[{"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1303.3777"}],"year":"2014","oa":1,"type":"journal_article","volume":521,"quality_controlled":"1","doi":"10.1016/j.tcs.2013.11.032","department":[{"_id":"KrCh"}],"title":"Alternating traps in Muller and parity games","date_updated":"2021-01-12T06:56:16Z","publisher":"Elsevier","day":"13","publication_status":"published","publication_identifier":{"issn":["03043975"]},"publication":"Theoretical Computer Science","publist_id":"4703","status":"public","date_published":"2014-02-13T00:00:00Z","page":"73 - 91","abstract":[{"text":"Muller games are played by two players moving a token along a graph; the winner is determined by the set of vertices that occur infinitely often. The central algorithmic problem is to compute the winning regions for the players. Different classes and representations of Muller games lead to problems of varying computational complexity. One such class are parity games; these are of particular significance in computational complexity, as they remain one of the few combinatorial problems known to be in NP ∩ co-NP but not known to be in P. We show that winning regions for a Muller game can be determined from the alternating structure of its traps. To every Muller game we then associate a natural number that we call its trap depth; this parameter measures how complicated the trap structure is. We present algorithms for parity games that run in polynomial time for graphs of bounded trap depth, and in general run in time exponential in the trap depth. ","lang":"eng"}],"_id":"2246","intvolume":"       521","language":[{"iso":"eng"}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Submitted Version","author":[{"full_name":"Grinshpun, Andrey","last_name":"Grinshpun","first_name":"Andrey"},{"full_name":"Phalitnonkiat, Pakawat","first_name":"Pakawat","last_name":"Phalitnonkiat"},{"id":"2EC51194-F248-11E8-B48F-1D18A9856A87","last_name":"Rubin","first_name":"Sasha","full_name":"Rubin, Sasha"},{"full_name":"Tarfulea, Andrei","last_name":"Tarfulea","first_name":"Andrei"}],"month":"02","citation":{"chicago":"Grinshpun, Andrey, Pakawat Phalitnonkiat, Sasha Rubin, and Andrei Tarfulea. “Alternating Traps in Muller and Parity Games.” <i>Theoretical Computer Science</i>. Elsevier, 2014. <a href=\"https://doi.org/10.1016/j.tcs.2013.11.032\">https://doi.org/10.1016/j.tcs.2013.11.032</a>.","ieee":"A. Grinshpun, P. Phalitnonkiat, S. Rubin, and A. Tarfulea, “Alternating traps in Muller and parity games,” <i>Theoretical Computer Science</i>, vol. 521. Elsevier, pp. 73–91, 2014.","short":"A. Grinshpun, P. Phalitnonkiat, S. Rubin, A. Tarfulea, Theoretical Computer Science 521 (2014) 73–91.","mla":"Grinshpun, Andrey, et al. “Alternating Traps in Muller and Parity Games.” <i>Theoretical Computer Science</i>, vol. 521, Elsevier, 2014, pp. 73–91, doi:<a href=\"https://doi.org/10.1016/j.tcs.2013.11.032\">10.1016/j.tcs.2013.11.032</a>.","ama":"Grinshpun A, Phalitnonkiat P, Rubin S, Tarfulea A. Alternating traps in Muller and parity games. <i>Theoretical Computer Science</i>. 2014;521:73-91. doi:<a href=\"https://doi.org/10.1016/j.tcs.2013.11.032\">10.1016/j.tcs.2013.11.032</a>","ista":"Grinshpun A, Phalitnonkiat P, Rubin S, Tarfulea A. 2014. Alternating traps in Muller and parity games. Theoretical Computer Science. 521, 73–91.","apa":"Grinshpun, A., Phalitnonkiat, P., Rubin, S., &#38; Tarfulea, A. (2014). Alternating traps in Muller and parity games. <i>Theoretical Computer Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tcs.2013.11.032\">https://doi.org/10.1016/j.tcs.2013.11.032</a>"},"date_created":"2018-12-11T11:56:33Z","scopus_import":1},{"issue":"1","publist_id":"4701","publication":"Journal of Experimental Zoology Part B: Molecular and Developmental Evolution","status":"public","date_published":"2014-01-01T00:00:00Z","page":"1 - 12","abstract":[{"lang":"eng","text":"Avian forelimb digit homology remains one of the standard themes in comparative biology and EvoDevo research. In order to resolve the apparent contradictions between embryological and paleontological evidence a variety of hypotheses have been presented in recent years. The proposals range from excluding birds from the dinosaur clade, to assignments of homology by different criteria, or even assuming a hexadactyl tetrapod limb ground state. At present two approaches prevail: the frame shift hypothesis and the pyramid reduction hypothesis. While the former postulates a homeotic shift of digit identities, the latter argues for a gradual bilateral reduction of phalanges and digits. Here we present a new model that integrates elements from both hypotheses with the existing experimental and fossil evidence. We start from the main feature common to both earlier concepts, the initiating ontogenetic event: reduction and loss of the anterior-most digit. It is proposed that a concerted mechanism of molecular regulation and developmental mechanics is capable of shifting the boundaries of hoxD expression in embryonic forelimb buds as well as changing the digit phenotypes. Based on a distinction between positional (topological) and compositional (phenotypic) homology criteria, we argue that the identity of the avian digits is II, III, IV, despite a partially altered phenotype. Finally, we introduce an alternative digit reduction scheme that reconciles the current fossil evidence with the presented molecular-morphogenetic model. Our approach identifies specific experiments that allow to test whether gene expression can be shifted and digit phenotypes can be altered by induced digit loss or digit gain."}],"_id":"2248","intvolume":"       322","language":[{"iso":"eng"}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"None","author":[{"orcid":"0000-0001-5199-9940","full_name":"Capek, Daniel","id":"31C42484-F248-11E8-B48F-1D18A9856A87","first_name":"Daniel","last_name":"Capek"},{"first_name":"Brian","last_name":"Metscher","full_name":"Metscher, Brian"},{"full_name":"Müller, Gerd","first_name":"Gerd","last_name":"Müller"}],"month":"01","date_created":"2018-12-11T11:56:33Z","citation":{"short":"D. Capek, B. Metscher, G. Müller, Journal of Experimental Zoology Part B: Molecular and Developmental Evolution 322 (2014) 1–12.","mla":"Capek, Daniel, et al. “Thumbs down: A Molecular-Morphogenetic Approach to Avian Digit Homology.” <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>, vol. 322, no. 1, Wiley-Blackwell, 2014, pp. 1–12, doi:<a href=\"https://doi.org/10.1002/jez.b.22545\">10.1002/jez.b.22545</a>.","ieee":"D. Capek, B. Metscher, and G. Müller, “Thumbs down: A molecular-morphogenetic approach to avian digit homology,” <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>, vol. 322, no. 1. Wiley-Blackwell, pp. 1–12, 2014.","chicago":"Capek, Daniel, Brian Metscher, and Gerd Müller. “Thumbs down: A Molecular-Morphogenetic Approach to Avian Digit Homology.” <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>. Wiley-Blackwell, 2014. <a href=\"https://doi.org/10.1002/jez.b.22545\">https://doi.org/10.1002/jez.b.22545</a>.","apa":"Capek, D., Metscher, B., &#38; Müller, G. (2014). Thumbs down: A molecular-morphogenetic approach to avian digit homology. <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1002/jez.b.22545\">https://doi.org/10.1002/jez.b.22545</a>","ista":"Capek D, Metscher B, Müller G. 2014. Thumbs down: A molecular-morphogenetic approach to avian digit homology. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution. 322(1), 1–12.","ama":"Capek D, Metscher B, Müller G. Thumbs down: A molecular-morphogenetic approach to avian digit homology. <i>Journal of Experimental Zoology Part B: Molecular and Developmental Evolution</i>. 2014;322(1):1-12. doi:<a href=\"https://doi.org/10.1002/jez.b.22545\">10.1002/jez.b.22545</a>"},"scopus_import":1,"year":"2014","type":"journal_article","volume":322,"quality_controlled":"1","doi":"10.1002/jez.b.22545","title":"Thumbs down: A molecular-morphogenetic approach to avian digit homology","department":[{"_id":"CaHe"}],"date_updated":"2021-01-12T06:56:16Z","publisher":"Wiley-Blackwell","day":"01","publication_status":"published","publication_identifier":{"issn":["15525007"]}},{"volume":77,"type":"journal_article","main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3981873/"}],"publisher":"Wiley-Blackwell","publication_status":"published","quality_controlled":"1","department":[{"_id":"JiFr"}],"intvolume":"        77","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","status":"public","date_published":"2014-01-01T00:00:00Z","publist_id":"4699","publication":"Plant Journal","abstract":[{"text":"The unfolded protein response (UPR) is a signaling network triggered by overload of protein-folding demand in the endoplasmic reticulum (ER), a condition termed ER stress. The UPR is critical for growth and development; nonetheless, connections between the UPR and other cellular regulatory processes remain largely unknown. Here, we identify a link between the UPR and the phytohormone auxin, a master regulator of plant physiology. We show that ER stress triggers down-regulation of auxin receptors and transporters in Arabidopsis thaliana. We also demonstrate that an Arabidopsis mutant of a conserved ER stress sensor IRE1 exhibits defects in the auxin response and levels. These data not only support that the plant IRE1 is required for auxin homeostasis, they also reveal a species-specific feature of IRE1 in multicellular eukaryotes. Furthermore, by establishing that UPR activation is reduced in mutants of ER-localized auxin transporters, including PIN5, we define a long-neglected biological significance of ER-based auxin regulation. We further examine the functional relationship of IRE1 and PIN5 by showing that an ire1 pin5 triple mutant enhances defects of UPR activation and auxin homeostasis in ire1 or pin5. Our results imply that the plant UPR has evolved a hormone-dependent strategy for coordinating ER function with physiological processes.","lang":"eng"}],"date_created":"2018-12-11T11:56:34Z","scopus_import":1,"oa_version":"Submitted Version","oa":1,"year":"2014","date_updated":"2021-01-12T06:56:17Z","publication_identifier":{"issn":["09607412"]},"day":"01","title":"Inter-regulation of the unfolded protein response and auxin signaling","doi":"10.1111/tpj.12373","language":[{"iso":"eng"}],"_id":"2249","issue":"1","page":"97 - 107","citation":{"ama":"Chen Y, Aung K, Rolčík J, Walicki K, Friml J, Brandizzí F. Inter-regulation of the unfolded protein response and auxin signaling. <i>Plant Journal</i>. 2014;77(1):97-107. doi:<a href=\"https://doi.org/10.1111/tpj.12373\">10.1111/tpj.12373</a>","apa":"Chen, Y., Aung, K., Rolčík, J., Walicki, K., Friml, J., &#38; Brandizzí, F. (2014). Inter-regulation of the unfolded protein response and auxin signaling. <i>Plant Journal</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/tpj.12373\">https://doi.org/10.1111/tpj.12373</a>","ista":"Chen Y, Aung K, Rolčík J, Walicki K, Friml J, Brandizzí F. 2014. Inter-regulation of the unfolded protein response and auxin signaling. Plant Journal. 