102794","chicago":"Destagnol, Kevin N, and Efthymios Sofos. “Rational Points and Prime Values of Polynomials in Moderately Many Variables.” Bulletin Des Sciences Mathematiques. Elsevier, 2019. https://doi.org/10.1016/j.bulsci.2019.102794."},"article_type":"original","day":"01","year":"2019","language":[{"iso":"eng"}],"status":"public","department":[{"_id":"TiBr"}],"volume":156,"author":[{"full_name":"Destagnol, Kevin N","first_name":"Kevin N","last_name":"Destagnol","id":"44DDECBC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Sofos","full_name":"Sofos, Efthymios","first_name":"Efthymios"}],"article_number":"102794"},{"scopus_import":"1","oa_version":"None","month":"08","intvolume":" 21","citation":{"ieee":"S. Tavano and C.-P. J. Heisenberg, “Migrasomes take center stage,” Nature Cell Biology, vol. 21, no. 8. Springer Nature, pp. 918–920, 2019.","mla":"Tavano, Ste, and Carl-Philipp J. Heisenberg. “Migrasomes Take Center Stage.” Nature Cell Biology, vol. 21, no. 8, Springer Nature, 2019, pp. 918–20, doi:10.1038/s41556-019-0369-3.","ista":"Tavano S, Heisenberg C-PJ. 2019. Migrasomes take center stage. Nature Cell Biology. 21(8), 918–920.","apa":"Tavano, S., & Heisenberg, C.-P. J. (2019). Migrasomes take center stage. Nature Cell Biology. Springer Nature. https://doi.org/10.1038/s41556-019-0369-3","ama":"Tavano S, Heisenberg C-PJ. Migrasomes take center stage. Nature Cell Biology. 2019;21(8):918-920. doi:10.1038/s41556-019-0369-3","short":"S. Tavano, C.-P.J. Heisenberg, Nature Cell Biology 21 (2019) 918–920.","chicago":"Tavano, Ste, and Carl-Philipp J Heisenberg. “Migrasomes Take Center Stage.” Nature Cell Biology. Springer Nature, 2019. https://doi.org/10.1038/s41556-019-0369-3."},"publication":"Nature Cell Biology","date_published":"2019-08-01T00:00:00Z","publication_status":"published","page":"918-920","article_processing_charge":"No","type":"journal_article","doi":"10.1038/s41556-019-0369-3","author":[{"full_name":"Tavano, Ste","first_name":"Ste","orcid":"0000-0001-9970-7804","last_name":"Tavano","id":"2F162F0C-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"pmid":1,"department":[{"_id":"CaHe"}],"volume":21,"status":"public","day":"01","language":[{"iso":"eng"}],"year":"2019","date_updated":"2023-08-29T07:42:20Z","external_id":{"isi":["000478029000003"],"pmid":["31371826"]},"date_created":"2019-09-01T22:00:57Z","publisher":"Springer Nature","issue":"8","publication_identifier":{"eissn":["1476-4679"]},"abstract":[{"lang":"eng","text":"Migrasomes are a recently discovered type of extracellular vesicles that are characteristically generated along retraction fibers in migrating cells. Two studies now show how migrasomes are formed and how they function in the physiologically relevant context of the developing zebrafish embryo."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Migrasomes take center stage","isi":1,"_id":"6837","quality_controlled":"1"},{"has_accepted_license":"1","status":"public","year":"2019","language":[{"iso":"eng"}],"day":"02","volume":9,"department":[{"_id":"Bio"}],"pmid":1,"article_number":"12625","author":[{"first_name":"M.","full_name":"Fenu, M.","last_name":"Fenu"},{"last_name":"Bettermann","first_name":"T.","full_name":"Bettermann, T."},{"last_name":"Vogl","full_name":"Vogl, C.","first_name":"C."},{"first_name":"Nasser","full_name":"Darwish-Miranda, Nasser","orcid":"0000-0002-8821-8236","id":"39CD9926-F248-11E8-B48F-1D18A9856A87","last_name":"Darwish-Miranda"},{"first_name":"J.","full_name":"Schramel, J.","last_name":"Schramel"},{"first_name":"F.","full_name":"Jenner, F.","last_name":"Jenner"},{"last_name":"Ribitsch","full_name":"Ribitsch, I.","first_name":"I."}],"doi":"10.1038/s41598-019-48930-7","type":"journal_article","article_processing_charge":"No","publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"citation":{"short":"M. Fenu, T. Bettermann, C. Vogl, N. Darwish-Miranda, J. Schramel, F. Jenner, I. Ribitsch, Scientific Reports 9 (2019).","apa":"Fenu, M., Bettermann, T., Vogl, C., Darwish-Miranda, N., Schramel, J., Jenner, F., & Ribitsch, I. (2019). A novel magnet-based scratch method for standardisation of wound-healing assays. Scientific Reports. Springer Nature. https://doi.org/10.1038/s41598-019-48930-7","ama":"Fenu M, Bettermann T, Vogl C, et al. A novel magnet-based scratch method for standardisation of wound-healing assays. Scientific Reports. 2019;9(1). doi:10.1038/s41598-019-48930-7","chicago":"Fenu, M., T. Bettermann, C. Vogl, Nasser Darwish-Miranda, J. Schramel, F. Jenner, and I. Ribitsch. “A Novel Magnet-Based Scratch Method for Standardisation of Wound-Healing Assays.” Scientific Reports. Springer Nature, 2019. https://doi.org/10.1038/s41598-019-48930-7.","ieee":"M. Fenu et al., “A novel magnet-based scratch method for standardisation of wound-healing assays,” Scientific Reports, vol. 9, no. 1. Springer Nature, 2019.","mla":"Fenu, M., et al. “A Novel Magnet-Based Scratch Method for Standardisation of Wound-Healing Assays.” Scientific Reports, vol. 9, no. 1, 12625, Springer Nature, 2019, doi:10.1038/s41598-019-48930-7.","ista":"Fenu M, Bettermann T, Vogl C, Darwish-Miranda N, Schramel J, Jenner F, Ribitsch I. 2019. A novel magnet-based scratch method for standardisation of wound-healing assays. Scientific Reports. 9(1), 12625."},"date_published":"2019-09-02T00:00:00Z","publication":"Scientific Reports","oa_version":"Published Version","scopus_import":"1","file_date_updated":"2020-07-14T12:47:42Z","intvolume":" 9","month":"09","quality_controlled":"1","_id":"6867","isi":1,"file":[{"checksum":"9cfd986d4108e288cc72276ef047ab0c","date_created":"2019-09-16T12:42:40Z","file_size":3523795,"creator":"dernst","file_id":"6879","date_updated":"2020-07-14T12:47:42Z","relation":"main_file","file_name":"2019_ScientificReports_Fenu.pdf","content_type":"application/pdf","access_level":"open_access"}],"title":"A novel magnet-based scratch method for standardisation of wound-healing assays","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ddc":["570"],"abstract":[{"lang":"eng","text":"A novel magnetic scratch method achieves repeatability, reproducibility and geometric control greater than pipette scratch assays and closely approximating the precision of cell exclusion assays while inducing the cell injury inherently necessary for wound healing assays. The magnetic scratch is affordable, easily implemented and standardisable and thus may contribute toward better comparability of data generated in different studies and laboratories."}],"publication_identifier":{"eissn":["20452322"]},"issue":"1","oa":1,"date_created":"2019-09-15T22:00:42Z","publisher":"Springer Nature","date_updated":"2023-08-29T07:55:15Z","external_id":{"isi":["000483697800007"],"pmid":["31477739"]}},{"status":"public","language":[{"iso":"eng"}],"year":"2019","day":"23","article_number":"eaaw9144","author":[{"first_name":"Long","full_name":"Zhou, Long","orcid":"0000-0002-1864-8951","id":"3E751364-F248-11E8-B48F-1D18A9856A87","last_name":"Zhou"},{"last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","full_name":"Sazanov, Leonid A","first_name":"Leonid A"}],"volume":365,"department":[{"_id":"LeSa"}],"pmid":1,"publication_status":"published","acknowledged_ssus":[{"_id":"ScienComp"}],"doi":"10.1126/science.aaw9144","type":"journal_article","article_processing_charge":"No","citation":{"short":"L. Zhou, L.A. Sazanov, Science 365 (2019).","ama":"Zhou L, Sazanov LA. Structure and conformational plasticity of the intact Thermus thermophilus V/A-type ATPase. Science. 2019;365(6455). doi:10.1126/science.aaw9144","apa":"Zhou, L., & Sazanov, L. A. (2019). Structure and conformational plasticity of the intact Thermus thermophilus V/A-type ATPase. Science. AAAS. https://doi.org/10.1126/science.aaw9144","chicago":"Zhou, Long, and Leonid A Sazanov. “Structure and Conformational Plasticity of the Intact Thermus Thermophilus V/A-Type ATPase.” Science. AAAS, 2019. https://doi.org/10.1126/science.aaw9144.","ieee":"L. Zhou and L. A. Sazanov, “Structure and conformational plasticity of the intact Thermus thermophilus V/A-type ATPase,” Science, vol. 365, no. 6455. AAAS, 2019.","ista":"Zhou L, Sazanov LA. 2019. Structure and conformational plasticity of the intact Thermus thermophilus V/A-type ATPase. Science. 365(6455), eaaw9144.","mla":"Zhou, Long, and Leonid A. Sazanov. “Structure and Conformational Plasticity of the Intact Thermus Thermophilus V/A-Type ATPase.” Science, vol. 365, no. 6455, eaaw9144, AAAS, 2019, doi:10.1126/science.aaw9144."},"date_published":"2019-08-23T00:00:00Z","publication":"Science","scopus_import":"1","oa_version":"None","month":"08","intvolume":" 365","_id":"6859","quality_controlled":"1","title":"Structure and conformational plasticity of the intact Thermus thermophilus V/A-type ATPase","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"related_material":{"link":[{"relation":"press_release","description":"News on IST Website","url":"https://ist.ac.at/en/news/structure-of-protein-nano-turbine-revealed/"}]},"issue":"6455","abstract":[{"text":"V (vacuolar)/A (archaeal)-type adenosine triphosphatases (ATPases), found in archaeaand eubacteria, couple ATP hydrolysis or synthesis to proton translocation across theplasma membrane using the rotary-catalysis mechanism. They belong to the V-typeATPase family, which differs from the mitochondrial/chloroplast F-type ATP synthasesin overall architecture. We solved cryo–electron microscopy structures of the intactThermus thermophilusV/A-ATPase, reconstituted into lipid nanodiscs, in three rotationalstates and two substates. These structures indicate substantial flexibility betweenV1and Voin a working enzyme, which results from mechanical competition between centralshaft rotation and resistance from the peripheral stalks. We also describedetails of adenosine diphosphate inhibition release, V1-Votorque transmission, andproton translocation, which are relevant for the entire V-type ATPase family.","lang":"eng"}],"publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"date_updated":"2023-08-29T07:52:02Z","external_id":{"isi":["000482464000043"],"pmid":["31439765"]},"date_created":"2019-09-07T19:04:45Z","publisher":"AAAS"},{"scopus_import":"1","oa_version":"Published Version","month":"03","file_date_updated":"2020-10-02T09:16:44Z","intvolume":" 6","citation":{"chicago":"Barton, Nicholas H. “Is Speciation Driven by Cycles of Mixing and Isolation?” National Science Review. Oxford University Press, 2019. https://doi.org/10.1093/nsr/nwy113.","short":"N.H. Barton, National Science Review 6 (2019) 291–292.","ama":"Barton NH. Is speciation driven by cycles of mixing and isolation? National Science Review. 2019;6(2):291-292. doi:10.1093/nsr/nwy113","apa":"Barton, N. H. (2019). Is speciation driven by cycles of mixing and isolation? National Science Review. Oxford University Press. https://doi.org/10.1093/nsr/nwy113","ieee":"N. H. Barton, “Is speciation driven by cycles of mixing and isolation?,” National Science Review, vol. 6, no. 2. Oxford University Press, pp. 291–292, 2019.","mla":"Barton, Nicholas H. “Is Speciation Driven by Cycles of Mixing and Isolation?” National Science Review, vol. 6, no. 2, Oxford University Press, 2019, pp. 291–92, doi:10.1093/nsr/nwy113.","ista":"Barton NH. 2019. Is speciation driven by cycles of mixing and isolation? National Science Review. 