[{"day":"07","month":"01","scopus_import":1,"language":[{"iso":"eng"}],"doi":"10.1073/pnas.1303317110","date_published":"2014-01-07T00:00:00Z","page":"E194 - E202","citation":{"ama":"Aziz W, Wang W, Kesaf S, Mohamed A, Fukazawa Y, Shigemoto R. Distinct kinetics of synaptic structural plasticity, memory formation, and memory decay in massed and spaced learning. PNAS. 2014;111(1):E194-E202. doi:10.1073/pnas.1303317110","apa":"Aziz, W., Wang, W., Kesaf, S., Mohamed, A., Fukazawa, Y., & Shigemoto, R. (2014). Distinct kinetics of synaptic structural plasticity, memory formation, and memory decay in massed and spaced learning. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1303317110","ieee":"W. Aziz, W. Wang, S. Kesaf, A. Mohamed, Y. Fukazawa, and R. Shigemoto, “Distinct kinetics of synaptic structural plasticity, memory formation, and memory decay in massed and spaced learning,” PNAS, vol. 111, no. 1. National Academy of Sciences, pp. E194–E202, 2014.","ista":"Aziz W, Wang W, Kesaf S, Mohamed A, Fukazawa Y, Shigemoto R. 2014. Distinct kinetics of synaptic structural plasticity, memory formation, and memory decay in massed and spaced learning. PNAS. 111(1), E194–E202.","short":"W. Aziz, W. Wang, S. Kesaf, A. Mohamed, Y. Fukazawa, R. Shigemoto, PNAS 111 (2014) E194–E202.","mla":"Aziz, Wajeeha, et al. “Distinct Kinetics of Synaptic Structural Plasticity, Memory Formation, and Memory Decay in Massed and Spaced Learning.” PNAS, vol. 111, no. 1, National Academy of Sciences, 2014, pp. E194–202, doi:10.1073/pnas.1303317110.","chicago":"Aziz, Wajeeha, Wen Wang, Sebnem Kesaf, Alsayed Mohamed, Yugo Fukazawa, and Ryuichi Shigemoto. “Distinct Kinetics of Synaptic Structural Plasticity, Memory Formation, and Memory Decay in Massed and Spaced Learning.” PNAS. National Academy of Sciences, 2014. https://doi.org/10.1073/pnas.1303317110."},"main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3890840/"}],"oa":1,"publication":"PNAS","issue":"1","publist_id":"5175","abstract":[{"text":"Long-lasting memories are formed when the stimulus is temporally distributed (spacing effect). However, the synaptic mechanisms underlying this robust phenomenon and the precise time course of the synaptic modifications that occur during learning remain unclear. Here we examined the adaptation of horizontal optokinetic response in mice that underwent 1 h of massed and spaced training at varying intervals. Despite similar acquisition by all training protocols, 1 h of spacing produced the highest memory retention at 24 h, which lasted for 1 mo. The distinct kinetics of memory are strongly correlated with the reduction of floccular parallel fiber-Purkinje cell synapses but not with AMPA receptor (AMPAR) number and synapse size. After the spaced training, we observed 25%, 23%, and 12% reduction in AMPAR density, synapse size, and synapse number, respectively. Four hours after the spaced training, half of the synapses and Purkinje cell spines had been eliminated, whereas AMPAR density and synapse size were recovered in remaining synapses. Surprisingly, massed training also produced long-term memory and halving of synapses; however, this occurred slowly over days, and the memory lasted for only 1 wk. This distinct kinetics of structural plasticity may serve as a basis for unique temporal profiles in the formation and decay of memory with or without intervals.","lang":"eng"}],"type":"journal_article","volume":111,"oa_version":"Submitted Version","date_updated":"2021-01-12T06:54:04Z","date_created":"2018-12-11T11:54:43Z","author":[{"full_name":"Aziz, Wajeeha","last_name":"Aziz","first_name":"Wajeeha"},{"full_name":"Wang, Wen","last_name":"Wang","first_name":"Wen"},{"id":"401AB46C-F248-11E8-B48F-1D18A9856A87","first_name":"Sebnem","last_name":"Kesaf","full_name":"Kesaf, Sebnem"},{"first_name":"Alsayed","last_name":"Mohamed","full_name":"Mohamed, Alsayed"},{"last_name":"Fukazawa","first_name":"Yugo","full_name":"Fukazawa, Yugo"},{"first_name":"Ryuichi","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi"}],"department":[{"_id":"RySh"}],"intvolume":" 111","publisher":"National Academy of Sciences","publication_status":"published","title":"Distinct kinetics of synaptic structural plasticity, memory formation, and memory decay in massed and spaced learning","status":"public","_id":"1919","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","acknowledgement":"his work was supported by Solution Oriented Research for Science and Technology (R.S.), Core Research for Evolutional Science and Technology, Japan Science and Technology Agency (Y.F.), and Grants-in-Aid for Scientific Research on Priority Areas-Molecular Brain Sciences 16300114 (to R.S.) and 18022043 (to Y.F.).","year":"2014"},{"scopus_import":1,"day":"01","publication":"Reviews in Mathematical Physics","citation":{"short":"J. Bellazzini, R. Frank, É. Lieb, R. Seiringer, Reviews in Mathematical Physics 26 (2014).","mla":"Bellazzini, Jacopo, et al. “Existence of Ground States for Negative Ions at the Binding Threshold.” Reviews in Mathematical Physics, vol. 26, no. 1, 1350021, World Scientific Publishing, 2014, doi:10.1142/S0129055X13500219.","chicago":"Bellazzini, Jacopo, Rupert Frank, Élliott Lieb, and Robert Seiringer. “Existence of Ground States for Negative Ions at the Binding Threshold.” Reviews in Mathematical Physics. World Scientific Publishing, 2014. https://doi.org/10.1142/S0129055X13500219.","ama":"Bellazzini J, Frank R, Lieb É, Seiringer R. Existence of ground states for negative ions at the binding threshold. Reviews in Mathematical Physics. 2014;26(1). doi:10.1142/S0129055X13500219","ieee":"J. Bellazzini, R. Frank, É. Lieb, and R. Seiringer, “Existence of ground states for negative ions at the binding threshold,” Reviews in Mathematical Physics, vol. 26, no. 1. World Scientific Publishing, 2014.","apa":"Bellazzini, J., Frank, R., Lieb, É., & Seiringer, R. (2014). Existence of ground states for negative ions at the binding threshold. Reviews in Mathematical Physics. World Scientific Publishing. https://doi.org/10.1142/S0129055X13500219","ista":"Bellazzini J, Frank R, Lieb É, Seiringer R. 2014. Existence of ground states for negative ions at the binding threshold. Reviews in Mathematical Physics. 26(1), 1350021."},"date_published":"2014-02-01T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"As the nuclear charge Z is continuously decreased an N-electron atom undergoes a binding-unbinding transition. We investigate whether the electrons remain bound and whether the radius of the system stays finite as the critical value Zc is approached. Existence of a ground state at Zc is shown under the condition Zc < N-K, where K is the maximal number of electrons that can be removed at Zc without changing the energy."}],"issue":"1","title":"Existence of ground states for negative ions at the binding threshold","status":"public","intvolume":" 26","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"1918","oa_version":"Submitted Version","month":"02","quality_controlled":"1","project":[{"_id":"26450934-B435-11E9-9278-68D0E5697425","name":"NSERC Postdoctoral fellowship"}],"oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1301.5370"}],"language":[{"iso":"eng"}],"doi":"10.1142/S0129055X13500219","article_number":"1350021","publist_id":"5176","publication_status":"published","department":[{"_id":"RoSe"}],"publisher":"World Scientific Publishing","year":"2014","date_updated":"2021-01-12T06:54:04Z","date_created":"2018-12-11T11:54:42Z","volume":26,"author":[{"full_name":"Bellazzini, Jacopo","last_name":"Bellazzini","first_name":"Jacopo"},{"full_name":"Frank, Rupert","last_name":"Frank","first_name":"Rupert"},{"first_name":"Élliott","last_name":"Lieb","full_name":"Lieb, Élliott"},{"full_name":"Seiringer, Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521","first_name":"Robert","last_name":"Seiringer"}]},{"author":[{"full_name":"Sauer, Michael","last_name":"Sauer","first_name":"Michael"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí","full_name":"Friml, Jirí"}],"date_updated":"2021-01-12T06:54:02Z","date_created":"2018-12-11T11:54:41Z","oa_version":"None","volume":24,"year":"2014","_id":"1914","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","status":"public","title":"Plant biology: Gatekeepers of the road to protein perdition","department":[{"_id":"JiFr"}],"publisher":"Cell Press","intvolume":" 24","abstract":[{"lang":"eng","text":"Targeting membrane proteins for degradation requires the sequential action of ESCRT sub-complexes ESCRT-0 to ESCRT-III. Although this machinery is generally conserved among kingdoms, plants lack the essential ESCRT-0 components. A new report closes this gap by identifying a novel protein family that substitutes for ESCRT-0 function in plants."}],"publist_id":"5180","issue":"1","type":"journal_article","date_published":"2014-01-06T00:00:00Z","doi":"10.1016/j.cub.2013.11.019","language":[{"iso":"eng"}],"publication":"Current Biology","citation":{"chicago":"Sauer, Michael, and Jiří Friml. “Plant Biology: Gatekeepers of the Road to Protein Perdition.” Current Biology. Cell Press, 2014. https://doi.org/10.1016/j.cub.2013.11.019.","mla":"Sauer, Michael, and Jiří Friml. “Plant Biology: Gatekeepers of the Road to Protein Perdition.” Current Biology, vol. 24, no. 1, Cell Press, 2014, pp. R27–29, doi:10.1016/j.cub.2013.11.019.","short":"M. Sauer, J. Friml, Current Biology 24 (2014) R27–R29.","ista":"Sauer M, Friml J. 2014. Plant biology: Gatekeepers of the road to protein perdition. Current Biology. 24(1), R27–R29.","ieee":"M. Sauer and J. Friml, “Plant biology: Gatekeepers of the road to protein perdition,” Current Biology, vol. 24, no. 1. Cell Press, pp. R27–R29, 2014.","apa":"Sauer, M., & Friml, J. (2014). Plant biology: Gatekeepers of the road to protein perdition. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2013.11.019","ama":"Sauer M, Friml J. Plant biology: Gatekeepers of the road to protein perdition. Current Biology. 2014;24(1):R27-R29. doi:10.1016/j.cub.2013.11.019"},"quality_controlled":"1","page":"R27 - R29","month":"01","day":"06","scopus_import":1},{"author":[{"first_name":"Constanze","last_name":"Lamprecht","full_name":"Lamprecht, Constanze"},{"last_name":"Plochberger","first_name":"Birgit","full_name":"Plochberger, Birgit"},{"full_name":"Ruprecht, Verena","id":"4D71A03A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4088-8633","first_name":"Verena","last_name":"Ruprecht"},{"full_name":"Wieser, Stefan","orcid":"0000-0002-2670-2217","id":"355AA5A0-F248-11E8-B48F-1D18A9856A87","last_name":"Wieser","first_name":"Stefan"},{"first_name":"Christian","last_name":"Rankl","full_name":"Rankl, Christian"},{"full_name":"Heister, Elena","last_name":"Heister","first_name":"Elena"},{"full_name":"Unterauer, Barbara","first_name":"Barbara","last_name":"Unterauer"},{"last_name":"Brameshuber","first_name":"Mario","full_name":"Brameshuber, Mario"},{"full_name":"Danzberger, Jürgen","first_name":"Jürgen","last_name":"Danzberger"},{"full_name":"Lukanov, Petar","first_name":"Petar","last_name":"Lukanov"},{"first_name":"Emmanuel","last_name":"Flahaut","full_name":"Flahaut, Emmanuel"},{"full_name":"Schütz, Gerhard","last_name":"Schütz","first_name":"Gerhard"},{"full_name":"Hinterdorfer, Peter","first_name":"Peter","last_name":"Hinterdorfer"},{"full_name":"Ebner, Andreas","last_name":"Ebner","first_name":"Andreas"}],"date_updated":"2021-01-12T06:54:07Z","date_created":"2018-12-11T11:54:45Z","volume":25,"acknowledgement":"This work was supported by EC grant Marie Curie RTN-CT-2006-035616, CARBIO 'Carbon nanotubes for biomedical applications' and Austrian FFG grant mnt-era.net 823980, 'IntelliTip'.\r\n","year":"2014","publication_status":"published","publisher":"IOP Publishing","department":[{"_id":"CaHe"},{"_id":"MiSi"}],"file_date_updated":"2020-07-14T12:45:21Z","publist_id":"5169","article_number":"125704","doi":"10.1088/0957-4484/25/12/125704","language":[{"iso":"eng"}],"oa":1,"month":"03","oa_version":"Submitted Version","file":[{"relation":"main_file","file_id":"7856","checksum":"df4e03d225a19179e7790f6d87a12332","date_updated":"2020-07-14T12:45:21Z","date_created":"2020-05-15T09:21:19Z","access_level":"open_access","file_name":"2014_Nanotechnology_Lamprecht.pdf","content_type":"application/pdf","file_size":3804152,"creator":"dernst"}],"_id":"1925","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["570"],"title":"A single-molecule approach to explore binding uptake and transport of cancer cell targeting nanotubes","status":"public","intvolume":" 25","abstract":[{"text":"In the past decade carbon nanotubes (CNTs) have been widely studied as a potential drug-delivery system, especially with functionality for cellular targeting. Yet, little is known about the actual process of docking to cell receptors and transport dynamics after internalization. Here we performed single-particle studies of folic acid (FA) mediated CNT binding to human carcinoma cells and their transport inside the cytosol. In particular, we employed molecular recognition force spectroscopy, an atomic force microscopy based method, to visualize and quantify docking of FA functionalized CNTs to FA binding receptors in terms of binding probability and binding force. We then traced individual fluorescently labeled, FA functionalized CNTs after specific uptake, and created a dynamic 'roadmap' that clearly showed trajectories of directed diffusion and areas of nanotube confinement in the cytosol. Our results demonstrate the potential of a single-molecule approach for investigation of drug-delivery vehicles and their targeting capacity.","lang":"eng"}],"issue":"12","type":"journal_article","date_published":"2014-03-28T00:00:00Z","publication":"Nanotechnology","citation":{"chicago":"Lamprecht, Constanze, Birgit Plochberger, Verena Ruprecht, Stefan Wieser, Christian Rankl, Elena Heister, Barbara Unterauer, et al. “A Single-Molecule Approach to Explore Binding Uptake and Transport of Cancer Cell Targeting Nanotubes.” Nanotechnology. IOP Publishing, 2014. https://doi.org/10.1088/0957-4484/25/12/125704.","short":"C. Lamprecht, B. Plochberger, V. Ruprecht, S. Wieser, C. Rankl, E. Heister, B. Unterauer, M. Brameshuber, J. Danzberger, P. Lukanov, E. Flahaut, G. Schütz, P. Hinterdorfer, A. Ebner, Nanotechnology 25 (2014).","mla":"Lamprecht, Constanze, et al. “A Single-Molecule Approach to Explore Binding Uptake and Transport of Cancer Cell Targeting Nanotubes.” Nanotechnology, vol. 25, no. 12, 125704, IOP Publishing, 2014, doi:10.1088/0957-4484/25/12/125704.","ieee":"C. Lamprecht et al., “A single-molecule approach to explore binding uptake and transport of cancer cell targeting nanotubes,” Nanotechnology, vol. 25, no. 12. IOP Publishing, 2014.","apa":"Lamprecht, C., Plochberger, B., Ruprecht, V., Wieser, S., Rankl, C., Heister, E., … Ebner, A. (2014). A single-molecule approach to explore binding uptake and transport of cancer cell targeting nanotubes. Nanotechnology. IOP Publishing. https://doi.org/10.1088/0957-4484/25/12/125704","ista":"Lamprecht C, Plochberger B, Ruprecht V, Wieser S, Rankl C, Heister E, Unterauer B, Brameshuber M, Danzberger J, Lukanov P, Flahaut E, Schütz G, Hinterdorfer P, Ebner A. 2014. A single-molecule approach to explore binding uptake and transport of cancer cell targeting nanotubes. Nanotechnology. 25(12), 125704.","ama":"Lamprecht C, Plochberger B, Ruprecht V, et al. A single-molecule approach to explore binding uptake and transport of cancer cell targeting nanotubes. Nanotechnology. 2014;25(12). doi:10.1088/0957-4484/25/12/125704"},"article_type":"original","day":"28","article_processing_charge":"No","has_accepted_license":"1","scopus_import":1},{"month":"06","quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"language":[{"iso":"eng"}],"doi":"10.1088/1367-2630/16/6/065005","article_number":"065005","license":"https://creativecommons.org/licenses/by/4.0/","file_date_updated":"2020-07-14T12:45:21Z","publist_id":"5171","publication_status":"published","department":[{"_id":"CaHe"}],"publisher":"IOP Publishing Ltd.","year":"2014","date_created":"2018-12-11T11:54:44Z","date_updated":"2021-01-12T06:54:06Z","volume":16,"author":[{"first_name":"Hélène","last_name":"Berthoumieux","full_name":"Berthoumieux, Hélène"},{"full_name":"Maître, Jean-Léon","last_name":"Maître","first_name":"Jean-Léon","orcid":"0000-0002-3688-1474","id":"48F1E0D8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566"},{"last_name":"Paluch","first_name":"Ewa","full_name":"Paluch, Ewa"},{"full_name":"Julicher, Frank","last_name":"Julicher","first_name":"Frank"},{"full_name":"Salbreux, Guillaume","last_name":"Salbreux","first_name":"Guillaume"}],"scopus_import":1,"day":"01","has_accepted_license":"1","publication":"New Journal of Physics","citation":{"chicago":"Berthoumieux, Hélène, Jean-Léon Maître, Carl-Philipp J Heisenberg, Ewa Paluch, Frank Julicher, and Guillaume Salbreux. “Active Elastic Thin Shell Theory for Cellular Deformations.” New Journal of Physics. IOP Publishing Ltd., 2014. https://doi.org/10.1088/1367-2630/16/6/065005.","short":"H. Berthoumieux, J.-L. Maître, C.-P.J. Heisenberg, E. Paluch, F. Julicher, G. Salbreux, New Journal of Physics 16 (2014).","mla":"Berthoumieux, Hélène, et al. “Active Elastic Thin Shell Theory for Cellular Deformations.” New Journal of Physics, vol. 16, 065005, IOP Publishing Ltd., 2014, doi:10.1088/1367-2630/16/6/065005.","ieee":"H. Berthoumieux, J.-L. Maître, C.-P. J. Heisenberg, E. Paluch, F. Julicher, and G. Salbreux, “Active elastic thin shell theory for cellular deformations,” New Journal of Physics, vol. 16. IOP Publishing Ltd., 2014.","apa":"Berthoumieux, H., Maître, J.-L., Heisenberg, C.-P. J., Paluch, E., Julicher, F., & Salbreux, G. (2014). Active elastic thin shell theory for cellular deformations. New Journal of Physics. IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/16/6/065005","ista":"Berthoumieux H, Maître J-L, Heisenberg C-PJ, Paluch E, Julicher F, Salbreux G. 2014. Active elastic thin shell theory for cellular deformations. New Journal of Physics. 16, 065005.","ama":"Berthoumieux H, Maître J-L, Heisenberg C-PJ, Paluch E, Julicher F, Salbreux G. Active elastic thin shell theory for cellular deformations. New Journal of Physics. 2014;16. doi:10.1088/1367-2630/16/6/065005"},"date_published":"2014-06-01T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"We derive the equations for a thin, axisymmetric elastic shell subjected to an internal active stress giving rise to active tension and moments within the shell. We discuss the stability of a cylindrical elastic shell and its response to a localized change in internal active stress. This description is relevant to describe the cellular actomyosin cortex, a thin shell at the cell surface behaving elastically at a short timescale and subjected to active internal forces arising from myosin molecular motor activity. We show that the recent observations of cell deformation following detachment of adherent cells (Maître J-L et al 2012 Science 338 253-6) are well accounted for by this mechanical description. The actin cortex elastic and bending moduli can be obtained from a quantitative analysis of cell shapes observed in these experiments. Our approach thus provides a non-invasive, imaging-based method for the extraction of cellular physical parameters."}],"status":"public","ddc":["570"],"title":"Active elastic thin shell theory for cellular deformations","intvolume":" 16","_id":"1923","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","file":[{"checksum":"8dbe81ec656bf1264d8889bda9b2b985","date_updated":"2020-07-14T12:45:21Z","date_created":"2018-12-12T10:16:16Z","relation":"main_file","file_id":"5202","content_type":"application/pdf","file_size":941387,"creator":"system","access_level":"open_access","file_name":"IST-2016-429-v1+1_document.pdf"}],"pubrep_id":"429"},{"month":"05","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7"}],"main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4079372/"}],"oa":1,"language":[{"iso":"eng"}],"doi":"10.1105/tpc.114.126185","ec_funded":1,"publist_id":"5173","publication_status":"published","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"year":"2014","acknowledgement":"This work was supported by grants from the Odysseus program of the Research Foundation-Flanders (to J.F.).","date_created":"2018-12-11T11:54:43Z","date_updated":"2021-01-12T06:54:05Z","volume":26,"author":[{"full_name":"Tejos, Ricardo","first_name":"Ricardo","last_name":"Tejos"},{"full_name":"Sauer, Michael","last_name":"Sauer","first_name":"Michael"},{"last_name":"Vanneste","first_name":"Steffen","full_name":"Vanneste, Steffen"},{"full_name":"Palacios-Gomez, MiriamPalacios ","last_name":"Palacios-Gomez","first_name":"MiriamPalacios "},{"first_name":"Hongjiang","last_name":"Li","id":"33CA54A6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5039-9660","full_name":"Li, Hongjiang"},{"first_name":"Mareike","last_name":"Heilmann","full_name":"Heilmann, Mareike"},{"full_name":"Van Wijk, Ringo","last_name":"Van Wijk","first_name":"Ringo"},{"full_name":"Vermeer, Joop","first_name":"Joop","last_name":"Vermeer"},{"first_name":"Ingo","last_name":"Heilmann","full_name":"Heilmann, Ingo"},{"last_name":"Munnik","first_name":"Teun","full_name":"Munnik, Teun"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí","full_name":"Friml, Jirí"}],"scopus_import":1,"day":"01","page":"2114 - 2128","publication":"Plant Cell","citation":{"mla":"Tejos, Ricardo, et al. “Bipolar Plasma Membrane Distribution of Phosphoinositides and Their Requirement for Auxin-Mediated Cell Polarity and Patterning in Arabidopsis.” Plant Cell, vol. 26, no. 5, American Society of Plant Biologists, 2014, pp. 2114–28, doi:10.1105/tpc.114.126185.","short":"R. Tejos, M. Sauer, S. Vanneste, M. Palacios-Gomez, H. Li, M. Heilmann, R. Van Wijk, J. Vermeer, I. Heilmann, T. Munnik, J. Friml, Plant Cell 26 (2014) 2114–2128.","chicago":"Tejos, Ricardo, Michael Sauer, Steffen Vanneste, MiriamPalacios Palacios-Gomez, Hongjiang Li, Mareike Heilmann, Ringo Van Wijk, et al. “Bipolar Plasma Membrane Distribution of Phosphoinositides and Their Requirement for Auxin-Mediated Cell Polarity and Patterning in Arabidopsis.” Plant Cell. American Society of Plant Biologists, 2014. https://doi.org/10.1105/tpc.114.126185.","ama":"Tejos R, Sauer M, Vanneste S, et al. Bipolar plasma membrane distribution of phosphoinositides and their requirement for auxin-mediated cell polarity and patterning in Arabidopsis. Plant Cell. 2014;26(5):2114-2128. doi:10.1105/tpc.114.126185","ista":"Tejos R, Sauer M, Vanneste S, Palacios-Gomez M, Li H, Heilmann M, Van Wijk R, Vermeer J, Heilmann I, Munnik T, Friml J. 2014. Bipolar plasma membrane distribution of phosphoinositides and their requirement for auxin-mediated cell polarity and patterning in Arabidopsis. Plant Cell. 26(5), 2114–2128.","ieee":"R. Tejos et al., “Bipolar plasma membrane distribution of phosphoinositides and their requirement for auxin-mediated cell polarity and patterning in Arabidopsis,” Plant Cell, vol. 26, no. 5. American Society of Plant Biologists, pp. 2114–2128, 2014.","apa":"Tejos, R., Sauer, M., Vanneste, S., Palacios-Gomez, M., Li, H., Heilmann, M., … Friml, J. (2014). Bipolar plasma membrane distribution of phosphoinositides and their requirement for auxin-mediated cell polarity and patterning in Arabidopsis. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.114.126185"},"date_published":"2014-05-01T00:00:00Z","type":"journal_article","abstract":[{"text":"Cell polarity manifested by asymmetric distribution of cargoes, such as receptors and transporters, within the plasma membrane (PM) is crucial for essential functions in multicellular organisms. In plants, cell polarity (re)establishment is intimately linked to patterning processes. Despite the importance of cell polarity, its underlying mechanisms are still largely unknown, including the definition and distinctiveness of the polar domains within the PM. Here, we show in Arabidopsis thaliana that the signaling membrane components, the phosphoinositides phosphatidylinositol 4-phosphate (PtdIns4P) and phosphatidylinositol 4, 5-bisphosphate [PtdIns(4, 5)P2] as well as PtdIns4P 5-kinases mediating their interconversion, are specifically enriched at apical and basal polar plasma membrane domains. The PtdIns4P 5-kinases PIP5K1 and PIP5K2 are redundantly required for polar localization of specifically apical and basal cargoes, such as PIN-FORMED transporters for the plant hormone auxin. As a consequence of the polarity defects, instructive auxin gradients as well as embryonic and postembryonic patterning are severely compromised. Furthermore, auxin itself regulates PIP5K transcription and PtdIns4P and PtdIns(4, 5)P2 levels, in particular their association with polar PM domains. Our results provide insight into the polar domain-delineating mechanisms in plant cells that depend on apical and basal distribution of membrane lipids and are essential for embryonic and postembryonic patterning.","lang":"eng"}],"issue":"5","status":"public","title":"Bipolar plasma membrane distribution of phosphoinositides and their requirement for auxin-mediated cell polarity and patterning in Arabidopsis","intvolume":" 26","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"1921","oa_version":"Submitted Version"},{"publication":"New Phytologist","citation":{"ama":"Smet D, Žádníková P, Vandenbussche F, Benková E, Van Der Straeten D. Dynamic infrared imaging analysis of apical hook development in Arabidopsis: The case of brassinosteroids. New Phytologist. 