77(1), 97–107.","ieee":"Y. Chen, K. Aung, J. Rolčík, K. Walicki, J. Friml, and F. Brandizzí, “Inter-regulation of the unfolded protein response and auxin signaling,” <i>Plant Journal</i>, vol. 77, no. 1. Wiley-Blackwell, pp. 97–107, 2014.","chicago":"Chen, Yani, Kyaw Aung, Jakub Rolčík, Kathryn Walicki, Jiří Friml, and Federica Brandizzí. “Inter-Regulation of the Unfolded Protein Response and Auxin Signaling.” <i>Plant Journal</i>. Wiley-Blackwell, 2014. <a href=\"https://doi.org/10.1111/tpj.12373\">https://doi.org/10.1111/tpj.12373</a>.","mla":"Chen, Yani, et al. “Inter-Regulation of the Unfolded Protein Response and Auxin Signaling.” <i>Plant Journal</i>, vol. 77, no. 1, Wiley-Blackwell, 2014, pp. 97–107, doi:<a href=\"https://doi.org/10.1111/tpj.12373\">10.1111/tpj.12373</a>.","short":"Y. Chen, K. Aung, J. Rolčík, K. Walicki, J. Friml, F. Brandizzí, Plant Journal 77 (2014) 97–107."},"month":"01","author":[{"full_name":"Chen, Yani","first_name":"Yani","last_name":"Chen"},{"full_name":"Aung, Kyaw","first_name":"Kyaw","last_name":"Aung"},{"full_name":"Rolčík, Jakub","last_name":"Rolčík","first_name":"Jakub"},{"full_name":"Walicki, Kathryn","first_name":"Kathryn","last_name":"Walicki"},{"last_name":"Friml","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"},{"last_name":"Brandizzí","first_name":"Federica","full_name":"Brandizzí, Federica"}]},{"file":[{"access_level":"open_access","date_updated":"2020-07-14T12:45:34Z","date_created":"2018-12-12T10:13:24Z","file_size":771896,"file_id":"5006","file_name":"IST-2016-527-v1+1_20120528.full.pdf","relation":"main_file","creator":"system","checksum":"51beb33de71c9c19e0c205a20d206f9a","content_type":"application/pdf"}],"author":[{"full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","first_name":"Jozsef L","last_name":"Csicsvari","id":"3FA14672-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Dupret, David","first_name":"David","last_name":"Dupret"}],"article_number":"20120528","month":"02","file_date_updated":"2020-07-14T12:45:34Z","ddc":["570"],"citation":{"ama":"Csicsvari JL, Dupret D. Sharp wave/ripple network oscillations and learning-associated hippocampal maps. <i>Philosophical Transactions of the Royal Society of London Series B, Biological Sciences</i>. 2014;369(1635). doi:<a href=\"https://doi.org/10.1098/rstb.2012.0528\">10.1098/rstb.2012.0528</a>","apa":"Csicsvari, J. L., &#38; Dupret, D. (2014). Sharp wave/ripple network oscillations and learning-associated hippocampal maps. <i>Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences</i>. Royal Society, The. <a href=\"https://doi.org/10.1098/rstb.2012.0528\">https://doi.org/10.1098/rstb.2012.0528</a>","ista":"Csicsvari JL, Dupret D. 2014. Sharp wave/ripple network oscillations and learning-associated hippocampal maps. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 369(1635), 20120528.","ieee":"J. L. Csicsvari and D. Dupret, “Sharp wave/ripple network oscillations and learning-associated hippocampal maps,” <i>Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences</i>, vol. 369, no. 1635. Royal Society, The, 2014.","chicago":"Csicsvari, Jozsef L, and David Dupret. “Sharp Wave/Ripple Network Oscillations and Learning-Associated Hippocampal Maps.” <i>Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences</i>. Royal Society, The, 2014. <a href=\"https://doi.org/10.1098/rstb.2012.0528\">https://doi.org/10.1098/rstb.2012.0528</a>.","short":"J.L. Csicsvari, D. Dupret, Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences 369 (2014).","mla":"Csicsvari, Jozsef L., and David Dupret. “Sharp Wave/Ripple Network Oscillations and Learning-Associated Hippocampal Maps.” <i>Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences</i>, vol. 369, no. 1635, 20120528, Royal Society, The, 2014, doi:<a href=\"https://doi.org/10.1098/rstb.2012.0528\">10.1098/rstb.2012.0528</a>."},"issue":"1635","pubrep_id":"527","_id":"2251","language":[{"iso":"eng"}],"acknowledgement":"CC BY 3.0","external_id":{"pmid":["24366138"]},"doi":"10.1098/rstb.2012.0528","title":"Sharp wave/ripple network oscillations and learning-associated hippocampal maps","date_updated":"2021-01-12T06:56:18Z","day":"05","publication_identifier":{"issn":["09628436"]},"year":"2014","has_accepted_license":"1","oa":1,"article_processing_charge":"No","oa_version":"Published Version","date_created":"2018-12-11T11:56:34Z","scopus_import":1,"publication":"Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences","publist_id":"4697","date_published":"2014-02-05T00:00:00Z","status":"public","abstract":[{"text":"Sharp wave/ripple (SWR, 150–250 Hz) hippocampal events have long been postulated to be involved in memory consolidation. However, more recent work has investigated SWRs that occur during active waking behaviour: findings that suggest that SWRs may also play a role in cell assembly strengthening or spatial working memory. Do such theories of SWR function apply to animal learning? This review discusses how general theories linking SWRs to memory-related function may explain circuit mechanisms related to rodent spatial learning and to the associated stabilization of new cognitive maps.","lang":"eng"}],"intvolume":"       369","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"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","pmid":1,"department":[{"_id":"JoCs"}],"publisher":"Royal Society, The","publication_status":"published","type":"journal_article","volume":369},{"year":"2014","article_processing_charge":"No","volume":105,"type":"journal_article","quality_controlled":"1","department":[{"_id":"NiBa"}],"title":"Genetic background alters dominance relationships between mat alleles in the ciliate Tetrahymena Thermophila","doi":"10.1093/jhered/est063","publisher":"Oxford University Press","date_updated":"2022-08-25T14:45:42Z","publication_identifier":{"issn":["00221503"]},"publication_status":"published","day":"01","date_published":"2014-01-01T00:00:00Z","status":"public","publist_id":"4695","publication":"Journal of Heredity","issue":"1","abstract":[{"lang":"eng","text":"The pattern of inheritance and mechanism of sex determination can have important evolutionary consequences. We studied probabilistic sex determination in the ciliate Tetrahymena thermophila, which was previously shown to cause evolution of skewed sex ratios. We find that the genetic background alters the sex determination patterns of mat alleles in heterozygotes and that allelic interaction can differentially influence the expression probability of the 7 sexes. We quantify the dominance relationships between several mat alleles and find that A-type alleles, which specify sex I, are indeed recessive to B-type alleles, which are unable to specify that sex. Our results provide additional support for the presence of modifier loci and raise implications for the dynamics of sex ratios in populations of T. thermophila."}],"page":"130 - 135","_id":"2252","language":[{"iso":"eng"}],"intvolume":"       105","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","month":"01","oa_version":"None","author":[{"full_name":"Phadke, Sujal","last_name":"Phadke","first_name":"Sujal"},{"last_name":"Paixao","first_name":"Tiago","id":"2C5658E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2361-3953","full_name":"Paixao, Tiago"},{"first_name":"Tuan","last_name":"Pham","full_name":"Pham, Tuan"},{"last_name":"Pham","first_name":"Stephanie","full_name":"Pham, Stephanie"},{"full_name":"Zufall, Rebecca","first_name":"Rebecca","last_name":"Zufall"}],"date_created":"2018-12-11T11:56:35Z","citation":{"ieee":"S. Phadke, T. Paixao, T. Pham, S. Pham, and R. Zufall, “Genetic background alters dominance relationships between mat alleles in the ciliate Tetrahymena Thermophila,” <i>Journal of Heredity</i>, vol. 105, no. 1. Oxford University Press, pp. 130–135, 2014.","chicago":"Phadke, Sujal, Tiago Paixao, Tuan Pham, Stephanie Pham, and Rebecca Zufall. “Genetic Background Alters Dominance Relationships between Mat Alleles in the Ciliate Tetrahymena Thermophila.” <i>Journal of Heredity</i>. Oxford University Press, 2014. <a href=\"https://doi.org/10.1093/jhered/est063\">https://doi.org/10.1093/jhered/est063</a>.","mla":"Phadke, Sujal, et al. “Genetic Background Alters Dominance Relationships between Mat Alleles in the Ciliate Tetrahymena Thermophila.” <i>Journal of Heredity</i>, vol. 105, no. 1, Oxford University Press, 2014, pp. 130–35, doi:<a href=\"https://doi.org/10.1093/jhered/est063\">10.1093/jhered/est063</a>.","short":"S. Phadke, T. Paixao, T. Pham, S. Pham, R. Zufall, Journal of Heredity 105 (2014) 130–135.","ama":"Phadke S, Paixao T, Pham T, Pham S, Zufall R. Genetic background alters dominance relationships between mat alleles in the ciliate Tetrahymena Thermophila. <i>Journal of Heredity</i>. 2014;105(1):130-135. doi:<a href=\"https://doi.org/10.1093/jhered/est063\">10.1093/jhered/est063</a>","apa":"Phadke, S., Paixao, T., Pham, T., Pham, S., &#38; Zufall, R. (2014). Genetic background alters dominance relationships between mat alleles in the ciliate Tetrahymena Thermophila. <i>Journal of Heredity</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jhered/est063\">https://doi.org/10.1093/jhered/est063</a>","ista":"Phadke S, Paixao T, Pham T, Pham S, Zufall R. 2014. Genetic background alters dominance relationships between mat alleles in the ciliate Tetrahymena Thermophila. Journal of Heredity. 105(1), 130–135."},"scopus_import":"1"},{"month":"01","author":[{"full_name":"Bailly, Aurélien","last_name":"Bailly","first_name":"Aurélien"},{"full_name":"Wang, Bangjun","first_name":"Bangjun","last_name":"Wang"},{"first_name":"Marta","last_name":"Zwiewka","full_name":"Zwiewka, Marta"},{"first_name":"Stephan","last_name":"Pollmann","full_name":"Pollmann, Stephan"},{"first_name":"Daniel","last_name":"Schenck","full_name":"Schenck, Daniel"},{"last_name":"Lüthen","first_name":"Hartwig","full_name":"Lüthen, Hartwig"},{"last_name":"Schulz","first_name":"Alexander","full_name":"Schulz, Alexander"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí"},{"full_name":"Geisler, Markus","last_name":"Geisler","first_name":"Markus"}],"citation":{"short":"A. Bailly, B. Wang, M. Zwiewka, S. Pollmann, D. Schenck, H. Lüthen, A. Schulz, J. Friml, M. Geisler, Plant Journal 77 (2014) 108–118.","mla":"Bailly, Aurélien, et al. “Expression of TWISTED DWARF1 Lacking Its In-Plane Membrane Anchor Leads to Increased Cell Elongation and Hypermorphic Growth.” <i>Plant Journal</i>, vol. 77, no. 1, Wiley-Blackwell, 2014, pp. 108–18, doi:<a href=\"https://doi.org/10.1111/tpj.12369\">10.1111/tpj.12369</a>.","chicago":"Bailly, Aurélien, Bangjun Wang, Marta Zwiewka, Stephan Pollmann, Daniel Schenck, Hartwig Lüthen, Alexander Schulz, Jiří Friml, and Markus Geisler. “Expression of TWISTED DWARF1 Lacking Its In-Plane Membrane Anchor Leads to Increased Cell Elongation and Hypermorphic Growth.” <i>Plant Journal</i>. Wiley-Blackwell, 2014. <a href=\"https://doi.org/10.1111/tpj.12369\">https://doi.org/10.1111/tpj.12369</a>.","ieee":"A. Bailly <i>et al.