[{"citation":{"chicago":"Barkley, Dwight, Baofang Song, Mukund Vasudevan, Grégoire M Lemoult, Marc Avila, and Björn Hof. “The Rise of Fully Turbulent Flow.” Nature. Nature Publishing Group, 2015. https://doi.org/10.1038/nature15701.","ista":"Barkley D, Song B, Vasudevan M, Lemoult GM, Avila M, Hof B. 2015. The rise of fully turbulent flow. Nature. 526(7574), 550–553.","mla":"Barkley, Dwight, et al. “The Rise of Fully Turbulent Flow.” Nature, vol. 526, no. 7574, Nature Publishing Group, 2015, pp. 550–53, doi:10.1038/nature15701.","ieee":"D. Barkley, B. Song, M. Vasudevan, G. M. Lemoult, M. Avila, and B. Hof, “The rise of fully turbulent flow,” Nature, vol. 526, no. 7574. Nature Publishing Group, pp. 550–553, 2015.","short":"D. Barkley, B. Song, M. Vasudevan, G.M. Lemoult, M. Avila, B. Hof, Nature 526 (2015) 550–553.","apa":"Barkley, D., Song, B., Vasudevan, M., Lemoult, G. M., Avila, M., & Hof, B. (2015). The rise of fully turbulent flow. Nature. Nature Publishing Group. https://doi.org/10.1038/nature15701","ama":"Barkley D, Song B, Vasudevan M, Lemoult GM, Avila M, Hof B. The rise of fully turbulent flow. Nature. 2015;526(7574):550-553. doi:10.1038/nature15701"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"5485","author":[{"first_name":"Dwight","full_name":"Barkley, Dwight","last_name":"Barkley"},{"last_name":"Song","full_name":"Song, Baofang","first_name":"Baofang"},{"first_name":"Mukund","id":"3C5A959A-F248-11E8-B48F-1D18A9856A87","full_name":"Vasudevan, Mukund","last_name":"Vasudevan"},{"full_name":"Lemoult, Grégoire M","last_name":"Lemoult","id":"4787FE80-F248-11E8-B48F-1D18A9856A87","first_name":"Grégoire M"},{"last_name":"Avila","full_name":"Avila, Marc","first_name":"Marc"},{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","orcid":"0000-0003-2057-2754","full_name":"Hof, Björn","last_name":"Hof"}],"title":"The rise of fully turbulent flow","project":[{"grant_number":"306589","name":"Decoding the complexity of turbulence at its origin","call_identifier":"FP7","_id":"25152F3A-B435-11E9-9278-68D0E5697425"}],"year":"2015","day":"21","publication":"Nature","page":"550 - 553","doi":"10.1038/nature15701","date_published":"2015-10-21T00:00:00Z","date_created":"2018-12-11T11:53:20Z","acknowledgement":"We acknowledge the Deutsche Forschungsgemeinschaft (Project No. FOR 1182), and the European Research Council under the European Union’s Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement 306589 for financial support. B.S. acknowledges financial support from the Chinese State Scholarship Fund under grant number 2010629145. B.S. acknowledges support from the International Max Planck Research School for the Physics of Biological and Complex Systems and the Göttingen Graduate School for Neurosciences and Molecular Biosciences. We acknowledge computing resources from GWDG (Gesellschaft für wissenschaftliche Datenverarbeitung Göttingen) and the Jülich Supercomputing Centre (grant HGU16) where the simulations were performed.","quality_controlled":"1","publisher":"Nature Publishing Group","oa":1,"date_updated":"2021-01-12T06:52:22Z","department":[{"_id":"BjHo"}],"_id":"1664","type":"journal_article","status":"public","publication_status":"published","language":[{"iso":"eng"}],"volume":526,"issue":"7574","ec_funded":1,"abstract":[{"lang":"eng","text":"Over a century of research into the origin of turbulence in wall-bounded shear flows has resulted in a puzzling picture in which turbulence appears in a variety of different states competing with laminar background flow. At moderate flow speeds, turbulence is confined to localized patches; it is only at higher speeds that the entire flow becomes turbulent. The origin of the different states encountered during this transition, the front dynamics of the turbulent regions and the transformation to full turbulence have yet to be explained. By combining experiments, theory and computer simulations, here we uncover a bifurcation scenario that explains the transformation to fully turbulent pipe flow and describe the front dynamics of the different states encountered in the process. Key to resolving this problem is the interpretation of the flow as a bistable system with nonlinear propagation (advection) of turbulent fronts. These findings bridge the gap between our understanding of the onset of turbulence and fully turbulent flows."}],"oa_version":"Preprint","scopus_import":1,"main_file_link":[{"url":"http://arxiv.org/abs/1510.09143","open_access":"1"}],"month":"10","intvolume":" 526"},{"page":"763 - 780","date_created":"2018-12-11T11:53:23Z","doi":"10.1007/978-3-662-48000-7_37","date_published":"2015-08-01T00:00:00Z","year":"2015","has_accepted_license":"1","publication":"Advances in Cryptology - CRYPTO 2015","day":"01","oa":1,"quality_controlled":"1","publisher":"Springer","acknowledgement":"Joël Alwen was supported by the ERC starting grant (259668-PSPC). Rafail Ostrovsky was supported in part by NSF grants 09165174, 1065276, 1118126 and 1136174, US-Israel BSF grant 2008411, OKAWA Foundation Research Award, IBM Faculty Research Award, Xerox Faculty Research Award, B. John Garrick Foundation Award, Teradata Research Award, Lockheed-Martin Corporation Research Award, and the Defense Advanced Research Projects Agency through the U.S. Office of Naval Research under Contract N00014 -11 -1-0392. The views expressed are those of the author and do not reflect the official policy or position of the Department of Defense or the U.S. Government. Vassilis Zikas was supported in part by the Swiss National Science Foundation (SNF) via the Ambizione grant PZ00P-2142549.","article_processing_charge":"No","publist_id":"5476","author":[{"first_name":"Joel F","id":"2A8DFA8C-F248-11E8-B48F-1D18A9856A87","full_name":"Alwen, Joel F","last_name":"Alwen"},{"first_name":"Rafail","last_name":"Ostrovsky","full_name":"Ostrovsky, Rafail"},{"full_name":"Zhou, Hongsheng","last_name":"Zhou","first_name":"Hongsheng"},{"first_name":"Vassilis","last_name":"Zikas","full_name":"Zikas, Vassilis"}],"title":"Incoercible multi-party computation and universally composable receipt-free voting","citation":{"mla":"Alwen, Joel F., et al. “Incoercible Multi-Party Computation and Universally Composable Receipt-Free Voting.” Advances in Cryptology - CRYPTO 2015, vol. 9216, Springer, 2015, pp. 763–80, doi:10.1007/978-3-662-48000-7_37.","apa":"Alwen, J. F., Ostrovsky, R., Zhou, H., & Zikas, V. (2015). Incoercible multi-party computation and universally composable receipt-free voting. In Advances in Cryptology - CRYPTO 2015 (Vol. 9216, pp. 763–780). Santa Barbara, CA, United States: Springer. https://doi.org/10.1007/978-3-662-48000-7_37","ama":"Alwen JF, Ostrovsky R, Zhou H, Zikas V. Incoercible multi-party computation and universally composable receipt-free voting. In: Advances in Cryptology - CRYPTO 2015. Vol 9216. Lecture Notes in Computer Science. Springer; 2015:763-780. doi:10.1007/978-3-662-48000-7_37","ieee":"J. F. Alwen, R. Ostrovsky, H. Zhou, and V. Zikas, “Incoercible multi-party computation and universally composable receipt-free voting,” in Advances in Cryptology - CRYPTO 2015, Santa Barbara, CA, United States, 2015, vol. 9216, pp. 763–780.","short":"J.F. Alwen, R. Ostrovsky, H. Zhou, V. Zikas, in:, Advances in Cryptology - CRYPTO 2015, Springer, 2015, pp. 763–780.","chicago":"Alwen, Joel F, Rafail Ostrovsky, Hongsheng Zhou, and Vassilis Zikas. “Incoercible Multi-Party Computation and Universally Composable Receipt-Free Voting.” In Advances in Cryptology - CRYPTO 2015, 9216:763–80. Lecture Notes in Computer Science. Springer, 2015. https://doi.org/10.1007/978-3-662-48000-7_37.","ista":"Alwen JF, Ostrovsky R, Zhou H, Zikas V. 2015. Incoercible multi-party computation and universally composable receipt-free voting. Advances in Cryptology - CRYPTO 2015. CRYPTO: International Cryptology ConferenceLecture Notes in Computer Science, LNCS, vol. 9216, 763–780."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"call_identifier":"FP7","_id":"258C570E-B435-11E9-9278-68D0E5697425","name":"Provable Security for Physical Cryptography","grant_number":"259668"}],"ec_funded":1,"volume":9216,"publication_status":"published","publication_identifier":{"isbn":["978-3-662-47999-5"],"eisbn":["978-3-662-48000-7"]},"language":[{"iso":"eng"}],"file":[{"date_created":"2020-05-15T08:55:29Z","file_name":"2015_CRYPTO_Alwen.pdf","date_updated":"2020-07-14T12:45:11Z","file_size":397363,"creator":"dernst","file_id":"7853","checksum":"5b6649e80d1f781a8910f7cce6427f78","content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"alternative_title":["LNCS"],"scopus_import":"1","intvolume":" 9216","month":"08","abstract":[{"text":"Composable notions of incoercibility aim to forbid a coercer from using anything beyond the coerced parties’ inputs and outputs to catch them when they try to deceive him. Existing definitions are restricted to weak coercion types, and/or are not universally composable. Furthermore, they often make too strong assumptions on the knowledge of coerced parties—e.g., they assume they known the identities and/or the strategies of other coerced parties, or those of corrupted parties— which makes them unsuitable for applications of incoercibility such as e-voting, where colluding adversarial parties may attempt to coerce honest voters, e.g., by offering them money for a promised vote, and use their own view to check that the voter keeps his end of the bargain. In this work we put forward the first universally composable notion of incoercible multi-party computation, which satisfies the above intuition and does not assume collusions among coerced parties or knowledge of the corrupted set. We define natural notions of UC incoercibility corresponding to standard coercion-types, i.e., receipt-freeness and resistance to full-active coercion. Importantly, our suggested notion has the unique property that it builds on top of the well studied UC framework by Canetti instead of modifying it. This guarantees backwards compatibility, and allows us to inherit results from the rich UC literature. We then present MPC protocols which realize our notions of UC incoercibility given access to an arguably minimal setup—namely honestly generate tamper-proof hardware performing a very simple cryptographic operation—e.g., a smart card. This is, to our knowledge, the first proposed construction of an MPC protocol (for more than two parties) that is incoercibly secure and universally composable, and therefore the first construction of a universally composable receipt-free e-voting protocol.","lang":"eng"}],"oa_version":"Submitted Version","file_date_updated":"2020-07-14T12:45:11Z","department":[{"_id":"KrPi"}],"date_updated":"2022-06-07T09:51:55Z","ddc":["000"],"conference":{"start_date":"2015-08-16","end_date":"2015-08-20","location":"Santa Barbara, CA, United States","name":"CRYPTO: International Cryptology Conference"},"type":"conference","status":"public","_id":"1672","series_title":"Lecture Notes in Computer Science"},{"file":[{"access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"5351","checksum":"8cd4215b83efba720e8cf27c23ff4781","creator":"system","date_updated":"2020-07-14T12:45:11Z","file_size":443340,"date_created":"2018-12-12T10:18:29Z","file_name":"IST-2016-669-v1+1_599.pdf"}],"language":[{"iso":"eng"}],"publication_status":"published","volume":9230,"ec_funded":1,"oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"Computational notions of entropy (a.k.a. pseudoentropy) have found many applications, including leakage-resilient cryptography, deterministic encryption or memory delegation. The most important tools to argue about pseudoentropy are chain rules, which quantify by how much (in terms of quantity and quality) the pseudoentropy of a given random variable X decreases when conditioned on some other variable Z (think for example of X as a secret key and Z as information leaked by a side-channel). In this paper we give a very simple and modular proof of the chain rule for HILL pseudoentropy, improving best known parameters. Our version allows for increasing the acceptable length of leakage in applications up to a constant factor compared to the best previous bounds. As a contribution of independent interest, we provide a comprehensive study of all known versions of the chain rule, comparing their worst-case strength and limitations."}],"month":"08","intvolume":" 9230","scopus_import":1,"alternative_title":["LNCS"],"ddc":["005"],"date_updated":"2021-01-12T06:52:24Z","department":[{"_id":"KrPi"}],"file_date_updated":"2020-07-14T12:45:11Z","_id":"1669","series_title":"Lecture Notes in Computer Science","status":"public","pubrep_id":"669","type":"conference","conference":{"name":"LATINCRYPT: Cryptology and Information Security in Latin America","start_date":"2015-08-23","location":"Guadalajara, Mexico","end_date":"2015-08-26"},"day":"15","has_accepted_license":"1","year":"2015","doi":"10.1007/978-3-319-22174-8_5","date_published":"2015-08-15T00:00:00Z","date_created":"2018-12-11T11:53:22Z","page":"81 - 98","quality_controlled":"1","publisher":"Springer","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Pietrzak, Krzysztof Z., and Maciej Skórski. The Chain Rule for HILL Pseudoentropy, Revisited. Vol. 9230, Springer, 2015, pp. 81–98, doi:10.1007/978-3-319-22174-8_5.","apa":"Pietrzak, K. Z., & Skórski, M. (2015). The chain rule for HILL pseudoentropy, revisited. Presented at the LATINCRYPT: Cryptology and Information Security in Latin America, Guadalajara, Mexico: Springer. https://doi.org/10.1007/978-3-319-22174-8_5","ama":"Pietrzak KZ, Skórski M. The chain rule for HILL pseudoentropy, revisited. 2015;9230:81-98. doi:10.1007/978-3-319-22174-8_5","ieee":"K. Z. Pietrzak and M. Skórski, “The chain rule for HILL pseudoentropy, revisited,” vol. 9230. Springer, pp. 81–98, 2015.","short":"K.Z. Pietrzak, M. Skórski, 9230 (2015) 81–98.","chicago":"Pietrzak, Krzysztof Z, and Maciej Skórski. “The Chain Rule for HILL Pseudoentropy, Revisited.” Lecture Notes in Computer Science. Springer, 2015. https://doi.org/10.1007/978-3-319-22174-8_5.","ista":"Pietrzak KZ, Skórski M. 2015. The chain rule for HILL pseudoentropy, revisited. 9230, 81–98."