[{"ddc":["570"],"citation":{"apa":"Toshima, J., Furuya, E., Nagano, M., Kanno, C., Sakamoto, Y., Ebihara, M., … Toshima, J. (2016). Yeast Eps15-like endocytic protein Pan1p regulates the interaction between endocytic vesicles, endosomes and the actin cytoskeleton. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.10276\">https://doi.org/10.7554/eLife.10276</a>","ista":"Toshima J, Furuya E, Nagano M, Kanno C, Sakamoto Y, Ebihara M, Siekhaus DE, Toshima J. 2016. Yeast Eps15-like endocytic protein Pan1p regulates the interaction between endocytic vesicles, endosomes and the actin cytoskeleton. eLife. 5(February 2016), e10276.","ama":"Toshima J, Furuya E, Nagano M, et al. Yeast Eps15-like endocytic protein Pan1p regulates the interaction between endocytic vesicles, endosomes and the actin cytoskeleton. <i>eLife</i>. 2016;5(February 2016). doi:<a href=\"https://doi.org/10.7554/eLife.10276\">10.7554/eLife.10276</a>","mla":"Toshima, Junko, et al. “Yeast Eps15-like Endocytic Protein Pan1p Regulates the Interaction between Endocytic Vesicles, Endosomes and the Actin Cytoskeleton.” <i>ELife</i>, vol. 5, no. February 2016, e10276, eLife Sciences Publications, 2016, doi:<a href=\"https://doi.org/10.7554/eLife.10276\">10.7554/eLife.10276</a>.","short":"J. Toshima, E. Furuya, M. Nagano, C. Kanno, Y. Sakamoto, M. Ebihara, D.E. Siekhaus, J. Toshima, ELife 5 (2016).","ieee":"J. Toshima <i>et al.</i>, “Yeast Eps15-like endocytic protein Pan1p regulates the interaction between endocytic vesicles, endosomes and the actin cytoskeleton,” <i>eLife</i>, vol. 5, no. February 2016. eLife Sciences Publications, 2016.","chicago":"Toshima, Junko, Eri Furuya, Makoto Nagano, Chisa Kanno, Yuta Sakamoto, Masashi Ebihara, Daria E Siekhaus, and Jiro Toshima. “Yeast Eps15-like Endocytic Protein Pan1p Regulates the Interaction between Endocytic Vesicles, Endosomes and the Actin Cytoskeleton.” <i>ELife</i>. eLife Sciences Publications, 2016. <a href=\"https://doi.org/10.7554/eLife.10276\">https://doi.org/10.7554/eLife.10276</a>."},"author":[{"last_name":"Toshima","first_name":"Junko","full_name":"Toshima, Junko"},{"full_name":"Furuya, Eri","first_name":"Eri","last_name":"Furuya"},{"last_name":"Nagano","first_name":"Makoto","full_name":"Nagano, Makoto"},{"last_name":"Kanno","first_name":"Chisa","full_name":"Kanno, Chisa"},{"full_name":"Sakamoto, Yuta","first_name":"Yuta","last_name":"Sakamoto"},{"last_name":"Ebihara","first_name":"Masashi","full_name":"Ebihara, Masashi"},{"orcid":"0000-0001-8323-8353","full_name":"Siekhaus, Daria E","last_name":"Siekhaus","first_name":"Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Toshima, Jiro","first_name":"Jiro","last_name":"Toshima"}],"file":[{"date_updated":"2020-07-14T12:44:56Z","date_created":"2018-12-12T10:10:08Z","access_level":"open_access","file_id":"4793","file_size":5198001,"creator":"system","checksum":"d1cc44870580756ba8badd8e41adfdb5","file_name":"IST-2016-529-v1+1_elife-10276-v1.pdf","relation":"main_file","content_type":"application/pdf"}],"file_date_updated":"2020-07-14T12:44:56Z","month":"02","article_number":"e10276","_id":"1475","language":[{"iso":"eng"}],"pubrep_id":"529","issue":"February 2016","day":"25","date_updated":"2021-01-12T06:50:59Z","doi":"10.7554/eLife.10276","title":"Yeast Eps15-like endocytic protein Pan1p regulates the interaction between endocytic vesicles, endosomes and the actin cytoskeleton","oa":1,"has_accepted_license":"1","year":"2016","ec_funded":1,"scopus_import":1,"date_created":"2018-12-11T11:52:14Z","oa_version":"Published Version","user_id":"3E5EF7F0-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":"         5","abstract":[{"lang":"eng","text":"The actin cytoskeleton plays important roles in the formation and internalization of endocytic vesicles. In yeast, endocytic vesicles move towards early endosomes along actin cables, however, the molecular machinery regulating interaction between endocytic vesicles and actin cables is poorly understood. The Eps15-like protein Pan1p plays a key role in actin-mediated endocytosis and is negatively regulated by Ark1 and Prk1 kinases. Here we show that pan1 mutated to prevent phosphorylation at all 18 threonines, pan1-18TA, displayed almost the same endocytic defect as ark1Δ prk1Δ cells, and contained abnormal actin concentrations including several endocytic compartments. Early endosomes were highly localized in the actin concentrations and displayed movement along actin cables. The dephosphorylated form of Pan1p also caused stable associations between endocytic vesicles and actin cables, and between endocytic vesicles and endosomes. Thus Pan1 phosphorylation is part of a novel mechanism that regulates endocytic compartment interactions with each other and with actin cables."}],"publist_id":"5721","publication":"eLife","date_published":"2016-02-25T00:00:00Z","status":"public","publication_status":"published","publisher":"eLife Sciences Publications","department":[{"_id":"DaSi"}],"quality_controlled":"1","project":[{"call_identifier":"FP7","name":"Investigating the role of transporters in invasive migration through junctions","_id":"2536F660-B435-11E9-9278-68D0E5697425","grant_number":"334077"}],"type":"journal_article","volume":5},{"page":"367 - 379","issue":"2","_id":"1476","pubrep_id":"767","language":[{"iso":"eng"}],"acknowledgement":"We are grateful to Anthony Bretscher (Cornell University, NY) for providing the bni1-12 bnr1Δ (Y4135) strain. J.Y.T. was supported by a Japan Society for the Promotion of Science (JSPS) KAKENHI grant [grant number 26440067]; the Takeda Science Foundation; and the Novartis Foundation (Japan). J.T. was supported by a JSPS KAKENHI grant [grant number 25440054]; the Takeda Science Foundation; and the Kurata Memorial Hitachi Science and Technology Foundation. D.E.S. was supported by the European Union [grant number PCIG12-GA-2012-334077].","author":[{"full_name":"Toshima, Junko","last_name":"Toshima","first_name":"Junko"},{"full_name":"Horikomi, Chika","first_name":"Chika","last_name":"Horikomi"},{"full_name":"Okada, Asuka","last_name":"Okada","first_name":"Asuka"},{"last_name":"Hatori","first_name":"Makiko","full_name":"Hatori, Makiko"},{"full_name":"Nagano, Makoto","first_name":"Makoto","last_name":"Nagano"},{"first_name":"Atsushi","last_name":"Masuda","full_name":"Masuda, Atsushi"},{"full_name":"Yamamoto, Wataru","last_name":"Yamamoto","first_name":"Wataru"},{"first_name":"Daria E","last_name":"Siekhaus","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8323-8353","full_name":"Siekhaus, Daria E"},{"full_name":"Toshima, Jiro","first_name":"Jiro","last_name":"Toshima"}],"file":[{"date_created":"2018-12-12T10:11:08Z","date_updated":"2020-07-14T12:44:56Z","access_level":"open_access","file_id":"4861","file_size":7176912,"checksum":"2da0a09149a9ed956cdf79a95c17f08a","creator":"system","file_name":"IST-2017-767-v1+1_367.full.pdf","relation":"main_file","content_type":"application/pdf"}],"month":"01","file_date_updated":"2020-07-14T12:44:56Z","ddc":["570","576"],"citation":{"mla":"Toshima, Junko, et al. “Srv2/CAP Is Required for Polarized Actin Cable Assembly and Patch Internalization during Clathrin-Mediated Endocytosis.” <i>Journal of Cell Science</i>, vol. 129, no. 2, Company of Biologists, 2016, pp. 367–79, doi:<a href=\"https://doi.org/10.1242/jcs.176651\">10.1242/jcs.176651</a>.","short":"J. Toshima, C. Horikomi, A. Okada, M. Hatori, M. Nagano, A. Masuda, W. Yamamoto, D.E. Siekhaus, J. Toshima, Journal of Cell Science 129 (2016) 367–379.","chicago":"Toshima, Junko, Chika Horikomi, Asuka Okada, Makiko Hatori, Makoto Nagano, Atsushi Masuda, Wataru Yamamoto, Daria E Siekhaus, and Jiro Toshima. “Srv2/CAP Is Required for Polarized Actin Cable Assembly and Patch Internalization during Clathrin-Mediated Endocytosis.” <i>Journal of Cell Science</i>. Company of Biologists, 2016. <a href=\"https://doi.org/10.1242/jcs.176651\">https://doi.org/10.1242/jcs.176651</a>.","ieee":"J. Toshima <i>et al.</i>, “Srv2/CAP is required for polarized actin cable assembly and patch internalization during clathrin-mediated endocytosis,” <i>Journal of Cell Science</i>, vol. 129, no. 2. Company of Biologists, pp. 367–379, 2016.","ista":"Toshima J, Horikomi C, Okada A, Hatori M, Nagano M, Masuda A, Yamamoto W, Siekhaus DE, Toshima J. 2016. Srv2/CAP is required for polarized actin cable assembly and patch internalization during clathrin-mediated endocytosis. Journal of Cell Science. 129(2), 367–379.","apa":"Toshima, J., Horikomi, C., Okada, A., Hatori, M., Nagano, M., Masuda, A., … Toshima, J. (2016). Srv2/CAP is required for polarized actin cable assembly and patch internalization during clathrin-mediated endocytosis. <i>Journal of Cell Science</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.176651\">https://doi.org/10.1242/jcs.176651</a>","ama":"Toshima J, Horikomi C, Okada A, et al. Srv2/CAP is required for polarized actin cable assembly and patch internalization during clathrin-mediated endocytosis. <i>Journal of Cell Science</i>. 