</i>, “Expression of TWISTED DWARF1 lacking its in-plane membrane anchor leads to increased cell elongation and hypermorphic growth,” <i>Plant Journal</i>, vol. 77, no. 1. Wiley-Blackwell, pp. 108–118, 2014.","ista":"Bailly A, Wang B, Zwiewka M, Pollmann S, Schenck D, Lüthen H, Schulz A, Friml J, Geisler M. 2014. Expression of TWISTED DWARF1 lacking its in-plane membrane anchor leads to increased cell elongation and hypermorphic growth. Plant Journal. 77(1), 108–118.","apa":"Bailly, A., Wang, B., Zwiewka, M., Pollmann, S., Schenck, D., Lüthen, H., … Geisler, M. (2014). Expression of TWISTED DWARF1 lacking its in-plane membrane anchor leads to increased cell elongation and hypermorphic growth. <i>Plant Journal</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/tpj.12369\">https://doi.org/10.1111/tpj.12369</a>","ama":"Bailly A, Wang B, Zwiewka M, et al. Expression of TWISTED DWARF1 lacking its in-plane membrane anchor leads to increased cell elongation and hypermorphic growth. <i>Plant Journal</i>. 2014;77(1):108-118. doi:<a href=\"https://doi.org/10.1111/tpj.12369\">10.1111/tpj.12369</a>"},"article_type":"original","issue":"1","page":"108 - 118","_id":"2253","language":[{"iso":"eng"}],"title":"Expression of TWISTED DWARF1 lacking its in-plane membrane anchor leads to increased cell elongation and hypermorphic growth","doi":"10.1111/tpj.12369","date_updated":"2021-01-12T06:56:18Z","publication_identifier":{"issn":["09607412"]},"day":"01","year":"2014","article_processing_charge":"No","oa":1,"oa_version":"Published Version","date_created":"2018-12-11T11:56:35Z","scopus_import":1,"status":"public","date_published":"2014-01-01T00:00:00Z","publist_id":"4694","publication":"Plant Journal","abstract":[{"text":"Plant growth is achieved predominantly by cellular elongation, which is thought to be controlled on several levels by apoplastic auxin. Auxin export into the apoplast is achieved by plasma membrane efflux catalysts of the PIN-FORMED (PIN) and ATP-binding cassette protein subfamily B/phosphor- glycoprotein (ABCB/PGP) classes; the latter were shown to depend on interaction with the FKBP42, TWISTED DWARF1 (TWD1). Here by using a transgenic approach in combination with phenotypical, biochemical and cell biological analyses we demonstrate the importance of a putative C-terminal in-plane membrane anchor of TWD1 in the regulation of ABCB-mediated auxin transport. In contrast with dwarfed twd1 loss-of-function alleles, TWD1 gain-of-function lines that lack a putative in-plane membrane anchor (HA-TWD1-Ct) show hypermorphic plant architecture, characterized by enhanced stem length and leaf surface but reduced shoot branching. Greater hypocotyl length is the result of enhanced cell elongation that correlates with reduced polar auxin transport capacity for HA-TWD1-Ct. As a consequence, HA-TWD1-Ct displays higher hypocotyl auxin accumulation, which is shown to result in elevated auxin-induced cell elongation rates. Our data highlight the importance of C-terminal membrane anchoring for TWD1 action, which is required for specific regulation of ABCB-mediated auxin transport. These data support a model in which TWD1 controls lateral ABCB1-mediated export into the apoplast, which is required for auxin-mediated cell elongation.","lang":"eng"}],"intvolume":"        77","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"_id":"256BDAB0-B435-11E9-9278-68D0E5697425","name":"Innovationsförderung in der Grenzregion Österreich – Tschechische Republik durch die Schaffung von Synergien im Bereich der Forschungsinfrastruktur"}],"quality_controlled":"1","department":[{"_id":"JiFr"}],"publisher":"Wiley-Blackwell","publication_status":"published","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1111/tpj.12369"}],"volume":77,"type":"journal_article"},{"ddc":["570"],"citation":{"ieee":"A. Pernia-Andrade and P. M. Jonas, “Theta-gamma-modulated synaptic currents in hippocampal granule cells in vivo define a mechanism for network oscillations,” <i>Neuron</i>, vol. 81, no. 1. Elsevier, pp. 140–152, 2014.","chicago":"Pernia-Andrade, Alejandro, and Peter M Jonas. “Theta-Gamma-Modulated Synaptic Currents in Hippocampal Granule Cells in Vivo Define a Mechanism for Network Oscillations.” <i>Neuron</i>. Elsevier, 2014. <a href=\"https://doi.org/10.1016/j.neuron.2013.09.046\">https://doi.org/10.1016/j.neuron.2013.09.046</a>.","mla":"Pernia-Andrade, Alejandro, and Peter M. Jonas. “Theta-Gamma-Modulated Synaptic Currents in Hippocampal Granule Cells in Vivo Define a Mechanism for Network Oscillations.” <i>Neuron</i>, vol. 81, no. 1, Elsevier, 2014, pp. 140–52, doi:<a href=\"https://doi.org/10.1016/j.neuron.2013.09.046\">10.1016/j.neuron.2013.09.046</a>.","short":"A. Pernia-Andrade, P.M. Jonas, Neuron 81 (2014) 140–152.","ama":"Pernia-Andrade A, Jonas PM. Theta-gamma-modulated synaptic currents in hippocampal granule cells in vivo define a mechanism for network oscillations. <i>Neuron</i>. 2014;81(1):140-152. doi:<a href=\"https://doi.org/10.1016/j.neuron.2013.09.046\">10.1016/j.neuron.2013.09.046</a>","apa":"Pernia-Andrade, A., &#38; Jonas, P. M. (2014). Theta-gamma-modulated synaptic currents in hippocampal granule cells in vivo define a mechanism for network oscillations. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2013.09.046\">https://doi.org/10.1016/j.neuron.2013.09.046</a>","ista":"Pernia-Andrade A, Jonas PM. 2014. Theta-gamma-modulated synaptic currents in hippocampal granule cells in vivo define a mechanism for network oscillations. Neuron. 81(1), 140–152."},"author":[{"full_name":"Pernia-Andrade, Alejandro","id":"36963E98-F248-11E8-B48F-1D18A9856A87","last_name":"Pernia-Andrade","first_name":"Alejandro"},{"orcid":"0000-0001-5001-4804","full_name":"Jonas, Peter M","first_name":"Peter M","last_name":"Jonas","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"}],"file":[{"checksum":"438547cfcd9045a22f065f2019f07849","creator":"system","file_name":"IST-2016-422-v1+1_1-s2.0-S0896627313009227-main.pdf","relation":"main_file","content_type":"application/pdf","date_updated":"2020-07-14T12:45:35Z","date_created":"2018-12-12T10:09:48Z","access_level":"open_access","file_id":"4773","file_size":4373072}],"file_date_updated":"2020-07-14T12:45:35Z","month":"01","_id":"2254","pubrep_id":"422","language":[{"iso":"eng"}],"issue":"1","page":"140 - 152","date_updated":"2021-01-12T06:56:19Z","day":"08","publication_identifier":{"issn":["08966273"]},"doi":"10.1016/j.neuron.2013.09.046","title":"Theta-gamma-modulated synaptic currents in hippocampal granule cells in vivo define a mechanism for network oscillations","oa":1,"ec_funded":1,"year":"2014","has_accepted_license":"1","date_created":"2018-12-11T11:56:35Z","scopus_import":1,"oa_version":"Published Version","intvolume":"        81","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Neuron","publist_id":"4692","date_published":"2014-01-08T00:00:00Z","status":"public","abstract":[{"lang":"eng","text":"Theta-gamma network oscillations are thought to represent key reference signals for information processing in neuronal ensembles, but the underlying synaptic mechanisms remain unclear. To address this question, we performed whole-cell (WC) patch-clamp recordings from mature hippocampal granule cells (GCs) in vivo in the dentate gyrus of anesthetized and awake rats. GCs in vivo fired action potentials at low frequency, consistent with sparse coding in the dentate gyrus. GCs were exposed to barrages of fast AMPAR-mediated excitatory postsynaptic currents (EPSCs), primarily relayed from the entorhinal cortex, and inhibitory postsynaptic currents (IPSCs), presumably generated by local interneurons. EPSCs exhibited coherence with the field potential predominantly in the theta frequency band, whereas IPSCs showed coherence primarily in the gamma range. Action potentials in GCs were phase locked to network oscillations. Thus, theta-gamma-modulated synaptic currents may provide a framework for sparse temporal coding of information in the dentate gyrus."}],"publisher":"Elsevier","publication_status":"published","quality_controlled":"1","project":[{"_id":"25C0F108-B435-11E9-9278-68D0E5697425","name":"Nanophysiology of fast-spiking, parvalbumin-expressing GABAergic interneurons","grant_number":"268548","call_identifier":"FP7"},{"call_identifier":"FWF","grant_number":"P24909-B24","_id":"25C26B1E-B435-11E9-9278-68D0E5697425","name":"Mechanisms of transmitter release at GABAergic synapses"}],"department":[{"_id":"PeJo"}],"type":"journal_article","volume":81},{"type":"journal_article","volume":50,"publisher":"Springer","publication_status":"published","quality_controlled":"1","project":[{"grant_number":"318493","_id":"255D761E-B435-11E9-9278-68D0E5697425","name":"Topological Complex Systems","call_identifier":"FP7"}],"department":[{"_id":"HeEd"}],"intvolume":"        50","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"4691","publication":"Journal of Mathematical Imaging and Vision","status":"public","date_published":"2014-09-01T00:00:00Z","abstract":[{"text":"Motivated by applications in biology, we present an algorithm for estimating the length of tube-like shapes in 3-dimensional Euclidean space. In a first step, we combine the tube formula of Weyl with integral geometric methods to obtain an integral representation of the length, which we approximate using a variant of the Koksma-Hlawka Theorem. In a second step, we use tools from computational topology to decrease the dependence on small perturbations of the shape. We present computational experiments that shed light on the stability and the convergence rate of our algorithm.","lang":"eng"}],"date_created":"2018-12-11T11:56:36Z","scopus_import":1,"oa_version":"Submitted Version","oa":1,"year":"2014","ec_funded":1,"related_material":{"record":[{"relation":"earlier_version","id":"2843","status":"public"},{"relation":"dissertation_contains","id":"1399","status":"public"}]},"has_accepted_license":"1","date_updated":"2023-09-07T11:41:25Z","day":"01","publication_identifier":{"issn":["09249907"]},"doi":"10.1007/s10851-013-0468-x","title":"Stable length estimates of tube-like shapes","pubrep_id":"549","_id":"2255","language":[{"iso":"eng"}],"issue":"1","page":"164 - 177","ddc":["000"],"citation":{"ama":"Edelsbrunner H, Pausinger F. Stable length estimates of tube-like shapes. <i>Journal of Mathematical Imaging and Vision</i>. 2014;50(1):164-177. doi:<a href=\"https://doi.org/10.1007/s10851-013-0468-x\">10.1007/s10851-013-0468-x</a>","ista":"Edelsbrunner H, Pausinger F. 2014. Stable length estimates of tube-like shapes. Journal of Mathematical Imaging and Vision. 