2014;202(4):1398-1411. doi:10.1111/nph.12751","apa":"Smet, D., Žádníková, P., Vandenbussche, F., Benková, E., & Van Der Straeten, D. (2014). Dynamic infrared imaging analysis of apical hook development in Arabidopsis: The case of brassinosteroids. New Phytologist. Wiley-Blackwell. https://doi.org/10.1111/nph.12751","ieee":"D. Smet, P. Žádníková, F. Vandenbussche, E. Benková, and D. Van Der Straeten, “Dynamic infrared imaging analysis of apical hook development in Arabidopsis: The case of brassinosteroids,” New Phytologist, vol. 202, no. 4. Wiley-Blackwell, pp. 1398–1411, 2014.","ista":"Smet D, Žádníková P, Vandenbussche F, Benková E, Van Der Straeten D. 2014. Dynamic infrared imaging analysis of apical hook development in Arabidopsis: The case of brassinosteroids. New Phytologist. 202(4), 1398–1411.","short":"D. Smet, P. Žádníková, F. Vandenbussche, E. Benková, D. Van Der Straeten, New Phytologist 202 (2014) 1398–1411.","mla":"Smet, Dajo, et al. “Dynamic Infrared Imaging Analysis of Apical Hook Development in Arabidopsis: The Case of Brassinosteroids.” New Phytologist, vol. 202, no. 4, Wiley-Blackwell, 2014, pp. 1398–411, doi:10.1111/nph.12751.","chicago":"Smet, Dajo, Petra Žádníková, Filip Vandenbussche, Eva Benková, and Dominique Van Der Straeten. “Dynamic Infrared Imaging Analysis of Apical Hook Development in Arabidopsis: The Case of Brassinosteroids.” New Phytologist. Wiley-Blackwell, 2014. https://doi.org/10.1111/nph.12751."},"page":"1398 - 1411","project":[{"grant_number":"207362","_id":"253FCA6A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Hormonal cross-talk in plant organogenesis"}],"date_published":"2014-06-01T00:00:00Z","doi":"10.1111/nph.12751","language":[{"iso":"eng"}],"scopus_import":1,"day":"01","month":"06","_id":"1922","acknowledgement":"Funded by Ghent University; Research Foundation Flanders Grant Number: G065613N European Research Council Grant Number: CZ.1.07/2.3.00/20.0043","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","year":"2014","status":"public","title":"Dynamic infrared imaging analysis of apical hook development in Arabidopsis: The case of brassinosteroids","publication_status":"published","publisher":"Wiley-Blackwell","department":[{"_id":"EvBe"}],"intvolume":" 202","author":[{"first_name":"Dajo","last_name":"Smet","full_name":"Smet, Dajo"},{"last_name":"Žádníková","first_name":"Petra","full_name":"Žádníková, Petra"},{"full_name":"Vandenbussche, Filip","last_name":"Vandenbussche","first_name":"Filip"},{"orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","first_name":"Eva","full_name":"Benková, Eva"},{"full_name":"Van Der Straeten, Dominique","first_name":"Dominique","last_name":"Van Der Straeten"}],"date_updated":"2021-01-12T06:54:05Z","date_created":"2018-12-11T11:54:44Z","oa_version":"None","volume":202,"type":"journal_article","abstract":[{"lang":"eng","text":"Germination of Arabidopsis seeds in darkness induces apical hook development, based on a tightly regulated differential growth coordinated by a multiple hormone cross-talk. Here, we endeavoured to clarify the function of brassinosteroids (BRs) and cross-talk with ethylene in hook development. An automated infrared imaging system was developed to study the kinetics of hook development in etiolated Arabidopsis seedlings. To ascertain the photomorphogenic control of hook opening, the system was equipped with an automatic light dimmer. We demonstrate that ethylene and BRs are indispensable for hook formation and maintenance. Ethylene regulation of hook formation functions partly through BRs, with BR feedback inhibition of ethylene action. Conversely, BR-mediated extension of hook maintenance functions partly through ethylene. Furthermore, we revealed that a short light pulse is sufficient to induce rapid hook opening. Our dynamic infrared imaging system allows high-resolution, kinetic imaging of up to 112 seedlings in a single experimental run. At this high throughput, it is ideally suited to rapidly gain insight in pathway networks. We demonstrate that BRs and ethylene cooperatively regulate apical hook development in a phase-dependent manner. Furthermore, we show that light is a predominant regulator of hook opening, inhibiting ethylene- and BR-mediated postponement of hook opening."}],"issue":"4","ec_funded":1,"publist_id":"5172"},{"publist_id":"5167","abstract":[{"lang":"eng","text":"Constrained pseudorandom functions have recently been introduced independently by Boneh and Waters (Asiacrypt’13), Kiayias et al. (CCS’13), and Boyle et al. (PKC’14). In a standard pseudorandom function (PRF) a key k is used to evaluate the PRF on all inputs in the domain. Constrained PRFs additionally offer the functionality to delegate “constrained” keys kS which allow to evaluate the PRF only on a subset S of the domain. The three above-mentioned papers all show that the classical GGM construction (J.ACM’86) of a PRF from a pseudorandom generator (PRG) directly yields a constrained PRF where one can compute constrained keys to evaluate the PRF on all inputs with a given prefix. This constrained PRF has already found many interesting applications. Unfortunately, the existing security proofs only show selective security (by a reduction to the security of the underlying PRG). To achieve full security, one has to use complexity leveraging, which loses an exponential factor 2N in security, where N is the input length. The first contribution of this paper is a new reduction that only loses a quasipolynomial factor qlog N, where q is the number of adversarial queries. For this we develop a new proof technique which constructs a distinguisher by interleaving simple guessing steps and hybrid arguments a small number of times. This approach might be of interest also in other contexts where currently the only technique to achieve full security is complexity leveraging. Our second contribution is concerned with another constrained PRF, due to Boneh and Waters, which allows for constrained keys for the more general class of bit-fixing functions. Their security proof also suffers from a 2N loss, which we show is inherent. We construct a meta-reduction which shows that any “simple” reduction of full security from a noninteractive hardness assumption must incur an exponential security loss."}],"extern":1,"type":"conference","author":[{"id":"46B4C3EE-F248-11E8-B48F-1D18A9856A87","first_name":"Georg","last_name":"Fuchsbauer","full_name":"Georg Fuchsbauer"},{"full_name":"Konstantinov, Momchil","first_name":"Momchil","last_name":"Konstantinov"},{"full_name":"Krzysztof Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","first_name":"Krzysztof Z","last_name":"Pietrzak"},{"full_name":"Rao, Vanishree","last_name":"Rao","first_name":"Vanishree"}],"volume":8874,"date_created":"2018-12-11T11:54:45Z","date_updated":"2021-01-12T06:54:08Z","year":"2014","_id":"1927","acknowledgement":"We are grateful to Mihir Bellare for his feedback on earlier versions of this paper. We are indebted to Vanishree Rao for her generous assistance in preparing this proceedings version.","intvolume":" 8874","publisher":"Springer","title":"Adaptive security of constrained PRFs","status":"public","publication_status":"published","day":"01","month":"01","doi":"10.1145/2591796.2591825","date_published":"2014-01-01T00:00:00Z","conference":{"name":"Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)"},"citation":{"ama":"Fuchsbauer G, Konstantinov M, Pietrzak KZ, Rao V. Adaptive security of constrained PRFs. In: Vol 8874. Springer; 2014:173-192. doi:10.1145/2591796.2591825","ista":"Fuchsbauer G, Konstantinov M, Pietrzak KZ, Rao V. 2014. Adaptive security of constrained PRFs. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) vol. 8874, 173–192.","apa":"Fuchsbauer, G., Konstantinov, M., Pietrzak, K. Z., & Rao, V. (2014). Adaptive security of constrained PRFs (Vol. 8874, pp. 173–192). Presented at the Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Springer. https://doi.org/10.1145/2591796.2591825","ieee":"G. Fuchsbauer, M. Konstantinov, K. Z. Pietrzak, and V. Rao, “Adaptive security of constrained PRFs,” presented at the Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2014, vol. 8874, pp. 173–192.","mla":"Fuchsbauer, Georg, et al. Adaptive Security of Constrained PRFs. Vol. 8874, Springer, 2014, pp. 173–92, doi:10.1145/2591796.2591825.","short":"G. Fuchsbauer, M. Konstantinov, K.Z. Pietrzak, V. Rao, in:, Springer, 2014, pp. 173–192.","chicago":"Fuchsbauer, Georg, Momchil Konstantinov, Krzysztof Z Pietrzak, and Vanishree Rao. “Adaptive Security of Constrained PRFs,” 8874:173–92. Springer, 2014. https://doi.org/10.1145/2591796.2591825."},"oa":1,"main_file_link":[{"open_access":"1","url":"http://eprint.iacr.org/2014/416"}],"page":"173 - 192","quality_controlled":0},{"_id":"1926","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 17","title":"Absolutely continuous spectrum for random Schrödinger operators on the Fibonacci and similar Tree-strips","status":"public","oa_version":"Preprint","type":"journal_article","issue":"3-4","abstract":[{"text":"We consider cross products of finite graphs with a class of trees that have arbitrarily but finitely long line segments, such as the Fibonacci tree. Such cross products are called tree-strips. We prove that for small disorder random Schrödinger operators on such tree-strips have purely absolutely continuous spectrum in a certain set.","lang":"eng"}],"citation":{"ista":"Sadel C. 2014. Absolutely continuous spectrum for random Schrödinger operators on the Fibonacci and similar Tree-strips. Mathematical Physics, Analysis and Geometry. 17(3–4), 409–440.","apa":"Sadel, C. (2014). Absolutely continuous spectrum for random Schrödinger operators on the Fibonacci and similar Tree-strips. Mathematical Physics, Analysis and Geometry. Springer. https://doi.org/10.1007/s11040-014-9163-4","ieee":"C. Sadel, “Absolutely continuous spectrum for random Schrödinger operators on the Fibonacci and similar Tree-strips,” Mathematical Physics, Analysis and Geometry, vol. 17, no. 3–4. Springer, pp. 409–440, 2014.","ama":"Sadel C. Absolutely continuous spectrum for random Schrödinger operators on the Fibonacci and similar Tree-strips. Mathematical Physics, Analysis and Geometry. 2014;17(3-4):409-440. doi:10.1007/s11040-014-9163-4","chicago":"Sadel, Christian. “Absolutely Continuous Spectrum for Random Schrödinger Operators on the Fibonacci and Similar Tree-Strips.” Mathematical Physics, Analysis and Geometry. Springer, 2014. https://doi.org/10.1007/s11040-014-9163-4.","mla":"Sadel, Christian. “Absolutely Continuous Spectrum for Random Schrödinger Operators on the Fibonacci and Similar Tree-Strips.” Mathematical Physics, Analysis and Geometry, vol. 17, no. 3–4, Springer, 2014, pp. 409–40, doi:10.1007/s11040-014-9163-4.","short":"C. Sadel, Mathematical Physics, Analysis and Geometry 17 (2014) 409–440."},"publication":"Mathematical Physics, Analysis and Geometry","page":"409 - 440","article_type":"original","date_published":"2014-12-17T00:00:00Z","scopus_import":1,"article_processing_charge":"No","day":"17","year":"2014","publisher":"Springer","department":[{"_id":"LaEr"}],"publication_status":"published","author":[{"full_name":"Sadel, Christian","orcid":"0000-0001-8255-3968","id":"4760E9F8-F248-11E8-B48F-1D18A9856A87","last_name":"Sadel","first_name":"Christian"}],"volume":17,"date_created":"2018-12-11T11:54:45Z","date_updated":"2021-01-12T06:54:07Z","ec_funded":1,"publist_id":"5168","external_id":{"arxiv":["1304.3862"]},"oa":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1304.3862"}],"project":[{"_id":"26450934-B435-11E9-9278-68D0E5697425","name":"NSERC Postdoctoral fellowship"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"}],"quality_controlled":"1","doi":"10.1007/s11040-014-9163-4","language":[{"iso":"eng"}],"month":"12"},{"article_number":"3090","type":"journal_article","abstract":[{"text":"Stomata are two-celled valves that control epidermal pores whose spacing optimizes shoot-atmosphere gas exchange. They develop from protodermal cells after unequal divisions followed by an equal division and differentiation. The concentration of the hormone auxin, a master plant developmental regulator, is tightly controlled in time and space, but its role, if any, in stomatal formation is obscure. Here dynamic changes of auxin activity during stomatal development are monitored using auxin input (DII-VENUS) and output (DR5:VENUS) markers by time-lapse imaging. A decrease in auxin levels in the smaller daughter cell after unequal division presages the acquisition of a guard mother cell fate whose equal division produces the two guard cells. Thus, stomatal patterning requires auxin pathway control of stem cell compartment size, as well as auxin depletion that triggers a developmental switch from unequal to equal division.","lang":"eng"}],"publist_id":"5170","status":"public","publication_status":"published","title":"Auxin transport and activity regulate stomatal patterning and development","department":[{"_id":"JiFr"}],"intvolume":" 5","publisher":"Nature Publishing Group","_id":"1924","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","year":"2014","date_updated":"2021-01-12T06:54:06Z","date_created":"2018-12-11T11:54:44Z","oa_version":"None","volume":5,"author":[{"last_name":"Le","first_name":"Jie","full_name":"Le, Jie"},{"full_name":"Liu, Xuguang","last_name":"Liu","first_name":"Xuguang"},{"full_name":"Yang, Kezhen","last_name":"Yang","first_name":"Kezhen"},{"last_name":"Chen","first_name":"Xiaolan","full_name":"Chen, Xiaolan"},{"full_name":"Zhu, Lingling","last_name":"Zhu","first_name":"Lingling"},{"last_name":"Wang","first_name":"Hongzhe","full_name":"Wang, Hongzhe"},{"first_name":"Ming","last_name":"Wang","full_name":"Wang, Ming"},{"full_name":"Vanneste, Steffen","last_name":"Vanneste","first_name":"Steffen"},{"full_name":"Morita, Miyo","first_name":"Miyo","last_name":"Morita"},{"full_name":"Tasaka, Masao","last_name":"Tasaka","first_name":"Masao"},{"full_name":"Ding, Zhaojun","first_name":"Zhaojun","last_name":"Ding"},{"first_name":"Jirí","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"},{"last_name":"Beeckman","first_name":"Tom","full_name":"Beeckman, Tom"},{"first_name":"Fred","last_name":"Sack","full_name":"Sack, Fred"}],"scopus_import":1,"month":"01","day":"27","quality_controlled":"1","publication":"Nature Communications","citation":{"ama":"Le J, Liu X, Yang K, et al. Auxin transport and activity regulate stomatal patterning and development. Nature Communications. 2014;5. doi:10.1038/ncomms4090","ista":"Le J, Liu X, Yang K, Chen X, Zhu L, Wang H, Wang M, Vanneste S, Morita M, Tasaka M, Ding Z, Friml J, Beeckman T, Sack F. 2014. Auxin transport and activity regulate stomatal patterning and development. Nature Communications. 5, 3090.","apa":"Le, J., Liu, X., Yang, K., Chen, X., Zhu, L., Wang, H., … Sack, F. (2014). Auxin transport and activity regulate stomatal patterning and development. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms4090","ieee":"J. Le et al., “Auxin transport and activity regulate stomatal patterning and development,” Nature Communications, vol. 5. Nature Publishing Group, 2014.","mla":"Le, Jie, et al. “Auxin Transport and Activity Regulate Stomatal Patterning and Development.” Nature Communications, vol. 5, 3090, Nature Publishing Group, 2014, doi:10.1038/ncomms4090.","short":"J. Le, X. Liu, K. Yang, X. Chen, L. Zhu, H. Wang, M. Wang, S. Vanneste, M. Morita, M. Tasaka, Z. Ding, J. Friml, T. Beeckman, F. Sack, Nature Communications 5 (2014).","chicago":"Le, Jie, Xuguang Liu, Kezhen Yang, Xiaolan Chen, Lingling Zhu, Hongzhe Wang, Ming Wang, et al. “Auxin Transport and Activity Regulate Stomatal Patterning and Development.” Nature Communications. Nature Publishing Group, 2014. https://doi.org/10.1038/ncomms4090."},"language":[{"iso":"eng"}],"doi":"10.1038/ncomms4090","date_published":"2014-01-27T00:00:00Z"},{"oa_version":"None","volume":360,"date_updated":"2021-01-12T06:54:08Z","date_created":"2018-12-11T11:54:46Z","author":[{"full_name":"Humplik, Jan","id":"2E9627A8-F248-11E8-B48F-1D18A9856A87","first_name":"Jan","last_name":"Humplik"},{"last_name":"Hill","first_name":"Alison","full_name":"Hill, Alison"},{"full_name":"Nowak, Martin","last_name":"Nowak","first_name":"Martin"}],"intvolume":" 360","department":[{"_id":"GaTk"}],"publisher":"Elsevier","status":"public","publication_status":"published","title":"Evolutionary dynamics of infectious diseases in finite populations","_id":"1928","acknowledgement":"J.H. received support from the Zdenek Bakala Foundation and the Mobility Fund of Charles University in Prague.","year":"2014","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publist_id":"5166","abstract":[{"lang":"eng","text":"In infectious disease epidemiology the basic reproductive ratio, R0, is defined as the average number of new infections caused by a single infected individual in a fully susceptible population. Many models describing competition for hosts between non-interacting pathogen strains in an infinite population lead to the conclusion that selection favors invasion of new strains if and only if they have higher R0 values than the resident. Here we demonstrate that this picture fails in finite populations. Using a simple stochastic SIS model, we show that in general there is no analogous optimization principle. We find that successive invasions may in some cases lead to strains that infect a smaller fraction of the host population, and that mutually invasible pathogen strains exist. In the limit of weak selection we demonstrate that an optimization principle does exist, although it differs from R0 maximization. For strains with very large R0, we derive an expression for this local fitness function and use it to establish a lower bound for the error caused by neglecting stochastic effects. Furthermore, we apply this weak selection limit to investigate the selection dynamics in the presence of a trade-off between the virulence and the transmission rate of a pathogen."}],"type":"journal_article","language":[{"iso":"eng"}],"date_published":"2014-11-07T00:00:00Z","doi":"10.1016/j.jtbi.2014.06.039","page":"149 - 162","citation":{"mla":"Humplik, Jan, et al. “Evolutionary Dynamics of Infectious Diseases in Finite Populations.” Journal of Theoretical Biology, vol. 360, Elsevier, 2014, pp. 149–62, doi:10.1016/j.jtbi.2014.06.039.","short":"J. Humplik, A. Hill, M. Nowak, Journal of Theoretical Biology 360 (2014) 149–162.","chicago":"Humplik, Jan, Alison Hill, and Martin Nowak. “Evolutionary Dynamics of Infectious Diseases in Finite Populations.” Journal of Theoretical Biology. Elsevier, 2014. https://doi.org/10.1016/j.jtbi.2014.06.039.","ama":"Humplik J, Hill A, Nowak M. Evolutionary dynamics of infectious diseases in finite populations. Journal of Theoretical Biology. 2014;360:149-162. doi:10.1016/j.jtbi.2014.06.039","ista":"Humplik J, Hill A, Nowak M. 2014. Evolutionary dynamics of infectious diseases in finite populations. Journal of Theoretical Biology. 360, 149–162.","apa":"Humplik, J., Hill, A., & Nowak, M. (2014). Evolutionary dynamics of infectious diseases in finite populations. Journal of Theoretical Biology. Elsevier. https://doi.org/10.1016/j.jtbi.2014.06.039","ieee":"J. Humplik, A. Hill, and M. Nowak, “Evolutionary dynamics of infectious diseases in finite populations,” Journal of Theoretical Biology, vol. 360. Elsevier, pp. 149–162, 2014."},"publication":"Journal of Theoretical Biology","day":"07","month":"11","scopus_import":1},{"issue":"6","abstract":[{"lang":"eng","text":"We propose an algorithm for the generalization of cartographic objects that can be used to represent maps on different scales."}],"type":"journal_article","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1929","intvolume":" 203","status":"public","title":"An algorithm for cartographic generalization that preserves global topology","article_processing_charge":"No","day":"16","scopus_import":"1","date_published":"2014-11-16T00:00:00Z","citation":{"chicago":"Alexeev, V V, V G Bogaevskaya, M M Preobrazhenskaya, A Y Ukhalov, Herbert Edelsbrunner, and Olga Yakimova. “An Algorithm for Cartographic Generalization That Preserves Global Topology.” Journal of Mathematical Sciences. Springer, 2014. https://doi.org/10.1007/s10958-014-2165-8.","mla":"Alexeev, V. V., et al. “An Algorithm for Cartographic Generalization That Preserves Global Topology.” Journal of Mathematical Sciences, vol. 203, no. 6, Springer, 2014, pp. 754–60, doi:10.1007/s10958-014-2165-8.","short":"V.V. Alexeev, V.G. Bogaevskaya, M.M. Preobrazhenskaya, A.Y. Ukhalov, H. Edelsbrunner, O. Yakimova, Journal of Mathematical Sciences 203 (2014) 754–760.","ista":"Alexeev VV, Bogaevskaya VG, Preobrazhenskaya MM, Ukhalov AY, Edelsbrunner H, Yakimova O. 2014. An algorithm for cartographic generalization that preserves global topology. Journal of Mathematical Sciences. 203(6), 754–760.","apa":"Alexeev, V. V., Bogaevskaya, V. G., Preobrazhenskaya, M. M., Ukhalov, A. Y., Edelsbrunner, H., & Yakimova, O. (2014). An algorithm for cartographic generalization that preserves global topology. Journal of Mathematical Sciences. Springer. https://doi.org/10.1007/s10958-014-2165-8","ieee":"V. V. Alexeev, V. G. Bogaevskaya, M. M. Preobrazhenskaya, A. Y. Ukhalov, H. Edelsbrunner, and O. Yakimova, “An algorithm for cartographic generalization that preserves global topology,” Journal of Mathematical Sciences, vol. 203, no. 6. Springer, pp. 754–760, 2014.","ama":"Alexeev VV, Bogaevskaya VG, Preobrazhenskaya MM, Ukhalov AY, Edelsbrunner H, Yakimova O. An algorithm for cartographic generalization that preserves global topology. Journal of Mathematical Sciences. 2014;203(6):754-760. doi:10.1007/s10958-014-2165-8"},"publication":"Journal of Mathematical Sciences","page":"754 - 760","article_type":"original","publist_id":"5165","author":[{"full_name":"Alexeev, V V","last_name":"Alexeev","first_name":"V V"},{"last_name":"Bogaevskaya","first_name":"V G","full_name":"Bogaevskaya, V G"},{"last_name":"Preobrazhenskaya","first_name":"M M","full_name":"Preobrazhenskaya, M M"},{"full_name":"Ukhalov, A Y","first_name":"A Y","last_name":"Ukhalov"},{"full_name":"Edelsbrunner, Herbert","first_name":"Herbert","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9823-6833"},{"full_name":"Yakimova, Olga","last_name":"Yakimova","first_name":"Olga"}],"volume":203,"date_created":"2018-12-11T11:54:46Z","date_updated":"2022-05-24T10:39:06Z","year":"2014","acknowledgement":"We would like to offer our special thanks to students of the Department of Mathematics of Demidov Yaroslavl State University A. A. Gorokhov and V. N. Knyazev for participation in developing the program and assistance in preparation of test data. This work was supported by grant 11.G34.31.0053 from the government of the Russian Federation.","department":[{"_id":"HeEd"}],"publisher":"Springer","publication_status":"published","publication_identifier":{"issn":["1072-3374"],"eissn":["1573-8795"]},"month":"11","doi":"10.1007/s10958-014-2165-8","language":[{"iso":"eng"}],"quality_controlled":"1"},{"author":[{"full_name":"Giuliani, Alessandro","last_name":"Giuliani","first_name":"Alessandro"},{"first_name":"Élliott","last_name":"Lieb","full_name":"Lieb, Élliott"},{"full_name":"Seiringer, Robert","last_name":"Seiringer","first_name":"Robert","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"volume":331,"date_created":"2018-12-11T11:54:48Z","date_updated":"2022-05-24T08:32:50Z","year":"2014","acknowledgement":"2014 by the authors. This paper may be reproduced, in its entirety, for non-commercial purposes.