},"title":"The chain rule for HILL pseudoentropy, revisited","publist_id":"5480","author":[{"orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z","last_name":"Pietrzak","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof Z"},{"full_name":"Skórski, Maciej","last_name":"Skórski","first_name":"Maciej"}],"project":[{"call_identifier":"FP7","_id":"258C570E-B435-11E9-9278-68D0E5697425","grant_number":"259668","name":"Provable Security for Physical Cryptography"}]},{"conference":{"location":"Santa Barbara, CA, United States","end_date":"2015-08-20","start_date":"2015-08-16","name":"CRYPTO: International Cryptology Conference"},"type":"conference","pubrep_id":"673","status":"public","_id":"1671","file_date_updated":"2020-07-14T12:45:11Z","department":[{"_id":"KrPi"}],"date_updated":"2021-01-12T06:52:25Z","ddc":["004","005"],"scopus_import":1,"alternative_title":["LNCS"],"intvolume":" 9215","month":"08","abstract":[{"lang":"eng","text":"This paper studies the concrete security of PRFs and MACs obtained by keying hash functions based on the sponge paradigm. One such hash function is KECCAK, selected as NIST’s new SHA-3 standard. In contrast to other approaches like HMAC, the exact security of keyed sponges is not well understood. Indeed, recent security analyses delivered concrete security bounds which are far from existing attacks. This paper aims to close this gap. We prove (nearly) exact bounds on the concrete PRF security of keyed sponges using a random permutation. These bounds are tight for the most relevant ranges of parameters, i.e., for messages of length (roughly) l ≤ min{2n/4, 2r} blocks, where n is the state size and r is the desired output length; and for l ≤ q queries (to the construction or the underlying permutation). Moreover, we also improve standard-model bounds. As an intermediate step of independent interest, we prove tight bounds on the PRF security of the truncated CBC-MAC construction, which operates as plain CBC-MAC, but only returns a prefix of the output."}],"oa_version":"Submitted Version","ec_funded":1,"volume":9215,"publication_status":"published","language":[{"iso":"eng"}],"file":[{"date_created":"2018-12-12T10:10:38Z","file_name":"IST-2016-673-v1+1_053.pdf","creator":"system","date_updated":"2020-07-14T12:45:11Z","file_size":592296,"checksum":"17d854227b3b753fd34f5d29e5b5a32e","file_id":"4827","access_level":"open_access","relation":"main_file","content_type":"application/pdf"}],"project":[{"grant_number":"259668","name":"Provable Security for Physical Cryptography","_id":"258C570E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"publist_id":"5478","author":[{"last_name":"Gazi","full_name":"Gazi, Peter","first_name":"Peter","id":"3E0BFE38-F248-11E8-B48F-1D18A9856A87"},{"id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof Z","orcid":"0000-0002-9139-1654","full_name":"Pietrzak, Krzysztof Z","last_name":"Pietrzak"},{"first_name":"Stefano","last_name":"Tessaro","full_name":"Tessaro, Stefano"}],"title":"The exact PRF security of truncation: Tight bounds for keyed sponges and truncated CBC","citation":{"ista":"Gazi P, Pietrzak KZ, Tessaro S. 2015. The exact PRF security of truncation: Tight bounds for keyed sponges and truncated CBC. CRYPTO: International Cryptology Conference, LNCS, vol. 9215, 368–387.","chicago":"Gazi, Peter, Krzysztof Z Pietrzak, and Stefano Tessaro. “The Exact PRF Security of Truncation: Tight Bounds for Keyed Sponges and Truncated CBC,” 9215:368–87. Springer, 2015. https://doi.org/10.1007/978-3-662-47989-6_18.","ieee":"P. Gazi, K. Z. Pietrzak, and S. Tessaro, “The exact PRF security of truncation: Tight bounds for keyed sponges and truncated CBC,” presented at the CRYPTO: International Cryptology Conference, Santa Barbara, CA, United States, 2015, vol. 9215, pp. 368–387.","short":"P. Gazi, K.Z. Pietrzak, S. Tessaro, in:, Springer, 2015, pp. 368–387.","ama":"Gazi P, Pietrzak KZ, Tessaro S. The exact PRF security of truncation: Tight bounds for keyed sponges and truncated CBC. In: Vol 9215. Springer; 2015:368-387. doi:10.1007/978-3-662-47989-6_18","apa":"Gazi, P., Pietrzak, K. Z., & Tessaro, S. (2015). The exact PRF security of truncation: Tight bounds for keyed sponges and truncated CBC (Vol. 9215, pp. 368–387). Presented at the CRYPTO: International Cryptology Conference, Santa Barbara, CA, United States: Springer. https://doi.org/10.1007/978-3-662-47989-6_18","mla":"Gazi, Peter, et al. The Exact PRF Security of Truncation: Tight Bounds for Keyed Sponges and Truncated CBC. Vol. 9215, Springer, 2015, pp. 368–87, doi:10.1007/978-3-662-47989-6_18."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"quality_controlled":"1","publisher":"Springer","page":"368 - 387","date_created":"2018-12-11T11:53:23Z","date_published":"2015-08-01T00:00:00Z","doi":"10.1007/978-3-662-47989-6_18","year":"2015","has_accepted_license":"1","day":"01"},{"_id":"1673","status":"public","type":"journal_article","ddc":["000"],"date_updated":"2021-01-12T06:52:26Z","department":[{"_id":"KrCh"}],"file_date_updated":"2020-07-14T12:45:11Z","oa_version":"Published Version","abstract":[{"lang":"eng","text":"When a new mutant arises in a population, there is a probability it outcompetes the residents and fixes. The structure of the population can affect this fixation probability. Suppressing population structures reduce the difference between two competing variants, while amplifying population structures enhance the difference. Suppressors are ubiquitous and easy to construct, but amplifiers for the large population limit are more elusive and only a few examples have been discovered. Whether or not a population structure is an amplifier of selection depends on the probability distribution for the placement of the invading mutant. First, we prove that there exist only bounded amplifiers for adversarial placement-that is, for arbitrary initial conditions. Next, we show that the Star population structure, which is known to amplify for mutants placed uniformly at random, does not amplify for mutants that arise through reproduction and are therefore placed proportional to the temperatures of the vertices. Finally, we construct population structures that amplify for all mutational events that arise through reproduction, uniformly at random, or through some combination of the two. "}],"month":"09","intvolume":" 471","scopus_import":1,"file":[{"content_type":"application/pdf","relation":"main_file","access_level":"open_access","checksum":"e613d94d283c776322403a28aad11bdd","file_id":"6342","file_size":391466,"date_updated":"2020-07-14T12:45:11Z","creator":"kschuh","file_name":"2015_rspa_Adlam.pdf","date_created":"2019-04-18T12:39:56Z"}],"language":[{"iso":"eng"}],"publication_status":"published","issue":"2181","volume":471,"ec_funded":1,"article_number":"20150114","project":[{"grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Adlam, Ben, Krishnendu Chatterjee, and Martin Nowak. “Amplifiers of Selection.” Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences. Royal Society of London, 2015. https://doi.org/10.1098/rspa.2015.0114.","ista":"Adlam B, Chatterjee K, Nowak M. 2015. Amplifiers of selection. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences. 471(2181), 20150114.","mla":"Adlam, Ben, et al. “Amplifiers of Selection.” Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, vol. 471, no. 2181, 20150114, Royal Society of London, 2015, doi:10.1098/rspa.2015.0114.","ieee":"B. Adlam, K. Chatterjee, and M. Nowak, “Amplifiers of selection,” Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences, vol. 471, no. 2181. Royal Society of London, 2015.","short":"B. Adlam, K. Chatterjee, M. Nowak, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences 471 (2015).","ama":"Adlam B, Chatterjee K, Nowak M. Amplifiers of selection. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences. 2015;471(2181). doi:10.1098/rspa.2015.0114","apa":"Adlam, B., Chatterjee, K., & Nowak, M. (2015). Amplifiers of selection. Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences. Royal Society of London. https://doi.org/10.1098/rspa.2015.0114"},"title":"Amplifiers of selection","publist_id":"5477","author":[{"first_name":"Ben","last_name":"Adlam","full_name":"Adlam, Ben"},{"first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu"},{"first_name":"Martin","full_name":"Nowak, Martin","last_name":"Nowak"}],"acknowledgement":"K.C. gratefully acknowledges support from ERC Start grant no. (279307: Graph Games), Austrian Science Fund (FWF) grant no. P23499-N23, and FWF NFN grant no. S11407-N23 (RiSE). ","quality_controlled":"1","publisher":"Royal Society of London","oa":1,"day":"08","publication":"Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences","has_accepted_license":"1","year":"2015","date_published":"2015-09-08T00:00:00Z","doi":"10.1098/rspa.2015.0114","date_created":"2018-12-11T11:53:24Z"},{"oa":1,"publisher":"Springer","quality_controlled":"1","page":"319 - 341","date_created":"2018-12-11T11:53:22Z","date_published":"2015-08-12T00:00:00Z","doi":"10.1007/978-3-662-48116-5_16","year":"2015","day":"12","project":[{"name":"Provable Security for Physical Cryptography","grant_number":"259668","_id":"258C570E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"author":[{"first_name":"Peter","id":"3E0BFE38-F248-11E8-B48F-1D18A9856A87","full_name":"Gazi, Peter","last_name":"Gazi"},{"first_name":"Jooyoung","full_name":"Lee, Jooyoung","last_name":"Lee"},{"full_name":"Seurin, Yannick","last_name":"Seurin","first_name":"Yannick"},{"last_name":"Steinberger","full_name":"Steinberger, John","first_name":"John"},{"first_name":"Stefano","last_name":"Tessaro","full_name":"Tessaro, Stefano"}],"publist_id":"5481","title":"Relaxing full-codebook security: A refined analysis of key-length extension schemes","citation":{"chicago":"Gazi, Peter, Jooyoung Lee, Yannick Seurin, John Steinberger, and Stefano Tessaro. “Relaxing Full-Codebook Security: A Refined Analysis of Key-Length Extension Schemes.” Lecture Notes in Computer Science. Springer, 2015. https://doi.org/10.1007/978-3-662-48116-5_16.","ista":"Gazi P, Lee J, Seurin Y, Steinberger J, Tessaro S. 2015. Relaxing full-codebook security: A refined analysis of key-length extension schemes. 9054, 319–341.","mla":"Gazi, Peter, et al. Relaxing Full-Codebook Security: A Refined Analysis of Key-Length Extension Schemes. Vol. 9054, Springer, 2015, pp. 319–41, doi:10.1007/978-3-662-48116-5_16.","apa":"Gazi, P., Lee, J., Seurin, Y., Steinberger, J., & Tessaro, S. (2015). Relaxing full-codebook security: A refined analysis of key-length extension schemes. Presented at the FSE: Fast Software Encryption, Istanbul, Turkey: Springer. https://doi.org/10.1007/978-3-662-48116-5_16","ama":"Gazi P, Lee J, Seurin Y, Steinberger J, Tessaro S. Relaxing full-codebook security: A refined analysis of key-length extension schemes. 2015;9054:319-341. doi:10.1007/978-3-662-48116-5_16","short":"P. Gazi, J. Lee, Y. Seurin, J. Steinberger, S. Tessaro, 9054 (2015) 319–341.","ieee":"P. Gazi, J. Lee, Y. Seurin, J. Steinberger, and S. Tessaro, “Relaxing full-codebook security: A refined analysis of key-length extension schemes,” vol. 9054. Springer, pp. 319–341, 2015."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"url":"http://eprint.iacr.org/2015/397","open_access":"1"}],"alternative_title":["LNCS"],"scopus_import":1,"intvolume":" 9054","month":"08","abstract":[{"text":"We revisit the security (as a pseudorandom permutation) of cascading-based constructions for block-cipher key-length extension. Previous works typically considered the extreme case where the adversary is given the entire codebook of the construction, the only complexity measure being the number qe of queries to the underlying ideal block cipher, representing adversary’s secret-key-independent computation. Here, we initiate a systematic study of the more natural case of an adversary restricted to adaptively learning a number qc of plaintext/ciphertext pairs that is less than the entire codebook. For any such qc, we aim to determine the highest number of block-cipher queries qe the adversary can issue without being able to successfully distinguish the construction (under a secret key) from a random permutation.\r\nMore concretely, we show the following results for key-length extension schemes using a block cipher with n-bit blocks and κ-bit keys:\r\nPlain cascades of length ℓ=2r+1 are secure whenever qcqre≪2r(κ+n), qc≪2κ and qe≪22κ. The bound for r=1 also applies to two-key triple encryption (as used within Triple DES).\r\nThe r-round XOR-cascade is secure as long as qcqre≪2r(κ+n), matching an attack by Gaži (CRYPTO 2013).\r\nWe fully characterize the security of Gaži and Tessaro’s two-call ","lang":"eng"}],"oa_version":"Submitted Version","ec_funded":1,"volume":9054,"publication_status":"published","language":[{"iso":"eng"}],"conference":{"name":"FSE: Fast Software Encryption","start_date":"2015-03-08","location":"Istanbul, Turkey","end_date":"2015-03-11"},"type":"conference","status":"public","_id":"1668","series_title":"Lecture Notes in Computer Science","department":[{"_id":"KrPi"}],"date_updated":"2020-08-11T10:09:26Z"},{"oa_version":"None","acknowledgement":"This work was partly supported by the German Research Foundation (DFG) as part of the Transregional Collaborative Research Center “Automatic Verification and Analysis of Complex Systems” (SFB/TR 14 AVACS, http://www.avacs.org/), by the European Research Council (ERC) under grant 267989 (QUAREM), by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE) and Z211-N23 (Wittgenstein Award), and by the Swiss National Science Foundation (SNSF) as part of the project “Automated Reformulation and Pruning in Factored State Spaces (ARAP)”.","abstract":[{"text":"Planning in hybrid domains poses a special challenge due to the involved mixed discrete-continuous dynamics. A recent solving approach for such domains is based on applying model checking techniques on a translation of PDDL+ planning problems to hybrid automata. However, the proposed translation is limited because must behavior is only overapproximated, and hence, processes and events are not reflected exactly. In this paper, we present the theoretical foundation of an exact PDDL+ translation. We propose a schema to convert a hybrid automaton with must transitions into an equivalent hybrid automaton featuring only may transitions.","lang":"eng"}],"month":"06","publisher":"AAAI Press","scopus_import":1,"quality_controlled":"1","main_file_link":[{"url":"https://www.aaai.org/ocs/index.php/ICAPS/ICAPS15/paper/view/10606/10394"}],"day":"01","language":[{"iso":"eng"}],"publication_status":"published","year":"2015","date_published":"2015-06-01T00:00:00Z","date_created":"2018-12-11T11:53:23Z","ec_funded":1,"page":"42 - 46","_id":"1670","project":[{"_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Quantitative Reactive Modeling","grant_number":"267989"},{"grant_number":"Z211","name":"The Wittgenstein Prize","call_identifier":"FWF","_id":"25F42A32-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","grant_number":"S 11407_N23"}],"status":"public","type":"conference","conference":{"location":"Jerusalem, Israel","end_date":"2015-06-11","start_date":"2015-06-07","name":"ICAPS: International Conference on Automated Planning and Scheduling"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Bogomolov S, Magazzeni D, Minopoli S, Wehrle M. 2015. PDDL+ planning with hybrid automata: Foundations of translating must behavior. ICAPS: International Conference on Automated Planning and Scheduling, 42–46.","chicago":"Bogomolov, Sergiy, Daniele Magazzeni, Stefano Minopoli, and Martin Wehrle. “PDDL+ Planning with Hybrid Automata: Foundations of Translating Must Behavior,” 42–46. AAAI Press, 2015.","ama":"Bogomolov S, Magazzeni D, Minopoli S, Wehrle M. PDDL+ planning with hybrid automata: Foundations of translating must behavior. In: AAAI Press; 2015:42-46.","apa":"Bogomolov, S., Magazzeni, D., Minopoli, S., & Wehrle, M. (2015). PDDL+ planning with hybrid automata: Foundations of translating must behavior (pp. 42–46). Presented at the ICAPS: International Conference on Automated Planning and Scheduling, Jerusalem, Israel: AAAI Press.","short":"S. Bogomolov, D. Magazzeni, S. Minopoli, M. Wehrle, in:, AAAI Press, 2015, pp. 42–46.","ieee":"S. Bogomolov, D. Magazzeni, S. Minopoli, and M. Wehrle, “PDDL+ planning with hybrid automata: Foundations of translating must behavior,” presented at the ICAPS: International Conference on Automated Planning and Scheduling, Jerusalem, Israel, 2015, pp. 42–46.","mla":"Bogomolov, Sergiy, et al. PDDL+ Planning with Hybrid Automata: Foundations of Translating Must Behavior. AAAI Press, 2015, pp. 42–46."