6(2), 291–292."},"date_published":"2019-03-01T00:00:00Z","publication":"National Science Review","publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"page":"291-292","article_processing_charge":"No","type":"journal_article","doi":"10.1093/nsr/nwy113","author":[{"last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","first_name":"Nicholas H"}],"department":[{"_id":"NiBa"}],"volume":6,"status":"public","day":"01","language":[{"iso":"eng"}],"year":"2019","has_accepted_license":"1","article_type":"review","date_updated":"2023-08-29T07:51:09Z","external_id":{"isi":["000467957400025"]},"date_created":"2019-09-07T14:43:02Z","publisher":"Oxford University Press","oa":1,"issue":"2","publication_identifier":{"issn":["2095-5138"],"eissn":["2053-714X"]},"ddc":["570"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Is speciation driven by cycles of mixing and isolation?","isi":1,"file":[{"file_name":"2019_NSR_Barton.pdf","content_type":"application/pdf","success":1,"access_level":"open_access","file_size":106463,"checksum":"571d60fa21a568607d1fd04e119da88c","date_created":"2020-10-02T09:16:44Z","file_id":"8595","creator":"dernst","relation":"main_file","date_updated":"2020-10-02T09:16:44Z"}],"_id":"6858","quality_controlled":"1"},{"file":[{"file_name":"2019_eLife_Byczkowicz.pdf","content_type":"application/pdf","access_level":"open_access","file_size":4008137,"date_created":"2019-09-16T13:14:33Z","checksum":"c350b7861ef0fb537cae8a3232aec016","file_id":"6880","creator":"dernst","relation":"main_file","date_updated":"2020-07-14T12:47:42Z"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"HCN channel-mediated neuromodulation can control action potential velocity and fidelity in central axons","quality_controlled":"1","_id":"6868","publisher":"eLife Sciences Publications","date_created":"2019-09-15T22:00:43Z","external_id":{"isi":["000485663900001"]},"date_updated":"2023-08-30T06:17:06Z","publication_identifier":{"eissn":["2050084X"]},"ddc":["570"],"abstract":[{"text":"Hyperpolarization-activated cyclic-nucleotide-gated (HCN) channels control electrical rhythmicity and excitability in the heart and brain, but the function of HCN channels at the subcellular level in axons remains poorly understood. Here, we show that the action potential conduction velocity in both myelinated and unmyelinated central axons can be bidirectionally modulated by a HCN channel blocker, cyclic adenosine monophosphate (cAMP), and neuromodulators. Recordings from mouse cerebellar mossy fiber boutons show that HCN channels ensure reliable high-frequency firing and are strongly modulated by cAMP (EC50 40 mM; estimated endogenous cAMP concentration 13 mM). In addition, immunogold-electron microscopy revealed HCN2 as the dominating subunit in cerebellar mossy fibers. Computational modeling indicated that HCN2 channels control conduction velocity primarily by altering the resting membrane potential\r\nand are associated with significant metabolic costs. These results suggest that the cAMP-HCN pathway provides neuromodulators with an opportunity to finely tune energy consumption and temporal delays across axons in the brain.","lang":"eng"}],"oa":1,"department":[{"_id":"RySh"}],"volume":8,"author":[{"last_name":"Byczkowicz","first_name":"Niklas","full_name":"Byczkowicz, Niklas"},{"last_name":"Eshra","first_name":"Abdelmoneim","full_name":"Eshra, Abdelmoneim"},{"id":"3786AB44-F248-11E8-B48F-1D18A9856A87","last_name":"Montanaro-Punzengruber","first_name":"Jacqueline-Claire","full_name":"Montanaro-Punzengruber, Jacqueline-Claire"},{"last_name":"Trevisiol","full_name":"Trevisiol, Andrea","first_name":"Andrea"},{"full_name":"Hirrlinger, Johannes","first_name":"Johannes","last_name":"Hirrlinger"},{"full_name":"Kole, Maarten Hp","first_name":"Maarten Hp","last_name":"Kole"},{"last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi"},{"last_name":"Hallermann","first_name":"Stefan","full_name":"Hallermann, Stefan"}],"article_number":"e42766","has_accepted_license":"1","article_type":"original","year":"2019","language":[{"iso":"eng"}],"day":"09","status":"public","intvolume":" 8","month":"09","file_date_updated":"2020-07-14T12:47:42Z","scopus_import":"1","oa_version":"Published Version","publication":"eLife","date_published":"2019-09-09T00:00:00Z","citation":{"apa":"Byczkowicz, N., Eshra, A., Montanaro-Punzengruber, J.-C., Trevisiol, A., Hirrlinger, J., Kole, M. H., … Hallermann, S. (2019). HCN channel-mediated neuromodulation can control action potential velocity and fidelity in central axons. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.42766","ama":"Byczkowicz N, Eshra A, Montanaro-Punzengruber J-C, et al. HCN channel-mediated neuromodulation can control action potential velocity and fidelity in central axons. eLife. 2019;8. doi:10.7554/eLife.42766","short":"N. Byczkowicz, A. Eshra, J.-C. Montanaro-Punzengruber, A. Trevisiol, J. Hirrlinger, M.H. Kole, R. Shigemoto, S. Hallermann, ELife 8 (2019).","chicago":"Byczkowicz, Niklas, Abdelmoneim Eshra, Jacqueline-Claire Montanaro-Punzengruber, Andrea Trevisiol, Johannes Hirrlinger, Maarten Hp Kole, Ryuichi Shigemoto, and Stefan Hallermann. “HCN Channel-Mediated Neuromodulation Can Control Action Potential Velocity and Fidelity in Central Axons.” ELife. eLife Sciences Publications, 2019. https://doi.org/10.7554/eLife.42766.","ista":"Byczkowicz N, Eshra A, Montanaro-Punzengruber J-C, Trevisiol A, Hirrlinger J, Kole MH, Shigemoto R, Hallermann S. 2019. HCN channel-mediated neuromodulation can control action potential velocity and fidelity in central axons. eLife. 8, e42766.","ieee":"N. Byczkowicz et al., “HCN channel-mediated neuromodulation can control action potential velocity and fidelity in central axons,” eLife, vol. 8. eLife Sciences Publications, 2019.","mla":"Byczkowicz, Niklas, et al. “HCN Channel-Mediated Neuromodulation Can Control Action Potential Velocity and Fidelity in Central Axons.” ELife, vol. 8, e42766, eLife Sciences Publications, 2019, doi:10.7554/eLife.42766."},"article_processing_charge":"No","type":"journal_article","doi":"10.7554/eLife.42766","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published"},{"external_id":{"isi":["000486297400011"],"pmid":["31391194"]},"date_updated":"2023-08-30T06:19:04Z","acknowledgement":"We thank Jiri Friml and Phillip Brewer for inspiring discussion and for help in preparing the manuscript. This research was supported by the Scientific Service Units (SSU) of IST-Austria through resources provided by the Bioimaging Facility\r\n(BIF), the Life Science Facility (LSF).\r\nThis work was supported by grants from the European Research Council (Starting Independent Research Grant ERC-2007-Stg- 207362-HCPO to E.B.). J.P. and M.S. received funds from European Regional Development Fund-Project ‘Centre for Experimental Plant Biology’ (No. CZ.02.1.01/0.0/0.0/16_019/0000738).","main_file_link":[{"url":"https://doi.org/10.1242/dev.175919","open_access":"1"}],"publisher":"The Company of Biologists","date_created":"2019-09-22T22:00:36Z","project":[{"grant_number":"207362","name":"Hormonal cross-talk in plant organogenesis","_id":"253FCA6A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"oa":1,"issue":"17","publication_identifier":{"eissn":["14779129"]},"abstract":[{"lang":"eng","text":"The apical hook is a transiently formed structure that plays a protective role when the germinating seedling penetrates through the soil towards the surface. Crucial for proper bending is the local auxin maxima, which defines the concave (inner) side of the hook curvature. As no sign of asymmetric auxin distribution has been reported in embryonic hypocotyls prior to hook formation, the question of how auxin asymmetry is established in the early phases of seedling germination remains largely unanswered. Here, we analyzed the auxin distribution and expression of PIN auxin efflux carriers from early phases of germination, and show that bending of the root in response to gravity is the crucial initial cue that governs the hypocotyl bending required for apical hook formation. Importantly, polar auxin transport machinery is established gradually after germination starts as a result of tight root-hypocotyl interaction and a proper balance between abscisic acid and gibberellins."}],"ec_funded":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis","isi":1,"_id":"6897","quality_controlled":"1","month":"09","intvolume":" 146","oa_version":"Published Version","scopus_import":"1","date_published":"2019-09-12T00:00:00Z","publication":"Development","citation":{"chicago":"Zhu, Qiang, Marçal Gallemi, Jiří Pospíšil, Petra Žádníková, Miroslav Strnad, and Eva Benková. “Root Gravity Response Module Guides Differential Growth Determining Both Root Bending and Apical Hook Formation in Arabidopsis.” Development. The Company of Biologists, 2019. https://doi.org/10.1242/dev.175919.","short":"Q. Zhu, M. Gallemi, J. Pospíšil, P. Žádníková, M. Strnad, E. Benková, Development 146 (2019).","apa":"Zhu, Q., Gallemi, M., Pospíšil, J., Žádníková, P., Strnad, M., & Benková, E. (2019). Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis. Development. The Company of Biologists. https://doi.org/10.1242/dev.175919","ama":"Zhu Q, Gallemi M, Pospíšil J, Žádníková P, Strnad M, Benková E. Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis. Development. 2019;146(17). doi:10.1242/dev.175919","ieee":"Q. Zhu, M. Gallemi, J. Pospíšil, P. Žádníková, M. Strnad, and E. Benková, “Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis,” Development, vol. 146, no. 17. The Company of Biologists, 2019.","ista":"Zhu Q, Gallemi M, Pospíšil J, Žádníková P, Strnad M, Benková E. 2019. Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis. Development. 146(17), dev175919.","mla":"Zhu, Qiang, et al. “Root Gravity Response Module Guides Differential Growth Determining Both Root Bending and Apical Hook Formation in Arabidopsis.” Development, vol. 146, no. 17, dev175919, The Company of Biologists, 2019, doi:10.1242/dev.175919."},"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"publication_status":"published","article_processing_charge":"No","type":"journal_article","doi":"10.1242/dev.175919","author":[{"id":"40A4B9E6-F248-11E8-B48F-1D18A9856A87","last_name":"Zhu","first_name":"Qiang","full_name":"Zhu, Qiang"},{"last_name":"Gallemi","id":"460C6802-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4675-6893","full_name":"Gallemi, Marçal","first_name":"Marçal"},{"full_name":"Pospíšil, Jiří","first_name":"Jiří","last_name":"Pospíšil"},{"first_name":"Petra","full_name":"Žádníková, Petra","last_name":"Žádníková"},{"last_name":"Strnad","full_name":"Strnad, Miroslav","first_name":"Miroslav"},{"last_name":"Benková","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","first_name":"Eva"}],"article_number":"dev175919","pmid":1,"department":[{"_id":"EvBe"}],"volume":146,"year":"2019","day":"12","language":[{"iso":"eng"}],"status":"public","article_type":"original"},{"publication_status":"published","doi":"10.1016/j.brainres.2019.146458","type":"journal_article","article_processing_charge":"No","citation":{"ista":"Oliveira B, Yahya AÇ, Novarino G. 2019. Modeling cell-cell interactions in the brain using cerebral organoids. Brain Research. 