\r\n\r\nThe research leading to these results has received funding from the European Research\r\nCouncil under the European Union’s Seventh Framework Programme ERC Starting Grant CoMBoS (Grant Agreement No. 239694; A.G. and R.S.), the U.S. National Science Foundation (Grant PHY 0965859; E.H.L.), the Simons Foundation (Grant # 230207; E.H.L) and the NSERC (R.S.). The work is part of a project started in collaboration with Joel Lebowitz, whom we thank for many useful discussions and for his constant encouragement.","department":[{"_id":"RoSe"}],"publisher":"Springer","publication_status":"published","publist_id":"5159","file_date_updated":"2022-05-24T08:30:40Z","doi":"10.1007/s00220-014-1923-2","language":[{"iso":"eng"}],"oa":1,"external_id":{"arxiv":["1304.6344"]},"quality_controlled":"1","publication_identifier":{"eissn":["1432-0916"],"issn":["0010-3616"]},"month":"10","file":[{"checksum":"c8423271cd1e1ba9e44c47af75efe7b6","success":1,"date_updated":"2022-05-24T08:30:40Z","date_created":"2022-05-24T08:30:40Z","relation":"main_file","file_id":"11409","file_size":334064,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2014_CommMathPhysics_Giuliani.pdf"}],"oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"1935","intvolume":" 331","title":"Formation of stripes and slabs near the ferromagnetic transition","status":"public","ddc":["510"],"abstract":[{"text":"We consider Ising models in d = 2 and d = 3 dimensions with nearest neighbor ferromagnetic and long-range antiferromagnetic interactions, the latter decaying as (distance)-p, p > 2d, at large distances. If the strength J of the ferromagnetic interaction is larger than a critical value J c, then the ground state is homogeneous. It has been conjectured that when J is smaller than but close to J c, the ground state is periodic and striped, with stripes of constant width h = h(J), and h → ∞ as J → Jc -. (In d = 3 stripes mean slabs, not columns.) Here we rigorously prove that, if we normalize the energy in such a way that the energy of the homogeneous state is zero, then the ratio e 0(J)/e S(J) tends to 1 as J → Jc -, with e S(J) being the energy per site of the optimal periodic striped/slabbed state and e 0(J) the actual ground state energy per site of the system. Our proof comes with explicit bounds on the difference e 0(J)-e S(J) at small but positive J c-J, and also shows that in this parameter range the ground state is striped/slabbed in a certain sense: namely, if one looks at a randomly chosen window, of suitable size ℓ (very large compared to the optimal stripe size h(J)), one finds a striped/slabbed state with high probability.","lang":"eng"}],"type":"journal_article","date_published":"2014-10-01T00:00:00Z","citation":{"short":"A. Giuliani, É. Lieb, R. Seiringer, Communications in Mathematical Physics 331 (2014) 333–350.","mla":"Giuliani, Alessandro, et al. “Formation of Stripes and Slabs near the Ferromagnetic Transition.” Communications in Mathematical Physics, vol. 331, Springer, 2014, pp. 333–50, doi:10.1007/s00220-014-1923-2.","chicago":"Giuliani, Alessandro, Élliott Lieb, and Robert Seiringer. “Formation of Stripes and Slabs near the Ferromagnetic Transition.” Communications in Mathematical Physics. Springer, 2014. https://doi.org/10.1007/s00220-014-1923-2.","ama":"Giuliani A, Lieb É, Seiringer R. Formation of stripes and slabs near the ferromagnetic transition. Communications in Mathematical Physics. 2014;331:333-350. doi:10.1007/s00220-014-1923-2","apa":"Giuliani, A., Lieb, É., & Seiringer, R. (2014). Formation of stripes and slabs near the ferromagnetic transition. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-014-1923-2","ieee":"A. Giuliani, É. Lieb, and R. Seiringer, “Formation of stripes and slabs near the ferromagnetic transition,” Communications in Mathematical Physics, vol. 331. Springer, pp. 333–350, 2014.","ista":"Giuliani A, Lieb É, Seiringer R. 2014. Formation of stripes and slabs near the ferromagnetic transition. Communications in Mathematical Physics. 331, 333–350."},"publication":"Communications in Mathematical Physics","page":"333 - 350","article_type":"original","article_processing_charge":"No","has_accepted_license":"1","day":"01","scopus_import":"1"},{"month":"02","oa":1,"main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4014306/","open_access":"1"}],"project":[{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","doi":"10.1093/beheco/aru002","language":[{"iso":"eng"}],"ec_funded":1,"publist_id":"5157","year":"2014","department":[{"_id":"NiBa"}],"publisher":"Oxford University Press","publication_status":"published","author":[{"full_name":"Arbilly, Michal","last_name":"Arbilly","first_name":"Michal"},{"full_name":"Weissman, Daniel","first_name":"Daniel","last_name":"Weissman","id":"2D0CE020-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Feldman","first_name":"Marcus","full_name":"Feldman, Marcus"},{"first_name":"Uri","last_name":"Grodzinski","full_name":"Grodzinski, Uri"}],"volume":25,"date_updated":"2021-01-12T06:54:11Z","date_created":"2018-12-11T11:54:48Z","scopus_import":1,"day":"13","citation":{"ama":"Arbilly M, Weissman D, Feldman M, Grodzinski U. An arms race between producers and scroungers can drive the evolution of social cognition. Behavioral Ecology. 2014;25(3):487-495. doi:10.1093/beheco/aru002","apa":"Arbilly, M., Weissman, D., Feldman, M., & Grodzinski, U. (2014). An arms race between producers and scroungers can drive the evolution of social cognition. Behavioral Ecology. Oxford University Press. https://doi.org/10.1093/beheco/aru002","ieee":"M. Arbilly, D. Weissman, M. Feldman, and U. Grodzinski, “An arms race between producers and scroungers can drive the evolution of social cognition,” Behavioral Ecology, vol. 25, no. 3. Oxford University Press, pp. 487–495, 2014.","ista":"Arbilly M, Weissman D, Feldman M, Grodzinski U. 2014. An arms race between producers and scroungers can drive the evolution of social cognition. Behavioral Ecology. 25(3), 487–495.","short":"M. Arbilly, D. Weissman, M. Feldman, U. Grodzinski, Behavioral Ecology 25 (2014) 487–495.","mla":"Arbilly, Michal, et al. “An Arms Race between Producers and Scroungers Can Drive the Evolution of Social Cognition.” Behavioral Ecology, vol. 25, no. 3, Oxford University Press, 2014, pp. 487–95, doi:10.1093/beheco/aru002.","chicago":"Arbilly, Michal, Daniel Weissman, Marcus Feldman, and Uri Grodzinski. “An Arms Race between Producers and Scroungers Can Drive the Evolution of Social Cognition.” Behavioral Ecology. Oxford University Press, 2014. https://doi.org/10.1093/beheco/aru002."},"publication":"Behavioral Ecology","page":"487 - 495","date_published":"2014-02-13T00:00:00Z","type":"journal_article","issue":"3","abstract":[{"text":"The social intelligence hypothesis states that the need to cope with complexities of social life has driven the evolution of advanced cognitive abilities. It is usually invoked in the context of challenges arising from complex intragroup structures, hierarchies, and alliances. However, a fundamental aspect of group living remains largely unexplored as a driving force in cognitive evolution: the competition between individuals searching for resources (producers) and conspecifics that parasitize their findings (scroungers). In populations of social foragers, abilities that enable scroungers to steal by outsmarting producers, and those allowing producers to prevent theft by outsmarting scroungers, are likely to be beneficial and may fuel a cognitive arms race. Using analytical theory and agent-based simulations, we present a general model for such a race that is driven by the producer-scrounger game and show that the race's plausibility is dramatically affected by the nature of the evolving abilities. If scrounging and scrounging avoidance rely on separate, strategy-specific cognitive abilities, arms races are short-lived and have a limited effect on cognition. However, general cognitive abilities that facilitate both scrounging and scrounging avoidance undergo stable, long-lasting arms races. Thus, ubiquitous foraging interactions may lead to the evolution of general cognitive abilities in social animals, without the requirement of complex intragroup structures.","lang":"eng"}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"1936","intvolume":" 25","status":"public","title":"An arms race between producers and scroungers can drive the evolution of social cognition","oa_version":"Submitted Version"},{"doi":"10.1016/j.cub.2014.04.002","date_published":"2014-05-05T00:00:00Z","language":[{"iso":"eng"}],"citation":{"chicago":"Marhavý, Peter, Jérôme Duclercq, Benjamin Weller, Elena Feraru, Agnieszka Bielach, Remko Offringa, Jiří Friml, Claus Schwechheimer, Angus Murphy, and Eva Benková. “Cytokinin Controls Polarity of PIN1-Dependent Auxin Transport during Lateral Root Organogenesis.” Current Biology. Cell Press, 2014. https://doi.org/10.1016/j.cub.2014.04.002.","mla":"Marhavý, Peter, et al. “Cytokinin Controls Polarity of PIN1-Dependent Auxin Transport during Lateral Root Organogenesis.” Current Biology, vol. 24, no. 9, Cell Press, 2014, pp. 1031–37, doi:10.1016/j.cub.2014.04.002.","short":"P. Marhavý, J. Duclercq, B. Weller, E. Feraru, A. Bielach, R. Offringa, J. Friml, C. Schwechheimer, A. Murphy, E. Benková, Current Biology 24 (2014) 1031–1037.","ista":"Marhavý P, Duclercq J, Weller B, Feraru E, Bielach A, Offringa R, Friml J, Schwechheimer C, Murphy A, Benková E. 2014. Cytokinin controls polarity of PIN1-dependent Auxin transport during lateral root organogenesis. Current Biology. 24(9), 1031–1037.","ieee":"P. Marhavý et al., “Cytokinin controls polarity of PIN1-dependent Auxin transport during lateral root organogenesis,” Current Biology, vol. 24, no. 9. Cell Press, pp. 1031–1037, 2014.","apa":"Marhavý, P., Duclercq, J., Weller, B., Feraru, E., Bielach, A., Offringa, R., … Benková, E. (2014). Cytokinin controls polarity of PIN1-dependent Auxin transport during lateral root organogenesis. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2014.04.002","ama":"Marhavý P, Duclercq J, Weller B, et al. Cytokinin controls polarity of PIN1-dependent Auxin transport during lateral root organogenesis. Current Biology. 2014;24(9):1031-1037. doi:10.1016/j.cub.2014.04.002"},"publication":"Current Biology","page":"1031 - 1037","project":[{"call_identifier":"FP7","name":"Hormonal cross-talk in plant organogenesis","grant_number":"207362","_id":"253FCA6A-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","day":"05","month":"05","scopus_import":1,"author":[{"last_name":"Marhavy","first_name":"Peter","orcid":"0000-0001-5227-5741","id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavy, Peter"},{"full_name":"Duclercq, Jérôme","last_name":"Duclercq","first_name":"Jérôme"},{"last_name":"Weller","first_name":"Benjamin","full_name":"Weller, Benjamin"},{"last_name":"Feraru","first_name":"Elena","full_name":"Feraru, Elena"},{"full_name":"Bielach, Agnieszka","last_name":"Bielach","first_name":"Agnieszka"},{"last_name":"Offringa","first_name":"Remko","full_name":"Offringa, Remko"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jirí","last_name":"Friml","full_name":"Friml, Jirí"},{"last_name":"Schwechheimer","first_name":"Claus","full_name":"Schwechheimer, Claus"},{"last_name":"Murphy","first_name":"Angus","full_name":"Murphy, Angus"},{"last_name":"Benková","first_name":"Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva"}],"oa_version":"None","volume":24,"date_created":"2018-12-11T11:54:48Z","date_updated":"2021-01-12T06:54:10Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"1934","year":"2014","department":[{"_id":"EvBe"},{"_id":"JiFr"}],"intvolume":" 24","publisher":"Cell Press","status":"public","title":"Cytokinin controls polarity of PIN1-dependent Auxin transport during lateral root organogenesis","publication_status":"published","ec_funded":1,"issue":"9","publist_id":"5160","abstract":[{"text":"The plant hormones auxin and cytokinin mutually coordinate their activities to control various aspects of development [1-9], and their crosstalk occurs at multiple levels [10, 11]. Cytokinin-mediated modulation of auxin transport provides an efficient means to regulate auxin distribution in plant organs. Here, we demonstrate that cytokinin does not merely control the overall auxin flow capacity, but might also act as a polarizing cue and control the auxin stream directionality during plant organogenesis. Cytokinin enhances the PIN-FORMED1 (PIN1) auxin transporter depletion at specific polar domains, thus rearranging the cellular PIN polarities and directly regulating the auxin flow direction. This selective cytokinin sensitivity correlates with the PIN protein phosphorylation degree. PIN1 phosphomimicking mutations, as well as enhanced phosphorylation in plants with modulated activities of PIN-specific kinases and phosphatases, desensitize PIN1 to cytokinin. Our results reveal conceptually novel, cytokinin-driven polarization mechanism that operates in developmental processes involving rapid auxin stream redirection, such as lateral root organogenesis, in which a gradual PIN polarity switch defines the growth axis of the newly formed organ.","lang":"eng"}],"type":"journal_article"},{"scopus_import":1,"day":"01","page":"3357 - 3367","publication":"Evolution","citation":{"apa":"Trotter, M., Weissman, D., Peterson, G., Peck, K., & Masel, J. (2014). Cryptic genetic variation can make "irreducible complexity" a common mode of adaptation in sexual populations. Evolution. Wiley-Blackwell. https://doi.org/10.1111/evo.12517","ieee":"M. Trotter, D. Weissman, G. Peterson, K. Peck, and J. Masel, “Cryptic genetic variation can make "irreducible complexity" a common mode of adaptation in sexual populations,” Evolution, vol. 68, no. 12. Wiley-Blackwell, pp. 3357–3367, 2014.","ista":"Trotter M, Weissman D, Peterson G, Peck K, Masel J. 2014. Cryptic genetic variation can make "irreducible complexity" a common mode of adaptation in sexual populations. Evolution. 68(12), 3357–3367.","ama":"Trotter M, Weissman D, Peterson G, Peck K, Masel J. Cryptic genetic variation can make "irreducible complexity" a common mode of adaptation in sexual populations. Evolution. 2014;68(12):3357-3367. doi:10.1111/evo.12517","chicago":"Trotter, Meredith, Daniel Weissman, Grant Peterson, Kayla Peck, and Joanna Masel. “Cryptic Genetic Variation Can Make "Irreducible Complexity" a Common Mode of Adaptation in Sexual Populations.” Evolution. Wiley-Blackwell, 2014. https://doi.org/10.1111/evo.12517.","short":"M. Trotter, D. Weissman, G. Peterson, K. Peck, J. Masel, Evolution 68 (2014) 3357–3367.","mla":"Trotter, Meredith, et al. “Cryptic Genetic Variation Can Make "Irreducible Complexity" a Common Mode of Adaptation in Sexual Populations.” Evolution, vol. 68, no. 12, Wiley-Blackwell, 2014, pp. 3357–67, doi:10.1111/evo.12517."},"date_published":"2014-12-01T00:00:00Z","type":"journal_article","abstract":[{"text":"The existence of complex (multiple-step) genetic adaptations that are "irreducible" (i.e., all partial combinations are less fit than the original genotype) is one of the longest standing problems in evolutionary biology. In standard genetics parlance, these adaptations require the crossing of a wide adaptive valley of deleterious intermediate stages. Here, we demonstrate, using a simple model, that evolution can cross wide valleys to produce "irreducibly complex" adaptations by making use of previously cryptic mutations. When revealed by an evolutionary capacitor, previously cryptic mutants have higher initial frequencies than do new mutations, bringing them closer to a valley-crossing saddle in allele frequency space. Moreover, simple combinatorics implies an enormous number of candidate combinations exist within available cryptic genetic variation. We model the dynamics of crossing of a wide adaptive valley after a capacitance event using both numerical simulations and analytical approximations. Although individual valley crossing events become less likely as valleys widen, by taking the combinatorics of genotype space into account, we see that revealing cryptic variation can cause the frequent evolution of complex adaptations.","lang":"eng"}],"issue":"12","title":"Cryptic genetic variation can make "irreducible complexity" a common mode of adaptation in sexual populations","status":"public","intvolume":" 68","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"1932","oa_version":"Submitted Version","month":"12","quality_controlled":"1","project":[{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"main_file_link":[{"url":"http://arxiv.org/abs/1310.6077","open_access":"1"}],"oa":1,"language":[{"iso":"eng"}],"doi":"10.1111/evo.12517","ec_funded":1,"publist_id":"5162","publication_status":"published","department":[{"_id":"NiBa"}],"publisher":"Wiley-Blackwell","acknowledgement":"Funded by National Institutes of Health. Grant Numbers: R01GM076041, R01GM104040 \r\n\r\nSimons Foundation\r\n\r\n","year":"2014","date_updated":"2021-01-12T06:54:10Z","date_created":"2018-12-11T11:54:47Z","volume":68,"author":[{"first_name":"Meredith","last_name":"Trotter","full_name":"Trotter, Meredith"},{"id":"2D0CE020-F248-11E8-B48F-1D18A9856A87","first_name":"Daniel","last_name":"Weissman","full_name":"Weissman, Daniel"},{"full_name":"Peterson, Grant","last_name":"Peterson","first_name":"Grant"},{"full_name":"Peck, Kayla","last_name":"Peck","first_name":"Kayla"},{"full_name":"Masel, Joanna","first_name":"Joanna","last_name":"Masel"}]},{"day":"31","month":"12","scopus_import":1,"date_published":"2014-12-31T00:00:00Z","doi":"10.1109/TVCG.2014.2346432","language":[{"iso":"eng"}],"citation":{"ama":"Günther D, Jacobson A, Reininghaus J, Seidel H, Sorkine Hornung O, Weinkauf T. Fast and memory-efficient topological denoising of 2D and 3D scalar fields. IEEE Transactions on Visualization and Computer Graphics. 2014;20(12):2585-2594. doi:10.1109/TVCG.2014.2346432","ista":"Günther D, Jacobson A, Reininghaus J, Seidel H, Sorkine Hornung O, Weinkauf T. 2014. Fast and memory-efficient topological denoising of 2D and 3D scalar fields. IEEE Transactions on Visualization and Computer Graphics. 20(12), 2585–2594.","apa":"Günther, D., Jacobson, A., Reininghaus, J., Seidel, H., Sorkine Hornung, O., & Weinkauf, T. (2014). Fast and memory-efficient topological denoising of 2D and 3D scalar fields. IEEE Transactions on Visualization and Computer Graphics. IEEE. https://doi.org/10.1109/TVCG.2014.2346432","ieee":"D. Günther, A. Jacobson, J. Reininghaus, H. Seidel, O. Sorkine Hornung, and T. Weinkauf, “Fast and memory-efficient topological denoising of 2D and 3D scalar fields,” IEEE Transactions on Visualization and Computer Graphics, vol. 20, no. 12. IEEE, pp. 2585–2594, 2014.","mla":"Günther, David, et al. “Fast and Memory-Efficient Topological Denoising of 2D and 3D Scalar Fields.” IEEE Transactions on Visualization and Computer Graphics, vol. 20, no. 12, IEEE, 2014, pp. 2585–94, doi:10.1109/TVCG.2014.2346432.","short":"D. Günther, A. Jacobson, J. Reininghaus, H. Seidel, O. Sorkine Hornung, T. Weinkauf, IEEE Transactions on Visualization and Computer Graphics 20 (2014) 2585–2594.","chicago":"Günther, David, Alec Jacobson, Jan Reininghaus, Hans Seidel, Olga Sorkine Hornung, and Tino Weinkauf. “Fast and Memory-Efficient Topological Denoising of 2D and 3D Scalar Fields.” IEEE Transactions on Visualization and Computer Graphics. IEEE, 2014. https://doi.org/10.1109/TVCG.2014.2346432."},"publication":"IEEE Transactions on Visualization and Computer Graphics","page":"2585 - 2594","quality_controlled":"1","publist_id":"5164","issue":"12","abstract":[{"text":"(Figure Presented) Data acquisition, numerical inaccuracies, and sampling often introduce noise in measurements and simulations. Removing this noise is often necessary for efficient analysis and visualization of this data, yet many denoising techniques change the minima and maxima of a scalar field. For example, the extrema can appear or disappear, spatially move, and change their value. This can lead to wrong interpretations of the data, e.g., when the maximum temperature over an area is falsely reported being a few degrees cooler because the denoising method is unaware of these features. Recently, a topological denoising technique based on a global energy optimization was proposed, which allows the topology-controlled denoising of 2D scalar fields. While this method preserves the minima and maxima, it is constrained by the size of the data. We extend this work to large 2D data and medium-sized 3D data by introducing a novel domain decomposition approach. It allows processing small patches of the domain independently while still avoiding the introduction of new critical points. Furthermore, we propose an iterative refinement of the solution, which decreases the optimization energy compared to the previous approach and therefore gives smoother results that are closer to the input. We illustrate our technique on synthetic and real-world 2D and 3D data sets that highlight potential applications.","lang":"eng"}],"type":"journal_article","author":[{"first_name":"David","last_name":"Günther","full_name":"Günther, David"},{"full_name":"Jacobson, Alec","first_name":"Alec","last_name":"Jacobson"},{"full_name":"Reininghaus, Jan","first_name":"Jan","last_name":"Reininghaus","id":"4505473A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Seidel","first_name":"Hans","full_name":"Seidel, Hans"},{"last_name":"Sorkine Hornung","first_name":"Olga","full_name":"Sorkine Hornung, Olga"},{"first_name":"Tino","last_name":"Weinkauf","full_name":"Weinkauf, Tino"}],"oa_version":"None","volume":20,"date_updated":"2021-01-12T06:54:09Z","date_created":"2018-12-11T11:54:46Z","_id":"1930","year":"2014","acknowledgement":"RTRA Digiteoproject; ERC grant; SNF award; Intel Doctoral Fellowship; MPC-VCC","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","intvolume":" 20","department":[{"_id":"HeEd"}],"publisher":"IEEE","publication_status":"published","status":"public","title":"Fast and memory-efficient topological denoising of 2D and 3D scalar fields"},{"day":"01","month":"04","scopus_import":1,"language":[{"iso":"eng"}],"doi":"10.1242/dev.102988","date_published":"2014-04-01T00:00:00Z","quality_controlled":"1","page":"1671 - 1682","publication":"Development","citation":{"apa":"Hatakeyama, J., Wakamatsu, Y., Nagafuchi, A., Kageyama, R., Shigemoto, R., & Shimamura, K. (2014). Cadherin-based adhesions in the apical endfoot are required for active Notch signaling to control neurogenesis in vertebrates. Development. Company of Biologists. https://doi.org/10.1242/dev.102988","ieee":"J. Hatakeyama, Y. Wakamatsu, A. Nagafuchi, R. Kageyama, R. Shigemoto, and K. Shimamura, “Cadherin-based adhesions in the apical endfoot are required for active Notch signaling to control neurogenesis in vertebrates,” Development, vol. 141, no. 8. Company of Biologists, pp. 1671–1682, 2014.","ista":"Hatakeyama J, Wakamatsu Y, Nagafuchi A, Kageyama R, Shigemoto R, Shimamura K. 2014. Cadherin-based adhesions in the apical endfoot are required for active Notch signaling to control neurogenesis in vertebrates. Development. 141(8), 1671–1682.","ama":"Hatakeyama J, Wakamatsu Y, Nagafuchi A, Kageyama R, Shigemoto R, Shimamura K. Cadherin-based adhesions in the apical endfoot are required for active Notch signaling to control neurogenesis in vertebrates. Development. 2014;141(8):1671-1682. doi:10.1242/dev.102988","chicago":"Hatakeyama, Jun, Yoshio Wakamatsu, Akira Nagafuchi, Ryoichiro Kageyama, Ryuichi Shigemoto, and Kenji Shimamura. “Cadherin-Based Adhesions in the Apical Endfoot Are Required for Active Notch Signaling to Control Neurogenesis in Vertebrates.” Development. Company of Biologists, 2014. https://doi.org/10.1242/dev.102988.","short":"J. Hatakeyama, Y. Wakamatsu, A. Nagafuchi, R. Kageyama, R. Shigemoto, K. Shimamura, Development 141 (2014) 1671–1682.","mla":"Hatakeyama, Jun, et al. “Cadherin-Based Adhesions in the Apical Endfoot Are Required for Active Notch Signaling to Control Neurogenesis in Vertebrates.” Development, vol. 141, no. 8, Company of Biologists, 2014, pp. 1671–82, doi:10.1242/dev.102988."},"abstract":[{"text":"The development of the vertebrate brain requires an exquisite balance between proliferation and differentiation of neural progenitors. Notch signaling plays a pivotal role in regulating this balance, yet the interaction between signaling and receiving cells remains poorly understood. We have found that numerous nascent neurons and/or intermediate neurogenic progenitors expressing the ligand of Notch retain apical endfeet transiently at the ventricular lumen that form adherens junctions (AJs) with the endfeet of progenitors. Forced detachment of the apical endfeet of those differentiating cells by disrupting AJs resulted in precocious neurogenesis that was preceded by the downregulation of Notch signaling. Both Notch1 and its ligand Dll1 are distributed around AJs in the apical endfeet, and these proteins physically interact with ZO-1, a constituent of the AJ. Furthermore, live imaging of a fluorescently tagged Notch1 demonstrated its trafficking from the apical endfoot to the nucleus upon cleavage. Our results identified the apical endfoot as the central site of active Notch signaling to securely prohibit inappropriate differentiation of neural progenitors.","lang":"eng"}],"publist_id":"5161","issue":"8","type":"journal_article","date_updated":"2021-01-12T06:54:10Z","date_created":"2018-12-11T11:54:47Z","volume":141,"oa_version":"None","author":[{"first_name":"Jun","last_name":"Hatakeyama","full_name":"Hatakeyama, Jun"},{"last_name":"Wakamatsu","first_name":"Yoshio","full_name":"Wakamatsu, Yoshio"},{"first_name":"Akira","last_name":"Nagafuchi","full_name":"Nagafuchi, Akira"},{"full_name":"Kageyama, Ryoichiro","first_name":"Ryoichiro","last_name":"Kageyama"},{"full_name":"Shigemoto, Ryuichi","last_name":"Shigemoto","first_name":"Ryuichi","orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Shimamura, Kenji","last_name":"Shimamura","first_name":"Kenji"}],"status":"public","title":"Cadherin-based adhesions in the apical endfoot are required for active Notch signaling to control neurogenesis in vertebrates","publication_status":"published","publisher":"Company of Biologists","department":[{"_id":"RySh"}],"intvolume":" 141","_id":"1933","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","year":"2014"},{"scopus_import":1,"day":"28","publication":"Frontiers in Computational Neuroscience","citation":{"ama":"Savin C, Triesch J. Emergence of task-dependent representations in working memory circuits. Frontiers in Computational Neuroscience. 