},"date_updated":"2021-01-12T06:52:25Z","title":"PDDL+ planning with hybrid automata: Foundations of translating must behavior","department":[{"_id":"ToHe"}],"publist_id":"5479","author":[{"full_name":"Bogomolov, Sergiy","orcid":"0000-0002-0686-0365","last_name":"Bogomolov","first_name":"Sergiy","id":"369D9A44-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Daniele","full_name":"Magazzeni, Daniele","last_name":"Magazzeni"},{"first_name":"Stefano","full_name":"Minopoli, Stefano","last_name":"Minopoli"},{"last_name":"Wehrle","full_name":"Wehrle, Martin","first_name":"Martin"}]},{"date_published":"2015-09-01T00:00:00Z","volume":27,"doi":"10.1142/S0129055X1550018X","issue":"8","date_created":"2018-12-11T11:53:24Z","publication_status":"published","year":"2015","day":"01","publication":"Reviews in Mathematical Physics","language":[{"iso":"eng"}],"publisher":"World Scientific Publishing","scopus_import":1,"quality_controlled":"1","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1407.8015"}],"oa":1,"month":"09","intvolume":" 27","abstract":[{"text":"We consider N × N random matrices of the form H = W + V where W is a real symmetric Wigner matrix and V a random or deterministic, real, diagonal matrix whose entries are independent of W. We assume subexponential decay for the matrix entries of W and we choose V so that the eigenvalues of W and V are typically of the same order. For a large class of diagonal matrices V, we show that the rescaled distribution of the extremal eigenvalues is given by the Tracy-Widom distribution F1 in the limit of large N. Our proofs also apply to the complex Hermitian setting, i.e. when W is a complex Hermitian Wigner matrix.","lang":"eng"}],"oa_version":"Preprint","publist_id":"5475","author":[{"last_name":"Lee","full_name":"Lee, Jioon","first_name":"Jioon"},{"full_name":"Schnelli, Kevin","orcid":"0000-0003-0954-3231","last_name":"Schnelli","id":"434AD0AE-F248-11E8-B48F-1D18A9856A87","first_name":"Kevin"}],"department":[{"_id":"LaEr"}],"title":"Edge universality for deformed Wigner matrices","citation":{"mla":"Lee, Jioon, and Kevin Schnelli. “Edge Universality for Deformed Wigner Matrices.” Reviews in Mathematical Physics, vol. 27, no. 8, 1550018, World Scientific Publishing, 2015, doi:10.1142/S0129055X1550018X.","ieee":"J. Lee and K. Schnelli, “Edge universality for deformed Wigner matrices,” Reviews in Mathematical Physics, vol. 27, no. 8. World Scientific Publishing, 2015.","short":"J. Lee, K. Schnelli, Reviews in Mathematical Physics 27 (2015).","apa":"Lee, J., & Schnelli, K. (2015). Edge universality for deformed Wigner matrices. Reviews in Mathematical Physics. World Scientific Publishing. https://doi.org/10.1142/S0129055X1550018X","ama":"Lee J, Schnelli K. Edge universality for deformed Wigner matrices. Reviews in Mathematical Physics. 2015;27(8). doi:10.1142/S0129055X1550018X","chicago":"Lee, Jioon, and Kevin Schnelli. “Edge Universality for Deformed Wigner Matrices.” Reviews in Mathematical Physics. World Scientific Publishing, 2015. https://doi.org/10.1142/S0129055X1550018X.","ista":"Lee J, Schnelli K. 2015. Edge universality for deformed Wigner matrices. Reviews in Mathematical Physics. 27(8), 1550018."},"date_updated":"2021-01-12T06:52:26Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","status":"public","_id":"1674","article_number":"1550018"},{"article_number":"091102","title":"Taylor's Forest","publist_id":"5469","author":[{"first_name":"Grégoire M","id":"4787FE80-F248-11E8-B48F-1D18A9856A87","last_name":"Lemoult","full_name":"Lemoult, Grégoire M"},{"first_name":"Philipp","id":"384F7C04-F248-11E8-B48F-1D18A9856A87","full_name":"Maier, Philipp","last_name":"Maier"},{"id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","last_name":"Hof"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Lemoult, Grégoire M, Philipp Maier, and Björn Hof. “Taylor’s Forest.” Physics of Fluids. American Institute of Physics, 2015. https://doi.org/10.1063/1.4930850.","ista":"Lemoult GM, Maier P, Hof B. 2015. Taylor’s Forest. Physics of Fluids. 27(9), 091102.","mla":"Lemoult, Grégoire M., et al. “Taylor’s Forest.” Physics of Fluids, vol. 27, no. 9, 091102, American Institute of Physics, 2015, doi:10.1063/1.4930850.","ama":"Lemoult GM, Maier P, Hof B. Taylor’s Forest. Physics of Fluids. 2015;27(9). doi:10.1063/1.4930850","apa":"Lemoult, G. M., Maier, P., & Hof, B. (2015). Taylor’s Forest. Physics of Fluids. American Institute of Physics. https://doi.org/10.1063/1.4930850","ieee":"G. M. Lemoult, P. Maier, and B. Hof, “Taylor’s Forest,” Physics of Fluids, vol. 27, no. 9. American Institute of Physics, 2015.","short":"G.M. Lemoult, P. Maier, B. Hof, Physics of Fluids 27 (2015)."},"publisher":"American Institute of Physics","quality_controlled":"1","oa":1,"date_published":"2015-09-24T00:00:00Z","doi":"10.1063/1.4930850","date_created":"2018-12-11T11:53:26Z","day":"24","publication":"Physics of Fluids","has_accepted_license":"1","year":"2015","status":"public","pubrep_id":"748","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"_id":"1679","department":[{"_id":"BjHo"}],"file_date_updated":"2020-07-14T12:45:12Z","ddc":["532"],"date_updated":"2021-01-12T06:52:28Z","month":"09","intvolume":" 27","scopus_import":1,"oa_version":"Published Version","volume":27,"issue":"9","file":[{"content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"604bba3c2496aadb3efcff77de01ce6c","file_id":"5019","date_updated":"2020-07-14T12:45:12Z","file_size":872366,"creator":"system","date_created":"2018-12-12T10:13:35Z","file_name":"IST-2017-748-v1+1_1.4930850.pdf"}],"language":[{"iso":"eng"}],"publication_status":"published"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Sixt, Michael K., and Erez Raz. “Editorial Overview: Cell Adhesion and Migration.” Current Opinion in Cell Biology, vol. 36, no. 10, Elsevier, 2015, pp. 4–6, doi:10.1016/j.ceb.2015.09.004.","short":"M.K. Sixt, E. Raz, Current Opinion in Cell Biology 36 (2015) 4–6.","ieee":"M. K. Sixt and E. Raz, “Editorial overview: Cell adhesion and migration,” Current Opinion in Cell Biology, vol. 36, no. 10. Elsevier, pp. 4–6, 2015.","apa":"Sixt, M. K., & Raz, E. (2015). Editorial overview: Cell adhesion and migration. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2015.09.004","ama":"Sixt MK, Raz E. Editorial overview: Cell adhesion and migration. Current Opinion in Cell Biology. 2015;36(10):4-6. doi:10.1016/j.ceb.2015.09.004","chicago":"Sixt, Michael K, and Erez Raz. “Editorial Overview: Cell Adhesion and Migration.” Current Opinion in Cell Biology. Elsevier, 2015. https://doi.org/10.1016/j.ceb.2015.09.004.","ista":"Sixt MK, Raz E. 2015. Editorial overview: Cell adhesion and migration. Current Opinion in Cell Biology. 36(10), 4–6."},"date_updated":"2021-01-12T06:52:27Z","title":"Editorial overview: Cell adhesion and migration","department":[{"_id":"MiSi"}],"publist_id":"5473","author":[{"first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","last_name":"Sixt"},{"first_name":"Erez","last_name":"Raz","full_name":"Raz, Erez"}],"_id":"1676","status":"public","type":"journal_article","language":[{"iso":"eng"}],"publication":"Current Opinion in Cell Biology","day":"01","publication_status":"published","year":"2015","date_created":"2018-12-11T11:53:25Z","issue":"10","volume":36,"doi":"10.1016/j.ceb.2015.09.004","date_published":"2015-10-01T00:00:00Z","page":"4 - 6","oa_version":"None","intvolume":" 36","month":"10","scopus_import":1,"publisher":"Elsevier"},{"citation":{"ieee":"B. Vicoso and D. Bachtrog, “Numerous transitions of sex chromosomes in Diptera,” PLoS Biology, vol. 13, no. 4. Public Library of Science, 2015.","short":"B. Vicoso, D. Bachtrog, PLoS Biology 13 (2015).","apa":"Vicoso, B., & Bachtrog, D. (2015). Numerous transitions of sex chromosomes in Diptera. PLoS Biology. Public Library of Science. https://doi.org/10.1371/journal.pbio.1002078","ama":"Vicoso B, Bachtrog D. Numerous transitions of sex chromosomes in Diptera. PLoS Biology. 2015;13(4). doi:10.1371/journal.pbio.1002078","mla":"Vicoso, Beatriz, and Doris Bachtrog. “Numerous Transitions of Sex Chromosomes in Diptera.” PLoS Biology, vol. 13, no. 4, e1002078, Public Library of Science, 2015, doi:10.1371/journal.pbio.1002078.","ista":"Vicoso B, Bachtrog D. 2015. Numerous transitions of sex chromosomes in Diptera. PLoS Biology. 13(4), e1002078.","chicago":"Vicoso, Beatriz, and Doris Bachtrog. “Numerous Transitions of Sex Chromosomes in Diptera.” PLoS Biology. Public Library of Science, 2015. https://doi.org/10.1371/journal.pbio.1002078."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"5463","author":[{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","last_name":"Vicoso"},{"full_name":"Bachtrog, Doris","last_name":"Bachtrog","first_name":"Doris"}],"title":"Numerous transitions of sex chromosomes in Diptera","article_number":"e1002078","year":"2015","has_accepted_license":"1","publication":"PLoS Biology","day":"16","date_created":"2018-12-11T11:53:27Z","date_published":"2015-04-16T00:00:00Z","doi":"10.1371/journal.pbio.1002078","acknowledgement":"This research was funded by NIH grants (R01GM076007 and R01GM093182) to DB. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.\r\nWe thank the people listed in S2 Table for samples, Jere Schweikert for identifying Tephritid species, and Zaak Walton for technical assistance.","oa":1,"publisher":"Public Library of Science","quality_controlled":"1","date_updated":"2021-01-12T06:52:30Z","ddc":["570"],"extern":"1","file_date_updated":"2020-07-14T12:45:12Z","_id":"1684","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","pubrep_id":"492","status":"public","publication_status":"published","language":[{"iso":"eng"}],"file":[{"date_created":"2018-12-12T10:11:05Z","file_name":"IST-2016-492-v1+1_journal.pbio.1002078.pdf","creator":"system","date_updated":"2020-07-14T12:45:12Z","file_size":1104701,"file_id":"4858","checksum":"92a300d7b97eafb477885303f7632fe1","access_level":"open_access","relation":"main_file","content_type":"application/pdf"}],"volume":13,"issue":"4","abstract":[{"lang":"eng","text":"Many species groups, including mammals and many insects, determine sex using heteromorphic sex chromosomes. Diptera flies, which include the model Drosophila melanogaster, generally have XY sex chromosomes and a conserved karyotype consisting of six chromosomal arms (five large rods and a small dot), but superficially similar karyotypes may conceal the true extent of sex chromosome variation. Here, we use whole-genome analysis in 37 fly species belonging to 22 different families of Diptera and uncover tremendous hidden diversity in sex chromosome karyotypes among flies. We identify over a dozen different sex chromosome configurations, and the small dot chromosome is repeatedly used as the sex chromosome, which presumably reflects the ancestral karyotype of higher Diptera. However, we identify species with undifferentiated sex chromosomes, others in which a different chromosome replaced the dot as a sex chromosome or in which up to three chromosomal elements became incorporated into the sex chromosomes, and others yet with female heterogamety (ZW sex chromosomes). Transcriptome analysis shows that dosage compensation has evolved multiple times in flies, consistently through up-regulation of the single X in males. However, X chromosomes generally show a deficiency of genes with male-biased expression, possibly reflecting sex-specific selective pressures. These species thus provide a rich resource to study sex chromosome biology in a comparative manner and show that similar selective forces have shaped the unique evolution of sex chromosomes in diverse fly taxa."}],"oa_version":"Published Version","intvolume":" 13","month":"04"},{"_id":"1687","status":"public","pubrep_id":"445","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["570"],"date_updated":"2021-01-12T06:52:31Z","file_date_updated":"2020-07-14T12:45:12Z","department":[{"_id":"MiSi"}],"oa_version":"Published Version","abstract":[{"lang":"eng","text":"Guided cell movement is essential for development and integrity of animals and crucially involved in cellular immune responses. Leukocytes are professional migratory cells that can navigate through most types of tissues and sense a wide range of directional cues. The responses of these cells to attractants have been mainly explored in tissue culture settings. How leukocytes make directional decisions in situ, within the challenging environment of a tissue maze, is less understood. Here we review recent advances in how leukocytes sense chemical cues in complex tissue settings and make links with paradigms of directed migration in development and Dictyostelium discoideum amoebae."}],"month":"10","intvolume":" 36","scopus_import":1,"file":[{"relation":"main_file","access_level":"open_access","content_type":"application/pdf","checksum":"c29973924b790aab02fdd91857759cfb","file_id":"4875","creator":"system","file_size":797964,"date_updated":"2020-07-14T12:45:12Z","file_name":"IST-2016-445-v1+1_1-s2.0-S0955067415001064-main.pdf","date_created":"2018-12-12T10:11:21Z"}],"language":[{"iso":"eng"}],"publication_status":"published","volume":36,"issue":"10","ec_funded":1,"project":[{"grant_number":"281556","name":"Cytoskeletal force generation and force transduction of migrating leukocytes (EU)","call_identifier":"FP7","_id":"25A603A2-B435-11E9-9278-68D0E5697425"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Sarris, Milka, and Michael K Sixt. “Navigating in Tissue Mazes: Chemoattractant Interpretation in Complex Environments.” Current Opinion in Cell Biology. Elsevier, 2015. https://doi.org/10.1016/j.ceb.2015.08.001.","ista":"Sarris M, Sixt MK. 2015. Navigating in tissue mazes: Chemoattractant interpretation in complex environments. Current Opinion in Cell Biology. 