2016;129(2):367-379. doi:<a href=\"https://doi.org/10.1242/jcs.176651\">10.1242/jcs.176651</a>"},"has_accepted_license":"1","year":"2016","ec_funded":1,"oa":1,"doi":"10.1242/jcs.176651","title":"Srv2/CAP is required for polarized actin cable assembly and patch internalization during clathrin-mediated endocytosis","day":"15","date_updated":"2021-01-12T06:51:00Z","abstract":[{"text":"The dynamic assembly and disassembly of actin filaments is essential for the formation and transport of vesicles during endocytosis. In yeast, two types of actin structures, namely cortical patches and cytoplasmic cables, play a direct role in endocytosis, but how their interaction is regulated remains unclear. Here, we show that Srv2/CAP, an evolutionarily conserved actin regulator, is required for efficient endocytosis owing to its role in the formation of the actin patches that aid initial vesicle invagination and of the actin cables that these move along. Deletion of the SRV2 gene resulted in the appearance of aberrant fragmented actin cables that frequently moved past actin patches, the sites of endocytosis. We find that the C-terminal CARP domain of Srv2p is vitally important for the proper assembly of actin patches and cables; we also demonstrate that the N-terminal helical folded domain of Srv2 is required for its localization to actin patches, specifically to the ADP-actin rich region through an interaction with cofilin. These results demonstrate the in vivo roles of Srv2p in the regulation of the actin cytoskeleton during clathrin-mediated endocytosis","lang":"eng"}],"publist_id":"5720","publication":"Journal of Cell Science","status":"public","date_published":"2016-01-15T00:00:00Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","intvolume":"       129","oa_version":"Published Version","scopus_import":1,"date_created":"2018-12-11T11:52:14Z","type":"journal_article","volume":129,"department":[{"_id":"DaSi"}],"quality_controlled":"1","project":[{"call_identifier":"FP7","grant_number":"334077","name":"Investigating the role of transporters in invasive migration through junctions","_id":"2536F660-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","publisher":"Company of Biologists"},{"oa_version":"Preprint","scopus_import":1,"date_created":"2018-12-11T11:52:15Z","abstract":[{"lang":"eng","text":"We consider partially observable Markov decision processes (POMDPs) with ω-regular conditions specified as parity objectives. The class of ω-regular languages provides a robust specification language to express properties in verification, and parity objectives are canonical forms to express them. The qualitative analysis problem given a POMDP and a parity objective asks whether there is a strategy to ensure that the objective is satisfied with probability 1 (resp. positive probability). While the qualitative analysis problems are undecidable even for special cases of parity objectives, we establish decidability (with optimal complexity) for POMDPs with all parity objectives under finite-memory strategies. We establish optimal (exponential) memory bounds and EXPTIME-completeness of the qualitative analysis problems under finite-memory strategies for POMDPs with parity objectives. We also present a practical approach, where we design heuristics to deal with the exponential complexity, and have applied our implementation on a number of POMDP examples."}],"publication":"Journal of Computer and System Sciences","publist_id":"5718","date_published":"2016-08-01T00:00:00Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        82","department":[{"_id":"KrCh"}],"quality_controlled":"1","project":[{"grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","grant_number":"S11407"},{"grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"name":"Microsoft Research Faculty Fellowship","_id":"2587B514-B435-11E9-9278-68D0E5697425"}],"publication_status":"published","publisher":"Elsevier","main_file_link":[{"url":"https://arxiv.org/abs/1309.2802","open_access":"1"}],"type":"journal_article","volume":82,"author":[{"orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Chmelik, Martin","id":"3624234E-F248-11E8-B48F-1D18A9856A87","last_name":"Chmelik","first_name":"Martin"},{"full_name":"Tracol, Mathieu","id":"3F54FA38-F248-11E8-B48F-1D18A9856A87","first_name":"Mathieu","last_name":"Tracol"}],"month":"08","citation":{"ama":"Chatterjee K, Chmelik M, Tracol M. What is decidable about partially observable Markov decision processes with ω-regular objectives. <i>Journal of Computer and System Sciences</i>. 2016;82(5):878-911. doi:<a href=\"https://doi.org/10.1016/j.jcss.2016.02.009\">10.1016/j.jcss.2016.02.009</a>","ista":"Chatterjee K, Chmelik M, Tracol M. 2016. What is decidable about partially observable Markov decision processes with ω-regular objectives. Journal of Computer and System Sciences. 82(5), 878–911.","apa":"Chatterjee, K., Chmelik, M., &#38; Tracol, M. (2016). What is decidable about partially observable Markov decision processes with ω-regular objectives. <i>Journal of Computer and System Sciences</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jcss.2016.02.009\">https://doi.org/10.1016/j.jcss.2016.02.009</a>","chicago":"Chatterjee, Krishnendu, Martin Chmelik, and Mathieu Tracol. “What Is Decidable about Partially Observable Markov Decision Processes with ω-Regular Objectives.” <i>Journal of Computer and System Sciences</i>. Elsevier, 2016. <a href=\"https://doi.org/10.1016/j.jcss.2016.02.009\">https://doi.org/10.1016/j.jcss.2016.02.009</a>.","ieee":"K. Chatterjee, M. Chmelik, and M. Tracol, “What is decidable about partially observable Markov decision processes with ω-regular objectives,” <i>Journal of Computer and System Sciences</i>, vol. 82, no. 5. Elsevier, pp. 878–911, 2016.","mla":"Chatterjee, Krishnendu, et al. “What Is Decidable about Partially Observable Markov Decision Processes with ω-Regular Objectives.” <i>Journal of Computer and System Sciences</i>, vol. 82, no. 5, Elsevier, 2016, pp. 878–911, doi:<a href=\"https://doi.org/10.1016/j.jcss.2016.02.009\">10.1016/j.jcss.2016.02.009</a>.","short":"K. Chatterjee, M. Chmelik, M. Tracol, Journal of Computer and System Sciences 82 (2016) 878–911."},"arxiv":1,"page":"878 - 911","issue":"5","language":[{"iso":"eng"}],"_id":"1477","doi":"10.1016/j.jcss.2016.02.009","title":"What is decidable about partially observable Markov decision processes with ω-regular objectives","external_id":{"arxiv":["1309.2802"]},"day":"01","date_updated":"2023-02-23T12:24:38Z","related_material":{"record":[{"relation":"earlier_version","id":"2295","status":"public"},{"status":"public","relation":"earlier_version","id":"5400"}]},"year":"2016","ec_funded":1,"oa":1},{"publication_status":"published","publisher":"IOP Publishing Ltd.","department":[{"_id":"RoSe"}],"quality_controlled":"1","project":[{"_id":"25C878CE-B435-11E9-9278-68D0E5697425","name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","grant_number":"P27533_N27","call_identifier":"FWF"}],"type":"journal_article","volume":18,"scopus_import":1,"date_created":"2018-12-11T11:52:15Z","oa_version":"Published Version","user_id":"3E5EF7F0-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":"        18","abstract":[{"lang":"eng","text":"We consider the Tonks-Girardeau gas subject to a random external potential. If the disorder is such that the underlying one-particle Hamiltonian displays localization (which is known to be generically the case), we show that there is exponential decay of correlations in the many-body eigenstates. Moreover, there is no Bose-Einstein condensation and no superfluidity, even at zero temperature."}],"publication":"New Journal of Physics","publist_id":"5716","date_published":"2016-02-29T00:00:00Z","status":"public","day":"29","date_updated":"2021-01-12T06:51:01Z","doi":"10.1088/1367-2630/18/3/035002","title":"Decay of correlations and absence of superfluidity in the disordered Tonks-Girardeau gas","oa":1,"has_accepted_license":"1","year":"2016","ddc":["510","530"],"citation":{"ieee":"R. Seiringer and S. Warzel, “Decay of correlations and absence of superfluidity in the disordered Tonks-Girardeau gas,” <i>New Journal of Physics</i>, vol. 18, no. 3. IOP Publishing Ltd., 2016.","chicago":"Seiringer, Robert, and Simone Warzel. “Decay of Correlations and Absence of Superfluidity in the Disordered Tonks-Girardeau Gas.” <i>New Journal of Physics</i>. IOP Publishing Ltd., 2016. <a href=\"https://doi.org/10.1088/1367-2630/18/3/035002\">https://doi.org/10.1088/1367-2630/18/3/035002</a>.","mla":"Seiringer, Robert, and Simone Warzel. “Decay of Correlations and Absence of Superfluidity in the Disordered Tonks-Girardeau Gas.” <i>New Journal of Physics</i>, vol. 18, no. 3, 035002, IOP Publishing Ltd., 2016, doi:<a href=\"https://doi.org/10.1088/1367-2630/18/3/035002\">10.1088/1367-2630/18/3/035002</a>.","short":"R. Seiringer, S. Warzel, New Journal of Physics 18 (2016).","ama":"Seiringer R, Warzel S. Decay of correlations and absence of superfluidity in the disordered Tonks-Girardeau gas. <i>New Journal of Physics</i>. 2016;18(3). doi:<a href=\"https://doi.org/10.1088/1367-2630/18/3/035002\">10.1088/1367-2630/18/3/035002</a>","apa":"Seiringer, R., &#38; Warzel, S. (2016). Decay of correlations and absence of superfluidity in the disordered Tonks-Girardeau gas. <i>New Journal of Physics</i>. IOP Publishing Ltd. <a href=\"https://doi.org/10.1088/1367-2630/18/3/035002\">https://doi.org/10.1088/1367-2630/18/3/035002</a>","ista":"Seiringer R, Warzel S. 2016. Decay of correlations and absence of superfluidity in the disordered Tonks-Girardeau gas. New Journal of Physics. 18(3), 035002."