1724, 146458.","ieee":"B. Oliveira, A. Ç. Yahya, and G. Novarino, “Modeling cell-cell interactions in the brain using cerebral organoids,” Brain Research, vol. 1724. Elsevier, 2019.","mla":"Oliveira, Bárbara, et al. “Modeling Cell-Cell Interactions in the Brain Using Cerebral Organoids.” Brain Research, vol. 1724, 146458, Elsevier, 2019, doi:10.1016/j.brainres.2019.146458.","ama":"Oliveira B, Yahya AÇ, Novarino G. Modeling cell-cell interactions in the brain using cerebral organoids. Brain Research. 2019;1724. doi:10.1016/j.brainres.2019.146458","apa":"Oliveira, B., Yahya, A. Ç., & Novarino, G. (2019). Modeling cell-cell interactions in the brain using cerebral organoids. Brain Research. Elsevier. https://doi.org/10.1016/j.brainres.2019.146458","short":"B. Oliveira, A.Ç. Yahya, G. Novarino, Brain Research 1724 (2019).","chicago":"Oliveira, Bárbara, Aysan Çerağ Yahya, and Gaia Novarino. “Modeling Cell-Cell Interactions in the Brain Using Cerebral Organoids.” Brain Research. Elsevier, 2019. https://doi.org/10.1016/j.brainres.2019.146458."},"publication":"Brain Research","date_published":"2019-12-01T00:00:00Z","oa_version":"None","scopus_import":"1","month":"12","intvolume":" 1724","status":"public","year":"2019","day":"01","language":[{"iso":"eng"}],"article_type":"original","article_number":"146458","author":[{"last_name":"Oliveira","id":"3B03AA1A-F248-11E8-B48F-1D18A9856A87","full_name":"Oliveira, Bárbara","first_name":"Bárbara"},{"last_name":"Yahya","id":"365A65F8-F248-11E8-B48F-1D18A9856A87","full_name":"Yahya, Aysan Çerağ","first_name":"Aysan Çerağ"},{"id":"3E57A680-F248-11E8-B48F-1D18A9856A87","last_name":"Novarino","first_name":"Gaia","full_name":"Novarino, Gaia","orcid":"0000-0002-7673-7178"}],"volume":1724,"pmid":1,"department":[{"_id":"GaNo"}],"abstract":[{"text":"Until recently, a great amount of brain studies have been conducted in human post mortem tissues, cell lines and model organisms. These researches provided useful insights regarding cell-cell interactions occurring in the brain. However, such approaches suffer from technical limitations and inaccurate modeling of the tissue 3D cytoarchitecture. Importantly, they might lack a human genetic background essential for disease modeling. With the development of protocols to generate human cerebral organoids, we are now closer to reproducing the early stages of human brain development in vitro. As a result, more relevant cell-cell interaction studies can be conducted.\r\n\r\nIn this review, we discuss the advantages of 3D cultures over 2D in modulating brain cell-cell interactions during physiological and pathological development, as well as the progress made in developing organoids in which neurons, macroglia, microglia and vascularization are present. Finally, we debate the limitations of those models and possible future directions.","lang":"eng"}],"publication_identifier":{"eissn":["18726240"],"issn":["00068993"]},"date_updated":"2023-08-30T06:19:49Z","external_id":{"isi":["000491646600033"],"pmid":["31521639"]},"date_created":"2019-09-22T22:00:35Z","publisher":"Elsevier","_id":"6896","quality_controlled":"1","title":"Modeling cell-cell interactions in the brain using cerebral organoids","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1},{"title":"Additional file 11 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"full_name":"Sigalova, Olga","first_name":"Olga","last_name":"Sigalova"},{"last_name":"Chaplin","first_name":"Andrei","full_name":"Chaplin, Andrei"},{"first_name":"Olga","full_name":"Bochkareva, Olga","orcid":"0000-0003-1006-6639","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"full_name":"Shelyakin, Pavel","first_name":"Pavel","last_name":"Shelyakin"},{"last_name":"Filaretov","full_name":"Filaretov, Vsevolod","first_name":"Vsevolod"},{"last_name":"Akkuratov","full_name":"Akkuratov, Evgeny","first_name":"Evgeny"},{"last_name":"Burskaia","first_name":"Valentina","full_name":"Burskaia, Valentina"},{"last_name":"Gelfand","full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S."}],"department":[{"_id":"FyKo"}],"status":"public","year":"2019","day":"12","_id":"9731","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9808772.v1","open_access":"1"}],"date_updated":"2023-08-30T06:20:21Z","citation":{"ista":"Sigalova O, Chaplin A, Bochkareva O, Shelyakin P, Filaretov V, Akkuratov E, Burskaia V, Gelfand MS. 2019. 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Chaplin, O. Bochkareva, P. Shelyakin, V. Filaretov, E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","apa":"Sigalova, O., Chaplin, A., Bochkareva, O., Shelyakin, P., Filaretov, V., Akkuratov, E., … Gelfand, M. S. (2019). Additional file 11 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808772.v1","ama":"Sigalova O, Chaplin A, Bochkareva O, et al. 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(CSV 600 kb)","lang":"eng"}],"type":"research_data_reference","doi":"10.6084/m9.figshare.9808760.v1","article_processing_charge":"No","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"6898"}]},"oa":1,"department":[{"_id":"FyKo"}],"title":"Additional file 10 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","author":[{"last_name":"Sigalova","full_name":"Sigalova, Olga M.","first_name":"Olga M."},{"first_name":"Andrei V.","full_name":"Chaplin, Andrei V.","last_name":"Chaplin"},{"orcid":"0000-0003-1006-6639","first_name":"Olga","full_name":"Bochkareva, Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"last_name":"Shelyakin","first_name":"Pavel V.","full_name":"Shelyakin, Pavel V."},{"full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A.","last_name":"Filaretov"},{"full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E.","last_name":"Akkuratov"},{"last_name":"Burskaia","first_name":"Valentina","full_name":"Burskaia, Valentina"},{"full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S.","last_name":"Gelfand"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","day":"12","year":"2019","status":"public","_id":"9783"},{"department":[{"_id":"FyKo"}],"title":"Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"full_name":"Sigalova, Olga M.","first_name":"Olga M.","last_name":"Sigalova"},{"full_name":"Chaplin, Andrei V.","first_name":"Andrei V.","last_name":"Chaplin"},{"orcid":"0000-0003-1006-6639","first_name":"Olga","full_name":"Bochkareva, Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"full_name":"Shelyakin, Pavel V.","first_name":"Pavel V.","last_name":"Shelyakin"},{"first_name":"Vsevolod A.","full_name":"Filaretov, Vsevolod A.","last_name":"Filaretov"},{"last_name":"Akkuratov","full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E."},{"last_name":"Burskaia","first_name":"Valentina","full_name":"Burskaia, Valentina"},{"last_name":"Gelfand","full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S."}],"status":"public","day":"12","year":"2019","_id":"9897","citation":{"ieee":"O. M. Sigalova et al., “Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 20 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808850.v1.","mla":"Sigalova, Olga M., et al. Additional File 20 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808850.v1.","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. 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(CSV 6 kb)"}],"article_processing_charge":"No","related_material":{"record":[{"id":"6898","status":"public","relation":"used_in_publication"}]},"oa":1},{"_id":"9890","status":"public","day":"12","year":"2019","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"last_name":"Sigalova","full_name":"Sigalova, Olga M.","first_name":"Olga M."},{"last_name":"Chaplin","first_name":"Andrei V.","full_name":"Chaplin, Andrei V."},{"orcid":"0000-0003-1006-6639","full_name":"Bochkareva, Olga","first_name":"Olga","last_name":"Bochkareva","id":"C4558D3C-6102-11E9-A62E-F418E6697425"},{"last_name":"Shelyakin","full_name":"Shelyakin, Pavel V.","first_name":"Pavel V."},{"last_name":"Filaretov","first_name":"Vsevolod A.","full_name":"Filaretov, Vsevolod A."},{"first_name":"Evgeny E.","full_name":"Akkuratov, Evgeny E.","last_name":"Akkuratov"},{"first_name":"Valentina","full_name":"Burskaia, Valentina","last_name":"Burskaia"},{"last_name":"Gelfand","full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S."}],"title":"Additional file 15 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","department":[{"_id":"FyKo"}],"oa":1,"related_material":{"record":[{"id":"6898","status":"public","relation":"used_in_publication"}]},"article_processing_charge":"No","doi":"10.6084/m9.figshare.9808802.v1","type":"research_data_reference","abstract":[{"text":"Distribution of OGs with mosaic phyletic patterns across species (complete genomes only). (CSV 7 kb)","lang":"eng"}],"date_updated":"2023-08-30T06:20:21Z","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9808802.v1","open_access":"1"}],"oa_version":"Published Version","date_created":"2021-08-11T14:26:40Z","month":"09","publisher":"Springer Nature","citation":{"ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 15 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808802.v1.","mla":"Sigalova, Olga M., et al. Additional File 15 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808802.v1.","ieee":"O. M. 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Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 16 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808814.v1."},"month":"09","publisher":"Springer Nature","oa_version":"Published Version","date_created":"2021-08-12T07:11:53Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.9808814.v1"}],"date_updated":"2023-08-30T06:20:21Z"},{"department":[{"_id":"FyKo"}],"author":[{"first_name":"Olga M.","full_name":"Sigalova, Olga M.","last_name":"Sigalova"},{"last_name":"Chaplin","full_name":"Chaplin, Andrei V.","first_name":"Andrei V."},{"orcid":"0000-0003-1006-6639","first_name":"Olga","full_name":"Bochkareva, Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"full_name":"Shelyakin, Pavel V.","first_name":"Pavel V.","last_name":"Shelyakin"},{"full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A.","last_name":"Filaretov"},{"full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E.","last_name":"Akkuratov"},{"first_name":"Valentina","full_name":"Burskaia, Valentina","last_name":"Burskaia"},{"last_name":"Gelfand","full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S."}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","title":"Additional file 17 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","_id":"9893","year":"2019","day":"12","status":"public","publisher":"Springer Nature","month":"09","date_created":"2021-08-12T07:20:10Z","oa_version":"Published Version","date_published":"2019-09-12T00:00:00Z","citation":{"short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 17 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808820.v1","ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 17 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808820.v1","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 17 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808820.v1.","mla":"Sigalova, Olga M., et al. Additional File 17 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808820.v1.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 17 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808820.v1.","ieee":"O. M. Sigalova et al., “Additional file 17 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019."