2014;8(MAY). doi:10.3389/fncom.2014.00057","apa":"Savin, C., & Triesch, J. (2014). Emergence of task-dependent representations in working memory circuits. Frontiers in Computational Neuroscience. Frontiers Research Foundation. https://doi.org/10.3389/fncom.2014.00057","ieee":"C. Savin and J. Triesch, “Emergence of task-dependent representations in working memory circuits,” Frontiers in Computational Neuroscience, vol. 8, no. MAY. Frontiers Research Foundation, 2014.","ista":"Savin C, Triesch J. 2014. Emergence of task-dependent representations in working memory circuits. Frontiers in Computational Neuroscience. 8(MAY), 57.","short":"C. Savin, J. Triesch, Frontiers in Computational Neuroscience 8 (2014).","mla":"Savin, Cristina, and Jochen Triesch. “Emergence of Task-Dependent Representations in Working Memory Circuits.” Frontiers in Computational Neuroscience, vol. 8, no. MAY, 57, Frontiers Research Foundation, 2014, doi:10.3389/fncom.2014.00057.","chicago":"Savin, Cristina, and Jochen Triesch. “Emergence of Task-Dependent Representations in Working Memory Circuits.” Frontiers in Computational Neuroscience. Frontiers Research Foundation, 2014. https://doi.org/10.3389/fncom.2014.00057."},"date_published":"2014-05-28T00:00:00Z","type":"journal_article","abstract":[{"text":"A wealth of experimental evidence suggests that working memory circuits preferentially represent information that is behaviorally relevant. Still, we are missing a mechanistic account of how these representations come about. Here we provide a simple explanation for a range of experimental findings, in light of prefrontal circuits adapting to task constraints by reward-dependent learning. In particular, we model a neural network shaped by reward-modulated spike-timing dependent plasticity (r-STDP) and homeostatic plasticity (intrinsic excitability and synaptic scaling). We show that the experimentally-observed neural representations naturally emerge in an initially unstructured circuit as it learns to solve several working memory tasks. These results point to a critical, and previously unappreciated, role for reward-dependent learning in shaping prefrontal cortex activity.","lang":"eng"}],"issue":"MAY","status":"public","title":"Emergence of task-dependent representations in working memory circuits","intvolume":" 8","_id":"1931","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","month":"05","quality_controlled":"1","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4035833/","open_access":"1"}],"oa":1,"language":[{"iso":"eng"}],"doi":"10.3389/fncom.2014.00057","article_number":"57","publist_id":"5163","publication_status":"published","department":[{"_id":"GaTk"}],"publisher":"Frontiers Research Foundation","year":"2014","acknowledgement":"Supported in part by EC MEXT project PLICON and the LOEWE-Program “Neuronal Coordination Research Focus Frankfurt” (NeFF). Jochen Triesch was supported by the Quandt foundation.","date_created":"2018-12-11T11:54:46Z","date_updated":"2021-01-12T06:54:09Z","volume":8,"author":[{"id":"3933349E-F248-11E8-B48F-1D18A9856A87","first_name":"Cristina","last_name":"Savin","full_name":"Savin, Cristina"},{"last_name":"Triesch","first_name":"Jochen","full_name":"Triesch, Jochen"}]},{"title":"Edge universality of beta ensembles","status":"public","intvolume":" 332","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"1937","oa_version":"Submitted Version","type":"journal_article","abstract":[{"lang":"eng","text":"We prove the edge universality of the beta ensembles for any β ≥ 1, provided that the limiting spectrum is supported on a single interval, and the external potential is C4 and regular. We also prove that the edge universality holds for generalized Wigner matrices for all symmetry classes. Moreover, our results allow us to extend bulk universality for beta ensembles from analytic potentials to potentials in class C4."}],"issue":"1","page":"261 - 353","publication":"Communications in Mathematical Physics","citation":{"ama":"Bourgade P, Erdös L, Yau H. Edge universality of beta ensembles. Communications in Mathematical Physics. 2014;332(1):261-353. doi:10.1007/s00220-014-2120-z","apa":"Bourgade, P., Erdös, L., & Yau, H. (2014). Edge universality of beta ensembles. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-014-2120-z","ieee":"P. Bourgade, L. Erdös, and H. Yau, “Edge universality of beta ensembles,” Communications in Mathematical Physics, vol. 332, no. 1. Springer, pp. 261–353, 2014.","ista":"Bourgade P, Erdös L, Yau H. 2014. Edge universality of beta ensembles. Communications in Mathematical Physics. 332(1), 261–353.","short":"P. Bourgade, L. Erdös, H. Yau, Communications in Mathematical Physics 332 (2014) 261–353.","mla":"Bourgade, Paul, et al. “Edge Universality of Beta Ensembles.” Communications in Mathematical Physics, vol. 332, no. 1, Springer, 2014, pp. 261–353, doi:10.1007/s00220-014-2120-z.","chicago":"Bourgade, Paul, László Erdös, and Horngtzer Yau. “Edge Universality of Beta Ensembles.” Communications in Mathematical Physics. Springer, 2014. https://doi.org/10.1007/s00220-014-2120-z."},"date_published":"2014-11-01T00:00:00Z","scopus_import":1,"day":"01","publication_status":"published","department":[{"_id":"LaEr"}],"publisher":"Springer","year":"2014","date_created":"2018-12-11T11:54:48Z","date_updated":"2021-01-12T06:54:12Z","volume":332,"author":[{"full_name":"Bourgade, Paul","last_name":"Bourgade","first_name":"Paul"},{"first_name":"László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603","full_name":"Erdös, László"},{"full_name":"Yau, Horngtzer","last_name":"Yau","first_name":"Horngtzer"}],"publist_id":"5158","quality_controlled":"1","project":[{"name":"Glutamaterge synaptische Übertragung und Plastizität in hippocampalen Mikroschaltkreisen","_id":"25BDE9A4-B435-11E9-9278-68D0E5697425","grant_number":"SFB-TR3-TP10B"}],"oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1306.5728"}],"language":[{"iso":"eng"}],"doi":"10.1007/s00220-014-2120-z","month":"11"},{"doi":"10.1111/jzs.12079","date_published":"2014-02-01T00:00:00Z","citation":{"chicago":"Garvin, Michael, Joseph Bielawski, Leonid A Sazanov, and Anthony Gharrett. “Review and Meta-Analysis of Natural Selection in Mitochondrial Complex I in Metazoans.” Journal of Zoological Systematics and Evolutionary Research. Wiley-Blackwell, 2014. https://doi.org/10.1111/jzs.12079.","short":"M. Garvin, J. Bielawski, L.A. Sazanov, A. Gharrett, Journal of Zoological Systematics and Evolutionary Research 53 (2014) 1–17.","mla":"Garvin, Michael, et al. “Review and Meta-Analysis of Natural Selection in Mitochondrial Complex I in Metazoans.” Journal of Zoological Systematics and Evolutionary Research, vol. 53, no. 1, Wiley-Blackwell, 2014, pp. 1–17, doi:10.1111/jzs.12079.","ieee":"M. Garvin, J. Bielawski, L. A. Sazanov, and A. Gharrett, “Review and meta-analysis of natural selection in mitochondrial complex I in metazoans,” Journal of Zoological Systematics and Evolutionary Research, vol. 53, no. 1. Wiley-Blackwell, pp. 1–17, 2014.","apa":"Garvin, M., Bielawski, J., Sazanov, L. A., & Gharrett, A. (2014). Review and meta-analysis of natural selection in mitochondrial complex I in metazoans. Journal of Zoological Systematics and Evolutionary Research. Wiley-Blackwell. https://doi.org/10.1111/jzs.12079","ista":"Garvin M, Bielawski J, Sazanov LA, Gharrett A. 2014. Review and meta-analysis of natural selection in mitochondrial complex I in metazoans. Journal of Zoological Systematics and Evolutionary Research. 53(1), 1–17.","ama":"Garvin M, Bielawski J, Sazanov LA, Gharrett A. Review and meta-analysis of natural selection in mitochondrial complex I in metazoans. Journal of Zoological Systematics and Evolutionary Research. 2014;53(1):1-17. doi:10.1111/jzs.12079"},"publication":"Journal of Zoological Systematics and Evolutionary Research","page":"1 - 17","quality_controlled":0,"day":"01","month":"02","author":[{"first_name":"Michael","last_name":"Garvin","full_name":"Garvin, Michael R"},{"full_name":"Bielawski, Joseph P","first_name":"Joseph","last_name":"Bielawski"},{"first_name":"Leonid A","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989","full_name":"Leonid Sazanov"},{"first_name":"Anthony","last_name":"Gharrett","full_name":"Gharrett, Anthony J"}],"volume":53,"date_created":"2018-12-11T11:55:02Z","date_updated":"2019-04-26T07:22:06Z","_id":"1981","acknowledgement":"Funded by University of Alaska Center for Global Change Student Research Cooperative Institute for Alaska Research and the Rasmuson Foundation","year":"2014","publisher":"Wiley-Blackwell","intvolume":" 53","title":"Review and meta-analysis of natural selection in mitochondrial complex I in metazoans","publication_status":"published","status":"public","issue":"1","publist_id":"5102","abstract":[{"lang":"eng","text":"Variation in mitochondrial DNA is often assumed to be neutral and is used to construct the genealogical relationships among populations and species. However, if extant variation is the result of episodes of positive selection, these genealogies may be incorrect, although this information itself may provide biologically and evolutionary meaningful information. In fact, positive Darwinian selection has been detected in the mitochondrial-encoded subunits that comprise complex I from diverse taxa with seemingly dissimilar bioenergetic life histories, but the functional implications of the selected sites are unknown. Complex I produces roughly 40% of the proton flux that is used to synthesize ATP from ADP, and a functional model based on the high-resolution structure of complex I described a unique biomechanical apparatus for proton translocation. We reported positive selection at sites in this apparatus during the evolution of Pacific salmon, and it appeared this was also the case in published reports from other taxa, but a comparison among studies was difficult because different statistical tests were used to detect selection and oftentimes, specific sites were not reported. Here we review the literature of positive selection in mitochondrial genomes, the statistical tests used to detect selection, and the structural and functional models that are currently available to study the physiological implications of selection. We then search for signatures of positive selection among the coding mitochondrial genomes of 237 species with a common set of tests and verify that the ND5 subunit of complex I is a repeated target of positive Darwinian selection in diverse taxa. We propose a novel hypothesis to explain the results based on their bioenergetic life histories and provide a guide for laboratory and field studies to test this hypothesis."}],"extern":1,"type":"review"},{"month":"03","day":"01","date_published":"2014-03-01T00:00:00Z","doi":"10.1111/mmi.12507","citation":{"chicago":"Heikal, Adam, Yoshio Nakatani, Elyse Dunn, Marion Weimar, Catherine Day, Edward Baker, Shaun Lott, Leonid A Sazanov, and Gregory Cook. “Structure of the Bacterial Type II NADH Dehydrogenase: A Monotopic Membrane Protein with an Essential Role in Energy Generation.” Molecular Microbiology. Wiley-Blackwell, 2014. https://doi.org/10.1111/mmi.12507.","short":"A. Heikal, Y. Nakatani, E. Dunn, M. Weimar, C. Day, E. Baker, S. Lott, L.A. Sazanov, G. Cook, Molecular Microbiology 91 (2014) 950–964.","mla":"Heikal, Adam, et al. “Structure of the Bacterial Type II NADH Dehydrogenase: A Monotopic Membrane Protein with an Essential Role in Energy Generation.” Molecular Microbiology, vol. 91, no. 5, Wiley-Blackwell, 2014, pp. 950–64, doi:10.1111/mmi.12507.","ieee":"A. Heikal et al., “Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation,” Molecular Microbiology, vol. 91, no. 5. Wiley-Blackwell, pp. 950–964, 2014.","apa":"Heikal, A., Nakatani, Y., Dunn, E., Weimar, M., Day, C., Baker, E., … Cook, G. (2014). Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation. Molecular Microbiology. Wiley-Blackwell. https://doi.org/10.1111/mmi.12507","ista":"Heikal A, Nakatani Y, Dunn E, Weimar M, Day C, Baker E, Lott S, Sazanov LA, Cook G. 2014. Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation. Molecular Microbiology. 91(5), 950–964.","ama":"Heikal A, Nakatani Y, Dunn E, et al. Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation. Molecular Microbiology. 2014;91(5):950-964. doi:10.1111/mmi.12507"},"publication":"Molecular Microbiology","page":"950 - 964","quality_controlled":0,"publist_id":"5103","issue":"5","abstract":[{"text":"Non-proton pumping type II NADH dehydrogenase (NDH-2) plays a central role in the respiratory metabolism of bacteria, and in the mitochondria of fungi, plants and protists. The lack of NDH-2 in mammalian mitochondria and its essentiality in important bacterial pathogens suggests these enzymes may represent a potential new drug target to combat microbial pathogens. Here, we report the first crystal structure of a bacterial NDH-2 enzyme at 2.5Å resolution from Caldalkalibacillus thermarum. The NDH-2 structure reveals a homodimeric organization that has a unique dimer interface. NDH-2 is localized to the cytoplasmic membrane by two separated C-terminal membrane-anchoring regions that are essential for membrane localization and FAD binding, but not NDH-2 dimerization. Comparison of bacterial NDH-2 with the yeast NADH dehydrogenase (Ndi1) structure revealed non-overlapping binding sites for quinone and NADH in the bacterial enzyme. The bacterial NDH-2 structure establishes a framework for the structure-based design of small-molecule inhibitors.","lang":"eng"}],"extern":1,"type":"journal_article","author":[{"full_name":"Heikal, Adam ","first_name":"Adam","last_name":"Heikal"},{"last_name":"Nakatani","first_name":"Yoshio","full_name":"Nakatani, Yoshio"},{"full_name":"Dunn, Elyse A","last_name":"Dunn","first_name":"Elyse"},{"full_name":"Weimar, Marion R","last_name":"Weimar","first_name":"Marion"},{"last_name":"Day","first_name":"Catherine","full_name":"Day, Catherine"},{"last_name":"Baker","first_name":"Edward","full_name":"Baker, Edward N"},{"last_name":"Lott","first_name":"Shaun","full_name":"Lott, Shaun J"},{"full_name":"Leonid Sazanov","first_name":"Leonid A","last_name":"Sazanov","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989"},{"full_name":"Cook, Gregory","last_name":"Cook","first_name":"Gregory"}],"volume":91,"date_created":"2018-12-11T11:55:01Z","date_updated":"2021-01-12T06:54:29Z","_id":"1980","year":"2014","acknowledgement":"Funded by Health Research Council of New Zealand Royal Society of New Zealand University of Otago New Zealand Synchrotron Group","intvolume":" 91","publisher":"Wiley-Blackwell","status":"public","publication_status":"published","title":"Structure of the bacterial type II NADH dehydrogenase: a monotopic membrane protein with an essential role in energy generation"},{"publication_status":"published","status":"public","title":"The mechanism of coupling between electron transfer and proton translocation in respiratory complex I","publisher":"Springer","intvolume":" 46","year":"2014","_id":"1979","date_updated":"2021-01-12T06:54:28Z","date_created":"2018-12-11T11:55:01Z","volume":46,"author":[{"full_name":"Leonid Sazanov","last_name":"Sazanov","first_name":"Leonid A","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article","extern":1,"abstract":[{"text":"NADH-ubiquinone oxidoreductase (complex I) is the first and largest enzyme in the respiratory chain of mitochondria and many bacteria. It couples the transfer of two electrons between NADH and ubiquinone to the translocation of four protons across the membrane. Complex I is an L-shaped assembly formed by the hydrophilic (peripheral) arm, containing all the redox centres performing electron transfer and the membrane arm, containing proton-translocating machinery. Mitochondrial complex I consists of 44 subunits of about 1 MDa in total, whilst the prokaryotic enzyme is simpler and generally consists of 14 conserved “core” subunits. Recently we have determined the first atomic structure of the entire complex I, using the enzyme from Thermus thermophilus (536 kDa, 16 subunits, 9 Fe-S clusters, 64 TM helices). Structure suggests a unique coupling mechanism, with redox energy of electron transfer driving proton translocation via long-range (up to ~200 Å) conformational changes. It resembles a steam engine, with coupling elements (akin to coupling rods) linking parts of this molecular machine.","lang":"eng"}],"publist_id":"5104","issue":"4","quality_controlled":0,"page":"247 - 253","publication":"Journal of Bioenergetics and Biomembranes","citation":{"chicago":"Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer and Proton Translocation in Respiratory Complex I.” Journal of Bioenergetics and Biomembranes. Springer, 2014. https://doi.org/10.1007/s10863-014-9554-z.","short":"L.A. Sazanov, Journal of Bioenergetics and Biomembranes 46 (2014) 247–253.","mla":"Sazanov, Leonid A. “The Mechanism of Coupling between Electron Transfer and Proton Translocation in Respiratory Complex I.” Journal of Bioenergetics and Biomembranes, vol. 46, no. 4, Springer, 2014, pp. 247–53, doi:10.1007/s10863-014-9554-z.","apa":"Sazanov, L. A. (2014). The mechanism of coupling between electron transfer and proton translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes. Springer. https://doi.org/10.1007/s10863-014-9554-z","ieee":"L. A. Sazanov, “The mechanism of coupling between electron transfer and proton translocation in respiratory complex I,” Journal of Bioenergetics and Biomembranes, vol. 46, no. 4. Springer, pp. 247–253, 2014.","ista":"Sazanov LA. 2014. The mechanism of coupling between electron transfer and proton translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes. 46(4), 247–253.","ama":"Sazanov LA. The mechanism of coupling between electron transfer and proton translocation in respiratory complex I. Journal of Bioenergetics and Biomembranes. 2014;46(4):247-253. doi:10.1007/s10863-014-9554-z"},"date_published":"2014-08-01T00:00:00Z","doi":"10.1007/s10863-014-9554-z","month":"08","day":"01"},{"type":"journal_article","extern":1,"abstract":[{"lang":"eng","text":"During animal cell division, the cleavage furrow is positioned by microtubules that signal to the actin cortex at the cell midplane. We developed a cell-free system to recapitulate cytokinesis signaling using cytoplasmic extract from Xenopus eggs. Microtubules grew out as asters from artificial centrosomes and met to organize antiparallel overlap zones. These zones blocked the interpenetration of neighboring asters and recruited cytokinesis midzone proteins, including the chromosomal passenger complex (CPC) and centralspindlin. The CPC was transported to overlap zones, which required two motor proteins, Kif4A and a Kif20A paralog. Using supported lipid bilayers to mimic the plasma membrane, we observed the recruitment of cleavage furrow markers, including an active RhoA reporter, at microtubule overlaps. This system opens further approaches to understanding the biophysics of cytokinesis signaling."}],"issue":"6206","publist_id":"5093","publication_status":"published","status":"public","title":"Spatial organization of cytokinesis signaling reconstituted in a cell-free system","intvolume":" 346","publisher":"American Association for the Advancement of Science","_id":"1989","acknowledgement":"This work was supported by NIH grant GM39565 (T.J.M.); MBL fellowships from the Evans Foundation, MBL Associates, and the Colwin Fund (T.J.M. and C.M.F.); HFSP fellowship LT000466/2012-L (M.L.); and NIH grant GM103785 (M.W.). ","year":"2014","date_updated":"2021-01-12T06:54:32Z","date_created":"2018-12-11T11:55:04Z","volume":346,"author":[{"full_name":"Nguyen, Phuong A","last_name":"Nguyen","first_name":"Phuong"},{"last_name":"Groen","first_name":"Aaron","full_name":"Groen, Aaron C"},{"first_name":"Martin","last_name":"Loose","id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724","full_name":"Martin Loose"},{"full_name":"Ishihara, Keisuke ","first_name":"Keisuke","last_name":"Ishihara"},{"last_name":"Wühr","first_name":"Martin","full_name":"Wühr, Martin "},{"full_name":"Field, Christine M","last_name":"Field","first_name":"Christine"},{"full_name":"Mitchison, Timothy J","first_name":"Timothy","last_name":"Mitchison"}],"month":"10","day":"10","quality_controlled":0,"page":"244 - 247","publication":"Science","citation":{"short":"P. Nguyen, A. Groen, M. Loose, K. Ishihara, M. Wühr, C. Field, T. Mitchison, Science 346 (2014) 244–247.","mla":"Nguyen, Phuong, et al. “Spatial Organization of Cytokinesis Signaling Reconstituted in a Cell-Free System.” Science, vol. 346, no. 6206, American Association for the Advancement of Science, 2014, pp. 244–47, doi:10.1126/science.1256773.","chicago":"Nguyen, Phuong, Aaron Groen, Martin Loose, Keisuke Ishihara, Martin Wühr, Christine Field, and Timothy Mitchison. “Spatial Organization of Cytokinesis Signaling Reconstituted in a Cell-Free System.” Science. American Association for the Advancement of Science, 2014. https://doi.org/10.1126/science.1256773.","ama":"Nguyen P, Groen A, Loose M, et al. Spatial organization of cytokinesis signaling reconstituted in a cell-free system. Science. 2014;346(6206):244-247. doi:10.1126/science.1256773","apa":"Nguyen, P., Groen, A., Loose, M., Ishihara, K., Wühr, M., Field, C., & Mitchison, T. (2014). Spatial organization of cytokinesis signaling reconstituted in a cell-free system. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1256773","ieee":"P. Nguyen et al., “Spatial organization of cytokinesis signaling reconstituted in a cell-free system,” Science, vol. 346, no. 6206. American Association for the Advancement of Science, pp. 244–247, 2014.","ista":"Nguyen P, Groen A, Loose M, Ishihara K, Wühr M, Field C, Mitchison T. 2014. Spatial organization of cytokinesis signaling reconstituted in a cell-free system. Science. 346(6206), 244–247."},"date_published":"2014-10-10T00:00:00Z","doi":"10.1126/science.1256773"},{"type":"journal_article","extern":1,"abstract":[{"lang":"eng","text":"Bacterial cytokinesis is commonly initiated by the Z-ring, a cytoskeletal structure that assembles at the site of division. Its primary component is FtsZ, a tubulin superfamily GTPase, which is recruited to the membrane by the actin-related protein FtsA. Both proteins are required for the formation of the Z-ring, but if and how they influence each other's assembly dynamics is not known. Here, we reconstituted FtsA-dependent recruitment of FtsZ polymers to supported membranes, where both proteins self-organize into complex patterns, such as fast-moving filament bundles and chirally rotating rings. Using fluorescence microscopy and biochemical perturbations, we found that these large-scale rearrangements of FtsZ emerge from its polymerization dynamics and a dual, antagonistic role of FtsA: recruitment of FtsZ filaments to the membrane and negative regulation of FtsZ organization. Our findings provide a model for the initial steps of bacterial cell division and illustrate how dynamic polymers can self-organize into large-scale structures."}],"publist_id":"5094","issue":"1","title":"The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns","status":"public","publication_status":"published","publisher":"Nature Publishing Group","intvolume":" 16","acknowledgement":"M.L. is supported by fellowships from EMBO (ALTF 394-2011) and HFSP (LT000466/2012). Cytoskeleton dynamics research in the T.J.M. group is supported by NIH-GM39565.","_id":"1990","year":"2014","date_updated":"2021-01-12T06:54:33Z","date_created":"2018-12-11T11:55:05Z","volume":16,"author":[{"full_name":"Martin Loose","first_name":"Martin","last_name":"Loose","id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724"},{"first_name":"Timothy","last_name":"Mitchison","full_name":"Mitchison, Timothy J"}],"day":"01","month":"01","quality_controlled":0,"page":"38 - 46","publication":"Nature Cell Biology","citation":{"chicago":"Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” Nature Cell Biology. Nature Publishing Group, 2014. https://doi.org/10.1038/ncb2885.","mla":"Loose, Martin, and Timothy Mitchison. “The Bacterial Cell Division Proteins FtsA and FtsZ Self-Organize into Dynamic Cytoskeletal Patterns.” Nature Cell Biology, vol. 16, no. 1, Nature Publishing Group, 2014, pp. 38–46, doi:10.1038/ncb2885.","short":"M. Loose, T. Mitchison, Nature Cell Biology 16 (2014) 38–46.","ista":"Loose M, Mitchison T. 2014. The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell Biology. 