36(10), 93–102.","mla":"Sarris, Milka, and Michael K. Sixt. “Navigating in Tissue Mazes: Chemoattractant Interpretation in Complex Environments.” Current Opinion in Cell Biology, vol. 36, no. 10, Elsevier, 2015, pp. 93–102, doi:10.1016/j.ceb.2015.08.001.","ama":"Sarris M, Sixt MK. Navigating in tissue mazes: Chemoattractant interpretation in complex environments. Current Opinion in Cell Biology. 2015;36(10):93-102. doi:10.1016/j.ceb.2015.08.001","apa":"Sarris, M., & Sixt, M. K. (2015). Navigating in tissue mazes: Chemoattractant interpretation in complex environments. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2015.08.001","ieee":"M. Sarris and M. K. Sixt, “Navigating in tissue mazes: Chemoattractant interpretation in complex environments,” Current Opinion in Cell Biology, vol. 36, no. 10. Elsevier, pp. 93–102, 2015.","short":"M. Sarris, M.K. Sixt, Current Opinion in Cell Biology 36 (2015) 93–102."},"title":"Navigating in tissue mazes: Chemoattractant interpretation in complex environments","publist_id":"5458","author":[{"first_name":"Milka","last_name":"Sarris","full_name":"Sarris, Milka"},{"orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K"}],"publisher":"Elsevier","quality_controlled":"1","oa":1,"day":"01","publication":"Current Opinion in Cell Biology","has_accepted_license":"1","year":"2015","doi":"10.1016/j.ceb.2015.08.001","date_published":"2015-10-01T00:00:00Z","date_created":"2018-12-11T11:53:28Z","page":"93 - 102"},{"abstract":[{"text":"Given a graph G cellularly embedded on a surface Σ of genus g, a cut graph is a subgraph of G such that cutting Σ along G yields a topological disk. We provide a fixed parameter tractable approximation scheme for the problem of computing the shortest cut graph, that is, for any ε > 0, we show how to compute a (1 + ε) approximation of the shortest cut graph in time f(ε, g)n3.\r\nOur techniques first rely on the computation of a spanner for the problem using the technique of brick decompositions, to reduce the problem to the case of bounded tree-width. Then, to solve the bounded tree-width case, we introduce a variant of the surface-cut decomposition of Rué, Sau and Thilikos, which may be of independent interest.","lang":"eng"}],"oa_version":"Preprint","main_file_link":[{"url":"http://arxiv.org/abs/1507.01688","open_access":"1"}],"scopus_import":1,"alternative_title":["LNCS"],"intvolume":" 9294","month":"09","publication_status":"published","language":[{"iso":"eng"}],"ec_funded":1,"volume":9294,"_id":"1685","conference":{"end_date":"2015-09-16","location":"Patras, Greece","start_date":"2015-09-14","name":"ESA: European Symposium on Algorithms"},"type":"conference","status":"public","date_updated":"2021-01-12T06:52:31Z","department":[{"_id":"UlWa"}],"oa":1,"publisher":"Springer","quality_controlled":"1","year":"2015","day":"01","page":"386 - 398","date_created":"2018-12-11T11:53:27Z","date_published":"2015-09-01T00:00:00Z","doi":"10.1007/978-3-662-48350-3_33","project":[{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"citation":{"ieee":"V. Cohen Addad and A. N. de Mesmay, “A fixed parameter tractable approximation scheme for the optimal cut graph of a surface,” presented at the ESA: European Symposium on Algorithms, Patras, Greece, 2015, vol. 9294, pp. 386–398.","short":"V. Cohen Addad, A.N. de Mesmay, in:, Springer, 2015, pp. 386–398.","ama":"Cohen Addad V, de Mesmay AN. A fixed parameter tractable approximation scheme for the optimal cut graph of a surface. In: Vol 9294. Springer; 2015:386-398. doi:10.1007/978-3-662-48350-3_33","apa":"Cohen Addad, V., & de Mesmay, A. N. (2015). A fixed parameter tractable approximation scheme for the optimal cut graph of a surface (Vol. 9294, pp. 386–398). Presented at the ESA: European Symposium on Algorithms, Patras, Greece: Springer. https://doi.org/10.1007/978-3-662-48350-3_33","mla":"Cohen Addad, Vincent, and Arnaud N. de Mesmay. A Fixed Parameter Tractable Approximation Scheme for the Optimal Cut Graph of a Surface. Vol. 9294, Springer, 2015, pp. 386–98, doi:10.1007/978-3-662-48350-3_33.","ista":"Cohen Addad V, de Mesmay AN. 2015. A fixed parameter tractable approximation scheme for the optimal cut graph of a surface. ESA: European Symposium on Algorithms, LNCS, vol. 9294, 386–398.","chicago":"Cohen Addad, Vincent, and Arnaud N de Mesmay. “A Fixed Parameter Tractable Approximation Scheme for the Optimal Cut Graph of a Surface,” 9294:386–98. Springer, 2015. https://doi.org/10.1007/978-3-662-48350-3_33."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Vincent","last_name":"Cohen Addad","full_name":"Cohen Addad, Vincent"},{"last_name":"De Mesmay","full_name":"De Mesmay, Arnaud N","id":"3DB2F25C-F248-11E8-B48F-1D18A9856A87","first_name":"Arnaud N"}],"publist_id":"5462","title":"A fixed parameter tractable approximation scheme for the optimal cut graph of a surface"},{"_id":"1688","status":"public","type":"journal_article","date_updated":"2021-01-12T06:52:32Z","department":[{"_id":"UlWa"}],"oa_version":"Preprint","abstract":[{"text":"We estimate the selection constant in the following geometric selection theorem by Pach: For every positive integer d, there is a constant (Formula presented.) such that whenever (Formula presented.) are n-element subsets of (Formula presented.), we can find a point (Formula presented.) and subsets (Formula presented.) for every i∈[d+1], each of size at least cdn, such that p belongs to all rainbowd-simplices determined by (Formula presented.) simplices with one vertex in each Yi. We show a super-exponentially decreasing upper bound (Formula presented.). The ideas used in the proof of the upper bound also help us to prove Pach’s theorem with (Formula presented.), which is a lower bound doubly exponentially decreasing in d (up to some polynomial in the exponent). For comparison, Pach’s original approach yields a triply exponentially decreasing lower bound. On the other hand, Fox, Pach, and Suk recently obtained a hypergraph density result implying a proof of Pach’s theorem with (Formula presented.). In our construction for the upper bound, we use the fact that the minimum solid angle of every d-simplex is super-exponentially small. This fact was previously unknown and might be of independent interest. For the lower bound, we improve the ‘separation’ part of the argument by showing that in one of the key steps only d+1 separations are necessary, compared to 2d separations in the original proof. We also provide a measure version of Pach’s theorem.","lang":"eng"}],"intvolume":" 54","month":"10","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1403.8147"}],"scopus_import":1,"language":[{"iso":"eng"}],"publication_status":"published","volume":54,"issue":"3","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Karasev, Roman, Jan Kynčl, Pavel Paták, Zuzana Patakova, and Martin Tancer. “Bounds for Pach’s Selection Theorem and for the Minimum Solid Angle in a Simplex.” Discrete & Computational Geometry. Springer, 2015. https://doi.org/10.1007/s00454-015-9720-z.","ista":"Karasev R, Kynčl J, Paták P, Patakova Z, Tancer M. 2015. Bounds for Pach’s selection theorem and for the minimum solid angle in a simplex. Discrete & Computational Geometry. 54(3), 610–636.","mla":"Karasev, Roman, et al. “Bounds for Pach’s Selection Theorem and for the Minimum Solid Angle in a Simplex.” Discrete & Computational Geometry, vol. 54, no. 3, Springer, 2015, pp. 610–36, doi:10.1007/s00454-015-9720-z.","apa":"Karasev, R., Kynčl, J., Paták, P., Patakova, Z., & Tancer, M. (2015). Bounds for Pach’s selection theorem and for the minimum solid angle in a simplex. Discrete & Computational Geometry. Springer. https://doi.org/10.1007/s00454-015-9720-z","ama":"Karasev R, Kynčl J, Paták P, Patakova Z, Tancer M. Bounds for Pach’s selection theorem and for the minimum solid angle in a simplex. Discrete & Computational Geometry. 2015;54(3):610-636. doi:10.1007/s00454-015-9720-z","ieee":"R. Karasev, J. Kynčl, P. Paták, Z. Patakova, and M. Tancer, “Bounds for Pach’s selection theorem and for the minimum solid angle in a simplex,” Discrete & Computational Geometry, vol. 54, no. 3. Springer, pp. 610–636, 2015.","short":"R. Karasev, J. Kynčl, P. Paták, Z. Patakova, M. Tancer, Discrete & Computational Geometry 54 (2015) 610–636."},"title":"Bounds for Pach's selection theorem and for the minimum solid angle in a simplex","author":[{"last_name":"Karasev","full_name":"Karasev, Roman","first_name":"Roman"},{"last_name":"Kynčl","full_name":"Kynčl, Jan","first_name":"Jan"},{"first_name":"Pavel","full_name":"Paták, Pavel","last_name":"Paták"},{"last_name":"Patakova","orcid":"0000-0002-3975-1683","full_name":"Patakova, Zuzana","first_name":"Zuzana"},{"full_name":"Tancer, Martin","orcid":"0000-0002-1191-6714","last_name":"Tancer","id":"38AC689C-F248-11E8-B48F-1D18A9856A87","first_name":"Martin"}],"publist_id":"5457","acknowledgement":"R. K. was supported by the Russian Foundation for Basic Research Grant 15-31-20403 (mol_a_ved) and grant 15-01-99563. J. K., Z. P., and M. T. were partially supported by ERC Advanced Research Grant No. 267165 (DISCONV) and by the project CE-ITI (GAČR P202/12/G061) of the Czech Science Foundation. J. K. was also partially supported by Swiss National Science Foundation Grants 200021-137574 and 200020-14453. P. P., Z. P., and M. T. were partially supported by the Charles University Grant GAUK 421511. P. P. was also partially supported by the Charles University Grant SVV-2014-260107. Z. P. was also partially supported by the Charles University Grant SVV-2014-260103.","oa":1,"quality_controlled":"1","publisher":"Springer","publication":"Discrete & Computational Geometry","day":"01","year":"2015","date_created":"2018-12-11T11:53:28Z","date_published":"2015-10-01T00:00:00Z","doi":"10.1007/s00454-015-9720-z","page":"610 - 636"},{"oa_version":"None","abstract":[{"text":"We consider the satisfiability problem for modal logic over first-order definable classes of frames.We confirm the conjecture from Hemaspaandra and Schnoor [2008] that modal logic is decidable over classes definable by universal Horn formulae. We provide a full classification of Horn formulae with respect to the complexity of the corresponding satisfiability problem. It turns out, that except for the trivial case of inconsistent formulae, local satisfiability is eitherNP-complete or PSPACE-complete, and global satisfiability is NP-complete, PSPACE-complete, or ExpTime-complete. We also show that the finite satisfiability problem for modal logic over Horn definable classes of frames is decidable. On the negative side, we show undecidability of two related problems. First, we exhibit a simple universal three-variable formula defining the class of frames over which modal logic is undecidable. Second, we consider the satisfiability problem of bimodal logic over Horn definable classes of frames, and also present a formula leading to undecidability.","lang":"eng"}],"month":"09","intvolume":" 17","publisher":"ACM","quality_controlled":"1","day":"01","publication":"ACM Transactions on Computational Logic","language":[{"iso":"eng"}],"year":"2015","publication_status":"published","issue":"1","volume":17,"date_published":"2015-09-01T00:00:00Z","doi":"10.1145/2817825","ec_funded":1,"date_created":"2018-12-11T11:53:26Z","article_number":"2","_id":"1680","status":"public","project":[{"_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"267989","name":"Quantitative Reactive Modeling"},{"grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"grant_number":"Z211","name":"The Wittgenstein Prize","_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Michaliszyn, Jakub, et al. “On the Decidability of Elementary Modal Logics.” ACM Transactions on Computational Logic, vol. 17, no. 1, 2, ACM, 2015, doi:10.1145/2817825.","ieee":"J. Michaliszyn, J. Otop, and E. Kieroňski, “On the decidability of elementary modal logics,” ACM Transactions on Computational Logic, vol. 17, no. 1. ACM, 2015.","short":"J. Michaliszyn, J. Otop, E. Kieroňski, ACM Transactions on Computational Logic 17 (2015).","ama":"Michaliszyn J, Otop J, Kieroňski E. On the decidability of elementary modal logics. ACM Transactions on Computational Logic. 2015;17(1). doi:10.1145/2817825","apa":"Michaliszyn, J., Otop, J., & Kieroňski, E. (2015). On the decidability of elementary modal logics. ACM Transactions on Computational Logic. ACM. https://doi.org/10.1145/2817825","chicago":"Michaliszyn, Jakub, Jan Otop, and Emanuel Kieroňski. “On the Decidability of Elementary Modal Logics.” ACM Transactions on Computational Logic. ACM, 2015. https://doi.org/10.1145/2817825.","ista":"Michaliszyn J, Otop J, Kieroňski E. 2015. On the decidability of elementary modal logics. ACM Transactions on Computational Logic. 17(1), 2."},"date_updated":"2021-01-12T06:52:29Z","department":[{"_id":"ToHe"}],"title":"On the decidability of elementary modal logics","publist_id":"5468","author":[{"full_name":"Michaliszyn, Jakub","last_name":"Michaliszyn","first_name":"Jakub"},{"full_name":"Otop, Jan","last_name":"Otop","id":"2FC5DA74-F248-11E8-B48F-1D18A9856A87","first_name":"Jan"},{"full_name":"Kieroňski, Emanuel","last_name":"Kieroňski","first_name":"Emanuel"}]},{"status":"public","type":"journal_article","article_number":"26","_id":"1682","title":"Robust satisfiability of systems of equations","department":[{"_id":"UlWa"},{"_id":"HeEd"}],"author":[{"last_name":"Franek","full_name":"Franek, Peter","first_name":"Peter"},{"first_name":"Marek","id":"33E21118-F248-11E8-B48F-1D18A9856A87","last_name":"Krcál","full_name":"Krcál, Marek"}],"publist_id":"5466","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Franek P, Krcál M. 2015. Robust satisfiability of systems of equations. Journal of the ACM. 62(4), 26.","chicago":"Franek, Peter, and Marek Krcál. “Robust Satisfiability of Systems of Equations.” Journal of the ACM. ACM, 2015. https://doi.org/10.1145/2751524.","apa":"Franek, P., & Krcál, M. (2015). Robust satisfiability of systems of equations. Journal of the ACM. ACM. https://doi.org/10.1145/2751524","ama":"Franek P, Krcál M. Robust satisfiability of systems of equations. Journal of the ACM. 2015;62(4). doi:10.1145/2751524","short":"P. Franek, M. Krcál, Journal of the ACM 62 (2015).","ieee":"P. Franek and M. Krcál, “Robust satisfiability of systems of equations,” Journal of the ACM, vol. 62, no. 4. ACM, 2015.","mla":"Franek, Peter, and Marek Krcál. “Robust Satisfiability of Systems of Equations.” Journal of the ACM, vol. 62, no. 4, 26, ACM, 2015, doi:10.1145/2751524."