},"date_updated":"2023-08-30T06:20:21Z","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9808820.v1","open_access":"1"}],"article_processing_charge":"No","abstract":[{"lang":"eng","text":"Summary of peripheral genesa phyletic patterns and tree concordance. (CSV 26 kb)"}],"doi":"10.6084/m9.figshare.9808820.v1","type":"research_data_reference","oa":1,"related_material":{"record":[{"id":"6898","relation":"used_in_publication","status":"public"}]}},{"_id":"9894","year":"2019","day":"12","status":"public","author":[{"last_name":"Sigalova","first_name":"Olga M.","full_name":"Sigalova, Olga M."},{"first_name":"Andrei V.","full_name":"Chaplin, Andrei V.","last_name":"Chaplin"},{"id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva","first_name":"Olga","full_name":"Bochkareva, Olga","orcid":"0000-0003-1006-6639"},{"full_name":"Shelyakin, Pavel V.","first_name":"Pavel V.","last_name":"Shelyakin"},{"full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A.","last_name":"Filaretov"},{"first_name":"Evgeny E.","full_name":"Akkuratov, Evgeny E.","last_name":"Akkuratov"},{"first_name":"Valentina","full_name":"Burskaia, Valentina","last_name":"Burskaia"},{"first_name":"Mikhail S.","full_name":"Gelfand, Mikhail S.","last_name":"Gelfand"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","title":"Additional file 18 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","department":[{"_id":"FyKo"}],"oa":1,"related_material":{"record":[{"id":"6898","relation":"used_in_publication","status":"public"}]},"article_processing_charge":"No","abstract":[{"text":"Orthologous families (OFs) derived by MCL clustering of OGs. (CSV 189 kb)","lang":"eng"}],"doi":"10.6084/m9.figshare.9808826.v1","type":"research_data_reference","date_updated":"2023-08-30T06:20:21Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.9808826.v1"}],"publisher":"Springer Nature","month":"09","oa_version":"Published Version","date_created":"2021-08-12T07:25:07Z","date_published":"2019-09-12T00:00:00Z","citation":{"chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 18 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808826.v1.","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 18 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808826.v1","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 18 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808826.v1","mla":"Sigalova, Olga M., et al. Additional File 18 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808826.v1.","ieee":"O. M. Sigalova et al., “Additional file 18 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 18 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808826.v1."}},{"oa":1,"related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"6898"}]},"article_processing_charge":"No","doi":"10.6084/m9.figshare.9808835.v1","type":"research_data_reference","abstract":[{"text":"Additional information on proteins from OG1. (CSV 30 kb)","lang":"eng"}],"date_updated":"2023-08-30T06:20:21Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.9808835.v1"}],"date_created":"2021-08-12T07:44:52Z","oa_version":"Published Version","month":"09","publisher":"Springer Nature","citation":{"ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808835.v1","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808835.v1","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 19 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808835.v1.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808835.v1.","mla":"Sigalova, Olga M., et al. Additional File 19 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808835.v1.","ieee":"O. M. Sigalova et al., “Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019."},"date_published":"2019-09-12T00:00:00Z","_id":"9895","status":"public","day":"12","year":"2019","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"first_name":"Olga M.","full_name":"Sigalova, Olga M.","last_name":"Sigalova"},{"last_name":"Chaplin","first_name":"Andrei V.","full_name":"Chaplin, Andrei V."},{"full_name":"Bochkareva, Olga","first_name":"Olga","orcid":"0000-0003-1006-6639","last_name":"Bochkareva","id":"C4558D3C-6102-11E9-A62E-F418E6697425"},{"last_name":"Shelyakin","full_name":"Shelyakin, Pavel V.","first_name":"Pavel V."},{"last_name":"Filaretov","first_name":"Vsevolod A.","full_name":"Filaretov, Vsevolod A."},{"last_name":"Akkuratov","full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E."},{"last_name":"Burskaia","first_name":"Valentina","full_name":"Burskaia, Valentina"},{"full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S.","last_name":"Gelfand"}],"title":"Additional file 19 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","department":[{"_id":"FyKo"}]},{"day":"02","year":"2019","status":"public","_id":"9896","department":[{"_id":"FyKo"}],"title":"Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","author":[{"first_name":"Olga M.","full_name":"Sigalova, Olga M.","last_name":"Sigalova"},{"full_name":"Chaplin, Andrei V.","first_name":"Andrei V.","last_name":"Chaplin"},{"orcid":"0000-0003-1006-6639","first_name":"Olga","full_name":"Bochkareva, Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"last_name":"Shelyakin","first_name":"Pavel V.","full_name":"Shelyakin, Pavel V."},{"full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A.","last_name":"Filaretov"},{"full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E.","last_name":"Akkuratov"},{"full_name":"Burskaia, Valentina","first_name":"Valentina","last_name":"Burskaia"},{"first_name":"Mikhail S.","full_name":"Gelfand, Mikhail S.","last_name":"Gelfand"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","abstract":[{"text":"Summary of the analysed genomes. (CSV 24 kb)","lang":"eng"}],"doi":"10.6084/m9.figshare.9808841.v1","type":"research_data_reference","article_processing_charge":"No","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"6898"}]},"oa":1,"date_published":"2019-09-02T00:00:00Z","citation":{"ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808841.v1.","mla":"Sigalova, Olga M., et al. Additional File 1 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808841.v1.","ieee":"O. M. Sigalova et al., “Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019.","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 1 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808841.v1.","ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808841.v1","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 1 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808841.v1","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019)."},"publisher":"Springer Nature","month":"09","oa_version":"Published Version","date_created":"2021-08-12T07:50:53Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.9808841.v1"}],"date_updated":"2023-08-30T06:20:21Z"},{"author":[{"last_name":"Bornhorst","first_name":"Dorothee","full_name":"Bornhorst, Dorothee"},{"last_name":"Xia","id":"4AB6C7D0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5419-7756","full_name":"Xia, Peng","first_name":"Peng"},{"full_name":"Nakajima, Hiroyuki","first_name":"Hiroyuki","last_name":"Nakajima"},{"full_name":"Dingare, Chaitanya","first_name":"Chaitanya","last_name":"Dingare"},{"full_name":"Herzog, Wiebke","first_name":"Wiebke","last_name":"Herzog"},{"full_name":"Lecaudey, Virginie","first_name":"Virginie","last_name":"Lecaudey"},{"first_name":"Naoki","full_name":"Mochizuki, Naoki","last_name":"Mochizuki"},{"first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg"},{"first_name":"Deborah","full_name":"Yelon, Deborah","last_name":"Yelon"},{"full_name":"Abdelilah-Seyfried, Salim","first_name":"Salim","last_name":"Abdelilah-Seyfried"}],"volume":10,"pmid":1,"department":[{"_id":"CaHe"}],"day":"11","language":[{"iso":"eng"}],"year":"2019","status":"public","has_accepted_license":"1","date_published":"2019-09-11T00:00:00Z","publication":"Nature communications","citation":{"chicago":"Bornhorst, Dorothee, Peng Xia, Hiroyuki Nakajima, Chaitanya Dingare, Wiebke Herzog, Virginie Lecaudey, Naoki Mochizuki, Carl-Philipp J Heisenberg, Deborah Yelon, and Salim Abdelilah-Seyfried. “Biomechanical Signaling within the Developing Zebrafish Heart Attunes Endocardial Growth to Myocardial Chamber Dimensions.” Nature Communications. Nature Publishing Group, 2019. https://doi.org/10.1038/s41467-019-12068-x.","short":"D. Bornhorst, P. Xia, H. Nakajima, C. Dingare, W. Herzog, V. Lecaudey, N. Mochizuki, C.-P.J. Heisenberg, D. Yelon, S. Abdelilah-Seyfried, Nature Communications 10 (2019) 4113.","apa":"Bornhorst, D., Xia, P., Nakajima, H., Dingare, C., Herzog, W., Lecaudey, V., … Abdelilah-Seyfried, S. (2019). Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/s41467-019-12068-x","ama":"Bornhorst D, Xia P, Nakajima H, et al. Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions. Nature communications. 2019;10(1):4113. doi:10.1038/s41467-019-12068-x","mla":"Bornhorst, Dorothee, et al. “Biomechanical Signaling within the Developing Zebrafish Heart Attunes Endocardial Growth to Myocardial Chamber Dimensions.” Nature Communications, vol. 10, no. 1, Nature Publishing Group, 2019, p. 4113, doi:10.1038/s41467-019-12068-x.","ista":"Bornhorst D, Xia P, Nakajima H, Dingare C, Herzog W, Lecaudey V, Mochizuki N, Heisenberg C-PJ, Yelon D, Abdelilah-Seyfried S. 2019. Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions. Nature communications. 10(1), 4113.","ieee":"D. Bornhorst et al., “Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions,” Nature communications, vol. 10, no. 1. Nature Publishing Group, p. 4113, 2019."},"month":"09","file_date_updated":"2020-07-14T12:47:44Z","intvolume":" 10","scopus_import":"1","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"page":"4113","publication_status":"published","type":"journal_article","doi":"10.1038/s41467-019-12068-x","article_processing_charge":"No","title":"Biomechanical signaling within the developing zebrafish heart attunes endocardial growth to myocardial chamber dimensions","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"file_name":"2019_Nature_Bornhorst.pdf","access_level":"open_access","content_type":"application/pdf","file_size":3905793,"date_created":"2019-10-01T11:18:50Z","checksum":"62c2512712e16d27c1797d318d14ba9f","date_updated":"2020-07-14T12:47:44Z","relation":"main_file","file_id":"6926","creator":"kschuh"}],"isi":1,"_id":"6899","quality_controlled":"1","external_id":{"isi":["000485216800009"],"pmid":["31511517"]},"date_updated":"2023-08-30T06:21:23Z","publisher":"Nature Publishing Group","date_created":"2019-09-22T22:00:37Z","issue":"1","oa":1,"abstract":[{"text":"Intra-organ communication guides morphogenetic processes that are essential for an organ to carry out complex physiological functions. In the heart, the growth of the myocardium is tightly coupled to that of the endocardium, a specialized endothelial tissue that lines its interior. Several molecular pathways have been implicated in the communication between these tissues including secreted factors, components of the extracellular matrix, or proteins involved in cell-cell communication. Yet, it is unknown how the growth of the endocardium is coordinated with that of the myocardium. Here, we show that an increased expansion of the myocardial atrial chamber volume generates higher junctional forces within endocardial cells. This leads to biomechanical signaling involving VE-cadherin, triggering nuclear localization of the Hippo pathway transcriptional regulator Yap1 and endocardial proliferation. Our work suggests that the growth of the endocardium results from myocardial chamber volume expansion and ends when the tension on the tissue is relaxed.","lang":"eng"}],"ddc":["570"],"publication_identifier":{"eissn":["20411723"]}},{"status":"public","year":"2019","language":[{"iso":"eng"}],"day":"12","has_accepted_license":"1","article_number":"710","author":[{"last_name":"Sigalova","first_name":"Olga M.","full_name":"Sigalova, Olga M."