50(1), 164–177.","apa":"Edelsbrunner, H., &#38; Pausinger, F. (2014). Stable length estimates of tube-like shapes. <i>Journal of Mathematical Imaging and Vision</i>. Springer. <a href=\"https://doi.org/10.1007/s10851-013-0468-x\">https://doi.org/10.1007/s10851-013-0468-x</a>","chicago":"Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates of Tube-like Shapes.” <i>Journal of Mathematical Imaging and Vision</i>. Springer, 2014. <a href=\"https://doi.org/10.1007/s10851-013-0468-x\">https://doi.org/10.1007/s10851-013-0468-x</a>.","ieee":"H. Edelsbrunner and F. Pausinger, “Stable length estimates of tube-like shapes,” <i>Journal of Mathematical Imaging and Vision</i>, vol. 50, no. 1. Springer, pp. 164–177, 2014.","mla":"Edelsbrunner, Herbert, and Florian Pausinger. “Stable Length Estimates of Tube-like Shapes.” <i>Journal of Mathematical Imaging and Vision</i>, vol. 50, no. 1, Springer, 2014, pp. 164–77, doi:<a href=\"https://doi.org/10.1007/s10851-013-0468-x\">10.1007/s10851-013-0468-x</a>.","short":"H. Edelsbrunner, F. Pausinger, Journal of Mathematical Imaging and Vision 50 (2014) 164–177."},"file":[{"file_name":"IST-2016-549-v1+1_2014-J-06-LengthEstimate.pdf","relation":"main_file","checksum":"2f93f3e63a38a85cd4404d7953913b14","creator":"system","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:45:35Z","date_created":"2018-12-12T10:16:18Z","file_size":3941391,"file_id":"5204"}],"author":[{"id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert","last_name":"Edelsbrunner","orcid":"0000-0002-9823-6833","full_name":"Edelsbrunner, Herbert"},{"orcid":"0000-0002-8379-3768","full_name":"Pausinger, Florian","first_name":"Florian","last_name":"Pausinger","id":"2A77D7A2-F248-11E8-B48F-1D18A9856A87"}],"file_date_updated":"2020-07-14T12:45:35Z","month":"09"},{"year":"2014","related_material":{"record":[{"status":"public","id":"5562","relation":"popular_science"}]},"has_accepted_license":"1","oa":1,"title":"Searching for collective behavior in a large network of sensory neurons","doi":"10.1371/journal.pcbi.1003408","date_updated":"2024-02-21T13:46:14Z","publication_identifier":{"issn":["1553734X"]},"day":"02","issue":"1","acknowledgement":"\r\n\r\n\r\n\r\nThis work was funded by NSF grant IIS-0613435, NSF grant PHY-0957573, NSF grant CCF-0939370, NIH grant R01 EY14196, NIH grant P50 GM071508, the Fannie and John Hertz Foundation, the Swartz Foundation, the WM Keck Foundation, ANR Optima and the French State program “Investissements d'Avenir” [LIFESENSES: ANR-10-LABX-65], and the Austrian Research Foundation FWF P25651.","pubrep_id":"436","_id":"2257","language":[{"iso":"eng"}],"month":"01","article_number":"e1003408","file_date_updated":"2020-07-14T12:45:35Z","author":[{"full_name":"Tkacik, Gasper","orcid":"0000-0002-6699-1455","last_name":"Tkacik","first_name":"Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Marre","first_name":"Olivier","full_name":"Marre, Olivier"},{"last_name":"Amodei","first_name":"Dario","full_name":"Amodei, Dario"},{"full_name":"Schneidman, Elad","last_name":"Schneidman","first_name":"Elad"},{"full_name":"Bialek, William","first_name":"William","last_name":"Bialek"},{"full_name":"Berry, Michael","last_name":"Berry","first_name":"Michael"}],"file":[{"access_level":"open_access","date_updated":"2020-07-14T12:45:35Z","date_created":"2018-12-12T10:12:46Z","file_size":2194790,"file_id":"4965","relation":"main_file","file_name":"IST-2016-436-v1+1_journal.pcbi.1003408.pdf","checksum":"c720222c5e924a4acb17f23b9381a6ca","creator":"system","content_type":"application/pdf"}],"citation":{"chicago":"Tkačik, Gašper, Olivier Marre, Dario Amodei, Elad Schneidman, William Bialek, and Michael Berry. “Searching for Collective Behavior in a Large Network of Sensory Neurons.” <i>PLoS Computational Biology</i>. Public Library of Science, 2014. <a href=\"https://doi.org/10.1371/journal.pcbi.1003408\">https://doi.org/10.1371/journal.pcbi.1003408</a>.","ieee":"G. Tkačik, O. Marre, D. Amodei, E. Schneidman, W. Bialek, and M. Berry, “Searching for collective behavior in a large network of sensory neurons,” <i>PLoS Computational Biology</i>, vol. 10, no. 1. Public Library of Science, 2014.","short":"G. Tkačik, O. Marre, D. Amodei, E. Schneidman, W. Bialek, M. Berry, PLoS Computational Biology 10 (2014).","mla":"Tkačik, Gašper, et al. “Searching for Collective Behavior in a Large Network of Sensory Neurons.” <i>PLoS Computational Biology</i>, vol. 10, no. 1, e1003408, Public Library of Science, 2014, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1003408\">10.1371/journal.pcbi.1003408</a>.","ama":"Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry M. Searching for collective behavior in a large network of sensory neurons. <i>PLoS Computational Biology</i>. 2014;10(1). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1003408\">10.1371/journal.pcbi.1003408</a>","ista":"Tkačik G, Marre O, Amodei D, Schneidman E, Bialek W, Berry M. 2014. Searching for collective behavior in a large network of sensory neurons. PLoS Computational Biology. 10(1), e1003408.","apa":"Tkačik, G., Marre, O., Amodei, D., Schneidman, E., Bialek, W., &#38; Berry, M. (2014). Searching for collective behavior in a large network of sensory neurons. <i>PLoS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1003408\">https://doi.org/10.1371/journal.pcbi.1003408</a>"},"ddc":["570"],"main_file_link":[{"url":"http://repository.ist.ac.at/id/eprint/436","open_access":"1"}],"volume":10,"type":"journal_article","quality_controlled":"1","department":[{"_id":"GaTk"}],"publisher":"Public Library of Science","publication_status":"published","date_published":"2014-01-02T00:00:00Z","status":"public","publication":"PLoS Computational Biology","publist_id":"4689","abstract":[{"text":"Maximum entropy models are the least structured probability distributions that exactly reproduce a chosen set of statistics measured in an interacting network. Here we use this principle to construct probabilistic models which describe the correlated spiking activity of populations of up to 120 neurons in the salamander retina as it responds to natural movies. Already in groups as small as 10 neurons, interactions between spikes can no longer be regarded as small perturbations in an otherwise independent system; for 40 or more neurons pairwise interactions need to be supplemented by a global interaction that controls the distribution of synchrony in the population. Here we show that such “K-pairwise” models—being systematic extensions of the previously used pairwise Ising models—provide an excellent account of the data. We explore the properties of the neural vocabulary by: 1) estimating its entropy, which constrains the population's capacity to represent visual information; 2) classifying activity patterns into a small set of metastable collective modes; 3) showing that the neural codeword ensembles are extremely inhomogenous; 4) demonstrating that the state of individual neurons is highly predictable from the rest of the population, allowing the capacity for error correction.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"intvolume":"        10","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","date_created":"2018-12-11T11:56:36Z","scopus_import":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"},"intvolume":"        42","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2014-03-05T00:00:00Z","status":"public","publication":"Nucleic Acids Research","publist_id":"4684","abstract":[{"lang":"eng","text":"To reveal the full potential of human pluripotent stem cells, new methods for rapid, site-specific genomic engineering are needed. Here, we describe a system for precise genetic modification of human embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs). We identified a novel human locus, H11, located in a safe, intergenic, transcriptionally active region of chromosome 22, as the recipient site, to provide robust, ubiquitous expression of inserted genes. Recipient cell lines were established by site-specific placement of a ‘landing pad’ cassette carrying attP sites for phiC31 and Bxb1 integrases at the H11 locus by spontaneous or TALEN-assisted homologous recombination. Dual integrase cassette exchange (DICE) mediated by phiC31 and Bxb1 integrases was used to insert genes of interest flanked by phiC31 and Bxb1 attB sites at the H11 locus, replacing the landing pad. This system provided complete control over content, direction and copy number of inserted genes, with a specificity of 100%. A series of genes, including mCherry and various combinations of the neural transcription factors LMX1a, FOXA2 and OTX2, were inserted in recipient cell lines derived from H9 ESC, as well as iPSC lines derived from a Parkinson’s disease patient and a normal sibling control. The DICE system offers rapid, efficient and precise gene insertion in ESC and iPSC and is particularly well suited for repeated modifications of the same locus."}],"date_created":"2018-12-11T11:56:38Z","scopus_import":1,"oa_version":"Preprint","volume":42,"type":"journal_article","publisher":"Oxford University Press","publication_status":"published","quality_controlled":"1","department":[{"_id":"SiHi"}],"acknowledgement":"California Institute for Regenerative Medicine [RT2-01880 and TR2-01756]. Funding for open access charge: California Institute for Regenerative Medicine [RT2-01880 and TR2-01756]\r\nCC BY 3,0","pubrep_id":"961","_id":"2261","language":[{"iso":"eng"}],"issue":"5","citation":{"chicago":"Zhu, Fangfang, Matthew Gamboa, Alfonso Farruggio, Simon Hippenmeyer, Bosiljka Tasic, Birgitt Schüle, Yanru Chen Tsai, and Michele Calos. “DICE, an Efficient System for Iterative Genomic Editing in Human Pluripotent Stem Cells.” <i>Nucleic Acids Research</i>. Oxford University Press, 2014. <a href=\"https://doi.org/10.1093/nar/gkt1290\">https://doi.org/10.1093/nar/gkt1290</a>.","ieee":"F. Zhu <i>et al.</i>, “DICE, an efficient system for iterative genomic editing in human pluripotent stem cells,” <i>Nucleic Acids Research</i>, vol. 42, no. 5. Oxford University Press, 2014.","short":"F. Zhu, M. Gamboa, A. Farruggio, S. Hippenmeyer, B. Tasic, B. Schüle, Y. Chen Tsai, M. Calos, Nucleic Acids Research 42 (2014).","mla":"Zhu, Fangfang, et al. “DICE, an Efficient System for Iterative Genomic Editing in Human Pluripotent Stem Cells.” <i>Nucleic Acids Research</i>, vol. 42, no. 5, e34, Oxford University Press, 2014, doi:<a href=\"https://doi.org/10.1093/nar/gkt1290\">10.1093/nar/gkt1290</a>.","ama":"Zhu F, Gamboa M, Farruggio A, et al. DICE, an efficient system for iterative genomic editing in human pluripotent stem cells. <i>Nucleic Acids Research</i>. 2014;42(5). doi:<a href=\"https://doi.org/10.1093/nar/gkt1290\">10.1093/nar/gkt1290</a>","ista":"Zhu F, Gamboa M, Farruggio A, Hippenmeyer S, Tasic B, Schüle B, Chen Tsai Y, Calos M. 2014. DICE, an efficient system for iterative genomic editing in human pluripotent stem cells. Nucleic Acids Research. 