16(1), 38–46.","apa":"Loose, M., & Mitchison, T. (2014). The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell Biology. Nature Publishing Group. https://doi.org/10.1038/ncb2885","ieee":"M. Loose and T. Mitchison, “The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns,” Nature Cell Biology, vol. 16, no. 1. Nature Publishing Group, pp. 38–46, 2014.","ama":"Loose M, Mitchison T. The bacterial cell division proteins ftsA and ftsZ self-organize into dynamic cytoskeletal patterns. Nature Cell Biology. 2014;16(1):38-46. doi:10.1038/ncb2885"},"date_published":"2014-01-01T00:00:00Z","doi":"10.1038/ncb2885"},{"day":"16","month":"12","scopus_import":1,"language":[{"iso":"eng"}],"doi":"10.1073/pnas.1413918111","date_published":"2014-12-16T00:00:00Z","quality_controlled":"1","page":"E5471 - E5479","publication":"PNAS","oa":1,"main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4273421/","open_access":"1"}],"citation":{"ama":"Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. Bimodal regulation of ICR1 levels generates self-organizing auxin distribution. PNAS. 2014;111(50):E5471-E5479. doi:10.1073/pnas.1413918111","apa":"Hazak, O., Obolski, U., Prat, T., Friml, J., Hadany, L., & Yalovsky, S. (2014). Bimodal regulation of ICR1 levels generates self-organizing auxin distribution. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1413918111","ieee":"O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, and S. Yalovsky, “Bimodal regulation of ICR1 levels generates self-organizing auxin distribution,” PNAS, vol. 111, no. 50. National Academy of Sciences, pp. E5471–E5479, 2014.","ista":"Hazak O, Obolski U, Prat T, Friml J, Hadany L, Yalovsky S. 2014. Bimodal regulation of ICR1 levels generates self-organizing auxin distribution. PNAS. 111(50), E5471–E5479.","short":"O. Hazak, U. Obolski, T. Prat, J. Friml, L. Hadany, S. Yalovsky, PNAS 111 (2014) E5471–E5479.","mla":"Hazak, Ora, et al. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing Auxin Distribution.” PNAS, vol. 111, no. 50, National Academy of Sciences, 2014, pp. E5471–79, doi:10.1073/pnas.1413918111.","chicago":"Hazak, Ora, Uri Obolski, Tomas Prat, Jiří Friml, Lilach Hadany, and Shaul Yalovsky. “Bimodal Regulation of ICR1 Levels Generates Self-Organizing Auxin Distribution.” PNAS. National Academy of Sciences, 2014. https://doi.org/10.1073/pnas.1413918111."},"abstract":[{"text":"Auxin polar transport, local maxima, and gradients have become an importantmodel system for studying self-organization. Auxin distribution is regulated by auxin-dependent positive feedback loops that are not well-understood at the molecular level. Previously, we showed the involvement of the RHO of Plants (ROP) effector INTERACTOR of CONSTITUTIVELY active ROP 1 (ICR1) in regulation of auxin transport and that ICR1 levels are posttranscriptionally repressed at the site of maximum auxin accumulation at the root tip. Here, we show that bimodal regulation of ICR1 levels by auxin is essential for regulating formation of auxin local maxima and gradients. ICR1 levels increase concomitant with increase in auxin response in lateral root primordia, cotyledon tips, and provascular tissues. However, in the embryo hypophysis and root meristem, when auxin exceeds critical levels, ICR1 is rapidly destabilized by an SCF(TIR1/AFB) [SKP, Cullin, F-box (transport inhibitor response 1/auxin signaling F-box protein)]-dependent auxin signaling mechanism. Furthermore, ectopic expression of ICR1 in the embryo hypophysis resulted in reduction of auxin accumulation and concomitant root growth arrest. ICR1 disappeared during root regeneration and lateral root initiation concomitantly with the formation of a local auxin maximum in response to external auxin treatments and transiently after gravitropic stimulation. Destabilization of ICR1 was impaired after inhibition of auxin transport and signaling, proteasome function, and protein synthesis. A mathematical model based on these findings shows that an in vivo-like auxin distribution, rootward auxin flux, and shootward reflux can be simulated without assuming preexisting tissue polarity. Our experimental results and mathematical modeling indicate that regulation of auxin distribution is tightly associated with auxin-dependent ICR1 levels.","lang":"eng"}],"publist_id":"5083","issue":"50","type":"journal_article","date_created":"2018-12-11T11:55:07Z","date_updated":"2021-01-12T06:54:35Z","oa_version":"Submitted Version","volume":111,"author":[{"full_name":"Hazak, Ora","first_name":"Ora","last_name":"Hazak"},{"first_name":"Uri","last_name":"Obolski","full_name":"Obolski, Uri"},{"first_name":"Tomas","last_name":"Prat","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","full_name":"Prat, Tomas"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"last_name":"Hadany","first_name":"Lilach","full_name":"Hadany, Lilach"},{"full_name":"Yalovsky, Shaul","first_name":"Shaul","last_name":"Yalovsky"}],"status":"public","publication_status":"published","title":"Bimodal regulation of ICR1 levels generates self-organizing auxin distribution","publisher":"National Academy of Sciences","intvolume":" 111","department":[{"_id":"JiFr"}],"_id":"1996","year":"2014","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87"},{"issue":"23","publist_id":"5088","ec_funded":1,"abstract":[{"lang":"eng","text":"The emergence and radiation of multicellular land plants was driven by crucial innovations to their body plans [1]. The directional transport of the phytohormone auxin represents a key, plant-specific mechanism for polarization and patterning in complex seed plants [2-5]. Here, we show that already in the early diverging land plant lineage, as exemplified by the moss Physcomitrella patens, auxin transport by PIN transporters is operational and diversified into ER-localized and plasma membrane-localized PIN proteins. Gain-of-function and loss-of-function analyses revealed that PIN-dependent intercellular auxin transport in Physcomitrella mediates crucial developmental transitions in tip-growing filaments and waves of polarization and differentiation in leaf-like structures. Plasma membrane PIN proteins localize in a polar manner to the tips of moss filaments, revealing an unexpected relation between polarization mechanisms in moss tip-growing cells and multicellular tissues of seed plants. Our results trace the origins of polarization and auxin-mediated patterning mechanisms and highlight the crucial role of polarized auxin transport during the evolution of multicellular land plants."}],"type":"journal_article","oa_version":"None","volume":24,"date_updated":"2021-01-12T06:54:34Z","date_created":"2018-12-11T11:55:06Z","author":[{"full_name":"Viaene, Tom","first_name":"Tom","last_name":"Viaene"},{"full_name":"Landberg, Katarina","last_name":"Landberg","first_name":"Katarina"},{"first_name":"Mattias","last_name":"Thelander","full_name":"Thelander, Mattias"},{"first_name":"Eva","last_name":"Medvecka","full_name":"Medvecka, Eva"},{"last_name":"Pederson","first_name":"Eric","full_name":"Pederson, Eric"},{"full_name":"Feraru, Elena","last_name":"Feraru","first_name":"Elena"},{"full_name":"Cooper, Endymion","last_name":"Cooper","first_name":"Endymion"},{"first_name":"Mansour","last_name":"Karimi","full_name":"Karimi, Mansour"},{"last_name":"Delwiche","first_name":"Charles","full_name":"Delwiche, Charles"},{"full_name":"Ljung, Karin","last_name":"Ljung","first_name":"Karin"},{"full_name":"Geisler, Markus","last_name":"Geisler","first_name":"Markus"},{"full_name":"Sundberg, Eva","last_name":"Sundberg","first_name":"Eva"},{"full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí"}],"publisher":"Cell Press","department":[{"_id":"JiFr"}],"intvolume":" 24","publication_status":"published","title":"Directional auxin transport mechanisms in early diverging land plants","status":"public","year":"2014","_id":"1994","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","month":"12","day":"01","scopus_import":1,"language":[{"iso":"eng"}],"date_published":"2014-12-01T00:00:00Z","doi":"10.1016/j.cub.2014.09.056","project":[{"grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7"}],"page":"2786 - 2791","quality_controlled":"1","citation":{"mla":"Viaene, Tom, et al. “Directional Auxin Transport Mechanisms in Early Diverging Land Plants.” Current Biology, vol. 24, no. 23, Cell Press, 2014, pp. 2786–91, doi:10.1016/j.cub.2014.09.056.","short":"T. Viaene, K. Landberg, M. Thelander, E. Medvecka, E. Pederson, E. Feraru, E. Cooper, M. Karimi, C. Delwiche, K. Ljung, M. Geisler, E. Sundberg, J. Friml, Current Biology 24 (2014) 2786–2791.","chicago":"Viaene, Tom, Katarina Landberg, Mattias Thelander, Eva Medvecka, Eric Pederson, Elena Feraru, Endymion Cooper, et al. “Directional Auxin Transport Mechanisms in Early Diverging Land Plants.” Current Biology. Cell Press, 2014. https://doi.org/10.1016/j.cub.2014.09.056.","ama":"Viaene T, Landberg K, Thelander M, et al. Directional auxin transport mechanisms in early diverging land plants. Current Biology. 2014;24(23):2786-2791. doi:10.1016/j.cub.2014.09.056","ista":"Viaene T, Landberg K, Thelander M, Medvecka E, Pederson E, Feraru E, Cooper E, Karimi M, Delwiche C, Ljung K, Geisler M, Sundberg E, Friml J. 2014. Directional auxin transport mechanisms in early diverging land plants. Current Biology. 24(23), 2786–2791.","apa":"Viaene, T., Landberg, K., Thelander, M., Medvecka, E., Pederson, E., Feraru, E., … Friml, J. (2014). Directional auxin transport mechanisms in early diverging land plants. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2014.09.056","ieee":"T. Viaene et al., “Directional auxin transport mechanisms in early diverging land plants,” Current Biology, vol. 24, no. 23. Cell Press, pp. 2786–2791, 2014."},"publication":"Current Biology"},{"scopus_import":1,"day":"08","publication":"Physical Review Letters","citation":{"chicago":"Fratini, Filippo, Eduardo Mascarenhas, Laleh Safari, Jean Poizat, Daniel Valente, Alexia Auffèves, Dario Gerace, and Marcelo Santos. “Fabry-Perot Interferometer with Quantum Mirrors: Nonlinear Light Transport and Rectification.” Physical Review Letters. American Physical Society, 2014. https://doi.org/10.1103/PhysRevLett.113.243601.","mla":"Fratini, Filippo, et al. “Fabry-Perot Interferometer with Quantum Mirrors: Nonlinear Light Transport and Rectification.” Physical Review Letters, vol. 113, no. 24, 243601, American Physical Society, 2014, doi:10.1103/PhysRevLett.113.243601.","short":"F. Fratini, E. Mascarenhas, L. Safari, J. Poizat, D. Valente, A. Auffèves, D. Gerace, M. Santos, Physical Review Letters 113 (2014).","ista":"Fratini F, Mascarenhas E, Safari L, Poizat J, Valente D, Auffèves A, Gerace D, Santos M. 2014. Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification. Physical Review Letters. 113(24), 243601.","apa":"Fratini, F., Mascarenhas, E., Safari, L., Poizat, J., Valente, D., Auffèves, A., … Santos, M. (2014). Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.113.243601","ieee":"F. Fratini et al., “Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification,” Physical Review Letters, vol. 113, no. 24. American Physical Society, 2014.","ama":"Fratini F, Mascarenhas E, Safari L, et al. Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification. Physical Review Letters. 2014;113(24). doi:10.1103/PhysRevLett.113.243601"},"date_published":"2014-12-08T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Optical transport represents a natural route towards fast communications, and it is currently used in large scale data transfer. The progressive miniaturization of devices for information processing calls for the microscopic tailoring of light transport and confinement at length scales appropriate for upcoming technologies. With this goal in mind, we present a theoretical analysis of a one-dimensional Fabry-Perot interferometer built with two highly saturable nonlinear mirrors: a pair of two-level systems. Our approach captures nonlinear and nonreciprocal effects of light transport that were not reported previously. Remarkably, we show that such an elementary device can operate as a microscopic integrated optical rectifier."}],"issue":"24","status":"public","title":"Fabry-Perot interferometer with quantum mirrors: Nonlinear light transport and rectification","intvolume":" 113","_id":"1995","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","month":"12","quality_controlled":"1","project":[{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"oa":1,"main_file_link":[{"url":"http://arxiv.org/abs/1410.5972","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1103/PhysRevLett.113.243601","article_number":"243601","ec_funded":1,"publist_id":"5085","publication_status":"published","publisher":"American Physical Society","department":[{"_id":"MiLe"}],"year":"2014","date_updated":"2021-01-12T06:54:34Z","date_created":"2018-12-11T11:55:06Z","volume":113,"author":[{"full_name":"Fratini, Filippo","first_name":"Filippo","last_name":"Fratini"},{"first_name":"Eduardo","last_name":"Mascarenhas","full_name":"Mascarenhas, Eduardo"},{"id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","first_name":"Laleh","last_name":"Safari","full_name":"Safari, Laleh"},{"full_name":"Poizat, Jean","last_name":"Poizat","first_name":"Jean"},{"full_name":"Valente, Daniel","first_name":"Daniel","last_name":"Valente"},{"last_name":"Auffèves","first_name":"Alexia","full_name":"Auffèves, Alexia"},{"full_name":"Gerace, Dario","first_name":"Dario","last_name":"Gerace"},{"last_name":"Santos","first_name":"Marcelo","full_name":"Santos, Marcelo"}]},{"citation":{"chicago":"El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation in Insects.” Trends in Immunology. Elsevier, 2014. https://doi.org/10.1016/j.it.2014.08.005.","short":"L. El Masri, S. Cremer, Trends in Immunology 35 (2014) 471–482.","mla":"El Masri, Leila, and Sylvia Cremer. “Individual and Social Immunisation in Insects.” Trends in Immunology, vol. 35, no. 10, Elsevier, 2014, pp. 471–82, doi:10.1016/j.it.2014.08.005.","apa":"El Masri, L., & Cremer, S. (2014). Individual and social immunisation in insects. Trends in Immunology. Elsevier. https://doi.org/10.1016/j.it.2014.08.005","ieee":"L. El Masri and S. Cremer, “Individual and social immunisation in insects,” Trends in Immunology, vol. 35, no. 10. Elsevier, pp. 471–482, 2014.","ista":"El Masri L, Cremer S. 2014. Individual and social immunisation in insects. Trends in Immunology. 35(10), 471–482.","ama":"El Masri L, Cremer S. Individual and social immunisation in insects. Trends in Immunology. 2014;35(10):471-482. doi:10.1016/j.it.2014.08.005"},"publication":"Trends in Immunology","page":"471 - 482","quality_controlled":"1","date_published":"2014-10-01T00:00:00Z","doi":"10.1016/j.it.2014.08.005","language":[{"iso":"eng"}],"scopus_import":1,"day":"01","month":"10","acknowledgement":"This work was funded by an ERC Starting Grant by the European Research Council (to S.C.) and the ISTFELLOW program (Co-fund Marie Curie Actions of the European Commission; to L.M.).\r\nWe thank Christopher D. Pull, Sophie A.O. Armitage, Hinrich Schulenburg, Line V. Ugelvig, Matthias Konrad, Matthias Fürst, Miriam Stock, Barbara Casillas-Perez and three anonymous referees for comments on the manuscript. ","_id":"1998","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2014","publisher":"Elsevier","department":[{"_id":"SyCr"}],"intvolume":" 35","publication_status":"published","status":"public","title":"Individual and social immunisation in insects","author":[{"first_name":"Leila","last_name":"El Masri","id":"349A6E66-F248-11E8-B48F-1D18A9856A87","full_name":"El Masri, Leila"},{"full_name":"Cremer, Sylvia","last_name":"Cremer","first_name":"Sylvia","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"None","volume":35,"date_updated":"2021-01-12T06:54:35Z","date_created":"2018-12-11T11:55:07Z","type":"journal_article","issue":"10","publist_id":"5081","abstract":[{"lang":"eng","text":"Immune systems are able to protect the body against secondary infection with the same parasite. In insect colonies, this protection is not restricted to the level of the individual organism, but also occurs at the societal level. Here, we review recent evidence for and insights into the mechanisms underlying individual and social immunisation in insects. We disentangle general immune-protective effects from specific immune memory (priming), and examine immunisation in the context of the lifetime of an individual and that of a colony, and of transgenerational immunisation that benefits offspring. When appropriate, we discuss parallels with disease defence strategies in human societies. We propose that recurrent parasitic threats have shaped the evolution of both the individual immune systems and colony-level social immunity in insects."}]},{"article_number":"0113124","file_date_updated":"2020-07-14T12:45:24Z","publist_id":"5074","ec_funded":1,"license":"https://creativecommons.org/licenses/by-sa/4.0/","year":"2014","publication_status":"published","publisher":"Public Library of Science","department":[{"_id":"PeJo"}],"author":[{"full_name":"Kim, Sooyun","id":"394AB1C8-F248-11E8-B48F-1D18A9856A87","last_name":"Kim","first_name":"Sooyun"}],"date_created":"2018-12-11T11:55:09Z","date_updated":"2021-01-12T06:54:39Z","volume":9,"month":"11","oa":1,"tmp":{"short":"CC BY-SA (4.0)","image":"/images/cc_by_sa.png","name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode"},"quality_controlled":"1","project":[{"call_identifier":"FP7","name":"Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons","_id":"25C0F108-B435-11E9-9278-68D0E5697425","grant_number":"268548"}],"doi":"10.1371/journal.pone.0113124","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"text":"Oriens-lacunosum moleculare (O-LM) interneurons in the CA1 region of the hippocampus play a key role in feedback inhibition and in the control of network activity. However, how these cells are efficiently activated in the network remains unclear. To address this question, I performed recordings from CA1 pyramidal neuron axons, the presynaptic fibers that provide feedback innervation of these interneurons. Two forms of axonal action potential (AP) modulation were identified. First, repetitive stimulation resulted in activity-dependent AP broadening. Broadening showed fast onset, with marked changes in AP shape following a single AP. Second, tonic depolarization in CA1 pyramidal neuron somata induced AP broadening in the axon, and depolarization-induced broadening summated with activity-dependent broadening. Outsideout patch recordings from CA1 pyramidal neuron axons revealed a high density of a-dendrotoxin (α-DTX)-sensitive, inactivating K+ channels, suggesting that K+ channel inactivation mechanistically contributes to AP broadening. To examine the functional consequences of axonal AP modulation for synaptic transmission, I performed paired recordings between synaptically connected CA1 pyramidal neurons and O-LM interneurons. CA1 pyramidal neuron-O-LM interneuron excitatory postsynaptic currents (EPSCs) showed facilitation during both repetitive stimulation and tonic depolarization of the presynaptic neuron. Both effects were mimicked and occluded by α-DTX, suggesting that they were mediated by K+ channel inactivation. Therefore, axonal AP modulation can greatly facilitate the activation of O-LM interneurons. In conclusion, modulation of AP shape in CA1 pyramidal neuron axons substantially enhances the efficacy of principal neuron-interneuron synapses, promoting the activation of O-LM interneurons in recurrent inhibitory microcircuits.","lang":"eng"}],"issue":"11","_id":"2002","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","ddc":["570"],"status":"public","title":"Action potential modulation in CA1 pyramidal neuron axons facilitates OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus","intvolume":" 9","pubrep_id":"434","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"IST-2016-434-v1+1_journal.pone.0113124.pdf","creator":"system","file_size":5179993,"content_type":"application/pdf","file_id":"5107","relation":"main_file","checksum":"85e4f4ea144f827272aaf376b2830564","date_updated":"2020-07-14T12:45:24Z","date_created":"2018-12-12T10:14:52Z"}],"scopus_import":1,"day":"19","has_accepted_license":"1","publication":"PLoS One","citation":{"chicago":"Kim, Sooyun. “Action Potential Modulation in CA1 Pyramidal Neuron Axons Facilitates OLM Interneuron Activation in Recurrent Inhibitory Microcircuits of Rat Hippocampus.” PLoS One. Public Library of Science, 2014. https://doi.org/10.1371/journal.pone.0113124.","short":"S. Kim, PLoS One 9 (2014).","mla":"Kim, Sooyun. “Action Potential Modulation in CA1 Pyramidal Neuron Axons Facilitates OLM Interneuron Activation in Recurrent Inhibitory Microcircuits of Rat Hippocampus.” PLoS One, vol. 9, no. 11, 0113124, Public Library of Science, 2014, doi:10.1371/journal.pone.0113124.","ieee":"S. Kim, “Action potential modulation in CA1 pyramidal neuron axons facilitates OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus,” PLoS One, vol. 9, no. 11. Public Library of Science, 2014.","apa":"Kim, S. (2014). Action potential modulation in CA1 pyramidal neuron axons facilitates OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0113124","ista":"Kim S. 2014. Action potential modulation in CA1 pyramidal neuron axons facilitates OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus. PLoS One. 9(11), 0113124.","ama":"Kim S. Action potential modulation in CA1 pyramidal neuron axons facilitates OLM interneuron activation in recurrent inhibitory microcircuits of rat hippocampus. PLoS One. 2014;9(11). doi:10.1371/journal.pone.0113124"},"date_published":"2014-11-19T00:00:00Z"},{"date_updated":"2021-01-12T06:54:39Z","date_created":"2018-12-11T11:55:09Z","oa_version":"None","volume":83,"author":[{"full_name":"O'Neill, Joseph","last_name":"O'Neill","first_name":"Joseph","id":"426376DC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jozsef L","last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5193-4036","full_name":"Csicsvari, Jozsef L"}],"publication_status":"published","title":"Learning by example in the hippocampus","status":"public","intvolume":" 83","department":[{"_id":"JoCs"}],"publisher":"Elsevier","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"2003","year":"2014","abstract":[{"lang":"eng","text":"Learning can be facilitated by previous knowledge when it is organized into relational representations forming schemas. In this issue of Neuron, McKenzie et al. (2014) demonstrate that the hippocampus rapidly forms interrelated, hierarchical memory representations to support schema-based learning."}],"issue":"1","publist_id":"5073","type":"journal_article","language":[{"iso":"eng"}],"date_published":"2014-07-02T00:00:00Z","doi":"10.1016/j.neuron.2014.06.013","quality_controlled":"1","page":"8 - 10","publication":"Neuron","citation":{"chicago":"O’Neill, Joseph, and Jozsef L Csicsvari. “Learning by Example in the Hippocampus.” Neuron. Elsevier, 2014. https://doi.org/10.1016/j.neuron.2014.06.013.","short":"J. O’Neill, J.L. Csicsvari, Neuron 83 (2014) 8–10.","mla":"O’Neill, Joseph, and Jozsef L. Csicsvari. “Learning by Example in the Hippocampus.” Neuron, vol. 83, no. 1, Elsevier, 2014, pp. 8–10, doi:10.1016/j.neuron.2014.06.013.","apa":"O’Neill, J., & Csicsvari, J. L. (2014). Learning by example in the hippocampus. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2014.06.013","ieee":"J. O’Neill and J. L. Csicsvari, “Learning by example in the hippocampus,” Neuron, vol. 83, no. 1. Elsevier, pp. 8–10, 2014.","ista":"O’Neill J, Csicsvari JL. 2014. Learning by example in the hippocampus. Neuron. 83(1), 8–10.","ama":"O’Neill J, Csicsvari JL. Learning by example in the hippocampus. Neuron. 2014;83(1):8-10. doi:10.1016/j.neuron.2014.06.013"},"month":"07","day":"02","scopus_import":1},{"publication":"Journal of Biomedical Informatics","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1401.5193"}],"oa":1,"citation":{"chicago":"Yu, Fei, Stephen Fienberg, Alexandra Slaković, and Caroline Uhler. “Scalable Privacy-Preserving Data Sharing Methodology for Genome-Wide Association Studies.” Journal of Biomedical Informatics. Elsevier, 2014. https://doi.org/10.1016/j.jbi.2014.01.008.","mla":"Yu, Fei, et al. “Scalable Privacy-Preserving Data Sharing Methodology for Genome-Wide Association Studies.” Journal of Biomedical Informatics, vol. 50, Elsevier, 2014, pp. 133–41, doi:10.1016/j.jbi.2014.01.008.","short":"F. Yu, S. Fienberg, A. Slaković, C. Uhler, Journal of Biomedical Informatics 50 (2014) 133–141.","ista":"Yu F, Fienberg S, Slaković A, Uhler C. 2014. Scalable privacy-preserving data sharing methodology for genome-wide association studies. Journal of Biomedical Informatics. 50, 133–141.","ieee":"F. Yu, S. Fienberg, A. Slaković, and C. Uhler, “Scalable privacy-preserving data sharing methodology for genome-wide association studies,” Journal of Biomedical Informatics, vol. 50. Elsevier, pp. 133–141, 2014.","apa":"Yu, F., Fienberg, S., Slaković, A., & Uhler, C. (2014). Scalable privacy-preserving data sharing methodology for genome-wide association studies. Journal of Biomedical Informatics. Elsevier. https://doi.org/10.1016/j.jbi.2014.01.008","ama":"Yu F, Fienberg S, Slaković A, Uhler C. Scalable privacy-preserving data sharing methodology for genome-wide association studies. Journal of Biomedical Informatics. 