},{"last_name":"Chaplin","first_name":"Andrei V.","full_name":"Chaplin, Andrei V."},{"full_name":"Bochkareva, Olga","first_name":"Olga","orcid":"0000-0003-1006-6639","last_name":"Bochkareva","id":"C4558D3C-6102-11E9-A62E-F418E6697425"},{"full_name":"Shelyakin, Pavel V.","first_name":"Pavel V.","last_name":"Shelyakin"},{"full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A.","last_name":"Filaretov"},{"first_name":"Evgeny E.","full_name":"Akkuratov, Evgeny E.","last_name":"Akkuratov"},{"last_name":"Burskaia","first_name":"Valentina","full_name":"Burskaia, Valentina"},{"first_name":"Mikhail S.","full_name":"Gelfand, Mikhail S.","last_name":"Gelfand"}],"volume":20,"department":[{"_id":"FyKo"}],"publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"type":"journal_article","doi":"10.1186/s12864-019-6059-5","article_processing_charge":"No","citation":{"ieee":"O. M. Sigalova et al., “Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction,” BMC Genomics, vol. 20, no. 1. BioMed Central, 2019.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. BMC Genomics. 20(1), 710.","mla":"Sigalova, Olga M., et al. “Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” BMC Genomics, vol. 20, no. 1, 710, BioMed Central, 2019, doi:10.1186/s12864-019-6059-5.","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” BMC Genomics. BioMed Central, 2019. https://doi.org/10.1186/s12864-019-6059-5.","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, BMC Genomics 20 (2019).","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. BMC Genomics. BioMed Central. https://doi.org/10.1186/s12864-019-6059-5","ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. BMC Genomics. 2019;20(1). doi:10.1186/s12864-019-6059-5"},"date_published":"2019-09-12T00:00:00Z","publication":"BMC Genomics","oa_version":"Published Version","scopus_import":"1","intvolume":" 20","month":"09","file_date_updated":"2020-07-14T12:47:44Z","_id":"6898","quality_controlled":"1","title":"Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"file":[{"relation":"main_file","date_updated":"2020-07-14T12:47:44Z","file_id":"6924","creator":"kschuh","file_size":4157175,"date_created":"2019-10-01T10:33:17Z","checksum":"b798773c5823012d31c812c9f7975da2","access_level":"open_access","content_type":"application/pdf","file_name":"2019_BioMed_Sigalova.pdf"}],"related_material":{"record":[{"id":"9731","status":"public","relation":"research_data"},{"id":"9783","relation":"research_data","status":"public"},{"relation":"research_data","status":"public","id":"9890"},{"id":"9892","status":"public","relation":"research_data"},{"relation":"research_data","status":"public","id":"9893"},{"id":"9894","relation":"research_data","status":"public"},{"relation":"research_data","status":"public","id":"9895"},{"id":"9896","relation":"research_data","status":"public"},{"relation":"research_data","status":"public","id":"9897"},{"id":"9898","relation":"research_data","status":"public"},{"id":"9899","relation":"research_data","status":"public"},{"id":"9900","relation":"research_data","status":"public"},{"id":"9901","status":"public","relation":"research_data"}]},"issue":"1","oa":1,"ddc":["570"],"abstract":[{"text":"Background\r\n\r\nChlamydia are ancient intracellular pathogens with reduced, though strikingly conserved genome. Despite their parasitic lifestyle and isolated intracellular environment, these bacteria managed to avoid accumulation of deleterious mutations leading to subsequent genome degradation characteristic for many parasitic bacteria.\r\nResults\r\n\r\nWe report pan-genomic analysis of sixteen species from genus Chlamydia including identification and functional annotation of orthologous genes, and characterization of gene gains, losses, and rearrangements. We demonstrate the overall genome stability of these bacteria as indicated by a large fraction of common genes with conserved genomic locations. On the other hand, extreme evolvability is confined to several paralogous gene families such as polymorphic membrane proteins and phospholipase D, and likely is caused by the pressure from the host immune system.\r\nConclusions\r\n\r\nThis combination of a large, conserved core genome and a small, evolvable periphery likely reflect the balance between the selective pressure towards genome reduction and the need to adapt to escape from the host immunity.","lang":"eng"}],"publication_identifier":{"eissn":["14712164"]},"date_updated":"2023-08-30T06:20:22Z","external_id":{"isi":["000485256100001"]},"date_created":"2019-09-22T22:00:36Z","publisher":"BioMed Central"},{"publication_identifier":{"issn":["1674-2052","1752-9867"]},"project":[{"name":"Hormonal regulation of plant adaptive responses to environmental signals","_id":"2685A872-B435-11E9-9278-68D0E5697425"}],"issue":"10","date_created":"2019-09-30T10:00:40Z","publisher":"Cell Press","date_updated":"2023-08-30T06:55:02Z","external_id":{"pmid":["31541740"],"isi":["000489132500002"]},"quality_controlled":"1","_id":"6920","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Ethylene and cytokinin - partners in root growth regulation","article_processing_charge":"No","type":"journal_article","doi":"10.1016/j.molp.2019.09.003","publication_status":"published","page":"1312-1314","oa_version":"None","scopus_import":"1","month":"10","intvolume":" 12","citation":{"ieee":"C. Artner and E. Benková, “Ethylene and cytokinin - partners in root growth regulation,” Molecular Plant, vol. 12, no. 10. Cell Press, pp. 1312–1314, 2019.","mla":"Artner, Christina, and Eva Benková. “Ethylene and Cytokinin - Partners in Root Growth Regulation.” Molecular Plant, vol. 12, no. 10, Cell Press, 2019, pp. 1312–14, doi:10.1016/j.molp.2019.09.003.","ista":"Artner C, Benková E. 2019. Ethylene and cytokinin - partners in root growth regulation. Molecular Plant. 12(10), 1312–1314.","ama":"Artner C, Benková E. Ethylene and cytokinin - partners in root growth regulation. Molecular Plant. 2019;12(10):1312-1314. doi:10.1016/j.molp.2019.09.003","apa":"Artner, C., & Benková, E. (2019). Ethylene and cytokinin - partners in root growth regulation. Molecular Plant. Cell Press. https://doi.org/10.1016/j.molp.2019.09.003","short":"C. Artner, E. Benková, Molecular Plant 12 (2019) 1312–1314.","chicago":"Artner, Christina, and Eva Benková. “Ethylene and Cytokinin - Partners in Root Growth Regulation.” Molecular Plant. Cell Press, 2019. https://doi.org/10.1016/j.molp.2019.09.003."},"date_published":"2019-10-07T00:00:00Z","publication":"Molecular Plant","article_type":"original","status":"public","language":[{"iso":"eng"}],"year":"2019","day":"07","pmid":1,"department":[{"_id":"EvBe"}],"volume":12,"author":[{"id":"45DF286A-F248-11E8-B48F-1D18A9856A87","last_name":"Artner","first_name":"Christina","full_name":"Artner, Christina"},{"last_name":"Benková","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","first_name":"Eva"}]},{"day":"12","year":"2019","status":"public","_id":"9898","department":[{"_id":"FyKo"}],"title":"Additional file 21 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","author":[{"full_name":"Sigalova, Olga M.","first_name":"Olga M.","last_name":"Sigalova"},{"first_name":"Andrei V.","full_name":"Chaplin, Andrei V.","last_name":"Chaplin"},{"orcid":"0000-0003-1006-6639","first_name":"Olga","full_name":"Bochkareva, Olga","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"first_name":"Pavel V.","full_name":"Shelyakin, Pavel V.","last_name":"Shelyakin"},{"last_name":"Filaretov","first_name":"Vsevolod A.","full_name":"Filaretov, Vsevolod A."},{"first_name":"Evgeny E.","full_name":"Akkuratov, Evgeny E.","last_name":"Akkuratov"},{"last_name":"Burskaia","first_name":"Valentina","full_name":"Burskaia, Valentina"},{"full_name":"Gelfand, Mikhail S.","first_name":"Mikhail S.","last_name":"Gelfand"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","abstract":[{"lang":"eng","text":"All polyN tracts of length 5 or more nucleotides in sequences of genes from OG1. Sequences were extracted and scanned prior to automatic correction for frameshifts implemented in the RAST pipeline. (CSV 133 kb)"}],"type":"research_data_reference","doi":"10.6084/m9.figshare.9808859.v1","article_processing_charge":"No","related_material":{"record":[{"id":"6898","relation":"used_in_publication","status":"public"}]},"oa":1,"date_published":"2019-09-12T00:00:00Z","citation":{"ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 21 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808859.v1","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 21 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808859.v1","short":"O.M. Sigalova, A.V. 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(CSV 117 kb)"}],"article_processing_charge":"No","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9808907.v1","open_access":"1"}],"date_updated":"2023-08-30T06:20:22Z","citation":{"chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 9 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808907.v1.","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 9 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 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Sigalova et al., “Additional file 9 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019."},"date_published":"2019-09-12T00:00:00Z","date_created":"2021-08-12T10:54:03Z","oa_version":"Published Version","publisher":"Springer Nature","month":"09","status":"public","year":"2019","day":"12","_id":"9901","title":"Additional file 9 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"last_name":"Sigalova","full_name":"Sigalova, Olga M.","first_name":"Olga M."},{"first_name":"Andrei V.","full_name":"Chaplin, Andrei V.","last_name":"Chaplin"},{"last_name":"Bochkareva","id":"C4558D3C-6102-11E9-A62E-F418E6697425","full_name":"Bochkareva, Olga","first_name":"Olga","orcid":"0000-0003-1006-6639"},{"full_name":"Shelyakin, Pavel V.","first_name":"Pavel V.","last_name":"Shelyakin"},{"last_name":"Filaretov","full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A."},{"full_name":"Akkuratov, Evgeny E.","first_name":"Evgeny E.","last_name":"Akkuratov"},{"full_name":"Burskaia, Valentina","first_name":"Valentina","last_name":"Burskaia"},{"last_name":"Gelfand","first_name":"Mikhail S.","full_name":"Gelfand, Mikhail S."}],"department":[{"_id":"FyKo"}]},{"date_updated":"2023-08-30T06:20:22Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.6084/m9.figshare.9808865.v1"}],"month":"09","publisher":"Springer Nature","date_created":"2021-08-12T08:18:09Z","oa_version":"Published Version","date_published":"2019-09-12T00:00:00Z","citation":{"ieee":"O. 