42(5), e34.","apa":"Zhu, F., Gamboa, M., Farruggio, A., Hippenmeyer, S., Tasic, B., Schüle, B., … Calos, M. (2014). DICE, an efficient system for iterative genomic editing in human pluripotent stem cells. <i>Nucleic Acids Research</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/nar/gkt1290\">https://doi.org/10.1093/nar/gkt1290</a>"},"ddc":["571","610"],"month":"03","file_date_updated":"2020-07-14T12:45:35Z","article_number":"e34","file":[{"file_name":"IST-2018-961-v1+1_2014_Hippenmeyer_DICE.pdf","relation":"main_file","checksum":"e9268f5f96a820f04d7ebbf85927c3cb","creator":"system","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:45:35Z","date_created":"2018-12-12T10:09:15Z","file_size":11044478,"file_id":"4738"}],"author":[{"full_name":"Zhu, Fangfang","first_name":"Fangfang","last_name":"Zhu"},{"full_name":"Gamboa, Matthew","last_name":"Gamboa","first_name":"Matthew"},{"full_name":"Farruggio, Alfonso","first_name":"Alfonso","last_name":"Farruggio"},{"id":"37B36620-F248-11E8-B48F-1D18A9856A87","first_name":"Simon","last_name":"Hippenmeyer","orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon"},{"full_name":"Tasic, Bosiljka","last_name":"Tasic","first_name":"Bosiljka"},{"first_name":"Birgitt","last_name":"Schüle","full_name":"Schüle, Birgitt"},{"last_name":"Chen Tsai","first_name":"Yanru","full_name":"Chen Tsai, Yanru"},{"last_name":"Calos","first_name":"Michele","full_name":"Calos, Michele"}],"oa":1,"year":"2014","has_accepted_license":"1","date_updated":"2021-01-12T06:56:22Z","day":"05","title":"DICE, an efficient system for iterative genomic editing in human pluripotent stem cells","doi":"10.1093/nar/gkt1290"},{"quality_controlled":"1","department":[{"_id":"SiHi"}],"title":"Molecular pathways controlling the sequential steps of cortical projection neuron migration","editor":[{"full_name":"Nguyen, Laurent","last_name":"Nguyen","first_name":"Laurent"}],"doi":"10.1007/978-94-007-7687-6_1","publisher":"Springer","date_updated":"2021-01-12T06:56:23Z","publication_status":"published","day":"01","year":"2014","volume":800,"type":"book_chapter","month":"01","oa_version":"None","author":[{"last_name":"Hippenmeyer","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","full_name":"Hippenmeyer, Simon","orcid":"0000-0003-2279-1061"}],"date_created":"2018-12-11T11:56:39Z","citation":{"ama":"Hippenmeyer S. Molecular pathways controlling the sequential steps of cortical projection neuron migration. In: Nguyen L, ed. <i> Cellular and Molecular Control of Neuronal Migration</i>. Vol 800. Springer; 2014:1-24. doi:<a href=\"https://doi.org/10.1007/978-94-007-7687-6_1\">10.1007/978-94-007-7687-6_1</a>","ista":"Hippenmeyer S. 2014.Molecular pathways controlling the sequential steps of cortical projection neuron migration. In:  Cellular and Molecular Control of Neuronal Migration. Advances in Experimental Medicine and Biology, vol. 800, 1–24.","apa":"Hippenmeyer, S. (2014). Molecular pathways controlling the sequential steps of cortical projection neuron migration. In L. Nguyen (Ed.), <i> Cellular and Molecular Control of Neuronal Migration</i> (Vol. 800, pp. 1–24). Springer. <a href=\"https://doi.org/10.1007/978-94-007-7687-6_1\">https://doi.org/10.1007/978-94-007-7687-6_1</a>","chicago":"Hippenmeyer, Simon. “Molecular Pathways Controlling the Sequential Steps of Cortical Projection Neuron Migration.” In <i> Cellular and Molecular Control of Neuronal Migration</i>, edited by Laurent Nguyen, 800:1–24. Springer, 2014. <a href=\"https://doi.org/10.1007/978-94-007-7687-6_1\">https://doi.org/10.1007/978-94-007-7687-6_1</a>.","ieee":"S. Hippenmeyer, “Molecular pathways controlling the sequential steps of cortical projection neuron migration,” in <i> Cellular and Molecular Control of Neuronal Migration</i>, vol. 800, L. Nguyen, Ed. Springer, 2014, pp. 1–24.","short":"S. Hippenmeyer, in:, L. Nguyen (Ed.),  Cellular and Molecular Control of Neuronal Migration, Springer, 2014, pp. 1–24.","mla":"Hippenmeyer, Simon. “Molecular Pathways Controlling the Sequential Steps of Cortical Projection Neuron Migration.” <i> Cellular and Molecular Control of Neuronal Migration</i>, edited by Laurent Nguyen, vol. 800, Springer, 2014, pp. 1–24, doi:<a href=\"https://doi.org/10.1007/978-94-007-7687-6_1\">10.1007/978-94-007-7687-6_1</a>."},"alternative_title":["Advances in Experimental Medicine and Biology"],"scopus_import":1,"date_published":"2014-01-01T00:00:00Z","status":"public","publication":" Cellular and Molecular Control of Neuronal Migration","publist_id":"4679","abstract":[{"text":"Coordinated migration of newly-born neurons to their target territories is essential for correct neuronal circuit assembly in the developing brain. Although a cohort of signaling pathways has been implicated in the regulation of cortical projection neuron migration, the precise molecular mechanisms and how a balanced interplay of cell-autonomous and non-autonomous functions of candidate signaling molecules controls the discrete steps in the migration process, are just being revealed. In this chapter, I will focally review recent advances that improved our understanding of the cell-autonomous and possible cell-nonautonomous functions of the evolutionarily conserved LIS1/NDEL1-complex in regulating the sequential steps of cortical projection neuron migration. I will then elaborate on the emerging concept that the Reelin signaling pathway, acts exactly at precise stages in the course of cortical projection neuron migration. Lastly, I will discuss how finely tuned transcriptional programs and downstream effectors govern particular aspects in driving radial migration at discrete stages and how they regulate the precise positioning of cortical projection neurons in the developing cerebral cortex.","lang":"eng"}],"page":"1 - 24","_id":"2265","language":[{"iso":"eng"}],"intvolume":"       800","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87"},{"month":"03","file_date_updated":"2020-07-14T12:45:36Z","author":[{"last_name":"Olsson","first_name":"Carl","full_name":"Olsson, Carl"},{"full_name":"Ulen, Johannes","first_name":"Johannes","last_name":"Ulen"},{"last_name":"Boykov","first_name":"Yuri","full_name":"Boykov, Yuri"},{"full_name":"Kolmogorov, Vladimir","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","last_name":"Kolmogorov","first_name":"Vladimir"}],"file":[{"content_type":"application/pdf","relation":"main_file","file_name":"IST-2016-566-v1+1_iccv13_part_enumeration.pdf","creator":"system","checksum":"4a74b5c92d6dcd2348c2c10ec8dd18bf","file_size":378601,"file_id":"4754","access_level":"open_access","date_created":"2018-12-12T10:09:30Z","date_updated":"2020-07-14T12:45:36Z"}],"citation":{"mla":"Olsson, Carl, et al. <i>Partial Enumeration and Curvature Regularization</i>. IEEE, 2014, pp. 2936–43, doi:<a href=\"https://doi.org/10.1109/ICCV.2013.365\">10.1109/ICCV.2013.365</a>.","short":"C. Olsson, J. Ulen, Y. Boykov, V. Kolmogorov, in:, IEEE, 2014, pp. 2936–2943.","ieee":"C. Olsson, J. Ulen, Y. Boykov, and V. Kolmogorov, “Partial enumeration and curvature regularization,” presented at the ICCV: International Conference on Computer Vision, Sydney, Australia, 2014, pp. 2936–2943.","chicago":"Olsson, Carl, Johannes Ulen, Yuri Boykov, and Vladimir Kolmogorov. “Partial Enumeration and Curvature Regularization,” 2936–43. IEEE, 2014. <a href=\"https://doi.org/10.1109/ICCV.2013.365\">https://doi.org/10.1109/ICCV.2013.365</a>.","apa":"Olsson, C., Ulen, J., Boykov, Y., &#38; Kolmogorov, V. (2014). Partial enumeration and curvature regularization (pp. 2936–2943). Presented at the ICCV: International Conference on Computer Vision, Sydney, Australia: IEEE. <a href=\"https://doi.org/10.1109/ICCV.2013.365\">https://doi.org/10.1109/ICCV.2013.365</a>","ista":"Olsson C, Ulen J, Boykov Y, Kolmogorov V. 2014. Partial enumeration and curvature regularization. ICCV: International Conference on Computer Vision, 2936–2943.","ama":"Olsson C, Ulen J, Boykov Y, Kolmogorov V. Partial enumeration and curvature regularization. In: IEEE; 2014:2936-2943. doi:<a href=\"https://doi.org/10.1109/ICCV.2013.365\">10.1109/ICCV.2013.365</a>"},"ddc":["000"],"page":"2936 - 2943","pubrep_id":"566","language":[{"iso":"eng"}],"_id":"2275","title":"Partial enumeration and curvature regularization","doi":"10.1109/ICCV.2013.365","day":"03","date_updated":"2021-01-12T06:56:28Z","has_accepted_license":"1","conference":{"name":"ICCV: International Conference on Computer Vision","location":"Sydney, Australia","end_date":"2013-12-08","start_date":"2013-12-01"},"year":"2014","oa":1,"oa_version":"Submitted Version","scopus_import":1,"date_created":"2018-12-11T11:56:42Z","abstract":[{"text":"Energies with high-order non-submodular interactions have been shown to be very useful in vision due to their high modeling power. Optimization of such energies, however, is generally NP-hard. A naive approach that works for small problem instances is exhaustive search, that is, enumeration of all possible labelings of the underlying graph. We propose a general minimization approach for large graphs based on enumeration of labelings of certain small patches. \r\nThis partial enumeration technique reduces complex high-order energy formulations to pairwise Constraint Satisfaction Problems with unary costs (uCSP), which can be efficiently solved using standard methods like TRW-S. Our approach outperforms a number of existing state-of-the-art algorithms on well known difficult problems (e.g. curvature regularization, stereo, deconvolution); it gives near global minimum and better speed. \r\nOur main application of interest is curvature regularization. In the context of segmentation, our partial enumeration technique allows to evaluate curvature directly on small patches using a novel integral geometry approach.\r\n","lang":"eng"}],"status":"public","date_published":"2014-03-03T00:00:00Z","publist_id":"4669","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"VlKo"}],"quality_controlled":"1","publication_status":"published","publisher":"IEEE","type":"conference"},{"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1301.5682"}],"volume":104,"type":"journal_article","department":[{"_id":"RoSe"}],"quality_controlled":"1","publication_status":"published","publisher":"Springer","abstract":[{"lang":"eng","text":"We consider two-dimensional Bose-Einstein condensates with attractive interaction, described by the Gross-Pitaevskii functional. Minimizers of this functional exist only if the interaction strength a satisfies {Mathematical expression}, where Q is the unique positive radial solution of {Mathematical expression} in {Mathematical expression}. We present a detailed analysis of the behavior of minimizers as a approaches a*, where all the mass concentrates at a global minimum of the trapping potential."