},"file":[{"creator":"system","checksum":"4f959eabc19d2a2f518318a450a4d424","relation":"main_file","file_name":"IST-2016-579-v1+1_njp_18_3_035002.pdf","content_type":"application/pdf","date_updated":"2020-07-14T12:44:56Z","date_created":"2018-12-12T10:17:22Z","access_level":"open_access","file_id":"5276","file_size":965607}],"author":[{"full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521","first_name":"Robert","last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Simone","last_name":"Warzel","full_name":"Warzel, Simone"}],"article_number":"035002","month":"02","file_date_updated":"2020-07-14T12:44:56Z","language":[{"iso":"eng"}],"_id":"1478","pubrep_id":"579","issue":"3"},{"date_published":"2016-03-31T00:00:00Z","status":"public","abstract":[{"text":"We consider the quantitative analysis problem for interprocedural control-flow graphs (ICFGs). The input consists of an ICFG, a positive weight function that assigns every transition a positive integer-valued number, and a labelling of the transitions (events) as good, bad, and neutral events. The weight function assigns to each transition a numerical value that represents ameasure of how good or bad an event is. The quantitative analysis problem asks whether there is a run of the ICFG where the ratio of the sum of the numerical weights of good events versus the sum of weights of bad events in the long-run is at least a given threshold (or equivalently, to compute the maximal ratio among all valid paths in the ICFG). The quantitative analysis problem for ICFGs can be solved in polynomial time, and we present an efficient and practical algorithm for the problem. We show that several problems relevant for static program analysis, such as estimating the worst-case execution time of a program or the average energy consumption of a mobile application, can be modeled in our framework. We have implemented our algorithm as a tool in the Java Soot framework. We demonstrate the effectiveness of our approach with two case studies. First, we show that our framework provides a sound approach (no false positives) for the analysis of inefficiently-used containers. Second, we show that our approach can also be used for static profiling of programs which reasons about methods that are frequently invoked. Our experimental results show that our tool scales to relatively large benchmarks, and discovers relevant and useful information that can be used to optimize performance of the programs. ","lang":"eng"}],"page":"33","pubrep_id":"523","_id":"5445","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"03","file_date_updated":"2020-07-14T12:46:58Z","file":[{"access_level":"open_access","date_created":"2018-12-12T11:53:52Z","date_updated":"2020-07-14T12:46:58Z","file_size":1012204,"file_id":"5513","file_name":"IST-2016-523-v1+1_main.pdf","relation":"main_file","checksum":"cef516fa091925b5868813e355268fb4","creator":"system","content_type":"application/pdf"}],"oa_version":"Published Version","author":[{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu"},{"orcid":"0000-0002-8943-0722","full_name":"Pavlogiannis, Andreas","first_name":"Andreas","last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Velner, Yaron","first_name":"Yaron","last_name":"Velner"}],"citation":{"mla":"Chatterjee, Krishnendu, et al. <i>Quantitative Interprocedural Analysis</i>. IST Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:IST-2016-523-v1-1\">10.15479/AT:IST-2016-523-v1-1</a>.","short":"K. Chatterjee, A. Pavlogiannis, Y. Velner, Quantitative Interprocedural Analysis, IST Austria, 2016.","ieee":"K. Chatterjee, A. Pavlogiannis, and Y. Velner, <i>Quantitative interprocedural analysis</i>. IST Austria, 2016.","chicago":"Chatterjee, Krishnendu, Andreas Pavlogiannis, and Yaron Velner. <i>Quantitative Interprocedural Analysis</i>. IST Austria, 2016. <a href=\"https://doi.org/10.15479/AT:IST-2016-523-v1-1\">https://doi.org/10.15479/AT:IST-2016-523-v1-1</a>.","apa":"Chatterjee, K., Pavlogiannis, A., &#38; Velner, Y. (2016). <i>Quantitative interprocedural analysis</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2016-523-v1-1\">https://doi.org/10.15479/AT:IST-2016-523-v1-1</a>","ista":"Chatterjee K, Pavlogiannis A, Velner Y. 2016. Quantitative interprocedural analysis, IST Austria, 33p.","ama":"Chatterjee K, Pavlogiannis A, Velner Y. <i>Quantitative Interprocedural Analysis</i>. IST Austria; 2016. doi:<a href=\"https://doi.org/10.15479/AT:IST-2016-523-v1-1\">10.15479/AT:IST-2016-523-v1-1</a>"},"date_created":"2018-12-12T11:39:22Z","ddc":["005"],"alternative_title":["IST Austria Technical Report"],"year":"2016","has_accepted_license":"1","related_material":{"record":[{"id":"1604","relation":"later_version","status":"public"}]},"oa":1,"type":"technical_report","title":"Quantitative interprocedural analysis","department":[{"_id":"KrCh"}],"doi":"10.15479/AT:IST-2016-523-v1-1","publisher":"IST Austria","date_updated":"2023-02-23T10:06:22Z","publication_status":"published","publication_identifier":{"issn":["2664-1690"]},"day":"31"},{"type":"technical_report","oa":1,"related_material":{"record":[{"id":"512","relation":"later_version","status":"public"}]},"has_accepted_license":"1","year":"2016","day":"09","publication_identifier":{"issn":["2664-1690"]},"publication_status":"published","date_updated":"2023-02-23T12:22:21Z","publisher":"IST Austria","doi":"10.15479/AT:IST-2016-648-v1-1","title":"Amplification on undirected population structures: Comets beat stars","department":[{"_id":"KrCh"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pubrep_id":"648","_id":"5449","language":[{"iso":"eng"}],"page":"22","abstract":[{"text":"The fixation probability is the probability that a new mutant introduced in a homogeneous population eventually takes over the entire population.\r\nThe fixation probability is a fundamental quantity of natural selection, and known to depend on the population structure.\r\nAmplifiers of natural selection are population structures which increase the fixation probability of advantageous mutants, as compared to the baseline case of well-mixed populations. In this work we focus on symmetric population structures represented as undirected graphs. In the regime of undirected graphs, the strongest amplifier known has been the Star graph, and the existence of undirected graphs with stronger amplification properties has remained open for over a decade.\r\nIn this work we present the Comet and Comet-swarm families of undirected graphs. We show that for a range of fitness values of the mutants, the Comet and Comet-swarm graphs have fixation probability strictly larger than the fixation probability of the Star graph, for fixed population size and at the limit of large populations, respectively.","lang":"eng"}],"date_published":"2016-11-09T00:00:00Z","status":"public","alternative_title":["IST Austria Technical Report"],"ddc":["519"],"date_created":"2018-12-12T11:39:24Z","citation":{"ama":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. <i>Amplification on Undirected Population Structures: Comets Beat Stars</i>. IST Austria; 2016. doi:<a href=\"https://doi.org/10.15479/AT:IST-2016-648-v1-1\">10.15479/AT:IST-2016-648-v1-1</a>","ista":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2016. Amplification on undirected population structures: Comets beat stars, IST Austria, 22p.","apa":"Pavlogiannis, A., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2016). <i>Amplification on undirected population structures: Comets beat stars</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2016-648-v1-1\">https://doi.org/10.15479/AT:IST-2016-648-v1-1</a>","chicago":"Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. <i>Amplification on Undirected Population Structures: Comets Beat Stars</i>. IST Austria, 2016. <a href=\"https://doi.org/10.15479/AT:IST-2016-648-v1-1\">https://doi.org/10.15479/AT:IST-2016-648-v1-1</a>.","ieee":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, <i>Amplification on undirected population structures: Comets beat stars</i>. IST Austria, 2016.","mla":"Pavlogiannis, Andreas, et al. <i>Amplification on Undirected Population Structures: Comets Beat Stars</i>. IST Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:IST-2016-648-v1-1\">10.15479/AT:IST-2016-648-v1-1</a>.","short":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Amplification on Undirected Population Structures: Comets Beat Stars, IST Austria, 2016."