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V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 2 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808865.v1","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 2 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808865.v1."},"oa":1,"related_material":{"record":[{"id":"6898","relation":"used_in_publication","status":"public"}]},"article_processing_charge":"No","abstract":[{"text":"Summary of orthologous groups (OGs) for 227 genomes of genus Chlamydia. 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(CSV 3 kb)"}],"type":"research_data_reference","doi":"10.6084/m9.figshare.9808886.v1","oa":1,"related_material":{"record":[{"id":"6898","relation":"used_in_publication","status":"public"}]},"publisher":"Springer Nature","month":"09","oa_version":"Published Version","date_created":"2021-08-12T08:44:49Z","date_published":"2019-09-12T00:00:00Z","citation":{"mla":"Sigalova, Olga M., et al. Additional File 5 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction. Springer Nature, 2019, doi:10.6084/m9.figshare.9808886.v1.","ieee":"O. M. Sigalova et al., “Additional file 5 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction.” Springer Nature, 2019.","ista":"Sigalova OM, Chaplin AV, Bochkareva O, Shelyakin PV, Filaretov VA, Akkuratov EE, Burskaia V, Gelfand MS. 2019. Additional file 5 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction, Springer Nature, 10.6084/m9.figshare.9808886.v1.","apa":"Sigalova, O. M., Chaplin, A. V., Bochkareva, O., Shelyakin, P. V., Filaretov, V. A., Akkuratov, E. E., … Gelfand, M. S. (2019). Additional file 5 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. Springer Nature. https://doi.org/10.6084/m9.figshare.9808886.v1","ama":"Sigalova OM, Chaplin AV, Bochkareva O, et al. Additional file 5 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction. 2019. doi:10.6084/m9.figshare.9808886.v1","short":"O.M. Sigalova, A.V. Chaplin, O. Bochkareva, P.V. Shelyakin, V.A. Filaretov, E.E. Akkuratov, V. Burskaia, M.S. Gelfand, (2019).","chicago":"Sigalova, Olga M., Andrei V. Chaplin, Olga Bochkareva, Pavel V. Shelyakin, Vsevolod A. Filaretov, Evgeny E. Akkuratov, Valentina Burskaia, and Mikhail S. Gelfand. “Additional File 5 of Chlamydia Pan-Genomic Analysis Reveals Balance between Host Adaptation and Selective Pressure to Genome Reduction.” Springer Nature, 2019. https://doi.org/10.6084/m9.figshare.9808886.v1."},"date_updated":"2023-08-30T06:20:22Z","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9808886.v1","open_access":"1"}],"_id":"9900","year":"2019","day":"12","status":"public","department":[{"_id":"FyKo"}],"author":[{"full_name":"Sigalova, Olga M.","first_name":"Olga M.","last_name":"Sigalova"},{"last_name":"Chaplin","first_name":"Andrei V.","full_name":"Chaplin, Andrei V."},{"first_name":"Olga","full_name":"Bochkareva, Olga","orcid":"0000-0003-1006-6639","id":"C4558D3C-6102-11E9-A62E-F418E6697425","last_name":"Bochkareva"},{"last_name":"Shelyakin","first_name":"Pavel V.","full_name":"Shelyakin, Pavel V."},{"full_name":"Filaretov, Vsevolod A.","first_name":"Vsevolod A.","last_name":"Filaretov"},{"last_name":"Akkuratov","first_name":"Evgeny E.","full_name":"Akkuratov, Evgeny E."},{"last_name":"Burskaia","full_name":"Burskaia, Valentina","first_name":"Valentina"},{"last_name":"Gelfand","first_name":"Mikhail S.","full_name":"Gelfand, Mikhail S."}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","title":"Additional file 5 of Chlamydia pan-genomic analysis reveals balance between host adaptation and selective pressure to genome reduction"},{"page":"1877-1886","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","article_processing_charge":"No","doi":"10.1111/ecog.04444","type":"journal_article","file_date_updated":"2020-07-14T12:47:45Z","month":"11","intvolume":" 42","scopus_import":"1","oa_version":"Published Version","publication":"Ecography","date_published":"2019-11-01T00:00:00Z","citation":{"chicago":"Ovaskainen, Otso, Joel Rybicki, and Nerea Abrego. “What Can Observational Data Reveal about Metacommunity Processes?” Ecography. Wiley, 2019. https://doi.org/10.1111/ecog.04444.","apa":"Ovaskainen, O., Rybicki, J., & Abrego, N. (2019). What can observational data reveal about metacommunity processes? Ecography. Wiley. https://doi.org/10.1111/ecog.04444","ama":"Ovaskainen O, Rybicki J, Abrego N. What can observational data reveal about metacommunity processes? Ecography. 2019;42(11):1877-1886. doi:10.1111/ecog.04444","short":"O. Ovaskainen, J. Rybicki, N. Abrego, Ecography 42 (2019) 1877–1886.","ista":"Ovaskainen O, Rybicki J, Abrego N. 2019. What can observational data reveal about metacommunity processes? Ecography. 42(11), 1877–1886.","mla":"Ovaskainen, Otso, et al. “What Can Observational Data Reveal about Metacommunity Processes?” Ecography, vol. 42, no. 11, Wiley, 2019, pp. 1877–86, doi:10.1111/ecog.04444.","ieee":"O. Ovaskainen, J. Rybicki, and N. Abrego, “What can observational data reveal about metacommunity processes?,” Ecography, vol. 42, no. 11. Wiley, pp. 1877–1886, 2019."},"language":[{"iso":"eng"}],"day":"01","year":"2019","status":"public","has_accepted_license":"1","article_type":"original","author":[{"last_name":"Ovaskainen","full_name":"Ovaskainen, Otso","first_name":"Otso"},{"first_name":"Joel","full_name":"Rybicki, Joel","orcid":"0000-0002-6432-6646","id":"334EFD2E-F248-11E8-B48F-1D18A9856A87","last_name":"Rybicki"},{"last_name":"Abrego","first_name":"Nerea","full_name":"Abrego, Nerea"}],"department":[{"_id":"DaAl"}],"volume":42,"project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411"}],"oa":1,"issue":"11","publication_identifier":{"eissn":["1600-0587"],"issn":["0906-7590"]},"abstract":[{"lang":"eng","text":"A key challenge for community ecology is to understand to what extent observational data can be used to infer the underlying community assembly processes. As different processes can lead to similar or even identical patterns, statistical analyses of non‐manipulative observational data never yield undisputable causal inference on the underlying processes. Still, most empirical studies in community ecology are based on observational data, and hence understanding under which circumstances such data can shed light on assembly processes is a central concern for community ecologists. We simulated a spatial agent‐based model that generates variation in metacommunity dynamics across multiple axes, including the four classic metacommunity paradigms as special cases. We further simulated a virtual ecologist who analysed snapshot data sampled from the simulations using eighteen output metrics derived from beta‐diversity and habitat variation indices, variation partitioning and joint species distribution modelling. Our results indicated two main axes of variation in the output metrics. The first axis of variation described whether the landscape has patchy or continuous variation, and thus was essentially independent of the properties of the species community. The second axis of variation related to the level of predictability of the metacommunity. The most predictable communities were niche‐based metacommunities inhabiting static landscapes with marked environmental heterogeneity, such as metacommunities following the species sorting paradigm or the mass effects paradigm. The most unpredictable communities were neutral‐based metacommunities inhabiting dynamics landscapes with little spatial heterogeneity, such as metacommunities following the neutral or patch sorting paradigms. The output metrics from joint species distribution modelling yielded generally the highest resolution to disentangle among the simulated scenarios. Yet, the different types of statistical approaches utilized in this study carried complementary information, and thus our results suggest that the most comprehensive evaluation of metacommunity structure can be obtained by combining them.\r\n"}],"ddc":["577"],"ec_funded":1,"external_id":{"isi":["000486348700001"]},"date_updated":"2023-08-30T06:57:25Z","publisher":"Wiley","date_created":"2019-10-08T13:01:24Z","_id":"6936","quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"What can observational data reveal about metacommunity processes?","file":[{"file_id":"6937","creator":"jrybicki","relation":"main_file","date_updated":"2020-07-14T12:47:45Z","file_size":1682718,"checksum":"6c9fbbd5ea8ce10ae93e55ad560a7bf9","date_created":"2019-10-08T13:07:44Z","content_type":"application/pdf","access_level":"open_access","file_name":"ecog.04444.pdf"}],"isi":1},{"publication_identifier":{"eissn":["1521-1878"]},"ddc":["570"],"abstract":[{"lang":"eng","text":"Gene Drives are regarded as future tools with a high potential for population control. Due to their inherent ability to overcome the rules of Mendelian inheritance, gene drives (GD) may spread genes rapidly through populations of sexually reproducing organisms. A release of organisms carrying a GD would constitute a paradigm shift in the handling of genetically modified organisms because gene drive organisms (GDO) are designed to drive their transgenes into wild populations and thereby increase the number of GDOs. The rapid development in this field and its focus on wild populations demand a prospective risk assessment with a focus on exposure related aspects. Presently, it is unclear how adequate risk management could be guaranteed to limit the spread of GDs in time and space, in order to avoid potential adverse effects in socio‐ecological systems.\r\n\r\nThe recent workshop on the “Evaluation of Spatial and Temporal Control of Gene Drives” hosted by the Institute of Safety/Security and Risk Sciences (ISR) in Vienna aimed at gaining some insight into the potential population dynamic behavior of GDs and appropriate measures of control. Scientists from France, Germany, England, and the USA discussed both topics in this meeting on April 4–5, 2019. This article summarizes results of the workshop."}],"oa":1,"issue":"11","date_created":"2019-09-07T14:40:03Z","publisher":"Wiley","date_updated":"2023-08-30T06:56:26Z","external_id":{"isi":["000489502000001"]},"quality_controlled":"1","_id":"6857","isi":1,"file":[{"access_level":"open_access","content_type":"application/pdf","file_name":"2019_BioEssays_Giese.pdf","date_updated":"2020-07-14T12:47:42Z","relation":"main_file","file_id":"6939","creator":"dernst","file_size":193248,"date_created":"2019-10-11T06:59:26Z","checksum":"8cc7551bff70b2658f8d5630f228ee12"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Gene Drives: Dynamics and regulatory matters – A report from the workshop “Evaluation of spatial and temporal control of Gene Drives”, 4 – 5 April 2019, Vienna","article_processing_charge":"No","doi":"10.1002/bies.201900151","type":"journal_article","publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","scopus_import":"1","file_date_updated":"2020-07-14T12:47:42Z","month":"11","intvolume":" 41","citation":{"apa":"Giese, B., Friess, J. L., Schetelig, M. F., Barton, N. H., Messer, P., Debarre, F., … Boete, C. (2019). Gene Drives: Dynamics and regulatory matters – A report from the workshop “Evaluation of spatial and temporal control of Gene Drives”, 4 – 5 April 2019, Vienna. BioEssays. Wiley. https://doi.org/10.1002/bies.201900151","ama":"Giese B, Friess JL, Schetelig MF, et al. Gene Drives: Dynamics and regulatory matters – A report from the workshop “Evaluation of spatial and temporal control of Gene Drives”, 4 – 5 April 2019, Vienna. BioEssays. 