}],"date_published":"2014-02-01T00:00:00Z","status":"public","publication":"Letters in Mathematical Physics","publist_id":"4653","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"       104","oa_version":"Preprint","scopus_import":"1","date_created":"2018-12-11T11:56:44Z","year":"2014","article_processing_charge":"No","oa":1,"title":"On the mass concentration for Bose-Einstein condensates with attractive interactions","doi":"10.1007/s11005-013-0667-9","external_id":{"arxiv":["1301.5682"]},"day":"01","date_updated":"2024-02-14T12:19:42Z","page":"141 - 156","issue":"2","language":[{"iso":"eng"}],"_id":"2281","month":"02","author":[{"last_name":"Guo","first_name":"Yujin","full_name":"Guo, Yujin"},{"id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","first_name":"Robert","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521"}],"article_type":"original","citation":{"short":"Y. Guo, R. Seiringer, Letters in Mathematical Physics 104 (2014) 141–156.","mla":"Guo, Yujin, and Robert Seiringer. “On the Mass Concentration for Bose-Einstein Condensates with Attractive Interactions.” <i>Letters in Mathematical Physics</i>, vol. 104, no. 2, Springer, 2014, pp. 141–56, doi:<a href=\"https://doi.org/10.1007/s11005-013-0667-9\">10.1007/s11005-013-0667-9</a>.","chicago":"Guo, Yujin, and Robert Seiringer. “On the Mass Concentration for Bose-Einstein Condensates with Attractive Interactions.” <i>Letters in Mathematical Physics</i>. Springer, 2014. <a href=\"https://doi.org/10.1007/s11005-013-0667-9\">https://doi.org/10.1007/s11005-013-0667-9</a>.","ieee":"Y. Guo and R. Seiringer, “On the mass concentration for Bose-Einstein condensates with attractive interactions,” <i>Letters in Mathematical Physics</i>, vol. 104, no. 2. Springer, pp. 141–156, 2014.","ista":"Guo Y, Seiringer R. 2014. On the mass concentration for Bose-Einstein condensates with attractive interactions. Letters in Mathematical Physics. 104(2), 141–156.","apa":"Guo, Y., &#38; Seiringer, R. (2014). On the mass concentration for Bose-Einstein condensates with attractive interactions. <i>Letters in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s11005-013-0667-9\">https://doi.org/10.1007/s11005-013-0667-9</a>","ama":"Guo Y, Seiringer R. On the mass concentration for Bose-Einstein condensates with attractive interactions. <i>Letters in Mathematical Physics</i>. 2014;104(2):141-156. doi:<a href=\"https://doi.org/10.1007/s11005-013-0667-9\">10.1007/s11005-013-0667-9</a>"},"arxiv":1},{"has_accepted_license":"1","year":"2014","oa":1,"doi":"10.1002/hipo.22214","title":"Morpho-physiological criteria divide dentate gyrus interneurons into classes","day":"01","date_updated":"2021-01-12T06:56:32Z","page":"189 - 203","issue":"2","language":[{"iso":"eng"}],"_id":"2285","pubrep_id":"461","acknowledgement":"Funded by Deutsche Forschungsgemeinschaft. Grant Numbers: SFB 505, SFB 780, BA1582/2-1 Excellence Initiative of the German Research Foundation (Spemann Graduate School). Grant Number: GSC-4 Lichtenberg Professorship-Award (VW-Foundation); Schram-Foundation; Excellence Initiative Brain Links-Brain Tools. The authors thank Drs. Jonas-Frederic Sauer and Claudio Elgueta for critically reading the manuscript. They also thank Karin Winterhalter, Margit Northemann and Ulrich Nöller for technical assistance.","file":[{"relation":"main_file","file_name":"IST-2016-461-v1+1_Hosp_et_al-2014-Hippocampus.pdf","checksum":"ff6bc75a79dbc985a2e31b79253e6444","creator":"system","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:45:37Z","date_created":"2018-12-12T10:15:54Z","file_size":801589,"file_id":"5178"}],"author":[{"last_name":"Hosp","first_name":"Jonas","full_name":"Hosp, Jonas"},{"first_name":"Michael","last_name":"Strüber","full_name":"Strüber, Michael"},{"last_name":"Yanagawa","first_name":"Yuchio","full_name":"Yanagawa, Yuchio"},{"full_name":"Obata, Kunihiko","last_name":"Obata","first_name":"Kunihiko"},{"last_name":"Vida","first_name":"Imre","full_name":"Vida, Imre"},{"full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas","first_name":"Peter M"},{"last_name":"Bartos","first_name":"Marlene","full_name":"Bartos, Marlene"}],"month":"02","file_date_updated":"2020-07-14T12:45:37Z","ddc":["570"],"citation":{"apa":"Hosp, J., Strüber, M., Yanagawa, Y., Obata, K., Vida, I., Jonas, P. M., &#38; Bartos, M. (2014). Morpho-physiological criteria divide dentate gyrus interneurons into classes. <i>Hippocampus</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1002/hipo.22214\">https://doi.org/10.1002/hipo.22214</a>","ista":"Hosp J, Strüber M, Yanagawa Y, Obata K, Vida I, Jonas PM, Bartos M. 2014. Morpho-physiological criteria divide dentate gyrus interneurons into classes. Hippocampus. 23(2), 189–203.","ama":"Hosp J, Strüber M, Yanagawa Y, et al. Morpho-physiological criteria divide dentate gyrus interneurons into classes. <i>Hippocampus</i>. 2014;23(2):189-203. doi:<a href=\"https://doi.org/10.1002/hipo.22214\">10.1002/hipo.22214</a>","mla":"Hosp, Jonas, et al. “Morpho-Physiological Criteria Divide Dentate Gyrus Interneurons into Classes.” <i>Hippocampus</i>, vol. 23, no. 2, Wiley-Blackwell, 2014, pp. 189–203, doi:<a href=\"https://doi.org/10.1002/hipo.22214\">10.1002/hipo.22214</a>.","short":"J. Hosp, M. Strüber, Y. Yanagawa, K. Obata, I. Vida, P.M. Jonas, M. Bartos, Hippocampus 23 (2014) 189–203.","ieee":"J. Hosp <i>et al.</i>, “Morpho-physiological criteria divide dentate gyrus interneurons into classes,” <i>Hippocampus</i>, vol. 23, no. 2. Wiley-Blackwell, pp. 189–203, 2014.","chicago":"Hosp, Jonas, Michael Strüber, Yuchio Yanagawa, Kunihiko Obata, Imre Vida, Peter M Jonas, and Marlene Bartos. “Morpho-Physiological Criteria Divide Dentate Gyrus Interneurons into Classes.” <i>Hippocampus</i>. Wiley-Blackwell, 2014. <a href=\"https://doi.org/10.1002/hipo.22214\">https://doi.org/10.1002/hipo.22214</a>."},"type":"journal_article","volume":23,"department":[{"_id":"PeJo"}],"quality_controlled":"1","publication_status":"published","publisher":"Wiley-Blackwell","abstract":[{"lang":"eng","text":"GABAergic inhibitory interneurons control fundamental aspects of neuronal network function. Their functional roles are assumed to be defined by the identity of their input synapses, the architecture of their dendritic tree, the passive and active membrane properties and finally the nature of their postsynaptic targets. Indeed, interneurons display a high degree of morphological and physiological heterogeneity. However, whether their morphological and physiological characteristics are correlated and whether interneuron diversity can be described by a continuum of GABAergic cell types or by distinct classes has remained unclear. Here we perform a detailed morphological and physiological characterization of GABAergic cells in the dentate gyrus, the input region of the hippocampus. To achieve an unbiased and efficient sampling and classification we used knock-in mice expressing the enhanced green fluorescent protein (eGFP) in glutamate decarboxylase 67 (GAD67)-positive neurons and performed cluster analysis. We identified five interneuron classes, each of them characterized by a distinct set of anatomical and physiological parameters. Cross-correlation analysis further revealed a direct relation between morphological and physiological properties indicating that dentate gyrus interneurons fall into functionally distinct classes which may differentially control neuronal network activity."}],"publication":"Hippocampus","publist_id":"4646","date_published":"2014-02-01T00:00:00Z","status":"public","user_id":"3FFCCD3A-F248-11E8-B48F-1D18A9856A87","intvolume":"        23","license":"https://creativecommons.org/licenses/by-nc/4.0/","tmp":{"image":"/images/cc_by_nc.png","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","short":"CC BY-NC (4.0)"},"oa_version":"Published Version","scopus_import":1,"date_created":"2018-12-11T11:56:46Z"},{"department":[{"_id":"LaEr"}],"title":"Universality of general β-ensembles","doi":"10.1215/00127094-2649752","quality_controlled":"1","publication_status":"published","day":"01","publisher":"Duke University Press","date_updated":"2021-01-12T06:59:07Z","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1104.2272"}],"year":"2014","volume":163,"type":"journal_article","oa":1,"month":"04","author":[{"full_name":"Erdös, László","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","last_name":"Erdös","first_name":"László"},{"first_name":"Paul","last_name":"Bourgade","full_name":"Bourgade, Paul"},{"full_name":"Yau, Horng","first_name":"Horng","last_name":"Yau"}],"oa_version":"Preprint","scopus_import":1,"citation":{"ista":"Erdös L, Bourgade P, Yau H. 2014. Universality of general β-ensembles. Duke Mathematical Journal. 163(6), 1127–1190.","apa":"Erdös, L., Bourgade, P., &#38; Yau, H. (2014). Universality of general β-ensembles. <i>Duke Mathematical Journal</i>. Duke University Press. <a href=\"https://doi.org/10.1215/00127094-2649752\">https://doi.org/10.1215/00127094-2649752</a>","ama":"Erdös L, Bourgade P, Yau H. Universality of general β-ensembles. <i>Duke Mathematical Journal</i>. 2014;163(6):1127-1190. doi:<a href=\"https://doi.org/10.1215/00127094-2649752\">10.1215/00127094-2649752</a>","short":"L. Erdös, P. Bourgade, H. Yau, Duke Mathematical Journal 163 (2014) 1127–1190.","mla":"Erdös, László, et al. “Universality of General β-Ensembles.” <i>Duke Mathematical Journal</i>, vol. 163, no. 6, Duke University Press, 2014, pp. 1127–90, doi:<a href=\"https://doi.org/10.1215/00127094-2649752\">10.1215/00127094-2649752</a>.","chicago":"Erdös, László, Paul Bourgade, and Horng Yau. “Universality of General β-Ensembles.” <i>Duke Mathematical Journal</i>. Duke University Press, 2014. <a href=\"https://doi.org/10.1215/00127094-2649752\">https://doi.org/10.1215/00127094-2649752</a>.","ieee":"L. Erdös, P. Bourgade, and H. Yau, “Universality of general β-ensembles,” <i>Duke Mathematical Journal</i>, vol. 163, no. 6. Duke University Press, pp. 1127–1190, 2014."},"date_created":"2018-12-11T11:59:08Z","abstract":[{"lang":"eng","text":"We prove the universality of the β-ensembles with convex analytic potentials and for any β &gt;\r\n0, i.e. we show that the spacing distributions of log-gases at any inverse temperature β coincide with those of the Gaussian β-ensembles."}],"page":"1127 - 1190","date_published":"2014-04-01T00:00:00Z","status":"public","issue":"6","publication":"Duke Mathematical Journal","publist_id":"4197","user_id":"3FFCCD3A-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"_id":"2699","intvolume":"       163"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        51","abstract":[{"lang":"eng","text":"Multi-dimensional mean-payoff and energy games provide the mathematical foundation for the quantitative study of reactive systems, and play a central role in the emerging quantitative theory of verification and synthesis. In this work, we study the strategy synthesis problem for games with such multi-dimensional objectives along with a parity condition, a canonical way to express ω ω -regular conditions. While in general, the winning strategies in such games may require infinite memory, for synthesis the most relevant problem is the construction of a finite-memory winning strategy (if one exists). Our main contributions are as follows. First, we show a tight exponential bound (matching upper and lower bounds) on the memory required for finite-memory winning strategies in both multi-dimensional mean-payoff and energy games along with parity objectives. This significantly improves the triple exponential upper bound for multi energy games (without parity) that could be derived from results in literature for games on vector addition systems with states. Second, we present an optimal symbolic and incremental algorithm to compute a finite-memory winning strategy (if one exists) in such games. Finally, we give a complete characterization of when finite memory of strategies can be traded off for randomness. In particular, we show that for one-dimension mean-payoff parity games, randomized memoryless strategies are as powerful as their pure finite-memory counterparts."