},"date_updated":"2021-01-12T06:52:30Z","intvolume":" 62","month":"08","main_file_link":[{"url":"http://arxiv.org/abs/1402.0858","open_access":"1"}],"oa":1,"publisher":"ACM","quality_controlled":"1","scopus_import":1,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"We study the problem of robust satisfiability of systems of nonlinear equations, namely, whether for a given continuous function f:K→ ℝn on a finite simplicial complex K and α > 0, it holds that each function g: K → ℝn such that ||g - f || ∞ < α, has a root in K. Via a reduction to the extension problem of maps into a sphere, we particularly show that this problem is decidable in polynomial time for every fixed n, assuming dimK ≤ 2n - 3. This is a substantial extension of previous computational applications of topological degree and related concepts in numerical and interval analysis. Via a reverse reduction, we prove that the problem is undecidable when dim K > 2n - 2, where the threshold comes from the stable range in homotopy theory. For the lucidity of our exposition, we focus on the setting when f is simplexwise linear. Such functions can approximate general continuous functions, and thus we get approximation schemes and undecidability of the robust satisfiability in other possible settings."}],"date_created":"2018-12-11T11:53:27Z","volume":62,"doi":"10.1145/2751524","issue":"4","date_published":"2015-08-01T00:00:00Z","language":[{"iso":"eng"}],"publication":"Journal of the ACM","day":"01","publication_status":"published","year":"2015"},{"author":[{"id":"322DA418-F248-11E8-B48F-1D18A9856A87","first_name":"Jame A","last_name":"Letts","full_name":"Letts, Jame A","orcid":"0000-0002-9864-3586"},{"first_name":"Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","full_name":"Sazanov, Leonid A","orcid":"0000-0002-0977-7989","last_name":"Sazanov"}],"publist_id":"5465","department":[{"_id":"LeSa"}],"title":"Gaining mass: The structure of respiratory complex I-from bacterial towards mitochondrial versions","citation":{"mla":"Letts, James A., and Leonid A. Sazanov. “Gaining Mass: The Structure of Respiratory Complex I-from Bacterial towards Mitochondrial Versions.” Current Opinion in Structural Biology, vol. 33, no. 8, Elsevier, 2015, pp. 135–45, doi:10.1016/j.sbi.2015.08.008.","apa":"Letts, J. A., & Sazanov, L. A. (2015). Gaining mass: The structure of respiratory complex I-from bacterial towards mitochondrial versions. Current Opinion in Structural Biology. Elsevier. https://doi.org/10.1016/j.sbi.2015.08.008","ama":"Letts JA, Sazanov LA. Gaining mass: The structure of respiratory complex I-from bacterial towards mitochondrial versions. Current Opinion in Structural Biology. 2015;33(8):135-145. doi:10.1016/j.sbi.2015.08.008","short":"J.A. Letts, L.A. Sazanov, Current Opinion in Structural Biology 33 (2015) 135–145.","ieee":"J. A. Letts and L. A. Sazanov, “Gaining mass: The structure of respiratory complex I-from bacterial towards mitochondrial versions,” Current Opinion in Structural Biology, vol. 33, no. 8. Elsevier, pp. 135–145, 2015.","chicago":"Letts, James A, and Leonid A Sazanov. “Gaining Mass: The Structure of Respiratory Complex I-from Bacterial towards Mitochondrial Versions.” Current Opinion in Structural Biology. Elsevier, 2015. https://doi.org/10.1016/j.sbi.2015.08.008.","ista":"Letts JA, Sazanov LA. 2015. Gaining mass: The structure of respiratory complex I-from bacterial towards mitochondrial versions. Current Opinion in Structural Biology. 33(8), 135–145."},"date_updated":"2021-01-12T06:52:30Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","status":"public","_id":"1683","page":"135 - 145","date_created":"2018-12-11T11:53:27Z","doi":"10.1016/j.sbi.2015.08.008","date_published":"2015-08-01T00:00:00Z","volume":33,"issue":"8","year":"2015","publication_status":"published","publication":"Current Opinion in Structural Biology","language":[{"iso":"eng"}],"day":"01","scopus_import":1,"quality_controlled":"1","publisher":"Elsevier","intvolume":" 33","month":"08","abstract":[{"lang":"eng","text":"The 1 MDa, 45-subunit proton-pumping NADH-ubiquinone oxidoreductase (complex I) is the largest complex of the mitochondrial electron transport chain. The molecular mechanism of complex I is central to the metabolism of cells, but has yet to be fully characterized. The last two years have seen steady progress towards this goal with the first atomic-resolution structure of the entire bacterial complex I, a 5 Å cryo-electron microscopy map of bovine mitochondrial complex I and a ∼3.8 Å resolution X-ray crystallographic study of mitochondrial complex I from yeast Yarrowia lipotytica. In this review we will discuss what we have learned from these studies and what remains to be elucidated."}],"oa_version":"None"},{"page":"1055 - 1056","doi":"10.1126/science.aad0867","volume":349,"date_published":"2015-09-04T00:00:00Z","issue":"6252","date_created":"2018-12-11T11:53:28Z","year":"2015","publication_status":"published","day":"04","language":[{"iso":"eng"}],"publication":"Science","publisher":"American Association for the Advancement of Science","scopus_import":1,"quality_controlled":"1","month":"09","intvolume":" 349","oa_version":"None","author":[{"first_name":"Eva","id":"3EB04B78-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6165-5738","full_name":"Kiermaier, Eva","last_name":"Kiermaier"},{"first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179"}],"publist_id":"5459","title":"Fragmented communication between immune cells: Neutrophils blaze a trail with migratory cues for T cells to follow to sites of infection","department":[{"_id":"MiSi"}],"citation":{"mla":"Kiermaier, Eva, and Michael K. Sixt. “Fragmented Communication between Immune Cells: Neutrophils Blaze a Trail with Migratory Cues for T Cells to Follow to Sites of Infection.” Science, vol. 349, no. 6252, American Association for the Advancement of Science, 2015, pp. 1055–56, doi:10.1126/science.aad0867.","short":"E. Kiermaier, M.K. Sixt, Science 349 (2015) 1055–1056.","ieee":"E. Kiermaier and M. K. Sixt, “Fragmented communication between immune cells: Neutrophils blaze a trail with migratory cues for T cells to follow to sites of infection,” Science, vol. 349, no. 6252. American Association for the Advancement of Science, pp. 1055–1056, 2015.","apa":"Kiermaier, E., & Sixt, M. K. (2015). Fragmented communication between immune cells: Neutrophils blaze a trail with migratory cues for T cells to follow to sites of infection. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aad0867","ama":"Kiermaier E, Sixt MK. Fragmented communication between immune cells: Neutrophils blaze a trail with migratory cues for T cells to follow to sites of infection. Science. 2015;349(6252):1055-1056. doi:10.1126/science.aad0867","chicago":"Kiermaier, Eva, and Michael K Sixt. “Fragmented Communication between Immune Cells: Neutrophils Blaze a Trail with Migratory Cues for T Cells to Follow to Sites of Infection.” Science. American Association for the Advancement of Science, 2015. https://doi.org/10.1126/science.aad0867.","ista":"Kiermaier E, Sixt MK. 2015. Fragmented communication between immune cells: Neutrophils blaze a trail with migratory cues for T cells to follow to sites of infection. Science. 349(6252), 1055–1056."},"date_updated":"2021-01-12T06:52:31Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","status":"public","_id":"1686"},{"department":[{"_id":"ToHe"}],"title":"Eliminating spurious transitions in reachability with support functions","publist_id":"5452","author":[{"first_name":"Goran","full_name":"Frehse, Goran","last_name":"Frehse"},{"last_name":"Bogomolov","full_name":"Bogomolov, Sergiy","orcid":"0000-0002-0686-0365","id":"369D9A44-F248-11E8-B48F-1D18A9856A87","first_name":"Sergiy"},{"last_name":"Greitschus","full_name":"Greitschus, Marius","first_name":"Marius"},{"first_name":"Thomas","last_name":"Strump","full_name":"Strump, Thomas"},{"full_name":"Podelski, Andreas","last_name":"Podelski","first_name":"Andreas"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Frehse G, Bogomolov S, Greitschus M, Strump T, Podelski A. 2015. Eliminating spurious transitions in reachability with support functions. Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control. HSCC: Hybrid Systems - Computation and Control, 149–158.","chicago":"Frehse, Goran, Sergiy Bogomolov, Marius Greitschus, Thomas Strump, and Andreas Podelski. “Eliminating Spurious Transitions in Reachability with Support Functions.” In Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, 149–58. ACM, 2015. https://doi.org/10.1145/2728606.2728622.","ieee":"G. Frehse, S. Bogomolov, M. Greitschus, T. Strump, and A. Podelski, “Eliminating spurious transitions in reachability with support functions,” in Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, Seattle, WA, United States, 2015, pp. 149–158.","short":"G. Frehse, S. Bogomolov, M. Greitschus, T. Strump, A. Podelski, in:, Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, ACM, 2015, pp. 149–158.","ama":"Frehse G, Bogomolov S, Greitschus M, Strump T, Podelski A. Eliminating spurious transitions in reachability with support functions. In: Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control. ACM; 2015:149-158. doi:10.1145/2728606.2728622","apa":"Frehse, G., Bogomolov, S., Greitschus, M., Strump, T., & Podelski, A. (2015). Eliminating spurious transitions in reachability with support functions. In Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control (pp. 149–158). Seattle, WA, United States: ACM. https://doi.org/10.1145/2728606.2728622","mla":"Frehse, Goran, et al. “Eliminating Spurious Transitions in Reachability with Support Functions.” Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, ACM, 2015, pp. 149–58, doi:10.1145/2728606.2728622."},"date_updated":"2021-01-12T06:52:33Z","status":"public","project":[{"grant_number":"267989","name":"Quantitative Reactive Modeling","_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Rigorous Systems Engineering","grant_number":"S 11407_N23"},{"_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"Z211","name":"The Wittgenstein Prize"}],"type":"conference","conference":{"name":"HSCC: Hybrid Systems - Computation and Control","end_date":"2015-04-16","location":"Seattle, WA, United States","start_date":"2015-04-14"},"_id":"1692","date_published":"2015-04-14T00:00:00Z","doi":"10.1145/2728606.2728622","date_created":"2018-12-11T11:53:30Z","ec_funded":1,"page":"149 - 158","day":"14","publication":"Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control","language":[{"iso":"eng"}],"publication_identifier":{"isbn":["978-1-4503-3433-4"]},"year":"2015","publication_status":"published","month":"04","publisher":"ACM","scopus_import":1,"quality_controlled":"1","oa_version":"None","abstract":[{"text":"Computing an approximation of the reachable states of a hybrid system is a challenge, mainly because overapproximating the solutions of ODEs with a finite number of sets does not scale well. Using template polyhedra can greatly reduce the computational complexity, since it replaces complex operations on sets with a small number of optimization problems. However, the use of templates may make the over-approximation too conservative. Spurious transitions, which are falsely considered reachable, are particularly detrimental to performance and accuracy, and may exacerbate the state explosion problem. In this paper, we examine how spurious transitions can be avoided with minimal computational effort. To this end, detecting spurious transitions is reduced to the well-known problem of showing that two convex sets are disjoint by finding a hyperplane that separates them. We generalize this to owpipes by considering hyperplanes that evolve with time in correspondence to the dynamics of the system. The approach is implemented in the model checker SpaceEx and demonstrated on examples.","lang":"eng"}]},{"publication_status":"published","language":[{"iso":"eng"}],"ec_funded":1,"issue":"2","volume":92,"abstract":[{"text":"Quantum interference between energetically close states is theoretically investigated, with the state structure being observed via laser spectroscopy. In this work, we focus on hyperfine states of selected hydrogenic muonic isotopes, and on how quantum interference affects the measured Lamb shift. The process of photon excitation and subsequent photon decay is implemented within the framework of nonrelativistic second-order perturbation theory. Due to its experimental interest, calculations are performed for muonic hydrogen, deuterium, and helium-3. We restrict our analysis to the case of photon scattering by incident linear polarized photons and the polarization of the scattered photons not being observed. We conclude that while quantum interference effects can be safely neglected in muonic hydrogen and helium-3, in the case of muonic deuterium there are resonances with close proximity, where quantum interference effects can induce shifts up to a few percent of the linewidth, assuming a pointlike detector. However, by taking into account the geometry of the setup used by the CREMA collaboration, this effect is reduced to less than 0.2% of the linewidth in all possible cases, which makes it irrelevant at the present level of accuracy. © 2015 American Physical Society.","lang":"eng"}],"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1506.02734"}],"scopus_import":1,"intvolume":" 92","month":"08","date_updated":"2021-01-12T06:52:34Z","department":[{"_id":"MiLe"}],"_id":"1693","type":"journal_article","status":"public","year":"2015","publication":"Physical Review A","day":"28","date_created":"2018-12-11T11:53:30Z","doi":"10.1103/PhysRevA.92.022514","date_published":"2015-08-28T00:00:00Z","oa":1,"publisher":"American Physical Society","quality_controlled":"1","citation":{"chicago":"Amaro, Pedro, Beatrice Franke, Julian Krauth, Marc Diepold, Filippo Fratini, Laleh Safari, Jorge Machado, et al. “Quantum Interference Effects in Laser Spectroscopy of Muonic Hydrogen, Deuterium, and Helium-3.” Physical Review A. American Physical Society, 2015. https://doi.org/10.1103/PhysRevA.92.022514.","ista":"Amaro P, Franke B, Krauth J, Diepold M, Fratini F, Safari L, Machado J, Antognini A, Kottmann F, Indelicato P, Pohl R, Santos J. 2015. Quantum interference effects in laser spectroscopy of muonic hydrogen, deuterium, and helium-3. Physical Review A. 92(2), 022514.","mla":"Amaro, Pedro, et al. “Quantum Interference Effects in Laser Spectroscopy of Muonic Hydrogen, Deuterium, and Helium-3.” Physical Review A, vol. 92, no. 2, 022514, American Physical Society, 2015, doi:10.1103/PhysRevA.92.022514.","ieee":"P. Amaro et al., “Quantum interference effects in laser spectroscopy