2014;50:133-141. doi:10.1016/j.jbi.2014.01.008"},"quality_controlled":"1","page":"133 - 141","doi":"10.1016/j.jbi.2014.01.008","date_published":"2014-08-01T00:00:00Z","language":[{"iso":"eng"}],"scopus_import":1,"month":"08","day":"01","year":"2014","_id":"2011","acknowledgement":"This research was partially supported by NSF Awards EMSW21-RTG and BCS-0941518 to the Department of Statistics at Carnegie Mellon University, and by NSF Grant BCS-0941553 to the Department of Statistics at Pennsylvania State University. This work was also supported in part by the National Center for Research Resources, Grant UL1 RR033184, and is now at the National Center for Advancing Translational Sciences, Grant UL1 TR000127 to Pennsylvania State University. The content is solely the responsibility of the authors and does not necessarily represent the official views of the NSF and NIH.","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","status":"public","title":"Scalable privacy-preserving data sharing methodology for genome-wide association studies","department":[{"_id":"CaUh"}],"publisher":"Elsevier","intvolume":" 50","author":[{"full_name":"Yu, Fei","last_name":"Yu","first_name":"Fei"},{"first_name":"Stephen","last_name":"Fienberg","full_name":"Fienberg, Stephen"},{"last_name":"Slaković","first_name":"Alexandra","full_name":"Slaković, Alexandra"},{"full_name":"Uhler, Caroline","orcid":"0000-0002-7008-0216","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","last_name":"Uhler","first_name":"Caroline"}],"date_created":"2018-12-11T11:55:12Z","date_updated":"2021-01-12T06:54:42Z","volume":50,"oa_version":"Submitted Version","type":"journal_article","abstract":[{"lang":"eng","text":"The protection of privacy of individual-level information in genome-wide association study (GWAS) databases has been a major concern of researchers following the publication of “an attack” on GWAS data by Homer et al. (2008). Traditional statistical methods for confidentiality and privacy protection of statistical databases do not scale well to deal with GWAS data, especially in terms of guarantees regarding protection from linkage to external information. The more recent concept of differential privacy, introduced by the cryptographic community, is an approach that provides a rigorous definition of privacy with meaningful privacy guarantees in the presence of arbitrary external information, although the guarantees may come at a serious price in terms of data utility. Building on such notions, Uhler et al. (2013) proposed new methods to release aggregate GWAS data without compromising an individual’s privacy. We extend the methods developed in Uhler et al. (2013) for releasing differentially-private χ2χ2-statistics by allowing for arbitrary number of cases and controls, and for releasing differentially-private allelic test statistics. We also provide a new interpretation by assuming the controls’ data are known, which is a realistic assumption because some GWAS use publicly available data as controls. We assess the performance of the proposed methods through a risk-utility analysis on a real data set consisting of DNA samples collected by the Wellcome Trust Case Control Consortium and compare the methods with the differentially-private release mechanism proposed by Johnson and Shmatikov (2013)."}],"publist_id":"5065"},{"publication":"Nature Neuroscience","citation":{"chicago":"Dupret, David, and Jozsef L Csicsvari. “Turning Heads to Remember Places.” Nature Neuroscience. Nature Publishing Group, 2014. https://doi.org/10.1038/nn.3700.","mla":"Dupret, David, and Jozsef L. Csicsvari. “Turning Heads to Remember Places.” Nature Neuroscience, vol. 17, no. 5, Nature Publishing Group, 2014, pp. 643–44, doi:10.1038/nn.3700.","short":"D. Dupret, J.L. Csicsvari, Nature Neuroscience 17 (2014) 643–644.","ista":"Dupret D, Csicsvari JL. 2014. Turning heads to remember places. Nature Neuroscience. 17(5), 643–644.","ieee":"D. Dupret and J. L. Csicsvari, “Turning heads to remember places,” Nature Neuroscience, vol. 17, no. 5. Nature Publishing Group, pp. 643–644, 2014.","apa":"Dupret, D., & Csicsvari, J. L. (2014). Turning heads to remember places. Nature Neuroscience. Nature Publishing Group. https://doi.org/10.1038/nn.3700","ama":"Dupret D, Csicsvari JL. Turning heads to remember places. Nature Neuroscience. 2014;17(5):643-644. doi:10.1038/nn.3700"},"quality_controlled":"1","page":"643 - 644","doi":"10.1038/nn.3700","date_published":"2014-04-25T00:00:00Z","language":[{"iso":"eng"}],"scopus_import":1,"month":"04","day":"25","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"2005","year":"2014","title":"Turning heads to remember places","publication_status":"published","status":"public","intvolume":" 17","publisher":"Nature Publishing Group","department":[{"_id":"JoCs"}],"author":[{"full_name":"Dupret, David","first_name":"David","last_name":"Dupret"},{"last_name":"Csicsvari","first_name":"Jozsef L","orcid":"0000-0002-5193-4036","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","full_name":"Csicsvari, Jozsef L"}],"date_updated":"2021-01-12T06:54:40Z","date_created":"2018-12-11T11:55:09Z","oa_version":"None","volume":17,"type":"journal_article","abstract":[{"text":"By eliciting a natural exploratory behavior in rats, head scanning, a study reveals that hippocampal place cells form new, stable firing fields in those locations where the behavior has just occurred.","lang":"eng"}],"issue":"5","publist_id":"5071"},{"oa":1,"citation":{"apa":"Klimova, A., & Rudas, T. (2014). gIPFrm: Generalized iterative proportional fitting for relational models. The Comprehensive R Archive Network.","ieee":"A. Klimova and T. Rudas, “gIPFrm: Generalized iterative proportional fitting for relational models.” The Comprehensive R Archive Network, 2014.","ista":"Klimova A, Rudas T. 2014. gIPFrm: Generalized iterative proportional fitting for relational models, The Comprehensive R Archive Network.","ama":"Klimova A, Rudas T. gIPFrm: Generalized iterative proportional fitting for relational models. 2014.","chicago":"Klimova, Anna, and Tamás Rudas. “GIPFrm: Generalized Iterative Proportional Fitting for Relational Models.” The Comprehensive R Archive Network, 2014.","short":"A. Klimova, T. Rudas, (2014).","mla":"Klimova, Anna, and Tamás Rudas. GIPFrm: Generalized Iterative Proportional Fitting for Relational Models. The Comprehensive R Archive Network, 2014."},"main_file_link":[{"url":"https://CRAN.R-project.org/package=gIPFrm ","open_access":"1"}],"date_published":"2014-03-20T00:00:00Z","day":"20","month":"03","article_processing_charge":"No","title":"gIPFrm: Generalized iterative proportional fitting for relational models","status":"public","publisher":"The Comprehensive R Archive Network","department":[{"_id":"CaUh"}],"year":"2014","_id":"2007","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2018-12-11T11:55:10Z","date_updated":"2022-08-26T08:12:12Z","oa_version":"Published Version","author":[{"full_name":"Klimova, Anna","id":"31934120-F248-11E8-B48F-1D18A9856A87","last_name":"Klimova","first_name":"Anna"},{"last_name":"Rudas","first_name":"Tamás","full_name":"Rudas, Tamás"}],"type":"research_data_reference","abstract":[{"lang":"eng","text":"Maximum likelihood estimation under relational models, with or without the overall effect. For more information see the reference manual"}],"publist_id":"5069"},{"file_date_updated":"2022-05-24T08:41:41Z","publist_id":"5054","publication_status":"published","publisher":"Society for Neuroscience","department":[{"_id":"RySh"}],"acknowledgement":"This work was supported by “Funding Program for World-Leading Innovative R&D on Science and Technology (FIRST Program)” initiated by the Council for Science and Technology Policy.","year":"2014","pmid":1,"date_created":"2018-12-11T11:55:14Z","date_updated":"2022-05-24T08:54:54Z","volume":34,"author":[{"full_name":"Matsukawa, Hiroshi","last_name":"Matsukawa","first_name":"Hiroshi"},{"last_name":"Akiyoshi Nishimura","first_name":"Sachiko","full_name":"Akiyoshi Nishimura, Sachiko"},{"full_name":"Zhang, Qi","first_name":"Qi","last_name":"Zhang"},{"full_name":"Luján, Rafael","last_name":"Luján","first_name":"Rafael"},{"first_name":"Kazuhiko","last_name":"Yamaguchi","full_name":"Yamaguchi, Kazuhiko"},{"last_name":"Goto","first_name":"Hiromichi","full_name":"Goto, Hiromichi"},{"full_name":"Yaguchi, Kunio","last_name":"Yaguchi","first_name":"Kunio"},{"last_name":"Hashikawa","first_name":"Tsutomu","full_name":"Hashikawa, Tsutomu"},{"last_name":"Sano","first_name":"Chie","full_name":"Sano, Chie"},{"full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444"},{"full_name":"Nakashiba, Toshiaki","first_name":"Toshiaki","last_name":"Nakashiba"},{"first_name":"Shigeyoshi","last_name":"Itohara","full_name":"Itohara, Shigeyoshi"}],"month":"11","publication_identifier":{"eissn":["1529-2401"],"issn":["0270-6474"]},"quality_controlled":"1","oa":1,"external_id":{"pmid":["25411505"]},"language":[{"iso":"eng"}],"doi":"10.1523/JNEUROSCI.1141-14.2014","type":"journal_article","abstract":[{"lang":"eng","text":"Synaptic cell adhesion molecules are increasingly gaining attention for conferring specific properties to individual synapses. Netrin-G1 and netrin-G2 are trans-synaptic adhesion molecules that distribute on distinct axons, and their presence restricts the expression of their cognate receptors, NGL1 and NGL2, respectively, to specific subdendritic segments of target neurons. However, the neural circuits and functional roles of netrin-G isoform complexes remain unclear. Here, we use netrin-G-KO and NGL-KO mice to reveal that netrin-G1/NGL1 and netrin-G2/NGL2 interactions specify excitatory synapses in independent hippocampal pathways. In the hippocampal CA1 area, netrin-G1/NGL1 and netrin-G2/NGL2 were expressed in the temporoammonic and Schaffer collateral pathways, respectively. The lack of presynaptic netrin-Gs led to the dispersion of NGLs from postsynaptic membranes. In accord, netrin-G mutant synapses displayed opposing phenotypes in long-term and short-term plasticity through discrete biochemical pathways. The plasticity phenotypes in netrin-G-KOs were phenocopied in NGL-KOs, with a corresponding loss of netrin-Gs from presynaptic membranes. Our findings show that netrin-G/NGL interactions differentially control synaptic plasticity in distinct circuits via retrograde signaling mechanisms and explain how synaptic inputs are diversified to control neuronal activity."}],"issue":"47","ddc":["570"],"status":"public","title":"Netrin-G/NGL complexes encode functional synaptic diversification","intvolume":" 34","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"2018","file":[{"relation":"main_file","file_id":"11410","date_created":"2022-05-24T08:41:41Z","date_updated":"2022-05-24T08:41:41Z","checksum":"6913e9bc26e9fc1c0441a739a4199229","success":1,"file_name":"2014_JournNeuroscience_Matsukawa.pdf","access_level":"open_access","file_size":3963728,"content_type":"application/pdf","creator":"dernst"}],"oa_version":"Published Version","scopus_import":"1","day":"19","article_processing_charge":"No","has_accepted_license":"1","article_type":"original","page":"15779 - 15792","publication":"Journal of Neuroscience","citation":{"short":"H. Matsukawa, S. Akiyoshi Nishimura, Q. Zhang, R. Luján, K. Yamaguchi, H. Goto, K. Yaguchi, T. Hashikawa, C. Sano, R. Shigemoto, T. Nakashiba, S. Itohara, Journal of Neuroscience 34 (2014) 15779–15792.","mla":"Matsukawa, Hiroshi, et al. “Netrin-G/NGL Complexes Encode Functional Synaptic Diversification.” Journal of Neuroscience, vol. 34, no. 47, Society for Neuroscience, 2014, pp. 15779–92, doi:10.1523/JNEUROSCI.1141-14.2014.","chicago":"Matsukawa, Hiroshi, Sachiko Akiyoshi Nishimura, Qi Zhang, Rafael Luján, Kazuhiko Yamaguchi, Hiromichi Goto, Kunio Yaguchi, et al. “Netrin-G/NGL Complexes Encode Functional Synaptic Diversification.” Journal of Neuroscience. Society for Neuroscience, 2014. https://doi.org/10.1523/JNEUROSCI.1141-14.2014.","ama":"Matsukawa H, Akiyoshi Nishimura S, Zhang Q, et al. Netrin-G/NGL complexes encode functional synaptic diversification. Journal of Neuroscience. 2014;34(47):15779-15792. doi:10.1523/JNEUROSCI.1141-14.2014","ieee":"H. Matsukawa et al., “Netrin-G/NGL complexes encode functional synaptic diversification,” Journal of Neuroscience, vol. 34, no. 47. Society for Neuroscience, pp. 15779–15792, 2014.","apa":"Matsukawa, H., Akiyoshi Nishimura, S., Zhang, Q., Luján, R., Yamaguchi, K., Goto, H., … Itohara, S. (2014). Netrin-G/NGL complexes encode functional synaptic diversification. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.1141-14.2014","ista":"Matsukawa H, Akiyoshi Nishimura S, Zhang Q, Luján R, Yamaguchi K, Goto H, Yaguchi K, Hashikawa T, Sano C, Shigemoto R, Nakashiba T, Itohara S. 2014. Netrin-G/NGL complexes encode functional synaptic diversification. Journal of Neuroscience. 34(47), 15779–15792."},"date_published":"2014-11-19T00:00:00Z"},{"date_published":"2014-12-17T00:00:00Z","page":"441 - 464","publication":"Mathematical Physics, Analysis and Geometry","citation":{"mla":"Erdös, László, and Dominik J. Schröder. “Phase Transition in the Density of States of Quantum Spin Glasses.” Mathematical Physics, Analysis and Geometry, vol. 17, no. 3–4, Springer, 2014, pp. 441–64, doi:10.1007/s11040-014-9164-3.","short":"L. Erdös, D.J. Schröder, Mathematical Physics, Analysis and Geometry 17 (2014) 441–464.","chicago":"Erdös, László, and Dominik J Schröder. “Phase Transition in the Density of States of Quantum Spin Glasses.” Mathematical Physics, Analysis and Geometry. Springer, 2014. https://doi.org/10.1007/s11040-014-9164-3.","ama":"Erdös L, Schröder DJ. Phase transition in the density of states of quantum spin glasses. Mathematical Physics, Analysis and Geometry. 2014;17(3-4):441-464. doi:10.1007/s11040-014-9164-3","ista":"Erdös L, Schröder DJ. 2014. Phase transition in the density of states of quantum spin glasses. Mathematical Physics, Analysis and Geometry. 17(3–4), 441–464.","apa":"Erdös, L., & Schröder, D. J. (2014). Phase transition in the density of states of quantum spin glasses. Mathematical Physics, Analysis and Geometry. Springer. https://doi.org/10.1007/s11040-014-9164-3","ieee":"L. Erdös and D. J. Schröder, “Phase transition in the density of states of quantum spin glasses,” Mathematical Physics, Analysis and Geometry, vol. 17, no. 3–4. Springer, pp. 441–464, 2014."},"day":"17","scopus_import":1,"oa_version":"Submitted Version","title":"Phase transition in the density of states of quantum spin glasses","status":"public","intvolume":" 17","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"2019","abstract":[{"lang":"eng","text":"We prove that the empirical density of states of quantum spin glasses on arbitrary graphs converges to a normal distribution as long as the maximal degree is negligible compared with the total number of edges. This extends the recent results of Keating et al. (2014) that were proved for graphs with bounded chromatic number and with symmetric coupling distribution. Furthermore, we generalise the result to arbitrary hypergraphs. We test the optimality of our condition on the maximal degree for p-uniform hypergraphs that correspond to p-spin glass Hamiltonians acting on n distinguishable spin- 1/2 particles. At the critical threshold p = n1/2 we find a sharp classical-quantum phase transition between the normal distribution and the Wigner semicircle law. The former is characteristic to classical systems with commuting variables, while the latter is a signature of noncommutative random matrix theory."}],"issue":"3-4","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1007/s11040-014-9164-3","quality_controlled":"1","project":[{"call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","grant_number":"338804"}],"oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1407.1552"}],"month":"12","date_updated":"2021-01-12T06:54:45Z","date_created":"2018-12-11T11:55:15Z","volume":17,"author":[{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603","first_name":"László","last_name":"Erdös","full_name":"Erdös, László"},{"first_name":"Dominik J","last_name":"Schröder","full_name":"Schröder, Dominik J"}],"publication_status":"published","department":[{"_id":"LaEr"}],"publisher":"Springer","year":"2014","publist_id":"5053","ec_funded":1},{"scopus_import":1,"day":"10","publication":"Foundations of Computational Mathematics","citation":{"chicago":"Lin, Shaowei, Caroline Uhler, Bernd Sturmfels, and Peter Bühlmann. “Hypersurfaces and Their Singularities in Partial Correlation Testing.” Foundations of Computational Mathematics. Springer, 2014. https://doi.org/10.1007/s10208-014-9205-0.","mla":"Lin, Shaowei, et al. “Hypersurfaces and Their Singularities in Partial Correlation Testing.” Foundations of Computational Mathematics, vol. 14, no. 5, Springer, 2014, pp. 1079–116, doi:10.1007/s10208-014-9205-0.","short":"S. Lin, C. Uhler, B. Sturmfels, P. Bühlmann, Foundations of Computational Mathematics 14 (2014) 1079–1116.","ista":"Lin S, Uhler C, Sturmfels B, Bühlmann P. 2014. Hypersurfaces and their singularities in partial correlation testing. Foundations of Computational Mathematics. 14(5), 1079–1116.","apa":"Lin, S., Uhler, C., Sturmfels, B., & Bühlmann, P. (2014). Hypersurfaces and their singularities in partial correlation testing. Foundations of Computational Mathematics. Springer. https://doi.org/10.1007/s10208-014-9205-0","ieee":"S. Lin, C. Uhler, B. Sturmfels, and P. Bühlmann, “Hypersurfaces and their singularities in partial correlation testing,” Foundations of Computational Mathematics, vol. 14, no. 5. Springer, pp. 1079–1116, 2014.","ama":"Lin S, Uhler C, Sturmfels B, Bühlmann P. Hypersurfaces and their singularities in partial correlation testing. Foundations of Computational Mathematics. 2014;14(5):1079-1116. doi:10.1007/s10208-014-9205-0"},"page":"1079 - 1116","date_published":"2014-10-10T00:00:00Z","type":"journal_article","abstract":[{"text":"An asymptotic theory is developed for computing volumes of regions in the parameter space of a directed Gaussian graphical model that are obtained by bounding partial correlations. We study these volumes using the method of real log canonical thresholds from algebraic geometry. Our analysis involves the computation of the singular loci of correlation hypersurfaces. Statistical applications include the strong-faithfulness assumption for the PC algorithm and the quantification of confounder bias in causal inference. A detailed analysis is presented for trees, bow ties, tripartite graphs, and complete graphs.\r\n","lang":"eng"}],"issue":"5","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"2013","status":"public","title":"Hypersurfaces and their singularities in partial correlation testing","intvolume":" 14","oa_version":"Submitted Version","month":"10","main_file_link":[{"url":"http://arxiv.org/abs/1209.0285","open_access":"1"}],"oa":1,"quality_controlled":"1","doi":"10.1007/s10208-014-9205-0","language":[{"iso":"eng"}],"publist_id":"5063","acknowledgement":"This work was supported in part by the US National Science Foundation (DMS-0968882) and the Defense Advanced Research Projects Agency (DARPA) Deep Learning program (FA8650-10-C-7020).","year":"2014","publication_status":"published","publisher":"Springer","department":[{"_id":"CaUh"}],"author":[{"full_name":"Lin, Shaowei","first_name":"Shaowei","last_name":"Lin"},{"full_name":"Uhler, Caroline","first_name":"Caroline","last_name":"Uhler","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7008-0216"},{"full_name":"Sturmfels, Bernd","last_name":"Sturmfels","first_name":"Bernd"},{"first_name":"Peter","last_name":"Bühlmann","full_name":"Bühlmann, Peter"}],"date_updated":"2021-01-12T06:54:43Z","date_created":"2018-12-11T11:55:12Z","volume":14},{"abstract":[{"lang":"eng","text":" Gaussian graphical models have received considerable attention during the past four decades from the statistical and machine learning communities. In Bayesian treatments of this model, the G-Wishart distribution serves as the conjugate prior for inverse covariance matrices satisfying graphical constraints. While it is straightforward to posit the unnormalized densities, the normalizing constants of these distributions have been known only for graphs that are chordal, or decomposable. Up until now, it was unknown whether the normalizing constant for a general graph could be represented explicitly, and a considerable body of computational literature emerged that attempted to avoid this apparent intractability. We close this question by providing an explicit representation of the G-Wishart normalizing constant for general graphs."}],"publist_id":"5058","extern":1,"type":"preprint","author":[{"id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7008-0216","first_name":"Caroline","last_name":"Uhler","full_name":"Caroline Uhler"},{"first_name":"Alex","last_name":"Lenkoski","full_name":"Lenkoski, Alex"},{"full_name":"Richards, Donald","first_name":"Donald","last_name":"Richards"}],"date_updated":"2021-01-12T06:54:44Z","date_created":"2018-12-11T11:55:14Z","acknowledgement":"A.L.'s research was supported by Statistics for Innovation sfi2 in Oslo.\nD.R.'s research was partially supported by the U.S. National Science Foun-dation grant DMS-1309808; and by a Romberg Guest Professorship at the Heidelberg University Graduate School for Mathematical and Computational Methods in the Sciences, funded by German Universities Excellence Initiative grant GSC 220/2.","_id":"2017","year":"2014","publication_status":"published","status":"public","title":" Exact formulas for the normalizing constants of Wishart distributions for graphical models","publisher":"ArXiv","month":"06","day":"18","date_published":"2014-06-18T00:00:00Z","publication":"ArXiv","oa":1,"main_file_link":[{"url":"http://arxiv.org/abs/1406.4901","open_access":"1"}],"citation":{"chicago":"Uhler, Caroline, Alex Lenkoski, and Donald Richards. “ Exact Formulas for the Normalizing Constants of Wishart Distributions for Graphical Models.” ArXiv. ArXiv, 2014.","mla":"Uhler, Caroline, et al. “ Exact Formulas for the Normalizing Constants of Wishart Distributions for Graphical Models.” ArXiv, ArXiv, 2014.","short":"C. Uhler, A. Lenkoski, D. Richards, ArXiv (2014).","ista":"Uhler C, Lenkoski A, Richards D. 2014. Exact formulas for the normalizing constants of Wishart distributions for graphical models. ArXiv, .","apa":"Uhler, C., Lenkoski, A., & Richards, D. (2014). Exact formulas for the normalizing constants of Wishart distributions for graphical models. ArXiv. ArXiv.","ieee":"C. Uhler, A. Lenkoski, and D. Richards, “ Exact formulas for the normalizing constants of Wishart distributions for graphical models,” ArXiv. ArXiv, 2014.","ama":"Uhler C, Lenkoski A, Richards D. Exact formulas for the normalizing constants of Wishart distributions for graphical models. ArXiv. 2014."},"quality_controlled":0},{"ec_funded":1,"publist_id":"5050","file_date_updated":"2020-07-14T12:45:25Z","year":"2014","department":[{"_id":"SiHi"},{"_id":"Bio"}],"publisher":"Cell Press","publication_status":"published","author":[{"first_name":"Peng","last_name":"Gao","full_name":"Gao, Peng"},{"id":"2C67902A-F248-11E8-B48F-1D18A9856A87","last_name":"Postiglione","first_name":"Maria P","full_name":"Postiglione, Maria P"},{"first_name":"Teresa","last_name":"Krieger","full_name":"Krieger, Teresa"},{"full_name":"Hernandez, Luisirene","last_name":"Hernandez","first_name":"Luisirene"},{"first_name":"Chao","last_name":"Wang","full_name":"Wang, Chao"},{"last_name":"Han","first_name":"Zhi","full_name":"Han, Zhi"},{"last_name":"Streicher","first_name":"Carmen","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","full_name":"Streicher, Carmen"},{"id":"41DB591E-F248-11E8-B48F-1D18A9856A87","last_name":"Papusheva","first_name":"Ekaterina","full_name":"Papusheva, Ekaterina"},{"last_name":"Insolera","first_name":"Ryan","full_name":"Insolera, Ryan"},{"full_name":"Chugh, Kritika","first_name":"Kritika","last_name":"Chugh"},{"first_name":"Oren","last_name":"Kodish","full_name":"Kodish, Oren"},{"full_name":"Huang, Kun","last_name":"Huang","first_name":"Kun"},{"first_name":"Benjamin","last_name":"Simons","full_name":"Simons, Benjamin"},{"full_name":"Luo, Liqun","first_name":"Liqun","last_name":"Luo"},{"first_name":"Simon","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon"},{"first_name":"Song","last_name":"Shi","full_name":"Shi, Song"}],"volume":159,"date_updated":"2021-01-12T06:54:47Z","date_created":"2018-12-11T11:55:16Z","month":"11","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"project":[{"_id":"25D61E48-B435-11E9-9278-68D0E5697425","grant_number":"618444","name":"Molecular Mechanisms of Cerebral Cortex Development","call_identifier":"FP7"},{"name":"Quantitative Structure-Function Analysis of Cerebral Cortex Assembly at Clonal Level","grant_number":"RGP0053/2014","_id":"25D7962E-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","doi":"10.1016/j.cell.2014.10.027","language":[{"iso":"eng"}],"type":"journal_article","issue":"4","abstract":[{"lang":"eng","text":"Radial glial progenitors (RGPs) are responsible for producing nearly all neocortical neurons. To gain insight into the patterns of RGP division and neuron production, we quantitatively analyzed excitatory neuron genesis in the mouse neocortex using Mosaic Analysis with Double Markers, which provides single-cell resolution of progenitor division patterns and potential in vivo. We found that RGPs progress through a coherent program in which their proliferative potential diminishes in a predictable manner. Upon entry into the neurogenic phase, individual RGPs produce ∼8–9 neurons distributed in both deep and superficial layers, indicating a unitary output in neuronal production. Removal of OTX1, a transcription factor transiently expressed in RGPs, results in both deep- and superficial-layer neuron loss and a reduction in neuronal unit size. Moreover, ∼1/6 of neurogenic RGPs proceed to produce glia. These results suggest that progenitor behavior and histogenesis in the mammalian neocortex conform to a remarkably orderly and deterministic program."