},"author":[{"id":"49704004-F248-11E8-B48F-1D18A9856A87","last_name":"Pavlogiannis","first_name":"Andreas","full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722"},{"orcid":"0000-0002-1097-9684","full_name":"Tkadlec, Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","first_name":"Josef","last_name":"Tkadlec"},{"full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu"},{"full_name":"Nowak, Martin","last_name":"Nowak","first_name":"Martin"}],"file":[{"content_type":"application/pdf","checksum":"8345a8c1e7d7f0cd92516d182b7fc59e","creator":"system","relation":"main_file","file_name":"IST-2016-648-v1+1_tr.pdf","file_id":"5529","file_size":1264221,"date_updated":"2020-07-14T12:46:58Z","date_created":"2018-12-12T11:54:07Z","access_level":"open_access"}],"oa_version":"Updated Version","file_date_updated":"2020-07-14T12:46:58Z","month":"11"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pubrep_id":"728","_id":"5451","language":[{"iso":"eng"}],"page":"34","status":"public","date_published":"2016-12-30T00:00:00Z","alternative_title":["IST Austria Technical Report"],"date_created":"2018-12-12T11:39:24Z","citation":{"apa":"Pavlogiannis, A., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2016). <i>Strong amplifiers of natural selection</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2016-728-v1-1\">https://doi.org/10.15479/AT:IST-2016-728-v1-1</a>","ista":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2016. Strong amplifiers of natural selection, IST Austria, 34p.","ama":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. <i>Strong Amplifiers of Natural Selection</i>. IST Austria; 2016. doi:<a href=\"https://doi.org/10.15479/AT:IST-2016-728-v1-1\">10.15479/AT:IST-2016-728-v1-1</a>","short":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Strong Amplifiers of Natural Selection, IST Austria, 2016.","mla":"Pavlogiannis, Andreas, et al. <i>Strong Amplifiers of Natural Selection</i>. IST Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:IST-2016-728-v1-1\">10.15479/AT:IST-2016-728-v1-1</a>.","ieee":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, <i>Strong amplifiers of natural selection</i>. IST Austria, 2016.","chicago":"Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. <i>Strong Amplifiers of Natural Selection</i>. IST Austria, 2016. <a href=\"https://doi.org/10.15479/AT:IST-2016-728-v1-1\">https://doi.org/10.15479/AT:IST-2016-728-v1-1</a>."},"ddc":["000"],"month":"12","file_date_updated":"2020-07-14T12:46:59Z","oa_version":"Published Version","file":[{"access_level":"open_access","date_updated":"2020-07-14T12:46:59Z","date_created":"2018-12-12T11:53:04Z","file_size":1014732,"file_id":"5465","file_name":"IST-2016-728-v1+1_main.pdf","relation":"main_file","checksum":"7b8bb17c322c0556acba6ac169fa71c1","creator":"system","content_type":"application/pdf"}],"author":[{"first_name":"Andreas","last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8943-0722","full_name":"Pavlogiannis, Andreas"},{"orcid":"0000-0002-1097-9684","full_name":"Tkadlec, Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","first_name":"Josef","last_name":"Tkadlec"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Nowak, Martin","last_name":"Nowak","first_name":"Martin"}],"type":"technical_report","oa":1,"has_accepted_license":"1","year":"2016","publication_status":"published","publication_identifier":{"issn":["2664-1690"]},"day":"30","publisher":"IST Austria","date_updated":"2023-02-23T12:27:05Z","department":[{"_id":"KrCh"}],"title":"Strong amplifiers of natural selection","doi":"10.15479/AT:IST-2016-728-v1-1"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2016-12-30T00:00:00Z","status":"public","alternative_title":["IST Austria Technical Report"],"date_created":"2018-12-12T11:39:25Z","oa_version":"Published Version","type":"technical_report","publication_status":"published","publisher":"IST Austria","department":[{"_id":"KrCh"}],"project":[{"call_identifier":"FP7","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications"}],"_id":"5452","language":[{"iso":"eng"}],"pubrep_id":"750","page":"32","ddc":["000"],"citation":{"apa":"Pavlogiannis, A., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2016). <i>Arbitrarily strong amplifiers of natural selection</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2017-728-v2-1\">https://doi.org/10.15479/AT:IST-2017-728-v2-1</a>","ista":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2016. Arbitrarily strong amplifiers of natural selection, IST Austria, 32p.","ama":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. <i>Arbitrarily Strong Amplifiers of Natural Selection</i>. IST Austria; 2016. doi:<a href=\"https://doi.org/10.15479/AT:IST-2017-728-v2-1\">10.15479/AT:IST-2017-728-v2-1</a>","short":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Arbitrarily Strong Amplifiers of Natural Selection, IST Austria, 2016.","mla":"Pavlogiannis, Andreas, et al. <i>Arbitrarily Strong Amplifiers of Natural Selection</i>. IST Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:IST-2017-728-v2-1\">10.15479/AT:IST-2017-728-v2-1</a>.","ieee":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, <i>Arbitrarily strong amplifiers of natural selection</i>. IST Austria, 2016.","chicago":"Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. <i>Arbitrarily Strong Amplifiers of Natural Selection</i>. IST Austria, 2016. <a href=\"https://doi.org/10.15479/AT:IST-2017-728-v2-1\">https://doi.org/10.15479/AT:IST-2017-728-v2-1</a>."},"author":[{"last_name":"Pavlogiannis","first_name":"Andreas","id":"49704004-F248-11E8-B48F-1D18A9856A87","full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722"},{"last_name":"Tkadlec","first_name":"Josef","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87","full_name":"Tkadlec, Josef","orcid":"0000-0002-1097-9684"},{"full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu"},{"last_name":"Nowak","first_name":"Martin","full_name":"Nowak, Martin"}],"file":[{"access_level":"open_access","date_updated":"2020-07-14T12:46:59Z","date_created":"2018-12-12T11:52:59Z","file_size":811558,"file_id":"5460","relation":"main_file","file_name":"IST-2017-728-v2+1_main.pdf","creator":"system","checksum":"58e895f26c82f560c0f0989bf8b08599","content_type":"application/pdf"}],"file_date_updated":"2020-07-14T12:46:59Z","month":"12","article_processing_charge":"No","oa":1,"related_material":{"record":[{"status":"public","relation":"later_version","id":"5453"},{"relation":"popular_science","id":"5559","status":"public"}]},"has_accepted_license":"1","ec_funded":1,"year":"2016","day":"30","publication_identifier":{"issn":["2664-1690"]},"date_updated":"2024-02-21T13:48:42Z","doi":"10.15479/AT:IST-2017-728-v2-1","title":"Arbitrarily strong amplifiers of natural selection"},{"alternative_title":["IST Austria Technical Report"],"ddc":["000"],"citation":{"ama":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. <i>Arbitrarily Strong Amplifiers of Natural Selection</i>. IST Austria; 2016. doi:<a href=\"https://doi.org/10.15479/AT:IST-2017-749-v3-1\">10.15479/AT:IST-2017-749-v3-1</a>","ista":"Pavlogiannis A, Tkadlec J, Chatterjee K, Nowak M. 2016. Arbitrarily strong amplifiers of natural selection, IST Austria, 34p.","apa":"Pavlogiannis, A., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2016). <i>Arbitrarily strong amplifiers of natural selection</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2017-749-v3-1\">https://doi.org/10.15479/AT:IST-2017-749-v3-1</a>","chicago":"Pavlogiannis, Andreas, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. <i>Arbitrarily Strong Amplifiers of Natural Selection</i>. IST Austria, 2016. <a href=\"https://doi.org/10.15479/AT:IST-2017-749-v3-1\">https://doi.org/10.15479/AT:IST-2017-749-v3-1</a>.","ieee":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, and M. Nowak, <i>Arbitrarily strong amplifiers of natural selection</i>. IST Austria, 2016.","short":"A. Pavlogiannis, J. Tkadlec, K. Chatterjee, M. Nowak, Arbitrarily Strong Amplifiers of Natural Selection, IST Austria, 2016.","mla":"Pavlogiannis, Andreas, et al. <i>Arbitrarily Strong Amplifiers of Natural Selection</i>. IST Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:IST-2017-749-v3-1\">10.15479/AT:IST-2017-749-v3-1</a>."},"date_created":"2018-12-12T11:39:25Z","oa_version":"Published Version","author":[{"id":"49704004-F248-11E8-B48F-1D18A9856A87","first_name":"Andreas","last_name":"Pavlogiannis","full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722"},{"full_name":"Tkadlec, Josef","orcid":"0000-0002-1097-9684","first_name":"Josef","last_name":"Tkadlec","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Nowak, Martin","first_name":"Martin","last_name":"Nowak"}],"file":[{"file_id":"5474","file_size":1015647,"date_updated":"2020-07-14T12:46:59Z","date_created":"2018-12-12T11:53:13Z","access_level":"open_access","content_type":"application/pdf","checksum":"83b0313dab3bff4bdb6ac38695026fda","creator":"system","file_name":"IST-2017-749-v3+1_main.pdf","relation":"main_file"}],"month":"12","file_date_updated":"2020-07-14T12:46:59Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"5453","pubrep_id":"755","language":[{"iso":"eng"}],"page":"34","date_published":"2016-12-30T00:00:00Z","status":"public","day":"30","publication_status":"published","publication_identifier":{"issn":["2664-1690"]},"date_updated":"2023-02-23T12:27:07Z","publisher":"IST Austria","doi":"10.15479/AT:IST-2017-749-v3-1","department":[{"_id":"KrCh"}],"title":"Arbitrarily strong amplifiers of natural selection","type":"technical_report","oa":1,"has_accepted_license":"1","related_material":{"record":[{"status":"public","id":"5452","relation":"earlier_version"}]},"year":"2016"},{"_id":"5550","tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","image":"/images/cc_0.png"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2016-02-19T00:00:00Z","status":"public","publist_id":"5828","abstract":[{"text":"We collected flower colour information on species in the tribe Antirrhineae from taxonomic literature. We also retreived molecular data from GenBank for as many of these species as possible to estimate phylogenetic relationships among these taxa. We then used the R package 'diversitree' to examine patterns of evolutionary transitions between anthocyanin and yellow pigmentation across the phylogeny.