2019;41(11). doi:10.1002/bies.201900151","short":"B. Giese, J.L. Friess, M.F. Schetelig, N.H. Barton, P. Messer, F. Debarre, H. Meimberg, N. Windbichler, C. Boete, BioEssays 41 (2019).","chicago":"Giese, B, J L Friess, M F Schetelig, Nicholas H Barton, Philip Messer, Florence Debarre, H Meimberg, N Windbichler, and C Boete. “Gene Drives: Dynamics and Regulatory Matters – A Report from the Workshop ‘Evaluation of Spatial and Temporal Control of Gene Drives’, 4 – 5 April 2019, Vienna.” BioEssays. Wiley, 2019. https://doi.org/10.1002/bies.201900151.","mla":"Giese, B., et al. “Gene Drives: Dynamics and Regulatory Matters – A Report from the Workshop ‘Evaluation of Spatial and Temporal Control of Gene Drives’, 4 – 5 April 2019, Vienna.” BioEssays, vol. 41, no. 11, 1900151, Wiley, 2019, doi:10.1002/bies.201900151.","ista":"Giese B, Friess JL, Schetelig MF, Barton NH, Messer P, Debarre F, Meimberg H, Windbichler N, Boete C. 2019. Gene Drives: Dynamics and regulatory matters – A report from the workshop “Evaluation of spatial and temporal control of Gene Drives”, 4 – 5 April 2019, Vienna. BioEssays. 41(11), 1900151.","ieee":"B. Giese et al., “Gene Drives: Dynamics and regulatory matters – A report from the workshop ‘Evaluation of spatial and temporal control of Gene Drives’, 4 – 5 April 2019, Vienna,” BioEssays, vol. 41, no. 11. Wiley, 2019."},"date_published":"2019-11-01T00:00:00Z","publication":"BioEssays","has_accepted_license":"1","article_type":"original","status":"public","language":[{"iso":"eng"}],"year":"2019","day":"01","department":[{"_id":"NiBa"}],"volume":41,"author":[{"full_name":"Giese, B","first_name":"B","last_name":"Giese"},{"last_name":"Friess","first_name":"J L","full_name":"Friess, J L"},{"last_name":"Schetelig","first_name":"M F ","full_name":"Schetelig, M F "},{"orcid":"0000-0002-8548-5240","first_name":"Nicholas H","full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton"},{"last_name":"Messer","full_name":"Messer, Philip","first_name":"Philip"},{"last_name":"Debarre","full_name":"Debarre, Florence","first_name":"Florence"},{"last_name":"Meimberg","full_name":"Meimberg, H","first_name":"H"},{"last_name":"Windbichler","first_name":"N","full_name":"Windbichler, N"},{"last_name":"Boete","full_name":"Boete, C","first_name":"C"}],"article_number":"1900151"},{"publisher":"Elsevier","date_created":"2019-09-18T08:15:37Z","external_id":{"pmid":[" 31522703"],"isi":["000501594500006"]},"date_updated":"2023-08-30T06:56:00Z","publication_identifier":{"issn":["0065-3527"],"isbn":["9780128184561"]},"abstract":[{"lang":"eng","text":"Describing the protein interactions that form pleomorphic and asymmetric viruses represents a considerable challenge to most structural biology techniques, including X-ray crystallography and single particle cryo-electron microscopy. Obtaining a detailed understanding of these interactions is nevertheless important, considering the number of relevant human pathogens that do not follow strict icosahedral or helical symmetry. Cryo-electron tomography and subtomogram averaging methods provide structural insights into complex biological environments and are well suited to go beyond structures of perfectly symmetric viruses. This chapter discusses recent developments showing that cryo-ET and subtomogram averaging can provide high-resolution insights into hitherto unknown structural features of pleomorphic and asymmetric virus particles. It also describes how these methods have significantly added to our understanding of retrovirus capsid assemblies in immature and mature viruses. Additional examples of irregular viruses and their associated proteins, whose structures have been studied via cryo-ET and subtomogram averaging, further support the versatility of these methods."}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Structural analysis of pleomorphic and asymmetric viruses using cryo-electron tomography and subtomogram averaging","quality_controlled":"1","_id":"6890","month":"08","intvolume":" 105","scopus_import":"1","oa_version":"None","publication":"Complementary Strategies to Study Virus Structure and Function","date_published":"2019-08-27T00:00:00Z","citation":{"mla":"Obr, Martin, and Florian KM Schur. “Structural Analysis of Pleomorphic and Asymmetric Viruses Using Cryo-Electron Tomography and Subtomogram Averaging.” Complementary Strategies to Study Virus Structure and Function, edited by Félix A. Rey, vol. 105, Elsevier, 2019, pp. 117–59, doi:10.1016/bs.aivir.2019.07.008.","ieee":"M. Obr and F. K. Schur, “Structural analysis of pleomorphic and asymmetric viruses using cryo-electron tomography and subtomogram averaging,” in Complementary Strategies to Study Virus Structure and Function, vol. 105, F. A. Rey, Ed. Elsevier, 2019, pp. 117–159.","ista":"Obr M, Schur FK. 2019.Structural analysis of pleomorphic and asymmetric viruses using cryo-electron tomography and subtomogram averaging. In: Complementary Strategies to Study Virus Structure and Function. vol. 105, 117–159.","chicago":"Obr, Martin, and Florian KM Schur. “Structural Analysis of Pleomorphic and Asymmetric Viruses Using Cryo-Electron Tomography and Subtomogram Averaging.” In Complementary Strategies to Study Virus Structure and Function, edited by Félix A. Rey, 105:117–59. Advances in Virus Research. Elsevier, 2019. https://doi.org/10.1016/bs.aivir.2019.07.008.","ama":"Obr M, Schur FK. Structural analysis of pleomorphic and asymmetric viruses using cryo-electron tomography and subtomogram averaging. In: Rey FA, ed. Complementary Strategies to Study Virus Structure and Function. Vol 105. Advances in Virus Research. Elsevier; 2019:117-159. doi:10.1016/bs.aivir.2019.07.008","apa":"Obr, M., & Schur, F. K. (2019). Structural analysis of pleomorphic and asymmetric viruses using cryo-electron tomography and subtomogram averaging. In F. A. Rey (Ed.), Complementary Strategies to Study Virus Structure and Function (Vol. 105, pp. 117–159). Elsevier. https://doi.org/10.1016/bs.aivir.2019.07.008","short":"M. Obr, F.K. Schur, in:, F.A. Rey (Ed.), Complementary Strategies to Study Virus Structure and Function, Elsevier, 2019, pp. 117–159."},"article_processing_charge":"No","type":"book_chapter","doi":"10.1016/bs.aivir.2019.07.008","series_title":"Advances in Virus Research","page":"117-159","publication_status":"published","pmid":1,"department":[{"_id":"FlSc"}],"volume":105,"author":[{"last_name":"Obr","id":"4741CA5A-F248-11E8-B48F-1D18A9856A87","full_name":"Obr, Martin","first_name":"Martin","orcid":"0000-0003-1756-6564"},{"full_name":"Schur, Florian KM","first_name":"Florian KM","orcid":"0000-0003-4790-8078","last_name":"Schur","id":"48AD8942-F248-11E8-B48F-1D18A9856A87"}],"editor":[{"last_name":"Rey","first_name":"Félix A.","full_name":"Rey, Félix A."}],"language":[{"iso":"eng"}],"year":"2019","day":"27","status":"public"},{"date_created":"2019-10-14T06:31:13Z","publisher":"American Physical Society","date_updated":"2023-08-30T06:57:53Z","external_id":{"isi":["000483587200004"],"arxiv":["1907.06253"]},"acknowledgement":"We thank S. Chiacchiera, G. Delfino, N. Dupuis, T. Enss, M. Fabrizio and G. Gori for many stimulating discussions.\r\nG.B. acknowledges support from the Austrian Science Fund (FWF), under project No. M2461-N27. N.D. acknowledges\r\nsupport from Deutsche Forschungsgemeinschaft (DFG) under Germany’s Excellence Strategy EXC-2181/1 - 390900948 (the Heidelberg STRUCTURES Excellence Cluster) and from the DFG Collaborative Research Centre “SFB 1225 ISOQUANT”. Support from the CNR/MTA Italy-Hungary 2019-2021 Joint Project “Strongly interacting systems in confined geometries” is gratefully acknowledged.","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1907.06253"}],"publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"abstract":[{"text":"We study the effect of a linear tunneling coupling between two-dimensional systems, each separately\r\nexhibiting the topological Berezinskii-Kosterlitz-Thouless (BKT) transition. In the uncoupled limit, there\r\nare two phases: one where the one-body correlation functions are algebraically decaying and the other with\r\nexponential decay. When the linear coupling is turned on, a third BKT-paired phase emerges, in which one-body correlations are exponentially decaying, while two-body correlation functions exhibit power-law\r\ndecay. We perform numerical simulations in the paradigmatic case of two coupled XY models at finite\r\ntemperature, finding evidences that for any finite value of the interlayer coupling, the BKT-paired phase is\r\npresent. We provide a picture of the phase diagram using a renormalization group approach.","lang":"eng"}],"oa":1,"project":[{"name":"A path-integral approach to composite impurities","grant_number":"M02641","_id":"26986C82-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"related_material":{"link":[{"description":"News auf IST Website","relation":"press_release","url":"https://ist.ac.at/en/news/new-form-of-magnetism-found/"}]},"issue":"10","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Berezinskii-Kosterlitz-Thouless paired phase in coupled XY models","quality_controlled":"1","_id":"6940","scopus_import":"1","oa_version":"Preprint","intvolume":" 123","month":"09","citation":{"chicago":"Bighin, Giacomo, Nicolò Defenu, István Nándori, Luca Salasnich, and Andrea Trombettoni. “Berezinskii-Kosterlitz-Thouless Paired Phase in Coupled XY Models.” Physical Review Letters. American Physical Society, 2019. https://doi.org/10.1103/physrevlett.123.100601.","short":"G. Bighin, N. Defenu, I. Nándori, L. Salasnich, A. Trombettoni, Physical Review Letters 123 (2019).","ama":"Bighin G, Defenu N, Nándori I, Salasnich L, Trombettoni A. Berezinskii-Kosterlitz-Thouless paired phase in coupled XY models. Physical Review Letters. 2019;123(10). doi:10.1103/physrevlett.123.100601","apa":"Bighin, G., Defenu, N., Nándori, I., Salasnich, L., & Trombettoni, A. (2019). Berezinskii-Kosterlitz-Thouless paired phase in coupled XY models. Physical Review Letters. American Physical Society. https://doi.org/10.1103/physrevlett.123.100601","ista":"Bighin G, Defenu N, Nándori I, Salasnich L, Trombettoni A. 2019. Berezinskii-Kosterlitz-Thouless paired phase in coupled XY models. Physical Review Letters. 123(10), 100601.","mla":"Bighin, Giacomo, et al. “Berezinskii-Kosterlitz-Thouless Paired Phase in Coupled XY Models.” Physical Review Letters, vol. 123, no. 10, 100601, American Physical Society, 2019, doi:10.1103/physrevlett.123.100601.","ieee":"G. Bighin, N. Defenu, I. Nándori, L. Salasnich, and A. Trombettoni, “Berezinskii-Kosterlitz-Thouless paired phase in coupled XY models,” Physical Review Letters, vol. 123, no. 10. American Physical Society, 2019."