}],"_id":"2022","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","intvolume":" 159","ddc":["570"],"status":"public","title":"Deterministic progenitor behavior and unitary production of neurons in the neocortex","pubrep_id":"423","file":[{"checksum":"6c5de8329bb2ffa71cba9fda750f14ce","date_created":"2018-12-12T10:08:47Z","date_updated":"2020-07-14T12:45:25Z","file_id":"4709","relation":"main_file","creator":"system","content_type":"application/pdf","file_size":4435787,"access_level":"open_access","file_name":"IST-2016-423-v1+1_1-s2.0-S0092867414013154-main.pdf"}],"oa_version":"Published Version","scopus_import":1,"has_accepted_license":"1","day":"06","citation":{"ama":"Gao P, Postiglione MP, Krieger T, et al. Deterministic progenitor behavior and unitary production of neurons in the neocortex. Cell. 2014;159(4):775-788. doi:10.1016/j.cell.2014.10.027","ieee":"P. Gao et al., “Deterministic progenitor behavior and unitary production of neurons in the neocortex,” Cell, vol. 159, no. 4. Cell Press, pp. 775–788, 2014.","apa":"Gao, P., Postiglione, M. P., Krieger, T., Hernandez, L., Wang, C., Han, Z., … Shi, S. (2014). Deterministic progenitor behavior and unitary production of neurons in the neocortex. Cell. Cell Press. https://doi.org/10.1016/j.cell.2014.10.027","ista":"Gao P, Postiglione MP, Krieger T, Hernandez L, Wang C, Han Z, Streicher C, Papusheva E, Insolera R, Chugh K, Kodish O, Huang K, Simons B, Luo L, Hippenmeyer S, Shi S. 2014. Deterministic progenitor behavior and unitary production of neurons in the neocortex. Cell. 159(4), 775–788.","short":"P. Gao, M.P. Postiglione, T. Krieger, L. Hernandez, C. Wang, Z. Han, C. Streicher, E. Papusheva, R. Insolera, K. Chugh, O. Kodish, K. Huang, B. Simons, L. Luo, S. Hippenmeyer, S. Shi, Cell 159 (2014) 775–788.","mla":"Gao, Peng, et al. “Deterministic Progenitor Behavior and Unitary Production of Neurons in the Neocortex.” Cell, vol. 159, no. 4, Cell Press, 2014, pp. 775–88, doi:10.1016/j.cell.2014.10.027.","chicago":"Gao, Peng, Maria P Postiglione, Teresa Krieger, Luisirene Hernandez, Chao Wang, Zhi Han, Carmen Streicher, et al. “Deterministic Progenitor Behavior and Unitary Production of Neurons in the Neocortex.” Cell. Cell Press, 2014. https://doi.org/10.1016/j.cell.2014.10.027."},"publication":"Cell","page":"775 - 788","date_published":"2014-11-06T00:00:00Z"},{"doi":"10.1073/pnas.1408233111","date_published":"2014-06-17T00:00:00Z","language":[{"iso":"eng"}],"citation":{"mla":"Ali, Shah, et al. “Existing Cardiomyocytes Generate Cardiomyocytes at a Low Rate after Birth in Mice.” PNAS, vol. 111, no. 24, National Academy of Sciences, 2014, pp. 8850–55, doi:10.1073/pnas.1408233111.","short":"S. Ali, S. Hippenmeyer, L. Saadat, L. Luo, I. Weissman, R. Ardehali, PNAS 111 (2014) 8850–8855.","chicago":"Ali, Shah, Simon Hippenmeyer, Lily Saadat, Liqun Luo, Irving Weissman, and Reza Ardehali. “Existing Cardiomyocytes Generate Cardiomyocytes at a Low Rate after Birth in Mice.” PNAS. National Academy of Sciences, 2014. https://doi.org/10.1073/pnas.1408233111.","ama":"Ali S, Hippenmeyer S, Saadat L, Luo L, Weissman I, Ardehali R. Existing cardiomyocytes generate cardiomyocytes at a low rate after birth in mice. PNAS. 2014;111(24):8850-8855. doi:10.1073/pnas.1408233111","ista":"Ali S, Hippenmeyer S, Saadat L, Luo L, Weissman I, Ardehali R. 2014. Existing cardiomyocytes generate cardiomyocytes at a low rate after birth in mice. PNAS. 111(24), 8850–8855.","ieee":"S. Ali, S. Hippenmeyer, L. Saadat, L. Luo, I. Weissman, and R. Ardehali, “Existing cardiomyocytes generate cardiomyocytes at a low rate after birth in mice,” PNAS, vol. 111, no. 24. National Academy of Sciences, pp. 8850–8855, 2014.","apa":"Ali, S., Hippenmeyer, S., Saadat, L., Luo, L., Weissman, I., & Ardehali, R. (2014). Existing cardiomyocytes generate cardiomyocytes at a low rate after birth in mice. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1408233111"},"publication":"PNAS","page":"8850 - 8855","quality_controlled":"1","month":"06","day":"17","scopus_import":1,"author":[{"full_name":"Ali, Shah","first_name":"Shah","last_name":"Ali"},{"id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","first_name":"Simon","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"},{"full_name":"Saadat, Lily","first_name":"Lily","last_name":"Saadat"},{"full_name":"Luo, Liqun","last_name":"Luo","first_name":"Liqun"},{"first_name":"Irving","last_name":"Weissman","full_name":"Weissman, Irving"},{"first_name":"Reza","last_name":"Ardehali","full_name":"Ardehali, Reza"}],"volume":111,"oa_version":"None","date_updated":"2021-01-12T06:54:46Z","date_created":"2018-12-11T11:55:15Z","_id":"2020","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","year":"2014","department":[{"_id":"SiHi"}],"intvolume":" 111","publisher":"National Academy of Sciences","title":"Existing cardiomyocytes generate cardiomyocytes at a low rate after birth in mice","status":"public","publication_status":"published","issue":"24","publist_id":"5052","abstract":[{"lang":"eng","text":"The mammalian heart has long been considered a postmitotic organ, implying that the total number of cardiomyocytes is set at birth. Analysis of cell division in the mammalian heart is complicated by cardiomyocyte binucleation shortly after birth, which makes it challenging to interpret traditional assays of cell turnover [Laflamme MA, Murray CE (2011) Nature 473(7347):326–335; Bergmann O, et al. (2009) Science 324(5923):98–102]. An elegant multi-isotope imaging-mass spectrometry technique recently calculated the low, discrete rate of cardiomyocyte generation in mice [Senyo SE, et al. (2013) Nature 493(7432):433–436], yet our cellular-level understanding of postnatal cardiomyogenesis remains limited. Herein, we provide a new line of evidence for the differentiated α-myosin heavy chain-expressing cardiomyocyte as the cell of origin of postnatal cardiomyogenesis using the “mosaic analysis with double markers” mouse model. We show limited, life-long, symmetric division of cardiomyocytes as a rare event that is evident in utero but significantly diminishes after the first month of life in mice; daughter cardiomyocytes divide very seldom, which this study is the first to demonstrate, to our knowledge. Furthermore, ligation of the left anterior descending coronary artery, which causes a myocardial infarction in the mosaic analysis with double-marker mice, did not increase the rate of cardiomyocyte division above the basal level for up to 4 wk after the injury. The clonal analysis described here provides direct evidence of postnatal mammalian cardiomyogenesis."}],"type":"journal_article"},{"date_published":"2014-10-31T00:00:00Z","doi":"10.1126/science.1258996","language":[{"iso":"eng"}],"citation":{"chicago":"William, Joo, Simon Hippenmeyer, and Liqun Luo. “Dendrite Morphogenesis Depends on Relative Levels of NT-3/TrkC Signaling.” Science. American Association for the Advancement of Science, 2014. https://doi.org/10.1126/science.1258996.","mla":"William, Joo, et al. “Dendrite Morphogenesis Depends on Relative Levels of NT-3/TrkC Signaling.” Science, vol. 346, no. 6209, American Association for the Advancement of Science, 2014, pp. 626–29, doi:10.1126/science.1258996.","short":"J. William, S. Hippenmeyer, L. Luo, Science 346 (2014) 626–629.","ista":"William J, Hippenmeyer S, Luo L. 2014. Dendrite morphogenesis depends on relative levels of NT-3/TrkC signaling. Science. 346(6209), 626–629.","ieee":"J. William, S. Hippenmeyer, and L. Luo, “Dendrite morphogenesis depends on relative levels of NT-3/TrkC signaling,” Science, vol. 346, no. 6209. American Association for the Advancement of Science, pp. 626–629, 2014.","apa":"William, J., Hippenmeyer, S., & Luo, L. (2014). Dendrite morphogenesis depends on relative levels of NT-3/TrkC signaling. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.1258996","ama":"William J, Hippenmeyer S, Luo L. Dendrite morphogenesis depends on relative levels of NT-3/TrkC signaling. Science. 2014;346(6209):626-629. doi:10.1126/science.1258996"},"oa":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4631524/"}],"publication":"Science","page":"626 - 629","quality_controlled":"1","day":"31","month":"10","scopus_import":1,"author":[{"full_name":"William, Joo","first_name":"Joo","last_name":"William"},{"orcid":"0000-0003-2279-1061","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","first_name":"Simon","full_name":"Hippenmeyer, Simon"},{"full_name":"Luo, Liqun","last_name":"Luo","first_name":"Liqun"}],"oa_version":"Submitted Version","volume":346,"date_created":"2018-12-11T11:55:15Z","date_updated":"2021-01-12T06:54:47Z","_id":"2021","year":"2014","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","intvolume":" 346","publisher":"American Association for the Advancement of Science","department":[{"_id":"SiHi"}],"title":"Dendrite morphogenesis depends on relative levels of NT-3/TrkC signaling","publication_status":"published","status":"public","publist_id":"5051","issue":"6209","abstract":[{"text":"Neurotrophins regulate diverse aspects of neuronal development and plasticity, but their precise in vivo functions during neural circuit assembly in the central brain remain unclear. We show that the neurotrophin receptor tropomyosin-related kinase C (TrkC) is required for dendritic growth and branching of mouse cerebellar Purkinje cells. Sparse TrkC knockout reduced dendrite complexity, but global Purkinje cell knockout had no effect. Removal of the TrkC ligand neurotrophin-3 (NT-3) from cerebellar granule cells, which provide major afferent input to developing Purkinje cell dendrites, rescued the dendrite defects caused by sparse TrkC disruption in Purkinje cells. Our data demonstrate that NT-3 from presynaptic neurons (granule cells) is required for TrkC-dependent competitive dendrite morphogenesis in postsynaptic neurons (Purkinje cells)—a previously unknown mechanism of neural circuit development.","lang":"eng"}],"type":"journal_article"},{"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1402.2967"}],"oa":1,"project":[{"call_identifier":"FP7","name":"Quantitative Reactive Modeling","grant_number":"267989","_id":"25EE3708-B435-11E9-9278-68D0E5697425"},{"name":"LIGHT-REGULATED LIGAND TRAPS FOR SPATIO-TEMPORAL INHIBITION OF CELL SIGNALING","_id":"26241A12-B435-11E9-9278-68D0E5697425","grant_number":"24696"},{"grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"},{"name":"Moderne Concurrency Paradigms","call_identifier":"FWF","grant_number":"S11402-N23","_id":"25F5A88A-B435-11E9-9278-68D0E5697425"},{"_id":"25863FF4-B435-11E9-9278-68D0E5697425","grant_number":"S11407","name":"Game Theory","call_identifier":"FWF"},{"name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"quality_controlled":"1","doi":"10.1007/978-3-319-11936-6_8","conference":{"name":"ALENEX: Algorithm Engineering and Experiments","end_date":"2014-11-07","start_date":"2014-11-03","location":"Sydney, Australia"},"language":[{"iso":"eng"}],"month":"11","year":"2014","acknowledgement":"This research was funded in part by the European Research Council (ERC) under grant agreement 246967 (VERIWARE), by the EU FP7 project HIERATIC, by the Czech Science Foundation grant No P202/12/P612, by EPSRC project EP/K038575/1.","editor":[{"full_name":"Cassez, Franck","last_name":"Cassez","first_name":"Franck"},{"first_name":"Jean-François","last_name":"Raskin","full_name":"Raskin, Jean-François"}],"publisher":"Society of Industrial and Applied Mathematics","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"publication_status":"published","author":[{"full_name":"Brázdil, Tomáš","last_name":"Brázdil","first_name":"Tomáš"},{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X"},{"first_name":"Martin","last_name":"Chmelik","id":"3624234E-F248-11E8-B48F-1D18A9856A87","full_name":"Chmelik, Martin"},{"full_name":"Forejt, Vojtěch","first_name":"Vojtěch","last_name":"Forejt"},{"id":"44CEF464-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8122-2881","first_name":"Jan","last_name":"Kretinsky","full_name":"Kretinsky, Jan"},{"full_name":"Kwiatkowska, Marta","last_name":"Kwiatkowska","first_name":"Marta"},{"full_name":"Parker, David","first_name":"David","last_name":"Parker"},{"full_name":"Ujma, Mateusz","first_name":"Mateusz","last_name":"Ujma"}],"volume":8837,"date_updated":"2021-01-12T06:54:49Z","date_created":"2018-12-11T11:55:17Z","ec_funded":1,"publist_id":"5046","citation":{"ista":"Brázdil T, Chatterjee K, Chmelik M, Forejt V, Kretinsky J, Kwiatkowska M, Parker D, Ujma M. 2014. Verification of markov decision processes using learning algorithms. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). ALENEX: Algorithm Engineering and Experiments, LNCS, vol. 8837, 98–114.","ieee":"T. Brázdil et al., “Verification of markov decision processes using learning algorithms,” in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Sydney, Australia, 2014, vol. 8837, pp. 98–114.","apa":"Brázdil, T., Chatterjee, K., Chmelik, M., Forejt, V., Kretinsky, J., Kwiatkowska, M., … Ujma, M. (2014). Verification of markov decision processes using learning algorithms. In F. Cassez & J.-F. Raskin (Eds.), Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 8837, pp. 98–114). Sydney, Australia: Society of Industrial and Applied Mathematics. https://doi.org/10.1007/978-3-319-11936-6_8","ama":"Brázdil T, Chatterjee K, Chmelik M, et al. Verification of markov decision processes using learning algorithms. In: Cassez F, Raskin J-F, eds. Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol 8837. Society of Industrial and Applied Mathematics; 2014:98-114. doi:10.1007/978-3-319-11936-6_8","chicago":"Brázdil, Tomáš, Krishnendu Chatterjee, Martin Chmelik, Vojtěch Forejt, Jan Kretinsky, Marta Kwiatkowska, David Parker, and Mateusz Ujma. “Verification of Markov Decision Processes Using Learning Algorithms.” In Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), edited by Franck Cassez and Jean-François Raskin, 8837:98–114. Society of Industrial and Applied Mathematics, 2014. https://doi.org/10.1007/978-3-319-11936-6_8.","mla":"Brázdil, Tomáš, et al. “Verification of Markov Decision Processes Using Learning Algorithms.” Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), edited by Franck Cassez and Jean-François Raskin, vol. 8837, Society of Industrial and Applied Mathematics, 2014, pp. 98–114, doi:10.1007/978-3-319-11936-6_8.","short":"T. Brázdil, K. Chatterjee, M. Chmelik, V. Forejt, J. Kretinsky, M. Kwiatkowska, D. Parker, M. Ujma, in:, F. Cassez, J.-F. Raskin (Eds.), Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Society of Industrial and Applied Mathematics, 2014, pp. 98–114."},"publication":" Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)","page":"98 - 114","date_published":"2014-11-01T00:00:00Z","day":"01","_id":"2027","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","intvolume":" 8837","title":"Verification of markov decision processes using learning algorithms","status":"public","oa_version":"Submitted Version","type":"conference","alternative_title":["LNCS"],"abstract":[{"text":"We present a general framework for applying machine-learning algorithms to the verification of Markov decision processes (MDPs). The primary goal of these techniques is to improve performance by avoiding an exhaustive exploration of the state space. Our framework focuses on probabilistic reachability, which is a core property for verification, and is illustrated through two distinct instantiations. The first assumes that full knowledge of the MDP is available, and performs a heuristic-driven partial exploration of the model, yielding precise lower and upper bounds on the required probability. The second tackles the case where we may only sample the MDP, and yields probabilistic guarantees, again in terms of both the lower and upper bounds, which provides efficient stopping criteria for the approximation. The latter is the first extension of statistical model checking for unbounded properties inMDPs. In contrast with other related techniques, our approach is not restricted to time-bounded (finite-horizon) or discounted properties, nor does it assume any particular properties of the MDP. We also show how our methods extend to LTL objectives. We present experimental results showing the performance of our framework on several examples.","lang":"eng"}]},{"abstract":[{"lang":"eng","text":"A puzzling property of synaptic transmission, originally established at the neuromuscular junction, is that the time course of transmitter release is independent of the extracellular Ca2+ concentration ([Ca2+]o), whereas the rate of release is highly [Ca2+]o-dependent. Here, we examine the time course of release at inhibitory basket cell-Purkinje cell synapses and show that it is independent of [Ca2+]o. Modeling of Ca2+-dependent transmitter release suggests that the invariant time course of release critically depends on tight coupling between Ca2+ channels and release sensors. Experiments with exogenous Ca2+ chelators reveal that channel-sensor coupling at basket cell-Purkinje cell synapses is very tight, with a mean distance of 10–20 nm. Thus, tight channel-sensor coupling provides a mechanistic explanation for the apparent [Ca2+]o independence of the time course of release."}],"type":"journal_article","oa_version":"Submitted Version","file":[{"relation":"main_file","file_id":"5094","date_created":"2018-12-12T10:14:41Z","date_updated":"2020-07-14T12:45:26Z","checksum":"c240f915450d4ebe8f95043a2a8c7b1a","file_name":"IST-2016-421-v1+1_e04057.full.pdf","access_level":"open_access","file_size":2239563,"content_type":"application/pdf","creator":"system"}],"pubrep_id":"421","title":"Nanodomain coupling explains Ca^2+ independence of transmitter release time course at a fast central synapse","status":"public","ddc":["570"],"intvolume":" 3","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"2031","day":"09","has_accepted_license":"1","scopus_import":1,"date_published":"2014-12-09T00:00:00Z","publication":"eLife","citation":{"mla":"Arai, itaru, and Peter M. Jonas. “Nanodomain Coupling Explains Ca^2+ Independence of Transmitter Release Time Course at a Fast Central Synapse.” ELife, vol. 3, eLife Sciences Publications, 2014, doi:10.7554/eLife.04057.","short":"itaru Arai, P.M. Jonas, ELife 3 (2014).","chicago":"Arai, itaru, and Peter M Jonas. “Nanodomain Coupling Explains Ca^2+ Independence of Transmitter Release Time Course at a Fast Central Synapse.” ELife. eLife Sciences Publications, 2014. https://doi.org/10.7554/eLife.04057.","ama":"Arai itaru, Jonas PM. Nanodomain coupling explains Ca^2+ independence of transmitter release time course at a fast central synapse. eLife. 2014;3. doi:10.7554/eLife.04057","ista":"Arai itaru, Jonas PM. 2014. Nanodomain coupling explains Ca^2+ independence of transmitter release time course at a fast central synapse. eLife. 3.","apa":"Arai, itaru, & Jonas, P. M. (2014). Nanodomain coupling explains Ca^2+ independence of transmitter release time course at a fast central synapse. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.04057","ieee":"itaru Arai and P. M. Jonas, “Nanodomain coupling explains Ca^2+ independence of transmitter release time course at a fast central synapse,” eLife, vol. 3. eLife Sciences Publications, 2014."},"file_date_updated":"2020-07-14T12:45:26Z","publist_id":"5041","ec_funded":1,"date_updated":"2021-01-12T06:54:51Z","date_created":"2018-12-11T11:55:19Z","volume":3,"author":[{"id":"32A73F6C-F248-11E8-B48F-1D18A9856A87","last_name":"Arai","first_name":"Itaru","full_name":"Arai, Itaru"},{"full_name":"Jonas, Peter M","first_name":"Peter M","last_name":"Jonas","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804"}],"publication_status":"published","department":[{"_id":"PeJo"}],"publisher":"eLife Sciences Publications","year":"2014","month":"12","language":[{"iso":"eng"}],"doi":"10.7554/eLife.04057","quality_controlled":"1","project":[{"grant_number":"P24909-B24","_id":"25C26B1E-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Mechanisms of transmitter release at GABAergic synapses"},{"grant_number":"268548","_id":"25C0F108-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons"}],"oa":1},{"publication":"Nature Communications","citation":{"ista":"Toshima J, Nishinoaki S, Sato Y, Yamamoto W, Furukawa D, Siekhaus DE, Sawaguchi A, Toshima J. 2014. Bifurcation of the endocytic pathway into Rab5-dependent and -independent transport to the vacuole. Nature Communications. 5, 3498.","apa":"Toshima, J., Nishinoaki, S., Sato, Y., Yamamoto, W., Furukawa, D., Siekhaus, D. E., … Toshima, J. (2014). Bifurcation of the endocytic pathway into Rab5-dependent and -independent transport to the vacuole. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms4498","ieee":"J. Toshima et al., “Bifurcation of the endocytic pathway into Rab5-dependent and -independent transport to the vacuole,” Nature Communications, vol. 5. Nature Publishing Group, 2014.","ama":"Toshima J, Nishinoaki S, Sato Y, et al. Bifurcation of the endocytic pathway into Rab5-dependent and -independent transport to the vacuole. Nature Communications. 2014;5. doi:10.1038/ncomms4498","chicago":"Toshima, Junko, Show Nishinoaki, Yoshifumi Sato, Wataru Yamamoto, Daiki Furukawa, Daria E Siekhaus, Akira Sawaguchi, and Jiro Toshima. “Bifurcation of the Endocytic Pathway into Rab5-Dependent and -Independent Transport to the Vacuole.” Nature Communications. Nature Publishing Group, 2014. https://doi.org/10.1038/ncomms4498.","mla":"Toshima, Junko, et al. “Bifurcation of the Endocytic Pathway into Rab5-Dependent and -Independent Transport to the Vacuole.” Nature Communications, vol. 5, 3498, Nature Publishing Group, 2014, doi:10.1038/ncomms4498.","short":"J. Toshima, S. Nishinoaki, Y. Sato, W. Yamamoto, D. Furukawa, D.E. Siekhaus, A. Sawaguchi, J. Toshima, Nature Communications 5 (2014)."},"date_published":"2014-03-25T00:00:00Z","scopus_import":1,"day":"25","has_accepted_license":"1","title":"Bifurcation of the endocytic pathway into Rab5-dependent and -independent transport to the vacuole","ddc":["570"],"status":"public","intvolume":" 5","_id":"2024","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","file":[{"creator":"system","content_type":"application/pdf","file_size":4803515,"access_level":"open_access","file_name":"IST-2016-616-v1+1_DaSi_Bifurcation_Postprint.pdf","checksum":"614fb6579c86d1f95bdd95eeb9ab01b0","date_updated":"2020-07-14T12:45:25Z","date_created":"2018-12-12T10:11:11Z","file_id":"4864","relation":"main_file"}],"pubrep_id":"616","type":"journal_article","abstract":[{"lang":"eng","text":"The yeast Rab5 homologue, Vps21p, is known to be involved both in the vacuolar protein sorting (VPS) pathway from the trans-Golgi network to the vacuole, and in the endocytic pathway from the plasma membrane to the vacuole. However, the intracellular location at which these two pathways converge remains unclear. In addition, the endocytic pathway is not completely blocked in yeast cells lacking all Rab5 genes, suggesting the existence of an unidentified route that bypasses the Rab5-dependent endocytic pathway. Here we show that convergence of the endocytic and VPS pathways occurs upstream of the requirement for Vps21p in these pathways. We also identify a previously unidentified endocytic pathway mediated by the AP-3 complex. Importantly, the AP-3-mediated pathway appears mostly intact in Rab5-disrupted cells, and thus works as an alternative route to the vacuole/lysosome. We propose that the endocytic traffic branches into two routes to reach the vacuole: a Rab5-dependent VPS pathway and a Rab5-independent AP-3-mediated pathway."