\r\n\r\nFor full details of the methods see:\r\nEllis TJ and Field DL \"Repeated gains in yellow and anthocyanin pigmentation in flower colour transitions in the Antirrhineae”, Annals of Botany (in press)","lang":"eng"}],"date_created":"2018-12-12T12:31:29Z","citation":{"ista":"Ellis T, Field D. 2016. Flower colour data and phylogeny (NEXUS) files, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:34\">10.15479/AT:ISTA:34</a>.","apa":"Ellis, T., &#38; Field, D. (2016). Flower colour data and phylogeny (NEXUS) files. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:34\">https://doi.org/10.15479/AT:ISTA:34</a>","ama":"Ellis T, Field D. Flower colour data and phylogeny (NEXUS) files. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:34\">10.15479/AT:ISTA:34</a>","short":"T. Ellis, D. Field, (2016).","mla":"Ellis, Thomas, and David Field. <i>Flower Colour Data and Phylogeny (NEXUS) Files</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:34\">10.15479/AT:ISTA:34</a>.","chicago":"Ellis, Thomas, and David Field. “Flower Colour Data and Phylogeny (NEXUS) Files.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:34\">https://doi.org/10.15479/AT:ISTA:34</a>.","ieee":"T. Ellis and D. Field, “Flower colour data and phylogeny (NEXUS) files.” Institute of Science and Technology Austria, 2016."},"ddc":["576"],"file_date_updated":"2020-07-14T12:47:00Z","month":"02","author":[{"orcid":"0000-0002-8511-0254","full_name":"Ellis, Thomas","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","last_name":"Ellis","first_name":"Thomas"},{"orcid":"0000-0002-4014-8478","full_name":"Field, David","last_name":"Field","first_name":"David","id":"419049E2-F248-11E8-B48F-1D18A9856A87"}],"file":[{"content_type":"application/zip","relation":"main_file","file_name":"IST-2016-34-v1+1_tellis_flower_colour_data.zip","creator":"system","checksum":"950f85b80427d357bfeff09608ba02e9","file_size":4468543,"file_id":"5594","access_level":"open_access","date_updated":"2020-07-14T12:47:00Z","date_created":"2018-12-12T13:02:27Z"}],"oa_version":"Published Version","oa":1,"article_processing_charge":"No","type":"research_data","year":"2016","datarep_id":"34","related_material":{"record":[{"status":"public","relation":"research_paper","id":"1382"}]},"has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","date_updated":"2024-02-21T13:49:54Z","day":"19","title":"Flower colour data and phylogeny (NEXUS) files","department":[{"_id":"NiBa"}],"doi":"10.15479/AT:ISTA:34"},{"abstract":[{"lang":"eng","text":"Data from array experiments investigating pollinator behaviour on snapdragons in controlled conditions, and their effect on plant mating. Data were collected as part of Tom Ellis' PhD thesis , submitted February 2016.\r\n\r\nWe placed a total of 36 plants in a grid inside a closed organza tent, with a single hive of commercially bred bumblebees (Bombus hortorum). We used only the yellow-flowered Antirrhinum majus striatum and the magenta-flowered Antirrhinum majus pseudomajus, at ratios of 6:36, 12:24, 18:18, 24:12 and 30:6.\r\n\r\nAfter 24 hours to learn how to deal with snapdragons, I observed pollinators foraging on plants, and recorded the transitions between plants. Thereafter seeds on plants were allowed to develops. A sample of these were grown to maturity when their flower colour could be determined, and they were scored as yellow, magenta, or hybrid."}],"date_published":"2016-02-19T00:00:00Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"5551","tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","image":"/images/cc_0.png"},"month":"02","file_date_updated":"2020-07-14T12:47:01Z","oa_version":"Published Version","author":[{"full_name":"Ellis, Thomas","orcid":"0000-0002-8511-0254","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","last_name":"Ellis"}],"file":[{"file_id":"5640","file_size":32775,"date_created":"2018-12-12T13:05:12Z","date_updated":"2020-07-14T12:47:01Z","access_level":"open_access","content_type":"application/zip","checksum":"aa3eb85d52b110cd192aa23147c4d4f3","creator":"system","file_name":"IST-2016-35-v1+1_array_data.zip","relation":"main_file"}],"contributor":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","first_name":"David","last_name":"Field"},{"orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","first_name":"Nicholas H"}],"date_created":"2018-12-12T12:31:29Z","citation":{"ieee":"T. Ellis, “Data on pollinator observations and offpsring phenotypes.” Institute of Science and Technology Austria, 2016.","chicago":"Ellis, Thomas. “Data on Pollinator Observations and Offpsring Phenotypes.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:35\">https://doi.org/10.15479/AT:ISTA:35</a>.","short":"T. Ellis, (2016).","mla":"Ellis, Thomas. <i>Data on Pollinator Observations and Offpsring Phenotypes</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:35\">10.15479/AT:ISTA:35</a>.","ama":"Ellis T. Data on pollinator observations and offpsring phenotypes. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:35\">10.15479/AT:ISTA:35</a>","apa":"Ellis, T. (2016). Data on pollinator observations and offpsring phenotypes. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:35\">https://doi.org/10.15479/AT:ISTA:35</a>","ista":"Ellis T. 2016. Data on pollinator observations and offpsring phenotypes, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:35\">10.15479/AT:ISTA:35</a>."},"related_material":{"record":[{"status":"public","id":"1398","relation":"research_paper"}]},"datarep_id":"35","has_accepted_license":"1","year":"2016","type":"research_data","article_processing_charge":"No","oa":1,"department":[{"_id":"NiBa"}],"title":"Data on pollinator observations and offpsring phenotypes","doi":"10.15479/AT:ISTA:35","day":"19","publisher":"Institute of Science and Technology Austria","date_updated":"2024-02-21T13:51:27Z"},{"doi":"10.15479/AT:ISTA:36","department":[{"_id":"NiBa"}],"title":"Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data.","date_updated":"2024-02-21T13:51:40Z","publisher":"Institute of Science and Technology Austria","day":"19","year":"2016","has_accepted_license":"1","datarep_id":"36","related_material":{"record":[{"status":"public","relation":"research_paper","id":"1398"}]},"oa":1,"article_processing_charge":"No","type":"research_data","contributor":[{"id":"419049E2-F248-11E8-B48F-1D18A9856A87","last_name":"Field","first_name":"David"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240"}],"author":[{"full_name":"Ellis, Thomas","orcid":"0000-0002-8511-0254","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","last_name":"Ellis"}],"oa_version":"Published Version","file":[{"access_level":"open_access","date_created":"2018-12-12T13:03:07Z","date_updated":"2020-07-14T12:47:01Z","file_size":44905,"file_id":"5625","file_name":"IST-2016-36-v1+1_tag_assay_archive.zip","relation":"main_file","checksum":"cbc61b523d4d475a04a737d50dc470ef","creator":"system","content_type":"application/zip"}],"file_date_updated":"2020-07-14T12:47:01Z","month":"02","citation":{"ama":"Ellis T. Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:36\">10.15479/AT:ISTA:36</a>","ista":"Ellis T. 2016. Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data., Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:36\">10.15479/AT:ISTA:36</a>.","apa":"Ellis, T. (2016). Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:36\">https://doi.org/10.15479/AT:ISTA:36</a>","chicago":"Ellis, Thomas. “Pollinator Visitation Data for Wild Antirrhinum Majus Plants, with Phenotypic and Frequency Data.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:36\">https://doi.org/10.15479/AT:ISTA:36</a>.","ieee":"T. Ellis, “Pollinator visitation data for wild Antirrhinum majus plants, with phenotypic and frequency data.” Institute of Science and Technology Austria, 2016.","short":"T. Ellis, (2016).","mla":"Ellis, Thomas. <i>Pollinator Visitation Data for Wild Antirrhinum Majus Plants, with Phenotypic and Frequency Data.</i> Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:36\">10.15479/AT:ISTA:36</a>."},"date_created":"2018-12-12T12:31:30Z","status":"public","date_published":"2016-02-19T00:00:00Z","abstract":[{"text":"Data on pollinator visitation to wild snapdragons in a natural hybrid zone, collected as part of Tom Ellis' PhD thesis (submitted February 2016).\r\n\r\nSnapdragon flowers have a mouth-like structure which pollinators must open to access nectar. We placed 5mm cellophane tags in these mouths, which are held in place by the pressure of the flower until a pollinator visits. When she opens the flower, the tag drops out, and one can infer a visit. We surveyed plants over multiple days in 2010, 2011 and 2012.\r\n\r\nAlso included are data on phenotypic and demographic variables which may be explanatory variables for pollinator visitation.","lang":"eng"}],"_id":"5552","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"keyword":["paternity assignment","pedigree","matting patterns","assortative mating","Antirrhinum majus","frequency-dependent selection","plant-pollinator interaction"],"date_created":"2018-12-12T12:31:30Z","citation":{"short":"D. Field, T. Ellis, (2016).","mla":"Field, David, and Thomas Ellis. <i>Inference of Mating Patterns among Wild Snapdragons in a Natural Hybrid Zone in 2012</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:37\">10.15479/AT:ISTA:37</a>.","ieee":"D. Field and T. Ellis, “Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012.” Institute of Science and Technology Austria, 2016.","chicago":"Field, David, and Thomas Ellis. “Inference of Mating Patterns among Wild Snapdragons in a Natural Hybrid Zone in 2012.