}],"publist_id":"4176","publication":"Acta Informatica","date_published":"2014-06-01T00:00:00Z","status":"public","scopus_import":"1","date_created":"2018-12-11T11:59:14Z","oa_version":"Preprint","type":"journal_article","volume":51,"main_file_link":[{"url":"http://arxiv.org/abs/1201.5073","open_access":"1"}],"publication_status":"published","publisher":"Springer","department":[{"_id":"KrCh"}],"quality_controlled":"1","project":[{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407"}],"_id":"2716","language":[{"iso":"eng"}],"acknowledgement":"Krishnendu Chatterjee is supported by Austrian Science Fund (FWF) Grant No P 23499-N23, FWF NFN Grant No S11407 (RiSE), ERC Starting Grant (279307: Graph Games) and Microsoft faculty fellowship. Mickael Randour is supported by F.R.S.-FNRS. fellowship. \r\nJean-François Raskin is supported by ERC Starting Grant (279499: inVEST).Thanks to D. Sbabo for useful pointers, V. Bruyère for comments on a preliminary draft, and A. Bohy for fruitful discussions about the Acacia+ tool. We are grateful to the anonymous reviewers for their insightful comments. ","page":"129 - 163","issue":"3-4","article_type":"original","citation":{"mla":"Chatterjee, Krishnendu, et al. “Strategy Synthesis for Multi-Dimensional Quantitative Objectives.” <i>Acta Informatica</i>, vol. 51, no. 3–4, Springer, 2014, pp. 129–63, doi:<a href=\"https://doi.org/10.1007/s00236-013-0182-6\">10.1007/s00236-013-0182-6</a>.","short":"K. Chatterjee, M. Randour, J. Raskin, Acta Informatica 51 (2014) 129–163.","chicago":"Chatterjee, Krishnendu, Mickael Randour, and Jean Raskin. “Strategy Synthesis for Multi-Dimensional Quantitative Objectives.” <i>Acta Informatica</i>. Springer, 2014. <a href=\"https://doi.org/10.1007/s00236-013-0182-6\">https://doi.org/10.1007/s00236-013-0182-6</a>.","ieee":"K. Chatterjee, M. Randour, and J. Raskin, “Strategy synthesis for multi-dimensional quantitative objectives,” <i>Acta Informatica</i>, vol. 51, no. 3–4. Springer, pp. 129–163, 2014.","ista":"Chatterjee K, Randour M, Raskin J. 2014. Strategy synthesis for multi-dimensional quantitative objectives. Acta Informatica. 51(3–4), 129–163.","apa":"Chatterjee, K., Randour, M., &#38; Raskin, J. (2014). Strategy synthesis for multi-dimensional quantitative objectives. <i>Acta Informatica</i>. Springer. <a href=\"https://doi.org/10.1007/s00236-013-0182-6\">https://doi.org/10.1007/s00236-013-0182-6</a>","ama":"Chatterjee K, Randour M, Raskin J. Strategy synthesis for multi-dimensional quantitative objectives. <i>Acta Informatica</i>. 2014;51(3-4):129-163. doi:<a href=\"https://doi.org/10.1007/s00236-013-0182-6\">10.1007/s00236-013-0182-6</a>"},"arxiv":1,"author":[{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","last_name":"Chatterjee"},{"first_name":"Mickael","last_name":"Randour","full_name":"Randour, Mickael"},{"full_name":"Raskin, Jean","first_name":"Jean","last_name":"Raskin"}],"month":"06","oa":1,"article_processing_charge":"No","related_material":{"record":[{"status":"public","id":"10904","relation":"earlier_version"}]},"year":"2014","day":"01","date_updated":"2023-02-21T16:06:56Z","doi":"10.1007/s00236-013-0182-6","title":"Strategy synthesis for multi-dimensional quantitative objectives","external_id":{"arxiv":["1201.5073"]}},{"related_material":{"record":[{"status":"public","id":"3225","relation":"earlier_version"}]},"year":"2014","volume":27,"type":"journal_article","title":"Robust multi-property combiners for hash functions","department":[{"_id":"KrPi"}],"doi":"10.1007/s00145-013-9148-7","quality_controlled":"1","publication_status":"published","day":"01","publisher":"Springer","date_updated":"2023-02-23T11:17:53Z","abstract":[{"text":"A robust combiner for hash functions takes two candidate implementations and constructs a hash function which is secure as long as at least one of the candidates is secure. So far, hash function combiners only aim at preserving a single property such as collision-resistance or pseudorandomness. However, when hash functions are used in protocols like TLS they are often required to provide several properties simultaneously. We therefore put forward the notion of robust multi-property combiners and elaborate on different definitions for such combiners. We then propose a combiner that provably preserves (target) collision-resistance, pseudorandomness, and being a secure message authentication code. This combiner satisfies the strongest notion we propose, which requires that the combined function satisfies every security property which is satisfied by at least one of the underlying hash function. If the underlying hash functions have output length n, the combiner has output length 2 n. This basically matches a known lower bound for black-box combiners for collision-resistance only, thus the other properties can be achieved without penalizing the length of the hash values. We then propose a combiner which also preserves the property of being indifferentiable from a random oracle, slightly increasing the output length to 2 n+ω(log n). Moreover, we show how to augment our constructions in order to make them also robust for the one-wayness property, but in this case require an a priory upper bound on the input length.","lang":"eng"}],"page":"397 - 428","date_published":"2014-07-01T00:00:00Z","status":"public","publication":"Journal of Cryptology","publist_id":"3940","issue":"3","user_id":"3FFCCD3A-F248-11E8-B48F-1D18A9856A87","_id":"2852","language":[{"iso":"eng"}],"intvolume":"        27","month":"07","author":[{"full_name":"Fischlin, Marc","first_name":"Marc","last_name":"Fischlin"},{"first_name":"Anja","last_name":"Lehmann","full_name":"Lehmann, Anja"},{"last_name":"Pietrzak","first_name":"Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z"}],"oa_version":"None","scopus_import":1,"date_created":"2018-12-11T11:59:56Z","citation":{"ama":"Fischlin M, Lehmann A, Pietrzak KZ. Robust multi-property combiners for hash functions. <i>Journal of Cryptology</i>. 2014;27(3):397-428. doi:<a href=\"https://doi.org/10.1007/s00145-013-9148-7\">10.1007/s00145-013-9148-7</a>","ista":"Fischlin M, Lehmann A, Pietrzak KZ. 2014. Robust multi-property combiners for hash functions. Journal of Cryptology. 27(3), 397–428.","apa":"Fischlin, M., Lehmann, A., &#38; Pietrzak, K. Z. (2014). Robust multi-property combiners for hash functions. <i>Journal of Cryptology</i>. Springer. <a href=\"https://doi.org/10.1007/s00145-013-9148-7\">https://doi.org/10.1007/s00145-013-9148-7</a>","chicago":"Fischlin, Marc, Anja Lehmann, and Krzysztof Z Pietrzak. “Robust Multi-Property Combiners for Hash Functions.” <i>Journal of Cryptology</i>. Springer, 2014. <a href=\"https://doi.org/10.1007/s00145-013-9148-7\">https://doi.org/10.1007/s00145-013-9148-7</a>.","ieee":"M. Fischlin, A. Lehmann, and K. Z. Pietrzak, “Robust multi-property combiners for hash functions,” <i>Journal of Cryptology</i>, vol. 27, no. 3. Springer, pp. 397–428, 2014.","mla":"Fischlin, Marc, et al. “Robust Multi-Property Combiners for Hash Functions.” <i>Journal of Cryptology</i>, vol. 27, no. 3, Springer, 2014, pp. 397–428, doi:<a href=\"https://doi.org/10.1007/s00145-013-9148-7\">10.1007/s00145-013-9148-7</a>.","short":"M. Fischlin, A. Lehmann, K.Z. Pietrzak, Journal of Cryptology 27 (2014) 397–428."}},{"acknowledgement":"This research is partially supported by NSF under grant DBI-0820624, by ESF under the Research Networking Programme, and by the Russian Government Project 11.G34.31.0053.","_id":"2905","language":[{"iso":"eng"}],"pubrep_id":"544","page":"31 - 50","citation":{"mla":"Edelsbrunner, Herbert, and Dmitriy Morozovy. <i>Persistent Homology: Theory and Practice</i>. European Mathematical Society Publishing House, 2014, pp. 31–50, doi:<a href=\"https://doi.org/10.4171/120-1/3\">10.4171/120-1/3</a>.","short":"H. Edelsbrunner, D. Morozovy, in:, European Mathematical Society Publishing House, 2014, pp. 31–50.","ieee":"H. Edelsbrunner and D. Morozovy, “Persistent homology: Theory and practice,” presented at the ECM: European Congress of Mathematics, Kraków, Poland, 2014, pp. 31–50.","chicago":"Edelsbrunner, Herbert, and Dmitriy Morozovy. “Persistent Homology: Theory and Practice,” 31–50. European Mathematical Society Publishing House, 2014. <a href=\"https://doi.org/10.4171/120-1/3\">https://doi.org/10.4171/120-1/3</a>.","apa":"Edelsbrunner, H., &#38; Morozovy, D. (2014). Persistent homology: Theory and practice (pp. 31–50). Presented at the ECM: European Congress of Mathematics, Kraków, Poland: European Mathematical Society Publishing House. <a href=\"https://doi.org/10.4171/120-1/3\">https://doi.org/10.4171/120-1/3</a>","ista":"Edelsbrunner H, Morozovy D. 2014. Persistent homology: Theory and practice. ECM: European Congress of Mathematics, 31–50.","ama":"Edelsbrunner H, Morozovy D. Persistent homology: Theory and practice. In: European Mathematical Society Publishing House; 2014:31-50. doi:<a href=\"https://doi.org/10.4171/120-1/3\">10.4171/120-1/3</a>"},"ddc":["000"],"file_date_updated":"2020-07-14T12:45:52Z","month":"01","file":[{"file_name":"IST-2016-544-v1+1_2012-P-11-PHTheoryPractice.pdf","relation":"main_file","creator":"system","checksum":"1d4a046f1af945c407c5c4d411d4c5e4","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:45:52Z","date_created":"2018-12-12T10:16:43Z","file_size":435320,"file_id":"5232"}],"author":[{"full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Morozovy","first_name":"Dmitriy","full_name":"Morozovy, Dmitriy"}],"oa":1,"article_processing_charge":"No","year":"2014","has_accepted_license":"1","conference":{"location":"Kraków, Poland","name":"ECM: European Congress of Mathematics","start_date":"2012-07-02","end_date":"2012-07-07"},"date_updated":"2021-01-12T07:00:36Z","day":"01","title":"Persistent homology: Theory and practice","doi":"10.4171/120-1/3","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2014-01-01T00:00:00Z","status":"public","publist_id":"3842","abstract":[{"text":"Persistent homology is a recent grandchild of homology that has found use in\r\nscience and engineering as well as in mathematics. This paper surveys the method as well\r\nas the applications, neglecting completeness in favor of highlighting ideas and directions.","lang":"eng"}],"date_created":"2018-12-11T12:00:16Z","oa_version":"Submitted Version","type":"conference","publisher":"European Mathematical Society Publishing