of muonic hydrogen, deuterium, and helium-3,” Physical Review A, vol. 92, no. 2. American Physical Society, 2015.","short":"P. Amaro, B. Franke, J. Krauth, M. Diepold, F. Fratini, L. Safari, J. Machado, A. Antognini, F. Kottmann, P. Indelicato, R. Pohl, J. Santos, Physical Review A 92 (2015).","ama":"Amaro P, Franke B, Krauth J, et al. Quantum interference effects in laser spectroscopy of muonic hydrogen, deuterium, and helium-3. Physical Review A. 2015;92(2). doi:10.1103/PhysRevA.92.022514","apa":"Amaro, P., Franke, B., Krauth, J., Diepold, M., Fratini, F., Safari, L., … Santos, J. (2015). Quantum interference effects in laser spectroscopy of muonic hydrogen, deuterium, and helium-3. Physical Review A. American Physical Society. https://doi.org/10.1103/PhysRevA.92.022514"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Pedro","full_name":"Amaro, Pedro","last_name":"Amaro"},{"full_name":"Franke, Beatrice","last_name":"Franke","first_name":"Beatrice"},{"last_name":"Krauth","full_name":"Krauth, Julian","first_name":"Julian"},{"first_name":"Marc","full_name":"Diepold, Marc","last_name":"Diepold"},{"full_name":"Fratini, Filippo","last_name":"Fratini","first_name":"Filippo"},{"id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","first_name":"Laleh","last_name":"Safari","full_name":"Safari, Laleh"},{"first_name":"Jorge","full_name":"Machado, Jorge","last_name":"Machado"},{"first_name":"Aldo","full_name":"Antognini, Aldo","last_name":"Antognini"},{"first_name":"Franz","full_name":"Kottmann, Franz","last_name":"Kottmann"},{"full_name":"Indelicato, Paul","last_name":"Indelicato","first_name":"Paul"},{"last_name":"Pohl","full_name":"Pohl, Randolf","first_name":"Randolf"},{"full_name":"Santos, José","last_name":"Santos","first_name":"José"}],"publist_id":"5451","title":"Quantum interference effects in laser spectroscopy of muonic hydrogen, deuterium, and helium-3","article_number":"022514","project":[{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}]},{"month":"04","publisher":"Springer","quality_controlled":"1","oa_version":"None","acknowledgement":"The material presented in this paper is based upon work sup-ported by the Air Force Research Laboratory’s Information Directorate (AFRL/RI) through the Visiting Faculty Research Program (VFRP) under contract number FA8750-13-2-0115 and the Air Force Office of Scientific Research (AFOSR). Any opinions,findings, and conclusions or recommendations expressed in this publication are those of the authors and do not necessarily reflect the views of the AFRL/RI or AFOSR. This work was also partly supported in part by the German Research Foundation (DFG) as part of the Transregional Collaborative Research Center “Automatic Verification and Analysis of Complex Systems” (SFB/TR14 AVACS, http://www.avacs.org/), by the European Research Council (ERC) under grant 267989 (QUAREM) and by the Austrian Science Fund (FWF) under grants S11402-N23 (RiSE) and Z211-N23 (Wittgenstein Award).","abstract":[{"text":"A number of powerful and scalable hybrid systems model checkers have recently emerged. Although all of them honor roughly the same hybrid systems semantics, they have drastically different model description languages. This situation (a) makes it difficult to quickly evaluate a specific hybrid automaton model using the different tools, (b) obstructs comparisons of reachability approaches, and (c) impedes the widespread application of research results that perform model modification and could benefit many of the tools. In this paper, we present Hyst, a Hybrid Source Transformer. Hyst is a source-to-source translation tool, currently taking input in the SpaceEx model format, and translating to the formats of HyCreate, Flow∗, or dReach. Internally, the tool supports generic model-to-model transformation passes that serve to both ease the translation and potentially improve reachability results for the supported tools. Although these model transformation passes could be implemented within each tool, the Hyst approach provides a single place for model modification, generating modified input sources for the unmodified target tools. Our evaluation demonstrates Hyst is capable of automatically translating benchmarks in several classes (including affine and nonlinear hybrid automata) to the input formats of several tools. Additionally, we illustrate a general model transformation pass based on pseudo-invariants implemented in Hyst that illustrates the reachability improvement.","lang":"eng"}],"doi":"10.1145/2728606.2728630","date_published":"2015-04-14T00:00:00Z","date_created":"2018-12-11T11:53:29Z","ec_funded":1,"page":"128 - 133","day":"14","language":[{"iso":"eng"}],"publication_status":"published","year":"2015","status":"public","project":[{"_id":"25EE3708-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"267989","name":"Quantitative Reactive Modeling"},{"name":"The Wittgenstein Prize","grant_number":"Z211","_id":"25F42A32-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425"}],"type":"conference","conference":{"name":"HSCC: Hybrid Systems - Computation and Control","start_date":"2015-04-14","end_date":"2015-04-16","location":"Seattle, WA, United States"},"_id":"1690","title":"HYST: A source transformation and translation tool for hybrid automaton models","department":[{"_id":"ToHe"}],"publist_id":"5454","author":[{"last_name":"Bak","full_name":"Bak, Stanley","first_name":"Stanley"},{"last_name":"Bogomolov","orcid":"0000-0002-0686-0365","full_name":"Bogomolov, Sergiy","id":"369D9A44-F248-11E8-B48F-1D18A9856A87","first_name":"Sergiy"},{"last_name":"Johnson","full_name":"Johnson, Taylor","first_name":"Taylor"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Bak S, Bogomolov S, Johnson T. 2015. HYST: A source transformation and translation tool for hybrid automaton models. HSCC: Hybrid Systems - Computation and Control, 128–133.","chicago":"Bak, Stanley, Sergiy Bogomolov, and Taylor Johnson. “HYST: A Source Transformation and Translation Tool for Hybrid Automaton Models,” 128–33. Springer, 2015. https://doi.org/10.1145/2728606.2728630.","ama":"Bak S, Bogomolov S, Johnson T. HYST: A source transformation and translation tool for hybrid automaton models. In: Springer; 2015:128-133. doi:10.1145/2728606.2728630","apa":"Bak, S., Bogomolov, S., & Johnson, T. (2015). HYST: A source transformation and translation tool for hybrid automaton models (pp. 128–133). Presented at the HSCC: Hybrid Systems - Computation and Control, Seattle, WA, United States: Springer. https://doi.org/10.1145/2728606.2728630","ieee":"S. Bak, S. Bogomolov, and T. Johnson, “HYST: A source transformation and translation tool for hybrid automaton models,” presented at the HSCC: Hybrid Systems - Computation and Control, Seattle, WA, United States, 2015, pp. 128–133.","short":"S. Bak, S. Bogomolov, T. Johnson, in:, Springer, 2015, pp. 128–133.","mla":"Bak, Stanley, et al. HYST: A Source Transformation and Translation Tool for Hybrid Automaton Models. Springer, 2015, pp. 128–33, doi:10.1145/2728606.2728630."},"date_updated":"2021-01-12T06:52:33Z"},{"page":"233 - 238","ec_funded":1,"date_created":"2018-12-11T11:53:29Z","date_published":"2015-04-14T00:00:00Z","doi":"10.1145/2728606.2728617","publication_status":"published","year":"2015","publication":"Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control","language":[{"iso":"eng"}],"day":"14","publisher":"ACM","scopus_import":1,"month":"04","abstract":[{"text":"We consider a case study of the problem of deploying an autonomous air vehicle in a partially observable, dynamic, indoor environment from a specification given as a linear temporal logic (LTL) formula over regions of interest. We model the motion and sensing capabilities of the vehicle as a partially observable Markov decision process (POMDP). We adapt recent results for solving POMDPs with parity objectives to generate a control policy. We also extend the existing framework with a policy minimization technique to obtain a better implementable policy, while preserving its correctness. The proposed techniques are illustrated in an experimental setup involving an autonomous quadrotor performing surveillance in a dynamic environment.","lang":"eng"}],"oa_version":"None","author":[{"full_name":"Svoreňová, Mária","last_name":"Svoreňová","first_name":"Mária"},{"full_name":"Chmelik, Martin","last_name":"Chmelik","first_name":"Martin","id":"3624234E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Leahy, Kevin","last_name":"Leahy","first_name":"Kevin"},{"first_name":"Hasan","last_name":"Eniser","full_name":"Eniser, Hasan"},{"last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu"},{"last_name":"Cěrná","full_name":"Cěrná, Ivana","first_name":"Ivana"},{"first_name":"Cǎlin","full_name":"Belta, Cǎlin","last_name":"Belta"}],"publist_id":"5453","title":"Temporal logic motion planning using POMDPs with parity objectives: Case study paper","department":[{"_id":"KrCh"}],"citation":{"short":"M. Svoreňová, M. Chmelik, K. Leahy, H. Eniser, K. Chatterjee, I. Cěrná, C. Belta, in:, Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, ACM, 2015, pp. 233–238.","ieee":"M. Svoreňová et al., “Temporal logic motion planning using POMDPs with parity objectives: Case study paper,” in Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, Seattle, WA, United States, 2015, pp. 233–238.","apa":"Svoreňová, M., Chmelik, M., Leahy, K., Eniser, H., Chatterjee, K., Cěrná, I., & Belta, C. (2015). Temporal logic motion planning using POMDPs with parity objectives: Case study paper. In Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control (pp. 233–238). Seattle, WA, United States: ACM. https://doi.org/10.1145/2728606.2728617","ama":"Svoreňová M, Chmelik M, Leahy K, et al. Temporal logic motion planning using POMDPs with parity objectives: Case study paper. In: Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control. ACM; 2015:233-238. doi:10.1145/2728606.2728617","mla":"Svoreňová, Mária, et al. “Temporal Logic Motion Planning Using POMDPs with Parity Objectives: Case Study Paper.” Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, ACM, 2015, pp. 233–38, doi:10.1145/2728606.2728617.","ista":"Svoreňová M, Chmelik M, Leahy K, Eniser H, Chatterjee K, Cěrná I, Belta C. 2015. Temporal logic motion planning using POMDPs with parity objectives: Case study paper. Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control. HSCC: Hybrid Systems - Computation and Control, 233–238.","chicago":"Svoreňová, Mária, Martin Chmelik, Kevin Leahy, Hasan Eniser, Krishnendu Chatterjee, Ivana Cěrná, and Cǎlin Belta. “Temporal Logic Motion Planning Using POMDPs with Parity Objectives: Case Study Paper.” In Proceedings of the 18th International Conference on Hybrid Systems: Computation and Control, 233–38. ACM, 2015. https://doi.org/10.1145/2728606.2728617."},"date_updated":"2021-01-12T06:52:33Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"location":"Seattle, WA, United States","end_date":"2015-04-16","start_date":"2015-04-14","name":"HSCC: Hybrid Systems - Computation and Control"},"type":"conference","status":"public","project":[{"grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"name":"Rigorous Systems Engineering","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425"}],"_id":"1691"},{"month":"02","intvolume":" 60","scopus_import":1,"publisher":"IEEE","quality_controlled":"1","oa_version":"None","abstract":[{"lang":"eng","text":"\r\nWe introduce quantitative timed refinement and timed simulation (directed) metrics, incorporating zenoness checks, for timed systems. These metrics assign positive real numbers which quantify the timing mismatches between two timed systems, amongst non-zeno runs. We quantify timing mismatches in three ways: (1) the maximal timing mismatch that can arise, (2) the “steady-state” maximal timing mismatches, where initial transient timing mismatches are ignored; and (3) the (long-run) average timing mismatches amongst two systems. These three kinds of mismatches constitute three important types of timing differences. Our event times are the global times, measured from the start of the system execution, not just the time durations of individual steps. We present algorithms over timed automata for computing the three quantitative simulation distances to within any desired degree of accuracy. In order to compute the values of the quantitative simulation distances, we use a game theoretic formulation. We introduce two new kinds of objectives for two player games on finite-state game graphs: (1) eventual debit-sum level objectives, and (2) average debit-sum level objectives. We present algorithms for computing the optimal values for these objectives in graph games, and then use these algorithms to compute the values of the timed simulation distances over timed automata.\r\n"}],"date_published":"2015-02-24T00:00:00Z","doi":"10.1109/TAC.2015.2404612","issue":"9","volume":60,"ec_funded":1,"date_created":"2018-12-11T11:53:30Z","page":"2291 - 2306","day":"24","language":[{"iso":"eng"}],"publication":"IEEE Transactions on Automatic Control","year":"2015","publication_status":"published","status":"public","project":[{"_id":"2584A770-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification"},{"grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"type":"journal_article","_id":"1694","department":[{"_id":"KrCh"}],"title":"Quantitative temporal simulation and refinement distances for timed systems","author":[{"last_name":"Chatterjee","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Vinayak","full_name":"Prabhu, Vinayak","last_name":"Prabhu"}],"publist_id":"5450","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Chatterjee K, Prabhu V. 2015. Quantitative temporal simulation and refinement distances for timed systems. IEEE Transactions on Automatic Control. 60(9), 2291–2306.","chicago":"Chatterjee, Krishnendu, and Vinayak Prabhu. “Quantitative Temporal Simulation and Refinement Distances for Timed Systems.” IEEE Transactions on Automatic Control. IEEE, 2015. https://doi.org/10.1109/TAC.2015.2404612.","ama":"Chatterjee K, Prabhu V. Quantitative temporal simulation and refinement distances for timed systems. IEEE Transactions on Automatic Control. 2015;60(9):2291-2306. doi:10.1109/TAC.2015.2404612","apa":"Chatterjee, K., & Prabhu, V. (2015). Quantitative temporal simulation and refinement distances for timed systems. IEEE Transactions on Automatic Control. IEEE. https://doi.org/10.1109/TAC.2015.2404612","ieee":"K. Chatterjee and V. Prabhu, “Quantitative temporal simulation and refinement distances for timed systems,” IEEE Transactions on Automatic Control, vol. 60, no. 9. IEEE, pp. 2291–2306, 2015.","short":"K. Chatterjee, V. Prabhu, IEEE Transactions on Automatic Control 60 (2015) 2291–2306.","mla":"Chatterjee, Krishnendu, and Vinayak Prabhu. “Quantitative Temporal Simulation and Refinement Distances for Timed Systems.” IEEE Transactions on Automatic Control, vol. 60, no. 9, IEEE, 2015, pp. 2291–306, doi:10.1109/TAC.2015.2404612."