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:37\">https://doi.org/10.15479/AT:ISTA:37</a>.","apa":"Field, D., &#38; Ellis, T. (2016). Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:37\">https://doi.org/10.15479/AT:ISTA:37</a>","ista":"Field D, Ellis T. 2016. Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:37\">10.15479/AT:ISTA:37</a>.","ama":"Field D, Ellis T. Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:37\">10.15479/AT:ISTA:37</a>"},"ddc":["576"],"file_date_updated":"2020-07-14T12:47:01Z","month":"02","oa_version":"Published Version","author":[{"first_name":"David","last_name":"Field","id":"419049E2-F248-11E8-B48F-1D18A9856A87","full_name":"Field, David","orcid":"0000-0002-4014-8478"},{"orcid":"0000-0002-8511-0254","full_name":"Ellis, Thomas","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","last_name":"Ellis"}],"file":[{"file_id":"5620","file_size":132808,"date_created":"2018-12-12T13:03:02Z","date_updated":"2020-07-14T12:47:01Z","access_level":"open_access","content_type":"application/zip","creator":"system","checksum":"4ae751b1fa4897fa216241f975a57313","file_name":"IST-2016-37-v1+1_paternity_archive.zip","relation":"main_file"}],"contributor":[{"orcid":"0000-0002-8548-5240","contributor_type":"project_manager","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","last_name":"Barton"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","image":"/images/cc_0.png"},"_id":"5553","abstract":[{"text":"Genotypic, phenotypic and demographic data for 2128 wild snapdragons and 1127 open-pollinated progeny from a natural hybrid zone, collected as part of Tom Ellis' PhD thesis (submitted) February 2016).\r\n\r\nTissue samples were sent to LGC Genomics in Berlin for DNA extraction, and genotyping at 70 SNP markers by KASPR genotyping. 29 of these SNPs failed to amplify reliably, and have been removed from this dataset.\r\n\r\nOther data were retreived from an online database of this population at www.antspec.org.","lang":"eng"}],"status":"public","date_published":"2016-02-19T00:00:00Z","day":"19","publisher":"Institute of Science and Technology Austria","date_updated":"2024-02-21T13:51:14Z","title":"Inference of mating patterns among wild snapdragons in a natural hybrid zone in 2012","department":[{"_id":"NiBa"}],"doi":"10.15479/AT:ISTA:37","type":"research_data","article_processing_charge":"No","oa":1,"related_material":{"record":[{"status":"public","id":"1398","relation":"research_paper"}]},"has_accepted_license":"1","datarep_id":"37","year":"2016"},{"abstract":[{"text":"The data stored here is used in Murat Tugrul's PhD thesis (Chapter 3), which is related to the evolution of bacterial RNA polymerase binding.\r\nMagdalena Steinrueck (PhD Student in Calin Guet's group at IST Austria) performed the experiments and created the data on de novo promoter evolution. Fabienne Jesse (PhD Student in Jon Bollback's group at IST Austria) performed the experiments and created the data on lac promoter evolution.","lang":"eng"}],"date_published":"2016-05-12T00:00:00Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"5554","tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","image":"/images/cc_0.png"},"month":"05","file_date_updated":"2020-07-14T12:47:01Z","oa_version":"Published Version","author":[{"id":"37C323C6-F248-11E8-B48F-1D18A9856A87","first_name":"Murat","last_name":"Tugrul","orcid":"0000-0002-8523-0758","full_name":"Tugrul, Murat"}],"file":[{"access_level":"open_access","date_created":"2018-12-12T13:03:08Z","date_updated":"2020-07-14T12:47:01Z","file_size":1123495,"file_id":"5626","relation":"main_file","file_name":"IST-2016-43-v1+1_DATA_MTugrul_PhDThesis_Chapter3.zip","checksum":"1fc0a10bb7ce110fcb5e1fbe3cf0c4e2","creator":"system","content_type":"application/zip"}],"contributor":[{"contributor_type":"researcher","id":"2C023F40-F248-11E8-B48F-1D18A9856A87","last_name":"Steinrück","first_name":"Magdalena"},{"first_name":"Fabienne","last_name":"Jesse","id":"4C8C26A4-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher"}],"citation":{"ieee":"M. Tugrul, “Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.” Institute of Science and Technology Austria, 2016.","chicago":"Tugrul, Murat. “Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:43\">https://doi.org/10.15479/AT:ISTA:43</a>.","short":"M. Tugrul, (2016).","mla":"Tugrul, Murat. <i>Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:43\">10.15479/AT:ISTA:43</a>.","ama":"Tugrul M. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:43\">10.15479/AT:ISTA:43</a>","apa":"Tugrul, M. (2016). Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:43\">https://doi.org/10.15479/AT:ISTA:43</a>","ista":"Tugrul M. 2016. Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:43\">10.15479/AT:ISTA:43</a>."},"date_created":"2018-12-12T12:31:30Z","keyword":["RNAP binding","de novo promoter evolution","lac promoter"],"related_material":{"record":[{"relation":"used_in_publication","id":"1131","status":"public"}]},"has_accepted_license":"1","datarep_id":"43","year":"2016","type":"research_data","article_processing_charge":"No","oa":1,"title":"Experimental Data for Binding Site Evolution of Bacterial RNA Polymerase","department":[{"_id":"NiBa"},{"_id":"JoBo"}],"doi":"10.15479/AT:ISTA:43","day":"12","publisher":"Institute of Science and Technology Austria","date_updated":"2024-02-21T13:50:34Z"},{"abstract":[{"lang":"eng","text":"MATLAB code and processed datasets available for reproducing the results in: \r\nLukačišin, M.*, Landon, M.*, Jajoo, R*. (2016) Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.\r\n*equal contributions"}],"status":"public","date_published":"2016-08-25T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"image":"/images/cc_by_sa.png","name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)","short":"CC BY-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode"},"license":"https://creativecommons.org/licenses/by-sa/4.0/","_id":"5556","oa_version":"Published Version","file":[{"content_type":"application/zip","creator":"system","checksum":"ee697f2b1ade4dc14d6ac0334dd832ab","file_name":"IST-2016-45-v1+1_PaperCode.zip","relation":"main_file","file_id":"5616","file_size":296722548,"date_updated":"2020-07-14T12:47:02Z","date_created":"2018-12-12T13:02:58Z","access_level":"open_access"}],"author":[{"full_name":"Lukacisin, Martin","orcid":"0000-0001-6549-4177","first_name":"Martin","last_name":"Lukacisin","id":"298FFE8C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Landon","first_name":"Matthieu","full_name":"Landon, Matthieu"},{"first_name":"Rishi","last_name":"Jajoo","full_name":"Jajoo, Rishi"}],"month":"08","file_date_updated":"2020-07-14T12:47:02Z","ddc":["571"],"citation":{"ieee":"M. Lukacisin, M. Landon, and R. Jajoo, “MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2016.","chicago":"Lukacisin, Martin, Matthieu Landon, and Rishi Jajoo. “MATLAB Analysis Code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.’” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:45\">https://doi.org/10.15479/AT:ISTA:45</a>.","short":"M. Lukacisin, M. Landon, R. Jajoo, (2016).","mla":"Lukacisin, Martin, et al. <i>MATLAB Analysis Code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.”</i> Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:45\">10.15479/AT:ISTA:45</a>.","ama":"Lukacisin M, Landon M, Jajoo R. MATLAB analysis code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:45\">10.15479/AT:ISTA:45</a>","apa":"Lukacisin, M., Landon, M., &#38; Jajoo, R. (2016). MATLAB analysis code for “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:45\">https://doi.org/10.15479/AT:ISTA:45</a>","ista":"Lukacisin M, Landon M, Jajoo R. 2016. MATLAB analysis code for ‘Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:45\">10.15479/AT:ISTA:45</a>."},"keyword":["transcription","pausing","backtracking","polymerase","RNA","NET-seq","nucleosome","basepairing"],"date_created":"2018-12-12T12:31:31Z","related_material":{"record":[{"id":"8431","relation":"used_in_publication","status":"deleted"},{"relation":"research_paper","id":"1029","status":"public"}]},"datarep_id":"45","has_accepted_license":"1","year":"2016","type":"research_data","article_processing_charge":"No","oa":1,"doi":"10.15479/AT:ISTA:45","department":[{"_id":"ToBo"}],"title":"MATLAB analysis code for 'Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast'","day":"25","date_updated":"2024-02-21T13:51:53Z","publisher":"Institute of Science and Technology Austria"},{"date_published":"2016-09-20T00:00:00Z","status":"public","abstract":[{"lang":"eng","text":"Small synthetic discrete tomography problems.\r\nSizes are 32x32, 64z64 and 256x256.\r\nProjection angles are 2, 4, and 6.\r\nNumber of labels are 3 and 5."