House","publication_status":"published","quality_controlled":"1","department":[{"_id":"HeEd"}]},{"scopus_import":1,"date_created":"2018-12-11T12:02:20Z","oa_version":"Published Version","user_id":"3FFCCD3A-F248-11E8-B48F-1D18A9856A87","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"},"intvolume":"         9","abstract":[{"text":"Adaptation in the retina is thought to optimize the encoding of natural light signals into sequences of spikes sent to the brain. While adaptive changes in retinal processing to the variations of the mean luminance level and second-order stimulus statistics have been documented before, no such measurements have been performed when higher-order moments of the light distribution change. We therefore measured the ganglion cell responses in the tiger salamander retina to controlled changes in the second (contrast), third (skew) and fourth (kurtosis) moments of the light intensity distribution of spatially uniform temporally independent stimuli. The skew and kurtosis of the stimuli were chosen to cover the range observed in natural scenes. We quantified adaptation in ganglion cells by studying linear-nonlinear models that capture well the retinal encoding properties across all stimuli. We found that the encoding properties of retinal ganglion cells change only marginally when higher-order statistics change, compared to the changes observed in response to the variation in contrast. By analyzing optimal coding in LN-type models, we showed that neurons can maintain a high information rate without large dynamic adaptation to changes in skew or kurtosis. This is because, for uncorrelated stimuli, spatio-temporal summation within the receptive field averages away non-gaussian aspects of the light intensity distribution.","lang":"eng"}],"date_published":"2014-01-21T00:00:00Z","status":"public","publication":"PLoS One","publist_id":"3385","publication_status":"published","publisher":"Public Library of Science","department":[{"_id":"GaTk"}],"quality_controlled":"1","volume":9,"type":"journal_article","citation":{"short":"G. Tkačik, A. Ghosh, E. Schneidman, R. Segev, PLoS One 9 (2014).","mla":"Tkačik, Gašper, et al. “Adaptation to Changes in Higher-Order Stimulus Statistics in the Salamander Retina.” <i>PLoS One</i>, vol. 9, no. 1, e85841, Public Library of Science, 2014, doi:<a href=\"https://doi.org/10.1371/journal.pone.0085841\">10.1371/journal.pone.0085841</a>.","ieee":"G. Tkačik, A. Ghosh, E. Schneidman, and R. Segev, “Adaptation to changes in higher-order stimulus statistics in the salamander retina,” <i>PLoS One</i>, vol. 9, no. 1. Public Library of Science, 2014.","chicago":"Tkačik, Gašper, Anandamohan Ghosh, Elad Schneidman, and Ronen Segev. “Adaptation to Changes in Higher-Order Stimulus Statistics in the Salamander Retina.” <i>PLoS One</i>. Public Library of Science, 2014. <a href=\"https://doi.org/10.1371/journal.pone.0085841\">https://doi.org/10.1371/journal.pone.0085841</a>.","apa":"Tkačik, G., Ghosh, A., Schneidman, E., &#38; Segev, R. (2014). Adaptation to changes in higher-order stimulus statistics in the salamander retina. <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0085841\">https://doi.org/10.1371/journal.pone.0085841</a>","ista":"Tkačik G, Ghosh A, Schneidman E, Segev R. 2014. Adaptation to changes in higher-order stimulus statistics in the salamander retina. PLoS One. 9(1), e85841.","ama":"Tkačik G, Ghosh A, Schneidman E, Segev R. Adaptation to changes in higher-order stimulus statistics in the salamander retina. <i>PLoS One</i>. 2014;9(1). doi:<a href=\"https://doi.org/10.1371/journal.pone.0085841\">10.1371/journal.pone.0085841</a>"},"ddc":["570"],"file_date_updated":"2020-07-14T12:46:06Z","month":"01","article_number":"e85841","author":[{"orcid":"0000-0002-6699-1455","full_name":"Tkacik, Gasper","first_name":"Gasper","last_name":"Tkacik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Ghosh, Anandamohan","first_name":"Anandamohan","last_name":"Ghosh"},{"last_name":"Schneidman","first_name":"Elad","full_name":"Schneidman, Elad"},{"last_name":"Segev","first_name":"Ronen","full_name":"Segev, Ronen"}],"file":[{"file_size":1568524,"file_id":"5011","access_level":"open_access","date_updated":"2020-07-14T12:46:06Z","date_created":"2018-12-12T10:13:28Z","content_type":"application/pdf","file_name":"IST-2016-432-v1+1_journal.pone.0085841.pdf","relation":"main_file","checksum":"1d5816b343abe5eadc3eb419bcece971","creator":"system"}],"acknowledgement":"This work was supported by The Israel Science Foundation and The Human Frontiers Science Program.\r\nWe thank the referees for helping significantly improve this paper. We also thank Vijay Balasubramanian, Kristina Simmons, and Jason Prentice for stimulating discussions. GT wishes to thank the faculty and students of the “Methods in Computational Neuroscience” course at Marine Biological Laboratory, Woods Hole.\r\n","_id":"3263","language":[{"iso":"eng"}],"pubrep_id":"432","issue":"1","day":"21","date_updated":"2021-01-12T07:42:14Z","title":"Adaptation to changes in higher-order stimulus statistics in the salamander retina","doi":"10.1371/journal.pone.0085841","oa":1,"has_accepted_license":"1","year":"2014"},{"file":[{"file_name":"IST-2018-954-v1+1_2014_Meidl_Invasive_parasites.PDF","relation":"main_file","checksum":"b24e7518ccd41effed0d7d9e2498f67f","creator":"system","content_type":"application/pdf","access_level":"open_access","date_created":"2018-12-12T10:14:48Z","date_updated":"2020-07-14T12:46:34Z","file_size":489387,"file_id":"5103"}],"author":[{"first_name":"Arno","last_name":"Cimadom","full_name":"Cimadom, Arno"},{"last_name":"Ulloa","first_name":"Angel","full_name":"Ulloa, Angel"},{"id":"4709BCE6-F248-11E8-B48F-1D18A9856A87","last_name":"Meidl","first_name":"Patrick","full_name":"Meidl, Patrick"},{"first_name":"Markus","last_name":"Zöttl","full_name":"Zöttl, Markus"},{"full_name":"Zöttl, Elisabet","last_name":"Zöttl","first_name":"Elisabet"},{"full_name":"Fessl, Birgit","first_name":"Birgit","last_name":"Fessl"},{"last_name":"Nemeth","first_name":"Erwin","full_name":"Nemeth, Erwin"},{"last_name":"Dvorak","first_name":"Michael","full_name":"Dvorak, Michael"},{"full_name":"Cunninghame, Francesca","first_name":"Francesca","last_name":"Cunninghame"},{"last_name":"Tebbich","first_name":"Sabine","full_name":"Tebbich, Sabine"}],"article_number":"0107518","month":"09","file_date_updated":"2020-07-14T12:46:34Z","ddc":["576"],"citation":{"mla":"Cimadom, Arno, et al. “Invasive Parasites Habitat Change and Heavy Rainfall Reduce Breeding Success in Darwin’s Finches.” <i>PLoS One</i>, vol. 9, no. 9, 0107518, Public Library of Science, 2014, doi:<a href=\"https://doi.org/10.1371/journal.pone.0107518\">10.1371/journal.pone.0107518</a>.","short":"A. Cimadom, A. Ulloa, P. Meidl, M. Zöttl, E. Zöttl, B. Fessl, E. Nemeth, M. Dvorak, F. Cunninghame, S. Tebbich, PLoS One 9 (2014).","chicago":"Cimadom, Arno, Angel Ulloa, Patrick Meidl, Markus Zöttl, Elisabet Zöttl, Birgit Fessl, Erwin Nemeth, Michael Dvorak, Francesca Cunninghame, and Sabine Tebbich. “Invasive Parasites Habitat Change and Heavy Rainfall Reduce Breeding Success in Darwin’s Finches.” <i>PLoS One</i>. Public Library of Science, 2014. <a href=\"https://doi.org/10.1371/journal.pone.0107518\">https://doi.org/10.1371/journal.pone.0107518</a>.","ieee":"A. Cimadom <i>et al.</i>, “Invasive parasites habitat change and heavy rainfall reduce breeding success in Darwin’s finches,” <i>PLoS One</i>, vol. 9, no. 9. Public Library of Science, 2014.","ista":"Cimadom A, Ulloa A, Meidl P, Zöttl M, Zöttl E, Fessl B, Nemeth E, Dvorak M, Cunninghame F, Tebbich S. 2014. Invasive parasites habitat change and heavy rainfall reduce breeding success in Darwin’s finches. PLoS One. 9(9), 0107518.","apa":"Cimadom, A., Ulloa, A., Meidl, P., Zöttl, M., Zöttl, E., Fessl, B., … Tebbich, S. (2014). Invasive parasites habitat change and heavy rainfall reduce breeding success in Darwin’s finches. <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0107518\">https://doi.org/10.1371/journal.pone.0107518</a>","ama":"Cimadom A, Ulloa A, Meidl P, et al. Invasive parasites habitat change and heavy rainfall reduce breeding success in Darwin’s finches. <i>PLoS One</i>. 2014;9(9). doi:<a href=\"https://doi.org/10.1371/journal.pone.0107518\">10.1371/journal.pone.0107518</a>"},"issue":"9","pubrep_id":"954","_id":"468","language":[{"iso":"eng"}],"acknowledgement":"The study was funded by the University of Vienna (Focus of Excellence grant), the Galápagos Conservation Trust, and the Ethologische Gesellschaft e.V.","doi":"10.1371/journal.pone.0107518","title":"Invasive parasites habitat change and heavy rainfall reduce breeding success in Darwin's finches","day":"23","date_updated":"2021-01-12T08:00:48Z","has_accepted_license":"1","year":"2014","oa":1,"oa_version":"Published Version","scopus_import":1,"date_created":"2018-12-11T11:46:38Z","abstract":[{"text":"Invasive alien parasites and pathogens are a growing threat to biodiversity worldwide, which can contribute to the extinction of endemic species. On the Galápagos Islands, the invasive parasitic fly Philornis downsi poses a major threat to the endemic avifauna. Here, we investigated the influence of this parasite on the breeding success of two Darwin's finch species, the warbler finch (Certhidea olivacea) and the sympatric small tree finch (Camarhynchus parvulus), on Santa Cruz Island in 2010 and 2012. While the population of the small tree finch appeared to be stable, the warbler finch has experienced a dramatic decline in population size on Santa Cruz Island since 1997. We aimed to identify whether warbler finches are particularly vulnerable during different stages of the breeding cycle. Contrary to our prediction, breeding success was lower in the small tree finch than in the warbler finch. In both species P. downsi had a strong negative impact on breeding success and our data suggest that heavy rain events also lowered the fledging success. On the one hand parents might be less efficient in compensating their chicks' energy loss due to parasitism as they might be less efficient in foraging on days of heavy rain. On the other hand, intense rainfalls might lead to increased humidity and more rapid cooling of the nests. In the case of the warbler finch we found that the control of invasive plant species with herbicides had a significant additive negative impact on the breeding success. It is very likely that the availability of insects (i.e. food abundance) is lower in such controlled areas, as herbicide usage led to the removal of the entire understory. Predation seems to be a minor factor in brood loss.","lang":"eng"}],"publist_id":"7352","publication":"PLoS One","status":"public","date_published":"2014-09-23T00:00:00Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","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"},"intvolume":"         9","department":[{"_id":"CampIT"}],"quality_controlled":"1","publication_status":"published","publisher":"Public Library of Science","type":"journal_article","volume":9}]