},"date_updated":"2021-01-12T06:52:34Z"},{"oa":1,"publisher":"Wiley","quality_controlled":"1","date_created":"2018-12-11T11:53:31Z","date_published":"2015-09-01T00:00:00Z","doi":"10.1002/pssb.201552082","page":"2059 - 2071","publication":"Physica Status Solidi (B): Basic Solid State Physics","day":"01","year":"2015","project":[{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"title":"Evaluation techniques for Gutzwiller wave functions in finite dimensions","author":[{"first_name":"Jan","id":"46C405DE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1629-3675","full_name":"Kaczmarczyk, Jan","last_name":"Kaczmarczyk"},{"first_name":"Tobias","full_name":"Schickling, Tobias","last_name":"Schickling"},{"first_name":"Jörg","last_name":"Bünemann","full_name":"Bünemann, Jörg"}],"publist_id":"5449","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ama":"Kaczmarczyk J, Schickling T, Bünemann J. Evaluation techniques for Gutzwiller wave functions in finite dimensions. Physica Status Solidi (B): Basic Solid State Physics. 2015;252(9):2059-2071. doi:10.1002/pssb.201552082","apa":"Kaczmarczyk, J., Schickling, T., & Bünemann, J. (2015). Evaluation techniques for Gutzwiller wave functions in finite dimensions. Physica Status Solidi (B): Basic Solid State Physics. Wiley. https://doi.org/10.1002/pssb.201552082","ieee":"J. Kaczmarczyk, T. Schickling, and J. Bünemann, “Evaluation techniques for Gutzwiller wave functions in finite dimensions,” Physica Status Solidi (B): Basic Solid State Physics, vol. 252, no. 9. Wiley, pp. 2059–2071, 2015.","short":"J. Kaczmarczyk, T. Schickling, J. Bünemann, Physica Status Solidi (B): Basic Solid State Physics 252 (2015) 2059–2071.","mla":"Kaczmarczyk, Jan, et al. “Evaluation Techniques for Gutzwiller Wave Functions in Finite Dimensions.” Physica Status Solidi (B): Basic Solid State Physics, vol. 252, no. 9, Wiley, 2015, pp. 2059–71, doi:10.1002/pssb.201552082.","ista":"Kaczmarczyk J, Schickling T, Bünemann J. 2015. Evaluation techniques for Gutzwiller wave functions in finite dimensions. Physica Status Solidi (B): Basic Solid State Physics. 252(9), 2059–2071.","chicago":"Kaczmarczyk, Jan, Tobias Schickling, and Jörg Bünemann. “Evaluation Techniques for Gutzwiller Wave Functions in Finite Dimensions.” Physica Status Solidi (B): Basic Solid State Physics. Wiley, 2015. https://doi.org/10.1002/pssb.201552082."},"intvolume":" 252","month":"09","main_file_link":[{"url":"http://arxiv.org/abs/1503.03738","open_access":"1"}],"scopus_import":1,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"We give a comprehensive introduction into a diagrammatic method that allows for the evaluation of Gutzwiller wave functions in finite spatial dimensions. We discuss in detail some numerical schemes that turned out to be useful in the real-space evaluation of the diagrams. The method is applied to the problem of d-wave superconductivity in a two-dimensional single-band Hubbard model. Here, we discuss in particular the role of long-range contributions in our diagrammatic expansion. We further reconsider our previous analysis on the kinetic energy gain in the superconducting state."}],"ec_funded":1,"volume":252,"issue":"9","language":[{"iso":"eng"}],"publication_status":"published","status":"public","type":"journal_article","_id":"1695","department":[{"_id":"MiLe"}],"date_updated":"2021-01-12T06:52:34Z"},{"publication":"PLoS Computational Biology","day":"01","year":"2015","has_accepted_license":"1","date_created":"2018-12-11T11:53:31Z","doi":"10.1371/journal.pcbi.1004304","date_published":"2015-07-01T00:00:00Z","acknowledgement":"This work was supported by grants EY 014196 and EY 017934 to MJB, ANR OPTIMA, the French State program Investissements d’Avenir managed by the Agence Nationale de la Recherche [LIFESENSES: ANR-10-LABX-65], and by a EC grant from the Human Brain Project (CLAP) to OM, the Austrian Research Foundation FWF P25651 to VBS and GT. VBS is partially supported by contracts MEC, Spain (Grant No. AYA2010- 22111-C03-02, Grant No. AYA2013-48623-C2-2 and FEDER Funds).","oa":1,"quality_controlled":"1","publisher":"Public Library of Science","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Marre, Olivier, Vicente Botella Soler, Kristina Simmons, Thierry Mora, Gašper Tkačik, and Michael Berry. “High Accuracy Decoding of Dynamical Motion from a Large Retinal Population.” PLoS Computational Biology. Public Library of Science, 2015. https://doi.org/10.1371/journal.pcbi.1004304.","ista":"Marre O, Botella Soler V, Simmons K, Mora T, Tkačik G, Berry M. 2015. High accuracy decoding of dynamical motion from a large retinal population. PLoS Computational Biology. 11(7), e1004304.","mla":"Marre, Olivier, et al. “High Accuracy Decoding of Dynamical Motion from a Large Retinal Population.” PLoS Computational Biology, vol. 11, no. 7, e1004304, Public Library of Science, 2015, doi:10.1371/journal.pcbi.1004304.","short":"O. Marre, V. Botella Soler, K. Simmons, T. Mora, G. Tkačik, M. Berry, PLoS Computational Biology 11 (2015).","ieee":"O. Marre, V. Botella Soler, K. Simmons, T. Mora, G. Tkačik, and M. Berry, “High accuracy decoding of dynamical motion from a large retinal population,” PLoS Computational Biology, vol. 11, no. 7. Public Library of Science, 2015.","apa":"Marre, O., Botella Soler, V., Simmons, K., Mora, T., Tkačik, G., & Berry, M. (2015). High accuracy decoding of dynamical motion from a large retinal population. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1004304","ama":"Marre O, Botella Soler V, Simmons K, Mora T, Tkačik G, Berry M. High accuracy decoding of dynamical motion from a large retinal population. PLoS Computational Biology. 2015;11(7). doi:10.1371/journal.pcbi.1004304"},"title":"High accuracy decoding of dynamical motion from a large retinal population","publist_id":"5447","author":[{"first_name":"Olivier","full_name":"Marre, Olivier","last_name":"Marre"},{"last_name":"Botella Soler","orcid":"0000-0002-8790-1914","full_name":"Botella Soler, Vicente","id":"421234E8-F248-11E8-B48F-1D18A9856A87","first_name":"Vicente"},{"first_name":"Kristina","last_name":"Simmons","full_name":"Simmons, Kristina"},{"first_name":"Thierry","full_name":"Mora, Thierry","last_name":"Mora"},{"last_name":"Tkacik","orcid":"0000-0002-6699-1455","full_name":"Tkacik, Gasper","first_name":"Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Michael","last_name":"Berry","full_name":"Berry, Michael"}],"article_number":"e1004304","project":[{"name":"Sensitivity to higher-order statistics in natural scenes","grant_number":"P 25651-N26","_id":"254D1A94-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"language":[{"iso":"eng"}],"file":[{"checksum":"472b979f3f1cffb37b3e503f085115ca","file_id":"5212","access_level":"open_access","relation":"main_file","content_type":"application/pdf","date_created":"2018-12-12T10:16:25Z","file_name":"IST-2016-455-v1+1_journal.pcbi.1004304.pdf","creator":"system","date_updated":"2020-07-14T12:45:12Z","file_size":4673930}],"publication_status":"published","issue":"7","volume":11,"oa_version":"Published Version","abstract":[{"text":"Motion tracking is a challenge the visual system has to solve by reading out the retinal population. It is still unclear how the information from different neurons can be combined together to estimate the position of an object. Here we recorded a large population of ganglion cells in a dense patch of salamander and guinea pig retinas while displaying a bar moving diffusively. We show that the bar’s position can be reconstructed from retinal activity with a precision in the hyperacuity regime using a linear decoder acting on 100+ cells. We then took advantage of this unprecedented precision to explore the spatial structure of the retina’s population code. The classical view would have suggested that the firing rates of the cells form a moving hill of activity tracking the bar’s position. Instead, we found that most ganglion cells in the salamander fired sparsely and idiosyncratically, so that their neural image did not track the bar. Furthermore, ganglion cell activity spanned an area much larger than predicted by their receptive fields, with cells coding for motion far in their surround. As a result, population redundancy was high, and we could find multiple, disjoint subsets of neurons that encoded the trajectory with high precision. This organization allows for diverse collections of ganglion cells to represent high-accuracy motion information in a form easily read out by downstream neural circuits.","lang":"eng"}],"intvolume":" 11","month":"07","scopus_import":1,"ddc":["570"],"date_updated":"2021-01-12T06:52:35Z","file_date_updated":"2020-07-14T12:45:12Z","department":[{"_id":"GaTk"}],"_id":"1697","pubrep_id":"455","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article"},{"acknowledgement":"This work was made possible with financial support by the Vienna Science and Technology Fund (WWTF), by the Deutsche Forschungsgemeinschaft (DFG), Research Unit 1078 Natural selection in structured populations, by the Austrian Science Fund (FWF) via funding for the Vienna Graduate School for Population Genetics, and by a “For Women in Science” fellowship (L’Oréal Österreich in cooperation with the Austrian Commission for UNESCO and the Austrian Academy of Sciences with financial support from the Federal Ministry for Science and Research Austria).","publisher":"Springer","quality_controlled":"1","oa":1,"has_accepted_license":"1","year":"2015","day":"01","publication":"Journal of Mathematical Biology","page":"1523 - 1580","doi":"10.1007/s00285-014-0802-y","date_published":"2015-06-01T00:00:00Z","date_created":"2018-12-11T11:53:32Z","project":[{"_id":"25B67606-B435-11E9-9278-68D0E5697425","name":"L'OREAL Fellowship"}],"citation":{"ista":"Uecker H, Setter D, Hermisson J. 2015. Adaptive gene introgression after secondary contact. Journal of Mathematical Biology. 70(7), 1523–1580.","chicago":"Uecker, Hildegard, Derek Setter, and Joachim Hermisson. “Adaptive Gene Introgression after Secondary Contact.” Journal of Mathematical Biology. Springer, 2015. https://doi.org/10.1007/s00285-014-0802-y.","short":"H. Uecker, D. Setter, J. Hermisson, Journal of Mathematical Biology 70 (2015) 1523–1580.","ieee":"H. Uecker, D. Setter, and J. Hermisson, “Adaptive gene introgression after secondary contact,” Journal of Mathematical Biology, vol. 70, no. 7. Springer, pp. 1523–1580, 2015.","apa":"Uecker, H., Setter, D., & Hermisson, J. (2015). Adaptive gene introgression after secondary contact. Journal of Mathematical Biology. Springer. https://doi.org/10.1007/s00285-014-0802-y","ama":"Uecker H, Setter D, Hermisson J. Adaptive gene introgression after secondary contact. Journal of Mathematical Biology. 2015;70(7):1523-1580. doi:10.1007/s00285-014-0802-y","mla":"Uecker, Hildegard, et al. “Adaptive Gene Introgression after Secondary Contact.” Journal of Mathematical Biology, vol. 70, no. 7, Springer, 2015, pp. 1523–80, doi:10.1007/s00285-014-0802-y."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"5442","author":[{"first_name":"Hildegard","id":"2DB8F68A-F248-11E8-B48F-1D18A9856A87","last_name":"Uecker","orcid":"0000-0001-9435-2813","full_name":"Uecker, Hildegard"},{"full_name":"Setter, Derek","last_name":"Setter","first_name":"Derek"},{"first_name":"Joachim","last_name":"Hermisson","full_name":"Hermisson, Joachim"}],"title":"Adaptive gene introgression after secondary contact","abstract":[{"lang":"eng","text":"By hybridization and backcrossing, alleles can surmount species boundaries and be incorporated into the genome of a related species. This introgression of genes is of particular evolutionary relevance if it involves the transfer of adaptations between populations. However, any beneficial allele will typically be associated with other alien alleles that are often deleterious and hamper the introgression process. In order to describe the introgression of an adaptive allele, we set up a stochastic model with an explicit genetic makeup of linked and unlinked deleterious alleles. Based on the theory of reducible multitype branching processes, we derive a recursive expression for the establishment probability of the beneficial allele after a single hybridization event. We furthermore study the probability that slightly deleterious alleles hitchhike to fixation. The key to the analysis is a split of the process into a stochastic phase in which the advantageous alleles establishes and a deterministic phase in which it sweeps to fixation. We thereafter apply the theory to a set of biologically relevant scenarios such as introgression in the presence of many unlinked or few closely linked deleterious alleles. A comparison to computer simulations shows that the approximations work well over a large parameter range."