},"date_published":"2019-09-06T00:00:00Z","publication":"Physical Review Letters","article_processing_charge":"No","type":"journal_article","doi":"10.1103/physrevlett.123.100601","publication_status":"published","department":[{"_id":"MiLe"}],"volume":123,"author":[{"orcid":"0000-0001-8823-9777","first_name":"Giacomo","full_name":"Bighin, Giacomo","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87","last_name":"Bighin"},{"last_name":"Defenu","full_name":"Defenu, Nicolò","first_name":"Nicolò"},{"first_name":"István","full_name":"Nándori, István","last_name":"Nándori"},{"full_name":"Salasnich, Luca","first_name":"Luca","last_name":"Salasnich"},{"last_name":"Trombettoni","full_name":"Trombettoni, Andrea","first_name":"Andrea"}],"article_number":"100601","article_type":"original","status":"public","language":[{"iso":"eng"}],"year":"2019","day":"06"},{"isi":1,"file":[{"access_level":"open_access","content_type":"application/pdf","file_name":"2019_AAAS_Qi.pdf","relation":"main_file","date_updated":"2020-07-14T12:47:44Z","creator":"kschuh","file_id":"6928","checksum":"b2256c9117655bc15f621ba0babf219f","date_created":"2019-10-02T11:13:54Z","file_size":1236101}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Structural basis of sterol recognition by human hedgehog receptor PTCH1","quality_controlled":"1","_id":"6919","date_created":"2019-09-29T22:00:45Z","publisher":"American Association for the Advancement of Science","date_updated":"2023-08-30T06:55:31Z","external_id":{"isi":["000491128800062"]},"publication_identifier":{"eissn":["23752548"]},"ddc":["570"],"oa":1,"issue":"9","department":[{"_id":"LeSa"}],"volume":5,"author":[{"full_name":"Qi, Chao","first_name":"Chao","last_name":"Qi"},{"first_name":"Giulio Di","full_name":"Minin, Giulio Di","last_name":"Minin"},{"id":"3ED6AF16-F248-11E8-B48F-1D18A9856A87","last_name":"Vercellino","first_name":"Irene","full_name":"Vercellino, Irene","orcid":"0000-0001-5618-3449"},{"full_name":"Wutz, Anton","first_name":"Anton","last_name":"Wutz"},{"last_name":"Korkhov","first_name":"Volodymyr M.","full_name":"Korkhov, Volodymyr M."}],"article_number":"eaaw6490","has_accepted_license":"1","status":"public","year":"2019","day":"18","language":[{"iso":"eng"}],"scopus_import":"1","oa_version":"Published Version","file_date_updated":"2020-07-14T12:47:44Z","month":"09","intvolume":" 5","citation":{"short":"C. Qi, G.D. Minin, I. Vercellino, A. Wutz, V.M. Korkhov, Science Advances 5 (2019).","apa":"Qi, C., Minin, G. D., Vercellino, I., Wutz, A., & Korkhov, V. M. (2019). Structural basis of sterol recognition by human hedgehog receptor PTCH1. Science Advances. American Association for the Advancement of Science. https://doi.org/10.1126/sciadv.aaw6490","ama":"Qi C, Minin GD, Vercellino I, Wutz A, Korkhov VM. Structural basis of sterol recognition by human hedgehog receptor PTCH1. Science Advances. 2019;5(9). doi:10.1126/sciadv.aaw6490","chicago":"Qi, Chao, Giulio Di Minin, Irene Vercellino, Anton Wutz, and Volodymyr M. Korkhov. “Structural Basis of Sterol Recognition by Human Hedgehog Receptor PTCH1.” Science Advances. American Association for the Advancement of Science, 2019. https://doi.org/10.1126/sciadv.aaw6490.","ieee":"C. Qi, G. D. Minin, I. Vercellino, A. Wutz, and V. M. Korkhov, “Structural basis of sterol recognition by human hedgehog receptor PTCH1,” Science Advances, vol. 5, no. 9. American Association for the Advancement of Science, 2019.","ista":"Qi C, Minin GD, Vercellino I, Wutz A, Korkhov VM. 2019. Structural basis of sterol recognition by human hedgehog receptor PTCH1. Science Advances. 5(9), eaaw6490.","mla":"Qi, Chao, et al. “Structural Basis of Sterol Recognition by Human Hedgehog Receptor PTCH1.” Science Advances, vol. 5, no. 9, eaaw6490, American Association for the Advancement of Science, 2019, doi:10.1126/sciadv.aaw6490."},"publication":"Science Advances","date_published":"2019-09-18T00:00:00Z","article_processing_charge":"No","doi":"10.1126/sciadv.aaw6490","type":"journal_article","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png"}},{"publication_identifier":{"issn":["1664-3224"]},"abstract":[{"lang":"eng","text":"Malaria, a disease caused by parasites of the Plasmodium genus, begins when Plasmodium-infected mosquitoes inject malaria sporozoites while searching for blood. Sporozoites migrate from the skin via blood to the liver, infect hepatocytes, and form liver stages which in mice 48 h later escape into blood and cause clinical malaria. Vaccine-induced activated or memory CD8 T cells are capable of locating and eliminating all liver stages in 48 h, thus preventing the blood-stage disease. However, the rules of how CD8 T cells are able to locate all liver stages within a relatively short time period remains poorly understood. We recently reported formation of clusters consisting of variable numbers of activated CD8 T cells around Plasmodium yoelii (Py)-infected hepatocytes. Using a combination of experimental data and mathematical models we now provide additional insights into mechanisms of formation of these clusters. First, we show that a model in which cluster formation is driven exclusively by T-cell-extrinsic factors, such as variability in “attractiveness” of different liver stages, cannot explain distribution of cluster sizes in different experimental conditions. In contrast, the model in which cluster formation is driven by the positive feedback loop (i.e., larger clusters attract more CD8 T cells) can accurately explain the available data. Second, while both Py-specific CD8 T cells and T cells of irrelevant specificity (non-specific CD8 T cells) are attracted to the clusters, we found no evidence that non-specific CD8 T cells play a role in cluster formation. Third and finally, mathematical modeling suggested that formation of clusters occurs rapidly, within few hours after adoptive transfer of CD8 T cells, thus illustrating high efficiency of CD8 T cells in locating their targets in complex peripheral organs, such as the liver. Taken together, our analysis provides novel insights into and attempts to discriminate between alternative mechanisms driving the formation of clusters of antigen-specific CD8 T cells in the liver."}],"ddc":["570"],"oa":1,"publisher":"Frontiers","date_created":"2019-11-04T15:50:06Z","external_id":{"pmid":["31616407"],"isi":["000487187000001"]},"date_updated":"2023-08-30T07:18:23Z","quality_controlled":"1","_id":"6983","file":[{"relation":"main_file","date_updated":"2020-07-14T12:47:46Z","file_id":"6984","creator":"dernst","file_size":2083061,"checksum":"68d1708f7aa412544159b498ef17a6b9","date_created":"2019-11-04T15:54:00Z","access_level":"open_access","content_type":"application/pdf","file_name":"2019_FrontiersImmonology_Kelemen.pdf"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Clustering of activated CD8 T cells around Malaria-infected hepatocytes is rapid and is driven by antigen-specific cells","article_processing_charge":"No","type":"journal_article","doi":"10.3389/fimmu.2019.02153","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","file_date_updated":"2020-07-14T12:47:46Z","month":"09","intvolume":" 10","oa_version":"Published Version","scopus_import":"1","publication":"Frontiers in Immunology","date_published":"2019-09-20T00:00:00Z","citation":{"ieee":"R. K. Kelemen, H. Rajakaruna, I. Cockburn, and V. Ganusov, “Clustering of activated CD8 T cells around Malaria-infected hepatocytes is rapid and is driven by antigen-specific cells,” Frontiers in Immunology, vol. 10. Frontiers, 2019.","mla":"Kelemen, Réka K., et al. “Clustering of Activated CD8 T Cells around Malaria-Infected Hepatocytes Is Rapid and Is Driven by Antigen-Specific Cells.” Frontiers in Immunology, vol. 10, 2153, Frontiers, 2019, doi:10.3389/fimmu.2019.02153.","ista":"Kelemen RK, Rajakaruna H, Cockburn I, Ganusov V. 2019. Clustering of activated CD8 T cells around Malaria-infected hepatocytes is rapid and is driven by antigen-specific cells. Frontiers in Immunology. 10, 2153.","chicago":"Kelemen, Réka K, H Rajakaruna, IA Cockburn, and VV Ganusov. “Clustering of Activated CD8 T Cells around Malaria-Infected Hepatocytes Is Rapid and Is Driven by Antigen-Specific Cells.” Frontiers in Immunology. Frontiers, 2019. https://doi.org/10.3389/fimmu.2019.02153.","apa":"Kelemen, R. K., Rajakaruna, H., Cockburn, I., & Ganusov, V. (2019). Clustering of activated CD8 T cells around Malaria-infected hepatocytes is rapid and is driven by antigen-specific cells. Frontiers in Immunology. Frontiers. https://doi.org/10.3389/fimmu.2019.02153","ama":"Kelemen RK, Rajakaruna H, Cockburn I, Ganusov V. Clustering of activated CD8 T cells around Malaria-infected hepatocytes is rapid and is driven by antigen-specific cells. Frontiers in Immunology. 2019;10. doi:10.3389/fimmu.2019.02153","short":"R.K. Kelemen, H. Rajakaruna, I. Cockburn, V. Ganusov, Frontiers in Immunology 10 (2019)."},"has_accepted_license":"1","article_type":"original","language":[{"iso":"eng"}],"year":"2019","day":"20","status":"public","department":[{"_id":"BeVi"}],"pmid":1,"volume":10,"author":[{"orcid":"0000-0002-8489-9281","full_name":"Kelemen, Réka K","first_name":"Réka K","last_name":"Kelemen","id":"48D3F8DE-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Rajakaruna","first_name":"H","full_name":"Rajakaruna, H"},{"last_name":"Cockburn","first_name":"IA","full_name":"Cockburn, IA"},{"last_name":"Ganusov","first_name":"VV","full_name":"Ganusov, VV"}],"article_number":"2153"},{"publication_status":"published","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"type":"journal_article","doi":"10.1145/3339471","article_processing_charge":"Yes","citation":{"ama":"Lenzen C, Rybicki J. Self-stabilising Byzantine clock synchronisation is almost as easy as consensus. Journal of the ACM. 2019;66(5). doi:10.1145/3339471","apa":"Lenzen, C., & Rybicki, J. (2019). Self-stabilising Byzantine clock synchronisation is almost as easy as consensus. Journal of the ACM. ACM. https://doi.org/10.1145/3339471","short":"C. Lenzen, J. Rybicki, Journal of the ACM 66 (2019).","chicago":"Lenzen, Christoph, and Joel Rybicki. “Self-Stabilising Byzantine Clock Synchronisation Is Almost as Easy as Consensus.” Journal of the ACM. ACM, 2019. https://doi.org/10.1145/3339471.","ieee":"C. Lenzen and J. Rybicki, “Self-stabilising Byzantine clock synchronisation is almost as easy as consensus,” Journal of the ACM, vol. 66, no. 5. ACM, 2019.","mla":"Lenzen, Christoph, and Joel Rybicki. “Self-Stabilising Byzantine Clock Synchronisation Is Almost as Easy as Consensus.” Journal of the ACM, vol. 66, no. 5, 32, ACM, 2019, doi:10.1145/3339471.","ista":"Lenzen C, Rybicki J. 2019. Self-stabilising Byzantine clock synchronisation is almost as easy as consensus. Journal of the ACM. 66(5), 32."},"date_published":"2019-09-01T00:00:00Z","publication":"Journal of the ACM","scopus_import":"1","oa_version":"Published Version","intvolume":" 66","month":"09","file_date_updated":"2020-07-14T12:47:46Z","status":"public","day":"01","language":[{"iso":"eng"}],"year":"2019","article_type":"original","has_accepted_license":"1","article_number":"32","author":[{"first_name":"Christoph","full_name":"Lenzen, Christoph","last_name":"Lenzen"},{"id":"334EFD2E-F248-11E8-B48F-1D18A9856A87","last_name":"Rybicki","orcid":"0000-0002-6432-6646","first_name":"Joel","full_name":"Rybicki, Joel"}],"volume":66,"department":[{"_id":"DaAl"}],"issue":"5","project":[{"_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411"}],"oa":1,"ec_funded":1,"ddc":["000"],"abstract":[{"text":"We give fault-tolerant algorithms for establishing synchrony in distributed systems in which each of thennodes has its own clock. Our algorithms operate in a very strong fault model: we require self-stabilisation, i.e.,the initial state of the system may be arbitrary, and there can be up to f