}],"tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","short":"CC0 (1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","image":"/images/cc_0.png"},"_id":"5557","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","contributor":[{"first_name":"Jan","last_name":"Kuske","contributor_type":"data_collector"}],"file_date_updated":"2020-07-14T12:47:02Z","month":"09","author":[{"full_name":"Swoboda, Paul","id":"446560C6-F248-11E8-B48F-1D18A9856A87","last_name":"Swoboda","first_name":"Paul"}],"oa_version":"Published Version","file":[{"date_created":"2018-12-12T13:05:19Z","date_updated":"2020-07-14T12:47:02Z","access_level":"open_access","file_id":"5645","file_size":36058401,"checksum":"aa5a16a0dc888da7186fb8fc45e88439","creator":"system","file_name":"IST-2016-46-v1+1_discrete_tomography_synthetic.zip","relation":"main_file","content_type":"application/zip"}],"date_created":"2018-12-12T12:31:31Z","keyword":["discrete tomography"],"citation":{"mla":"Swoboda, Paul. <i>Synthetic Discrete Tomography Problems</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:46\">10.15479/AT:ISTA:46</a>.","short":"P. Swoboda, (2016).","ieee":"P. Swoboda, “Synthetic discrete tomography problems.” Institute of Science and Technology Austria, 2016.","chicago":"Swoboda, Paul. “Synthetic Discrete Tomography Problems.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:46\">https://doi.org/10.15479/AT:ISTA:46</a>.","apa":"Swoboda, P. (2016). Synthetic discrete tomography problems. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:46\">https://doi.org/10.15479/AT:ISTA:46</a>","ista":"Swoboda P. 2016. Synthetic discrete tomography problems, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:46\">10.15479/AT:ISTA:46</a>.","ama":"Swoboda P. Synthetic discrete tomography problems. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:46\">10.15479/AT:ISTA:46</a>"},"ddc":["006"],"year":"2016","has_accepted_license":"1","datarep_id":"46","article_processing_charge":"No","oa":1,"type":"research_data","department":[{"_id":"VlKo"}],"title":"Synthetic discrete tomography problems","doi":"10.15479/AT:ISTA:46","publisher":"Institute of Science and Technology Austria","date_updated":"2024-02-21T13:50:21Z","day":"20"},{"publist_id":"6238","date_published":"2016-09-23T00:00:00Z","status":"public","abstract":[{"text":"PhD thesis LaTeX source code","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"},"_id":"5558","pubrep_id":"640","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","file":[{"file_size":55237885,"file_id":"5589","access_level":"open_access","date_updated":"2020-07-14T12:47:02Z","date_created":"2018-12-12T13:02:18Z","content_type":"application/x-bzip2","file_name":"IST-2016-48-v1+1_2016_Bojsen-Hansen_TCaAWSW.tar.bz2","relation":"main_file","creator":"system","checksum":"5b1b256ad796fbddb4b7729f5e45e444"}],"author":[{"full_name":"Bojsen-Hansen, Morten","orcid":"0000-0002-4417-3224","first_name":"Morten","last_name":"Bojsen-Hansen","id":"439F0C8C-F248-11E8-B48F-1D18A9856A87"}],"file_date_updated":"2020-07-14T12:47:02Z","month":"09","ddc":["004"],"citation":{"apa":"Bojsen-Hansen, M. (2016). Tracking, Correcting and Absorbing Water Surface Waves. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:48\">https://doi.org/10.15479/AT:ISTA:48</a>","ista":"Bojsen-Hansen M. 2016. Tracking, Correcting and Absorbing Water Surface Waves, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:48\">10.15479/AT:ISTA:48</a>.","ama":"Bojsen-Hansen M. Tracking, Correcting and Absorbing Water Surface Waves. 2016. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:48\">10.15479/AT:ISTA:48</a>","mla":"Bojsen-Hansen, Morten. <i>Tracking, Correcting and Absorbing Water Surface Waves</i>. Institute of Science and Technology Austria, 2016, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:48\">10.15479/AT:ISTA:48</a>.","short":"M. Bojsen-Hansen, (2016).","ieee":"M. Bojsen-Hansen, “Tracking, Correcting and Absorbing Water Surface Waves.” Institute of Science and Technology Austria, 2016.","chicago":"Bojsen-Hansen, Morten. “Tracking, Correcting and Absorbing Water Surface Waves.” Institute of Science and Technology Austria, 2016. <a href=\"https://doi.org/10.15479/AT:ISTA:48\">https://doi.org/10.15479/AT:ISTA:48</a>."},"date_created":"2018-12-12T12:31:31Z","year":"2016","related_material":{"record":[{"status":"public","relation":"other","id":"1122"}]},"has_accepted_license":"1","datarep_id":"48","article_processing_charge":"No","oa":1,"type":"research_data","doi":"10.15479/AT:ISTA:48","title":"Tracking, Correcting and Absorbing Water Surface Waves","department":[{"_id":"ChWo"}],"date_updated":"2024-02-21T13:50:48Z","publisher":"Institute of Science and Technology Austria","day":"23"},{"has_accepted_license":"1","related_material":{"record":[{"status":"public","id":"9719","relation":"research_data"}]},"year":"2016","oa":1,"article_processing_charge":"No","doi":"10.1093/molbev/msv270","title":"Adaptation to parasites and costs of parasite resistance in mutator and nonmutator bacteria","external_id":{"pmid":["26609077"]},"day":"01","publication_identifier":{"eissn":["1537-1719"],"issn":["0737-4038"]},"date_updated":"2023-09-05T13:46:05Z","page":"770-782","issue":"3","_id":"5749","language":[{"iso":"eng"}],"pubrep_id":"587","acknowledgement":"The authors thank three anonymous reviewers and the editor for helpful comments on the manuscript, as well as Dominique Schneider for feedback on an earlier draft, Jenna Gallie for lytic λ and Julien Capelle for T5 and T6. This work was supported by the Swiss National Science Foundation (PZ00P3_148255 to A.H.) and an EU Marie Curie PEOPLE Postdoctoral Fellowship for Career Development (FP7-PEOPLE-2012-IEF-331824 to S.W.).","author":[{"full_name":"Wielgoss, Sébastien","first_name":"Sébastien","last_name":"Wielgoss"},{"full_name":"Bergmiller, Tobias","orcid":"0000-0001-5396-4346","last_name":"Bergmiller","first_name":"Tobias","id":"2C471CFA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Bischofberger, Anna M.","last_name":"Bischofberger","first_name":"Anna M."},{"last_name":"Hall","first_name":"Alex R.","full_name":"Hall, Alex R."}],"file":[{"date_created":"2018-12-18T13:21:45Z","date_updated":"2020-07-14T12:47:10Z","access_level":"open_access","file_id":"5750","file_size":634037,"checksum":"47d9010690b6c5c17f2ac830cc63ac5c","creator":"dernst","file_name":"2016_MolBiolEvol_Wielgoss.pdf","relation":"main_file","content_type":"application/pdf"}],"month":"03","file_date_updated":"2020-07-14T12:47:10Z","ddc":["576"],"citation":{"ista":"Wielgoss S, Bergmiller T, Bischofberger AM, Hall AR. 2016. Adaptation to parasites and costs of parasite resistance in mutator and nonmutator bacteria. Molecular Biology and Evolution. 33(3), 770–782.","apa":"Wielgoss, S., Bergmiller, T., Bischofberger, A. M., &#38; Hall, A. R. (2016). Adaptation to parasites and costs of parasite resistance in mutator and nonmutator bacteria. <i>Molecular Biology and Evolution</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/molbev/msv270\">https://doi.org/10.1093/molbev/msv270</a>","ama":"Wielgoss S, Bergmiller T, Bischofberger AM, Hall AR. Adaptation to parasites and costs of parasite resistance in mutator and nonmutator bacteria. <i>Molecular Biology and Evolution</i>. 2016;33(3):770-782. doi:<a href=\"https://doi.org/10.1093/molbev/msv270\">10.1093/molbev/msv270</a>","short":"S. Wielgoss, T. Bergmiller, A.M. Bischofberger, A.R. Hall, Molecular Biology and Evolution 33 (2016) 770–782.","mla":"Wielgoss, Sébastien, et al. “Adaptation to Parasites and Costs of Parasite Resistance in Mutator and Nonmutator Bacteria.” <i>Molecular Biology and Evolution</i>, vol. 33, no. 3, Oxford University Press, 2016, pp. 770–82, doi:<a href=\"https://doi.org/10.1093/molbev/msv270\">10.1093/molbev/msv270</a>.","chicago":"Wielgoss, Sébastien, Tobias Bergmiller, Anna M. Bischofberger, and Alex R. Hall. “Adaptation to Parasites and Costs of Parasite Resistance in Mutator and Nonmutator Bacteria.” <i>Molecular Biology and Evolution</i>. Oxford University Press, 2016. <a href=\"https://doi.org/10.1093/molbev/msv270\">https://doi.org/10.1093/molbev/msv270</a>.","ieee":"S. Wielgoss, T. Bergmiller, A. M. Bischofberger, and A. R. Hall, “Adaptation to parasites and costs of parasite resistance in mutator and nonmutator bacteria,” <i>Molecular Biology and Evolution</i>, vol. 33, no. 3. Oxford University Press, pp. 770–782, 2016."