}],"quality_controlled":"1","oa":1,"language":[{"iso":"eng"}],"doi":"10.1038/ncomms4498","month":"03","publication_status":"published","publisher":"Nature Publishing Group","department":[{"_id":"DaSi"}],"year":"2014","date_created":"2018-12-11T11:55:16Z","date_updated":"2021-01-12T06:54:48Z","volume":5,"author":[{"full_name":"Toshima, Junko","last_name":"Toshima","first_name":"Junko"},{"full_name":"Nishinoaki, Show","first_name":"Show","last_name":"Nishinoaki"},{"full_name":"Sato, Yoshifumi","last_name":"Sato","first_name":"Yoshifumi"},{"full_name":"Yamamoto, Wataru","first_name":"Wataru","last_name":"Yamamoto"},{"full_name":"Furukawa, Daiki","last_name":"Furukawa","first_name":"Daiki"},{"orcid":"0000-0001-8323-8353","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","last_name":"Siekhaus","first_name":"Daria E","full_name":"Siekhaus, Daria E"},{"first_name":"Akira","last_name":"Sawaguchi","full_name":"Sawaguchi, Akira"},{"full_name":"Toshima, Jiro","last_name":"Toshima","first_name":"Jiro"}],"article_number":"3498","file_date_updated":"2020-07-14T12:45:25Z","publist_id":"5048"},{"date_published":"2014-10-12T00:00:00Z","page":"40 - 54","publication":" Journal of Theoretical Biology","citation":{"ama":"Bodova K, Paydarfar D, Forger D. Characterizing spiking in noisy type II neurons. Journal of Theoretical Biology. 2014;365:40-54. doi:10.1016/j.jtbi.2014.09.041","ieee":"K. Bodova, D. Paydarfar, and D. Forger, “Characterizing spiking in noisy type II neurons,” Journal of Theoretical Biology, vol. 365. Academic Press, pp. 40–54, 2014.","apa":"Bodova, K., Paydarfar, D., & Forger, D. (2014). Characterizing spiking in noisy type II neurons. Journal of Theoretical Biology. Academic Press. https://doi.org/10.1016/j.jtbi.2014.09.041","ista":"Bodova K, Paydarfar D, Forger D. 2014. Characterizing spiking in noisy type II neurons. Journal of Theoretical Biology. 365, 40–54.","short":"K. Bodova, D. Paydarfar, D. Forger, Journal of Theoretical Biology 365 (2014) 40–54.","mla":"Bodova, Katarina, et al. “Characterizing Spiking in Noisy Type II Neurons.” Journal of Theoretical Biology, vol. 365, Academic Press, 2014, pp. 40–54, doi:10.1016/j.jtbi.2014.09.041.","chicago":"Bodova, Katarina, David Paydarfar, and Daniel Forger. “Characterizing Spiking in Noisy Type II Neurons.” Journal of Theoretical Biology. Academic Press, 2014. https://doi.org/10.1016/j.jtbi.2014.09.041."},"day":"12","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","file":[{"file_name":"IST-2016-444-v1+1_1-s2.0-S0022519314005888-main.pdf","access_level":"open_access","file_size":2679222,"content_type":"application/pdf","creator":"system","relation":"main_file","file_id":"5316","date_updated":"2020-07-14T12:45:25Z","date_created":"2018-12-12T10:17:58Z","checksum":"a9dbae18d3233b3dab6944fd3f2cd49e"}],"oa_version":"Published Version","pubrep_id":"444","title":"Characterizing spiking in noisy type II neurons","ddc":["570"],"status":"public","intvolume":" 365","_id":"2028","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Understanding the dynamics of noisy neurons remains an important challenge in neuroscience. Here, we describe a simple probabilistic model that accurately describes the firing behavior in a large class (type II) of neurons. To demonstrate the usefulness of this model, we show how it accurately predicts the interspike interval (ISI) distributions, bursting patterns and mean firing rates found by: (1) simulations of the classic Hodgkin-Huxley model with channel noise, (2) experimental data from squid giant axon with a noisy input current and (3) experimental data on noisy firing from a neuron within the suprachiasmatic nucleus (SCN). This simple model has 6 parameters, however, in some cases, two of these parameters are coupled and only 5 parameters account for much of the known behavior. From these parameters, many properties of spiking can be found through simple calculation. Thus, we show how the complex effects of noise can be understood through a simple and general probabilistic model.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1016/j.jtbi.2014.09.041","quality_controlled":"1","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"month":"10","date_created":"2018-12-11T11:55:18Z","date_updated":"2022-08-25T14:00:47Z","volume":365,"author":[{"full_name":"Bodova, Katarina","first_name":"Katarina","last_name":"Bodova","id":"2BA24EA0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7214-0171"},{"full_name":"Paydarfar, David","last_name":"Paydarfar","first_name":"David"},{"full_name":"Forger, Daniel","first_name":"Daniel","last_name":"Forger"}],"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1016/j.jtbi.2015.03.013"}]},"publication_status":"published","publisher":"Academic Press","department":[{"_id":"GaTk"}],"acknowledgement":"This work is supported by AFOSR grant FA 9550-11-1-0165, program grant RPG 24/2012 from the Human Frontiers of Science (DBF) and travel support from the European Commission Marie Curie International Reintegration Grant PIRG04-GA-2008-239429 (KB). DP was supported by NIHR01 GM104987 and the Wyss Institute of Biologically Inspired Engineering. ","year":"2014","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","file_date_updated":"2020-07-14T12:45:25Z","publist_id":"5043"},{"volume":8837,"date_updated":"2021-01-12T06:54:49Z","date_created":"2018-12-11T11:55:17Z","author":[{"full_name":"Komárková, Zuzana","last_name":"Komárková","first_name":"Zuzana"},{"last_name":"Kretinsky","first_name":"Jan","orcid":"0000-0002-8122-2881","id":"44CEF464-F248-11E8-B48F-1D18A9856A87","full_name":"Kretinsky, Jan"}],"editor":[{"full_name":"Cassez, Franck","first_name":"Franck","last_name":"Cassez"},{"last_name":"Raskin","first_name":"Jean-François","full_name":"Raskin, Jean-François"}],"publisher":"Springer","department":[{"_id":"ToHe"}],"publication_status":"published","year":"2014","acknowledgement":"Sponsor: P202/12/G061; GACR; Czech Science Foundation\r\n\r\n","ec_funded":1,"publist_id":"5045","language":[{"iso":"eng"}],"doi":"10.1007/978-3-319-11936-6_17","conference":{"name":"ATVA: Automated Technology for Verification and Analysis","end_date":"2014-11-07","location":"Sydney, Australia","start_date":"2014-11-03"},"project":[{"_id":"25EE3708-B435-11E9-9278-68D0E5697425","grant_number":"267989","call_identifier":"FP7","name":"Quantitative Reactive Modeling"},{"grant_number":"S11402-N23","_id":"25F5A88A-B435-11E9-9278-68D0E5697425","name":"Moderne Concurrency Paradigms","call_identifier":"FWF"}],"quality_controlled":"1","month":"01","oa_version":"None","intvolume":" 8837","title":"Rabinizer 3: Safraless translation of ltl to small deterministic automata","status":"public","_id":"2026","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"We present a tool for translating LTL formulae into deterministic ω-automata. It is the first tool that covers the whole LTL that does not use Safra’s determinization or any of its variants. This leads to smaller automata. There are several outputs of the tool: firstly, deterministic Rabin automata, which are the standard input for probabilistic model checking, e.g. for the probabilistic model-checker PRISM; secondly, deterministic generalized Rabin automata, which can also be used for probabilistic model checking and are sometimes by orders of magnitude smaller. We also link our tool to PRISM and show that this leads to a significant speed-up of probabilistic LTL model checking, especially with the generalized Rabin automata.","lang":"eng"}],"alternative_title":["LNCS"],"type":"conference","date_published":"2014-01-01T00:00:00Z","page":"235 - 241","citation":{"short":"Z. Komárková, J. Kretinsky, in:, F. Cassez, J.-F. Raskin (Eds.), Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Springer, 2014, pp. 235–241.","mla":"Komárková, Zuzana, and Jan Kretinsky. “Rabinizer 3: Safraless Translation of Ltl to Small Deterministic Automata.” Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), edited by Franck Cassez and Jean-François Raskin, vol. 8837, Springer, 2014, pp. 235–41, doi:10.1007/978-3-319-11936-6_17.","chicago":"Komárková, Zuzana, and Jan Kretinsky. “Rabinizer 3: Safraless Translation of Ltl to Small Deterministic Automata.” In Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), edited by Franck Cassez and Jean-François Raskin, 8837:235–41. Springer, 2014. https://doi.org/10.1007/978-3-319-11936-6_17.","ama":"Komárková Z, Kretinsky J. Rabinizer 3: Safraless translation of ltl to small deterministic automata. In: Cassez F, Raskin J-F, eds. Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol 8837. Springer; 2014:235-241. doi:10.1007/978-3-319-11936-6_17","ieee":"Z. Komárková and J. Kretinsky, “Rabinizer 3: Safraless translation of ltl to small deterministic automata,” in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Sydney, Australia, 2014, vol. 8837, pp. 235–241.","apa":"Komárková, Z., & Kretinsky, J. (2014). Rabinizer 3: Safraless translation of ltl to small deterministic automata. In F. Cassez & J.-F. Raskin (Eds.), Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 8837, pp. 235–241). Sydney, Australia: Springer. https://doi.org/10.1007/978-3-319-11936-6_17","ista":"Komárková Z, Kretinsky J. 2014. Rabinizer 3: Safraless translation of ltl to small deterministic automata. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). ATVA: Automated Technology for Verification and Analysis, LNCS, vol. 8837, 235–241."},"publication":"Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)","day":"01"},{"publication":"EPL","citation":{"ama":"Correggi M, Giuliani A, Seiringer R. Validity of spin-wave theory for the quantum Heisenberg model. EPL. 2014;108(2). doi:10.1209/0295-5075/108/20003","ista":"Correggi M, Giuliani A, Seiringer R. 2014. Validity of spin-wave theory for the quantum Heisenberg model. EPL. 108(2), 20003.","ieee":"M. Correggi, A. Giuliani, and R. Seiringer, “Validity of spin-wave theory for the quantum Heisenberg model,” EPL, vol. 108, no. 2. IOP Publishing Ltd., 2014.","apa":"Correggi, M., Giuliani, A., & Seiringer, R. (2014). Validity of spin-wave theory for the quantum Heisenberg model. EPL. IOP Publishing Ltd. https://doi.org/10.1209/0295-5075/108/20003","mla":"Correggi, Michele, et al. “Validity of Spin-Wave Theory for the Quantum Heisenberg Model.” EPL, vol. 108, no. 2, 20003, IOP Publishing Ltd., 2014, doi:10.1209/0295-5075/108/20003.","short":"M. Correggi, A. Giuliani, R. Seiringer, EPL 108 (2014).","chicago":"Correggi, Michele, Alessandro Giuliani, and Robert Seiringer. “Validity of Spin-Wave Theory for the Quantum Heisenberg Model.” EPL. IOP Publishing Ltd., 2014. https://doi.org/10.1209/0295-5075/108/20003."},"date_published":"2014-10-13T00:00:00Z","scopus_import":1,"day":"13","title":"Validity of spin-wave theory for the quantum Heisenberg model","status":"public","intvolume":" 108","_id":"2029","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","type":"journal_article","abstract":[{"lang":"eng","text":"Spin-wave theory is a key ingredient in our comprehension of quantum spin systems, and is used successfully for understanding a wide range of magnetic phenomena, including magnon condensation and stability of patterns in dipolar systems. Nevertheless, several decades of research failed to establish the validity of spin-wave theory rigorously, even for the simplest models of quantum spins. A rigorous justification of the method for the three-dimensional quantum Heisenberg ferromagnet at low temperatures is presented here. We derive sharp bounds on its free energy by combining a bosonic formulation of the model introduced by Holstein and Primakoff with probabilistic estimates and operator inequalities."}],"issue":"2","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1404.4717"}],"oa":1,"language":[{"iso":"eng"}],"doi":"10.1209/0295-5075/108/20003","month":"10","publication_status":"published","publisher":"IOP Publishing Ltd.","department":[{"_id":"RoSe"}],"acknowledgement":"239694; ERC; European Research Council","year":"2014","date_created":"2018-12-11T11:55:18Z","date_updated":"2021-01-12T06:54:50Z","volume":108,"author":[{"full_name":"Correggi, Michele","last_name":"Correggi","first_name":"Michele"},{"full_name":"Giuliani, Alessandro","last_name":"Giuliani","first_name":"Alessandro"},{"full_name":"Seiringer, Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521","first_name":"Robert","last_name":"Seiringer"}],"article_number":"20003","publist_id":"5044"},{"publist_id":"5038","issue":"January","abstract":[{"text":"The learning with privileged information setting has recently attracted a lot of attention within the machine learning community, as it allows the integration of additional knowledge into the training process of a classifier, even when this comes in the form of a data modality that is not available at test time. Here, we show that privileged information can naturally be treated as noise in the latent function of a Gaussian process classifier (GPC). That is, in contrast to the standard GPC setting, the latent function is not just a nuisance but a feature: it becomes a natural measure of confidence about the training data by modulating the slope of the GPC probit likelihood function. Extensive experiments on public datasets show that the proposed GPC method using privileged noise, called GPC+, improves over a standard GPC without privileged knowledge, and also over the current state-of-the-art SVM-based method, SVM+. Moreover, we show that advanced neural networks and deep learning methods can be compressed as privileged information.","lang":"eng"}],"type":"conference","author":[{"full_name":"Hernandez Lobato, Daniel","first_name":"Daniel","last_name":"Hernandez Lobato"},{"full_name":"Sharmanska, Viktoriia","first_name":"Viktoriia","last_name":"Sharmanska","id":"2EA6D09E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0192-9308"},{"first_name":"Kristian","last_name":"Kersting","full_name":"Kersting, Kristian"},{"full_name":"Lampert, Christoph","last_name":"Lampert","first_name":"Christoph","orcid":"0000-0001-8622-7887","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Quadrianto","first_name":"Novi","full_name":"Quadrianto, Novi"}],"oa_version":"Submitted Version","volume":1,"date_created":"2018-12-11T11:55:20Z","date_updated":"2023-02-23T10:25:24Z","_id":"2033","year":"2014","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publisher":"Neural Information Processing Systems","department":[{"_id":"ChLa"}],"intvolume":" 1","status":"public","title":"Mind the nuisance: Gaussian process classification using privileged noise","publication_status":"published","day":"08","month":"12","scopus_import":1,"date_published":"2014-12-08T00:00:00Z","conference":{"end_date":"2014-12-13","start_date":"2014-12-08","location":"Montreal, Canada","name":"NIPS: Neural Information Processing Systems"},"language":[{"iso":"eng"}],"oa":1,"citation":{"mla":"Hernandez Lobato, Daniel, et al. “Mind the Nuisance: Gaussian Process Classification Using Privileged Noise.” Advances in Neural Information Processing Systems, vol. 1, no. January, Neural Information Processing Systems, 2014, pp. 837–45.","short":"D. Hernandez Lobato, V. Sharmanska, K. Kersting, C. Lampert, N. Quadrianto, in:, Advances in Neural Information Processing Systems, Neural Information Processing Systems, 2014, pp. 837–845.","chicago":"Hernandez Lobato, Daniel, Viktoriia Sharmanska, Kristian Kersting, Christoph Lampert, and Novi Quadrianto. “Mind the Nuisance: Gaussian Process Classification Using Privileged Noise.” In Advances in Neural Information Processing Systems, 1:837–45. Neural Information Processing Systems, 2014.","ama":"Hernandez Lobato D, Sharmanska V, Kersting K, Lampert C, Quadrianto N. Mind the nuisance: Gaussian process classification using privileged noise. In: Advances in Neural Information Processing Systems. Vol 1. Neural Information Processing Systems; 2014:837-845.","ista":"Hernandez Lobato D, Sharmanska V, Kersting K, Lampert C, Quadrianto N. 2014. Mind the nuisance: Gaussian process classification using privileged noise. Advances in Neural Information Processing Systems. NIPS: Neural Information Processing Systems vol. 1, 837–845.","ieee":"D. Hernandez Lobato, V. Sharmanska, K. Kersting, C. Lampert, and N. Quadrianto, “Mind the nuisance: Gaussian process classification using privileged noise,” in Advances in Neural Information Processing Systems, Montreal, Canada, 2014, vol. 1, no. January, pp. 837–845.","apa":"Hernandez Lobato, D., Sharmanska, V., Kersting, K., Lampert, C., & Quadrianto, N. (2014). Mind the nuisance: Gaussian process classification using privileged noise. In Advances in Neural Information Processing Systems (Vol. 1, pp. 837–845). Montreal, Canada: Neural Information Processing Systems."},"main_file_link":[{"url":"https://papers.nips.cc/paper/5373-mind-the-nuisance-gaussian-process-classification-using-privileged-noise","open_access":"1"}],"publication":"Advances in Neural Information Processing Systems","page":"837-845","quality_controlled":"1"},{"publication":"Molecular and Cellular Oncology","citation":{"chicago":"Inglés Prieto, Álvaro, Eva Gschaider-Reichhart, Karin Schelch, Harald L Janovjak, and Michael Grusch. “The Optogenetic Promise for Oncology: Episode I.” Molecular and Cellular Oncology. Taylor & Francis, 2014. https://doi.org/10.4161/23723548.2014.964045.","mla":"Inglés Prieto, Álvaro, et al. “The Optogenetic Promise for Oncology: Episode I.” Molecular and Cellular Oncology, vol. 1, no. 4, e964045, Taylor & Francis, 2014, doi:10.4161/23723548.2014.964045.","short":"Á. Inglés Prieto, E. Gschaider-Reichhart, K. Schelch, H.L. Janovjak, M. Grusch, Molecular and Cellular Oncology 1 (2014).","ista":"Inglés Prieto Á, Gschaider-Reichhart E, Schelch K, Janovjak HL, Grusch M. 2014. The optogenetic promise for oncology: Episode I. Molecular and Cellular Oncology. 1(4), e964045.","ieee":"Á. Inglés Prieto, E. Gschaider-Reichhart, K. Schelch, H. L. Janovjak, and M. Grusch, “The optogenetic promise for oncology: Episode I,” Molecular and Cellular Oncology, vol. 1, no. 4. Taylor & Francis, 2014.","apa":"Inglés Prieto, Á., Gschaider-Reichhart, E., Schelch, K., Janovjak, H. L., & Grusch, M. (2014). The optogenetic promise for oncology: Episode I. Molecular and Cellular Oncology. Taylor & Francis. https://doi.org/10.4161/23723548.2014.964045","ama":"Inglés Prieto Á, Gschaider-Reichhart E, Schelch K, Janovjak HL, Grusch M. The optogenetic promise for oncology: Episode I. Molecular and Cellular Oncology. 2014;1(4). doi:10.4161/23723548.2014.964045"},"date_published":"2014-12-31T00:00:00Z","scopus_import":1,"day":"31","has_accepted_license":"1","_id":"2032","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","status":"public","ddc":["570"],"title":"The optogenetic promise for oncology: Episode I","intvolume":" 1","file":[{"relation":"main_file","file_id":"6464","checksum":"44e17ad40577ab46eb602e88a8b0b8fd","date_updated":"2020-07-14T12:45:26Z","date_created":"2019-05-16T13:39:11Z","access_level":"open_access","file_name":"2014_Taylor_Alvaro.pdf","file_size":1765933,"content_type":"application/pdf","creator":"kschuh"}],"oa_version":"Published Version","type":"journal_article","abstract":[{"text":"As light-based control of fundamental signaling pathways is becoming a reality, the field of optogenetics is rapidly moving beyond neuroscience. We have recently developed receptor tyrosine kinases that are activated by light and control cell proliferation, epithelial–mesenchymal transition, and angiogenic sprouting—cell behaviors central to cancer progression.","lang":"eng"}],"issue":"4","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"oa":1,"quality_controlled":"1","doi":"10.4161/23723548.2014.964045","language":[{"iso":"eng"}],"month":"12","year":"2014","publication_status":"published","department":[{"_id":"HaJa"}],"publisher":"Taylor & Francis","author":[{"id":"2A9DB292-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5409-8571","first_name":"Álvaro","last_name":"Inglés Prieto","full_name":"Inglés Prieto, Álvaro"},{"orcid":"0000-0002-7218-7738","id":"3FEE232A-F248-11E8-B48F-1D18A9856A87","last_name":"Gschaider-Reichhart","first_name":"Eva","full_name":"Gschaider-Reichhart, Eva"},{"full_name":"Schelch, Karin","last_name":"Schelch","first_name":"Karin"},{"first_name":"Harald L","last_name":"Janovjak","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8023-9315","full_name":"Janovjak, Harald L"},{"first_name":"Michael","last_name":"Grusch","full_name":"Grusch, Michael"}],"date_created":"2018-12-11T11:55:19Z","date_updated":"2021-01-12T06:54:51Z","volume":1,"article_number":"e964045","file_date_updated":"2020-07-14T12:45:26Z","publist_id":"5040","license":"https://creativecommons.org/licenses/by-nc/4.0/"},{"abstract":[{"lang":"eng","text":"We introduce and study a new notion of enhanced chosen-ciphertext security (ECCA) for public-key encryption. Loosely speaking, in the ECCA security experiment, the decryption oracle provided to the adversary is augmented to return not only the output of the decryption algorithm on a queried ciphertext but also of a randomness-recovery algorithm associated to the scheme. Our results mainly concern the case where the randomness-recovery algorithm is efficient. We provide constructions of ECCA-secure encryption from adaptive trapdoor functions as defined by Kiltz et al. (EUROCRYPT 2010), resulting in ECCA encryption from standard number-theoretic assumptions. We then give two applications of ECCA-secure encryption: (1) We use it as a unifying concept in showing equivalence of adaptive trapdoor functions and tag-based adaptive trapdoor functions, resolving an open question of Kiltz et al. (2) We show that ECCA-secure encryption can be used to securely realize an approach to public-key encryption with non-interactive opening (PKENO) originally suggested by Damgård and Thorbek (EUROCRYPT 2007), resulting in new and practical PKENO schemes quite different from those in prior work. Our results demonstrate that ECCA security is of both practical and theoretical interest."}],"type":"conference","alternative_title":["LNCS"],"oa_version":"Submitted Version","_id":"2045","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","title":"Enhanced chosen-ciphertext security and applications","status":"public","intvolume":" 8383","day":"01","scopus_import":1,"date_published":"2014-01-01T00:00:00Z","publication":"Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)","citation":{"chicago":"Dachman Soled, Dana, Georg Fuchsbauer, Payman Mohassel, and Adam O’Neill. “Enhanced Chosen-Ciphertext Security and Applications.” In Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), edited by Hugo Krawczyk, 8383:329–44. Springer, 2014. https://doi.org/10.1007/978-3-642-54631-0_19.","mla":"Dachman Soled, Dana, et al. “Enhanced Chosen-Ciphertext Security and Applications.” Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), edited by Hugo Krawczyk, vol. 8383, Springer, 2014, pp. 329–44, doi:10.1007/978-3-642-54631-0_19.","short":"D. Dachman Soled, G. Fuchsbauer, P. Mohassel, A. O’Neill, in:, H. Krawczyk (Ed.), Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Springer, 2014, pp. 329–344.","ista":"Dachman Soled D, Fuchsbauer G, Mohassel P, O’Neill A. 2014. Enhanced chosen-ciphertext security and applications. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). PKC: Public Key Crypography, LNCS, vol. 8383, 329–344.","ieee":"D. Dachman Soled, G. Fuchsbauer, P. Mohassel, and A. O’Neill, “Enhanced chosen-ciphertext security and applications,” in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Buenos Aires, Argentina, 2014, vol. 8383, pp. 329–344.","apa":"Dachman Soled, D., Fuchsbauer, G., Mohassel, P., & O’Neill, A. (2014). Enhanced chosen-ciphertext security and applications. In H. Krawczyk (Ed.), Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 8383, pp. 329–344). Buenos Aires, Argentina: Springer. https://doi.org/10.1007/978-3-642-54631-0_19","ama":"Dachman Soled D, Fuchsbauer G, Mohassel P, O’Neill A. Enhanced chosen-ciphertext security and applications. In: Krawczyk H, ed. Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol 8383. Springer; 2014:329-344. doi:10.1007/978-3-642-54631-0_19"},"page":"329 - 344","ec_funded":1,"publist_id":"5006","author":[{"full_name":"Dachman Soled, Dana","last_name":"Dachman Soled","first_name":"Dana"},{"last_name":"Fuchsbauer","first_name":"Georg","id":"46B4C3EE-F248-11E8-B48F-1D18A9856A87","full_name":"Fuchsbauer, Georg"},{"full_name":"Mohassel, Payman","first_name":"Payman","last_name":"Mohassel"},{"full_name":"O’Neill, Adam","first_name":"Adam","last_name":"O’Neill"}],"date_updated":"2021-01-12T06:54:57Z","date_created":"2018-12-11T11:55:24Z","volume":8383,"year":"2014","acknowledgement":"The second author was supported by EPSRC grant EP/H043454/1.","publication_status":"published","publisher":"Springer","department":[{"_id":"KrPi"}],"editor":[{"first_name":"Hugo","last_name":"Krawczyk","full_name":"Krawczyk, Hugo"}],"month":"01","conference":{"location":"Buenos Aires, Argentina","start_date":"2014-03-26","end_date":"2014-03-28","name":"PKC: Public Key Crypography"},"doi":"10.1007/978-3-642-54631-0_19","language":[{"iso":"eng"}],"oa":1,"main_file_link":[{"open_access":"1","url":"https://eprint.iacr.org/2012/543"}],"quality_controlled":"1","project":[{"name":"Provable Security for Physical Cryptography","call_identifier":"FP7","grant_number":"259668","_id":"258C570E-B435-11E9-9278-68D0E5697425"}]}]