},"type":"journal_article","volume":33,"department":[{"_id":"CaGu"}],"quality_controlled":"1","pmid":1,"publication_status":"published","publisher":"Oxford University Press","abstract":[{"text":"Parasitism creates selection for resistance mechanisms in host populations and is hypothesized to promote increased host evolvability. However, the influence of these traits on host evolution when parasites are no longer present is unclear. We used experimental evolution and whole-genome sequencing of Escherichia coli to determine the effects of past and present exposure to parasitic viruses (phages) on the spread of mutator alleles, resistance, and bacterial competitive fitness. We found that mutator alleles spread rapidly during adaptation to any of four different phage species, and this pattern was even more pronounced with multiple phages present simultaneously. However, hypermutability did not detectably accelerate adaptation in the absence of phages and recovery of fitness costs associated with resistance. Several lineages evolved phage resistance through elevated mucoidy, and during subsequent evolution in phage-free conditions they rapidly reverted to nonmucoid, phage-susceptible phenotypes. Genome sequencing revealed that this phenotypic reversion was achieved by additional genetic changes rather than by genotypic reversion of the initial resistance mutations. Insertion sequence (IS) elements played a key role in both the acquisition of resistance and adaptation in the absence of parasites; unlike single nucleotide polymorphisms, IS insertions were not more frequent in mutator lineages. Our results provide a genetic explanation for rapid reversion of mucoidy, a phenotype observed in other bacterial species including human pathogens. Moreover, this demonstrates that the types of genetic change underlying adaptation to fitness costs, and consequently the impact of evolvability mechanisms such as increased point-mutation rates, depend critically on the mechanism of resistance.","lang":"eng"}],"publication":"Molecular Biology and Evolution","status":"public","date_published":"2016-03-01T00:00:00Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":"        33","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":"2018-12-18T13:18:10Z"},{"type":"book_chapter","volume":9667,"department":[{"_id":"HeEd"}],"quality_controlled":"1","publication_status":"published","publisher":"Springer Nature","abstract":[{"text":"Discretization of sphere in the integer space follows a particular discretization scheme, which, in principle, conforms to some topological model. This eventually gives rise to interesting topological properties of a discrete spherical surface, which need to be investigated for its analytical characterization. This paper presents some novel results on the local topological properties of the naive model of discrete sphere. They follow from the bijection of each quadraginta octant of naive sphere with its projection map called f -map on the corresponding functional plane and from the characterization of certain jumps in the f-map. As an application, we have shown how these properties can be used in designing an efficient reconstruction algorithm for a naive spherical surface from an input voxel set when it is sparse or noisy.","lang":"eng"}],"publication":"Computational Topology in Image Context","date_published":"2016-06-02T00:00:00Z","status":"public","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","intvolume":"      9667","oa_version":"None","extern":"1","alternative_title":["LNCS"],"date_created":"2019-01-08T20:44:24Z","conference":{"start_date":"2016-06-15","end_date":"2016-06-17","location":"Marseille, France","name":"CTIC: Computational Topology in Image Context"},"year":"2016","article_processing_charge":"No","doi":"10.1007/978-3-319-39441-1_23","title":"On some local topological properties of naive discrete sphere","day":"02","publication_identifier":{"isbn":["978-3-319-39440-4"],"eisbn":["978-3-319-39441-1"],"eissn":["1611-3349"],"issn":["0302-9743"]},"date_updated":"2022-01-28T08:01:22Z","page":"253-264","place":"Cham","_id":"5805","language":[{"iso":"eng"}],"author":[{"full_name":"Sen, Nabhasmita","first_name":"Nabhasmita","last_name":"Sen"},{"id":"3C2B033E-F248-11E8-B48F-1D18A9856A87","first_name":"Ranita","last_name":"Biswas","full_name":"Biswas, Ranita","orcid":"0000-0002-5372-7890"},{"full_name":"Bhowmick, Partha","last_name":"Bhowmick","first_name":"Partha"}],"month":"06","citation":{"apa":"Sen, N., Biswas, R., &#38; Bhowmick, P. (2016). On some local topological properties of naive discrete sphere. In <i>Computational Topology in Image Context</i> (Vol. 9667, pp. 253–264). Cham: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-319-39441-1_23\">https://doi.org/10.1007/978-3-319-39441-1_23</a>","ista":"Sen N, Biswas R, Bhowmick P. 2016.On some local topological properties of naive discrete sphere. In: Computational Topology in Image Context. LNCS, vol. 9667, 253–264.","ama":"Sen N, Biswas R, Bhowmick P. On some local topological properties of naive discrete sphere. In: <i>Computational Topology in Image Context</i>. Vol 9667. Cham: Springer Nature; 2016:253-264. doi:<a href=\"https://doi.org/10.1007/978-3-319-39441-1_23\">10.1007/978-3-319-39441-1_23</a>","mla":"Sen, Nabhasmita, et al. “On Some Local Topological Properties of Naive Discrete Sphere.” <i>Computational Topology in Image Context</i>, vol. 9667, Springer Nature, 2016, pp. 253–64, doi:<a href=\"https://doi.org/10.1007/978-3-319-39441-1_23\">10.1007/978-3-319-39441-1_23</a>.","short":"N. Sen, R. Biswas, P. Bhowmick, in:, Computational Topology in Image Context, Springer Nature, Cham, 2016, pp. 253–264.","ieee":"N. Sen, R. Biswas, and P. Bhowmick, “On some local topological properties of naive discrete sphere,” in <i>Computational Topology in Image Context</i>, vol. 9667, Cham: Springer Nature, 2016, pp. 253–264.","chicago":"Sen, Nabhasmita, Ranita Biswas, and Partha Bhowmick. “On Some Local Topological Properties of Naive Discrete Sphere.” In <i>Computational Topology in Image Context</i>, 9667:253–64. Cham: Springer Nature, 2016. <a href=\"https://doi.org/10.1007/978-3-319-39441-1_23\">https://doi.org/10.1007/978-3-319-39441-1_23</a>."}},{"language":[{"iso":"eng"}],"_id":"5806","place":"Cham","page":"256-267","citation":{"apa":"Biswas, R., &#38; Bhowmick, P. (2016). On functionality of quadraginta octants of naive sphere with application to circle drawing. In <i>Discrete Geometry for Computer Imagery</i> (Vol. 9647, pp. 256–267). Cham: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-319-32360-2_20\">https://doi.org/10.1007/978-3-319-32360-2_20</a>","ista":"Biswas R, Bhowmick P. 2016. On functionality of quadraginta octants of naive sphere with application to circle drawing. Discrete Geometry for Computer Imagery. DGCI: International Conference on Discrete Geometry for Computer Imagery, LNCS, vol. 9647, 256–267.","ama":"Biswas R, Bhowmick P. On functionality of quadraginta octants of naive sphere with application to circle drawing. In: <i>Discrete Geometry for Computer Imagery</i>. Vol 9647. Cham: Springer Nature; 2016:256-267. doi:<a href=\"https://doi.org/10.1007/978-3-319-32360-2_20\">10.1007/978-3-319-32360-2_20</a>","mla":"Biswas, Ranita, and Partha Bhowmick. “On Functionality of Quadraginta Octants of Naive Sphere with Application to Circle Drawing.” <i>Discrete Geometry for Computer Imagery</i>, vol. 9647, Springer Nature, 2016, pp. 256–67, doi:<a href=\"https://doi.org/10.1007/978-3-319-32360-2_20\">10.1007/978-3-319-32360-2_20</a>.","short":"R. Biswas, P. Bhowmick, in:, Discrete Geometry for Computer Imagery, Springer Nature, Cham, 2016, pp. 256–267.","ieee":"R. Biswas and P. Bhowmick, “On functionality of quadraginta octants of naive sphere with application to circle drawing,” in <i>Discrete Geometry for Computer Imagery</i>, Nantes, France, 2016, vol. 9647, pp. 256–267.","chicago":"Biswas, Ranita, and Partha Bhowmick. “On Functionality of Quadraginta Octants of Naive Sphere with Application to Circle Drawing.” In <i>Discrete Geometry for Computer Imagery</i>, 9647:256–67. Cham: Springer Nature, 2016. <a href=\"https://doi.org/10.1007/978-3-319-32360-2_20\">https://doi.org/10.1007/978-3-319-32360-2_20</a>."},"month":"04","author":[{"last_name":"Biswas","first_name":"Ranita","id":"3C2B033E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5372-7890","full_name":"Biswas, Ranita"},{"first_name":"Partha","last_name":"Bhowmick","full_name":"Bhowmick, Partha"}],"article_processing_charge":"No","conference":{"location":"Nantes, France","name":"DGCI: International Conference on Discrete Geometry for Computer Imagery","start_date":"2016-04-18","end_date":"2016-04-20"},"year":"2016","publication_identifier":{"isbn":["978-3-319-32359-6"],"eisbn":["978-3-319-32360-2"],"issn":["0302-9743","1611-3349"]},"day":"09","date_updated":"2022-01-28T08:10:11Z","title":"On functionality of quadraginta octants of naive sphere with application to circle drawing","doi":"10.1007/978-3-319-32360-2_20","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","intvolume":"      9647","abstract":[{"lang":"eng","text":"Although the concept of functional plane for naive plane is studied and reported in the literature in great detail, no similar study is yet found for naive sphere. This article exposes the first study in this line, opening up further prospects of analyzing the topological properties of sphere in the discrete space. We show that each quadraginta octant Q of a naive sphere forms a bijection with its projected pixel set on a unique coordinate plane, which thereby serves as the functional plane of Q, and hence gives rise to merely mono-jumps during back projection. The other two coordinate planes serve as para-functional and dia-functional planes for Q, as the former is ‘mono-jumping’ but not bijective, whereas the latter holds neither of the two. Owing to this, the quadraginta octants form symmetry groups and subgroups with equivalent jump conditions. We also show a potential application in generating a special class of discrete 3D circles based on back projection and jump bridging by Steiner voxels. A circle in this class possesses 4-symmetry, uniqueness, and bounded distance from the underlying real sphere and real plane."}],"status":"public","date_published":"2016-04-09T00:00:00Z","publication":"Discrete Geometry for Computer Imagery","alternative_title":["LNCS"],"extern":"1","date_created":"2019-01-08T20:44:37Z","oa_version":"None","volume":9647,"type":"conference","publication_status":"published","publisher":"Springer Nature","department":[{"_id":"HeEd"}],"quality_controlled":"1"}]