}],"oa_version":"Published Version","scopus_import":1,"month":"06","intvolume":" 70","publication_status":"published","file":[{"creator":"system","date_updated":"2020-07-14T12:45:12Z","file_size":1321527,"date_created":"2018-12-12T10:14:27Z","file_name":"IST-2016-458-v1+1_s00285-014-0802-y.pdf","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"5079","checksum":"00e3a67bda05d4cc165b3a48b41ef9ad"}],"language":[{"iso":"eng"}],"issue":"7","volume":70,"_id":"1699","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"status":"public","pubrep_id":"458","date_updated":"2023-02-23T10:10:36Z","ddc":["576"],"department":[{"_id":"NiBa"}],"file_date_updated":"2020-07-14T12:45:12Z"},{"abstract":[{"text":"The recently proposed diagrammatic expansion (DE) technique for the full Gutzwiller wave function (GWF) is applied to the Anderson lattice model. This approach allows for a systematic evaluation of the expectation values with full Gutzwiller wave function in finite-dimensional systems. It introduces results extending in an essential manner those obtained by means of the standard Gutzwiller approximation (GA), which is variationally exact only in infinite dimensions. Within the DE-GWF approach we discuss the principal paramagnetic properties and their relevance to heavy-fermion systems. We demonstrate the formation of an effective, narrow f band originating from atomic f-electron states and subsequently interpret this behavior as a direct itineracy of f electrons; it represents a combined effect of both the hybridization and the correlations induced by the Coulomb repulsive interaction. Such a feature is absent on the level of GA, which is equivalent to the zeroth order of our expansion. Formation of the hybridization- and electron-concentration-dependent narrow f band rationalizes the common assumption of such dispersion of f levels in the phenomenological modeling of the band structure of CeCoIn5. Moreover, it is shown that the emerging f-electron direct itineracy leads in a natural manner to three physically distinct regimes within a single model that are frequently discussed for 4f- or 5f-electron compounds as separate model situations. We identify these regimes as (i) the mixed-valence regime, (ii) Kondo/almost-Kondo insulating regime, and (iii) the Kondo-lattice limit when the f-electron occupancy is very close to the f-state half filling, ⟨nˆf⟩→1. The nonstandard features of the emerging correlated quantum liquid state are stressed.","lang":"eng"}],"oa_version":"Preprint","main_file_link":[{"url":"http://arxiv.org/abs/1505.07003","open_access":"1"}],"scopus_import":1,"intvolume":" 92","month":"09","publication_status":"published","language":[{"iso":"eng"}],"ec_funded":1,"issue":"12","volume":92,"_id":"1696","type":"journal_article","status":"public","date_updated":"2021-01-12T06:52:35Z","department":[{"_id":"MiLe"}],"acknowledgement":"The work was partly supported by the National Science Centre (NCN) under MAESTRO, Grant No. DEC-2012/04/A/ST3/00342. M.W. acknowledges the hospitality of the Institute of Science and Technology Austria during the final stage of development of the present work, as well as partial financial support from the Society-Environment-Technology project of the Jagiellonian University for that stay. J.K. acknowledges support from the People Programme (Marie Curie Actions) of the European Union's Seventh Framework Programme (FP7/2007-2013) under REA Grant Agreement No. [291734 ].","oa":1,"publisher":"American Physical Society","quality_controlled":"1","year":"2015","publication":"Physical Review B","day":"18","date_created":"2018-12-11T11:53:31Z","date_published":"2015-09-18T00:00:00Z","doi":"10.1103/PhysRevB.92.125135","article_number":"125135","project":[{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"citation":{"ieee":"M. Wysokiński, J. Kaczmarczyk, and J. Spałek, “Gutzwiller wave function solution for Anderson lattice model: Emerging universal regimes of heavy quasiparticle states,” Physical Review B, vol. 92, no. 12. American Physical Society, 2015.","short":"M. Wysokiński, J. Kaczmarczyk, J. Spałek, Physical Review B 92 (2015).","apa":"Wysokiński, M., Kaczmarczyk, J., & Spałek, J. (2015). Gutzwiller wave function solution for Anderson lattice model: Emerging universal regimes of heavy quasiparticle states. Physical Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.92.125135","ama":"Wysokiński M, Kaczmarczyk J, Spałek J. Gutzwiller wave function solution for Anderson lattice model: Emerging universal regimes of heavy quasiparticle states. Physical Review B. 2015;92(12). doi:10.1103/PhysRevB.92.125135","mla":"Wysokiński, Marcin, et al. “Gutzwiller Wave Function Solution for Anderson Lattice Model: Emerging Universal Regimes of Heavy Quasiparticle States.” Physical Review B, vol. 92, no. 12, 125135, American Physical Society, 2015, doi:10.1103/PhysRevB.92.125135.","ista":"Wysokiński M, Kaczmarczyk J, Spałek J. 2015. Gutzwiller wave function solution for Anderson lattice model: Emerging universal regimes of heavy quasiparticle states. Physical Review B. 92(12), 125135.","chicago":"Wysokiński, Marcin, Jan Kaczmarczyk, and Jozef Spałek. “Gutzwiller Wave Function Solution for Anderson Lattice Model: Emerging Universal Regimes of Heavy Quasiparticle States.” Physical Review B. American Physical Society, 2015. https://doi.org/10.1103/PhysRevB.92.125135."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"5448","author":[{"first_name":"Marcin","full_name":"Wysokiński, Marcin","last_name":"Wysokiński"},{"first_name":"Jan","id":"46C405DE-F248-11E8-B48F-1D18A9856A87","last_name":"Kaczmarczyk","full_name":"Kaczmarczyk, Jan","orcid":"0000-0002-1629-3675"},{"full_name":"Spałek, Jozef","last_name":"Spałek","first_name":"Jozef"}],"title":"Gutzwiller wave function solution for Anderson lattice model: Emerging universal regimes of heavy quasiparticle states"},{"publisher":"National Academy of Sciences","quality_controlled":"1","oa":1,"acknowledgement":"Research was supported in part by National Science Foundation Grants PHY-1305525, PHY-1451171, and CCF-0939370, by National Institutes of Health Grant R01 EY14196, and by Austrian Science Foundation Grant FWF P25651. Additional support was provided by the\r\nFannie and John Hertz Foundation, by the Swartz Foundation, by the W. M. Keck Foundation, and by the Simons Foundation.","date_published":"2015-09-15T00:00:00Z","doi":"10.1073/pnas.1514188112","date_created":"2018-12-11T11:53:33Z","page":"11508 - 11513","day":"15","publication":"PNAS","year":"2015","project":[{"grant_number":"P 25651-N26","name":"Sensitivity to higher-order statistics in natural scenes","_id":"254D1A94-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"title":"Thermodynamics and signatures of criticality in a network of neurons","author":[{"first_name":"Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","full_name":"Tkacik, Gasper","last_name":"Tkacik"},{"last_name":"Mora","full_name":"Mora, Thierry","first_name":"Thierry"},{"first_name":"Olivier","full_name":"Marre, Olivier","last_name":"Marre"},{"first_name":"Dario","full_name":"Amodei, Dario","last_name":"Amodei"},{"full_name":"Palmer, Stephanie","last_name":"Palmer","first_name":"Stephanie"},{"first_name":"Michael","last_name":"Berry Ii","full_name":"Berry Ii, Michael"},{"first_name":"William","full_name":"Bialek, William","last_name":"Bialek"}],"publist_id":"5440","external_id":{"pmid":["26330611"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Tkačik, Gašper, Thierry Mora, Olivier Marre, Dario Amodei, Stephanie Palmer, Michael Berry Ii, and William Bialek. “Thermodynamics and Signatures of Criticality in a Network of Neurons.” PNAS. National Academy of Sciences, 2015. https://doi.org/10.1073/pnas.1514188112.","ista":"Tkačik G, Mora T, Marre O, Amodei D, Palmer S, Berry Ii M, Bialek W. 2015. Thermodynamics and signatures of criticality in a network of neurons. PNAS. 112(37), 11508–11513.","mla":"Tkačik, Gašper, et al. “Thermodynamics and Signatures of Criticality in a Network of Neurons.” PNAS, vol. 112, no. 37, National Academy of Sciences, 2015, pp. 11508–13, doi:10.1073/pnas.1514188112.","apa":"Tkačik, G., Mora, T., Marre, O., Amodei, D., Palmer, S., Berry Ii, M., & Bialek, W. (2015). Thermodynamics and signatures of criticality in a network of neurons. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1514188112","ama":"Tkačik G, Mora T, Marre O, et al. Thermodynamics and signatures of criticality in a network of neurons. PNAS. 2015;112(37):11508-11513. doi:10.1073/pnas.1514188112","ieee":"G. Tkačik et al., “Thermodynamics and signatures of criticality in a network of neurons,” PNAS, vol. 112, no. 37. National Academy of Sciences, pp. 11508–11513, 2015.","short":"G. Tkačik, T. Mora, O. Marre, D. Amodei, S. Palmer, M. Berry Ii, W. Bialek, PNAS 112 (2015) 11508–11513."},"month":"09","intvolume":" 112","scopus_import":1,"main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4577210/"}],"pmid":1,"oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"The activity of a neural network is defined by patterns of spiking and silence from the individual neurons. Because spikes are (relatively) sparse, patterns of activity with increasing numbers of spikes are less probable, but, with more spikes, the number of possible patterns increases. This tradeoff between probability and numerosity is mathematically equivalent to the relationship between entropy and energy in statistical physics. We construct this relationship for populations of up to N = 160 neurons in a small patch of the vertebrate retina, using a combination of direct and model-based analyses of experiments on the response of this network to naturalistic movies. We see signs of a thermodynamic limit, where the entropy per neuron approaches a smooth function of the energy per neuron as N increases. The form of this function corresponds to the distribution of activity being poised near an unusual kind of critical point. We suggest further tests of criticality, and give a brief discussion of its functional significance. "}],"volume":112,"issue":"37","language":[{"iso":"eng"}],"publication_status":"published","status":"public","type":"journal_article","_id":"1701","department":[{"_id":"GaTk"}],"date_updated":"2021-01-12T06:52:37Z"},{"_id":"1698","status":"public","type":"journal_article","date_updated":"2021-01-12T06:52:36Z","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"oa_version":"Preprint","abstract":[{"lang":"eng","text":"In mean-payoff games, the objective of the protagonist is to ensure that the limit average of an infinite sequence of numeric weights is nonnegative. In energy games, the objective is to ensure that the running sum of weights is always nonnegative. Multi-mean-payoff and multi-energy games replace individual weights by tuples, and the limit average (resp., running sum) of each coordinate must be (resp., remain) nonnegative. We prove finite-memory determinacy of multi-energy games and show inter-reducibility of multi-mean-payoff and multi-energy games for finite-memory strategies. We improve the computational complexity for solving both classes with finite-memory strategies: we prove coNP-completeness improving the previous known EXPSPACE bound. For memoryless strategies, we show that deciding the existence of a winning strategy for the protagonist is NP-complete. We present the first solution of multi-mean-payoff games with infinite-memory strategies: we show that mean-payoff-sup objectives can be decided in NP∩coNP, whereas mean-payoff-inf objectives are coNP-complete."}],"intvolume":" 241","month":"04","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1209.3234"}],"scopus_import":1,"language":[{"iso":"eng"}],"publication_status":"published","ec_funded":1,"issue":"4","volume":241,"project":[{"grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"25863FF4-B435-11E9-9278-68D0E5697425","grant_number":"S11407","name":"Game Theory"},{"grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307","name":"Quantitative Graph Games: Theory and Applications"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"},{"call_identifier":"FP7","_id":"25EE3708-B435-11E9-9278-68D0E5697425","name":"Quantitative Reactive Modeling","grant_number":"267989"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Velner, Yaron, Krishnendu Chatterjee, Laurent Doyen, Thomas A Henzinger, Alexander Rabinovich, and Jean Raskin. “The Complexity of Multi-Mean-Payoff and Multi-Energy Games.” Information and Computation. Elsevier, 2015. https://doi.org/10.1016/j.ic.2015.03.001.","ista":"Velner Y, Chatterjee K, Doyen L, Henzinger TA, Rabinovich A, Raskin J. 2015. The complexity of multi-mean-payoff and multi-energy games. Information and Computation. 241(4), 177–196.","mla":"Velner, Yaron, et al. “The Complexity of Multi-Mean-Payoff and Multi-Energy Games.” Information and Computation, vol. 241, no. 4, Elsevier, 2015, pp. 177–96, doi:10.1016/j.ic.2015.03.001.","ama":"Velner Y, Chatterjee K, Doyen L, Henzinger TA, Rabinovich A, Raskin J. The complexity of multi-mean-payoff and multi-energy games. Information and Computation. 2015;241(4):177-196. doi:10.1016/j.ic.2015.03.001","apa":"Velner, Y., Chatterjee, K., Doyen, L., Henzinger, T. A., Rabinovich, A., & Raskin, J. (2015). The complexity of multi-mean-payoff and multi-energy games. Information and Computation. Elsevier. https://doi.org/10.1016/j.ic.2015.03.001","ieee":"Y. Velner, K. Chatterjee, L. Doyen, T. A. Henzinger, A. Rabinovich, and J. Raskin, “The complexity of multi-mean-payoff and multi-energy games,” Information and Computation, vol. 241, no. 4. Elsevier, pp. 177–196, 2015.","short":"Y. Velner, K. Chatterjee, L. Doyen, T.A. Henzinger, A. Rabinovich, J. Raskin, Information and Computation 241 (2015) 177–196."},"title":"The complexity of multi-mean-payoff and multi-energy games","author":[{"first_name":"Yaron","full_name":"Velner, Yaron","last_name":"Velner"},{"first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee"},{"first_name":"Laurent","last_name":"Doyen","full_name":"Doyen, Laurent"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","last_name":"Henzinger","orcid":"0000−0002−2985−7724","full_name":"Henzinger, Thomas A"},{"first_name":"Alexander","full_name":"Rabinovich, Alexander","last_name":"Rabinovich"},{"first_name":"Jean","full_name":"Raskin, Jean","last_name":"Raskin"}],"publist_id":"5443","acknowledgement":"The research was partly supported by Austrian Science Fund (FWF) Grant No P23499-N23, FWF NFN Grant No S11407-N23 and S11402-N23 (RiSE), ERC Start grant (279307: Graph Games), Microsoft faculty fellows award, the ERC Advanced Grant QUAREM (267989: Quantitative Reactive Modeling), European project Cassting (FP7-601148), ERC Start grant (279499: inVEST).","oa":1,"quality_controlled":"1","publisher":"Elsevier","publication":"Information and Computation","day":"01","year":"2015","date_created":"2018-12-11T11:53:32Z","doi":"10.1016/j.ic.2015.03.001","date_published":"2015-04-01T00:00:00Z","page":"177 - 196"},{"scopus_import":1,"publisher":"American Physical Society","oa":1,"main_file_link":[{"url":"http://arxiv.org/abs/1506.06007","open_access":"1"}],"month":"08","intvolume":" 92","abstract":[{"text":"We use the dual boson approach to reveal the phase diagram of the Fermi-Hubbard model with long-range dipole-dipole interactions. By using a large-scale finite-temperature calculation on a 64×64 square lattice we demonstrate the existence of a novel phase, possessing an "ultralong-range" order. The fingerprint of this phase - the density correlation function - features a nontrivial behavior on a scale of tens of lattice sites. We study the properties and the stability of the ultralong-range-ordered phase, and show that it is accessible in modern experiments with ultracold polar molecules and magnetic atoms.","lang":"eng"}],"oa_version":"Preprint","acknowledgement":"The work is supported by European Research Council (ERC) Advanced Grant No. 338957 FEMTO/NANO.","issue":"8","doi":"10.1103/PhysRevB.92.081106","date_published":"2015-08-10T00:00:00Z","volume":92,"date_created":"2018-12-11T11:53:32Z","publication_status":"published","year":"2015","day":"10","publication":"Physical Review B","language":[{"iso":"eng"}],"type":"journal_article","status":"public","_id":"1700","article_number":"081106","author":[{"full_name":"Van Loon, Erik","last_name":"Van Loon","first_name":"Erik"},{"last_name":"Katsnelson","full_name":"Katsnelson, Mikhail","first_name":"Mikhail"},{"first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6990-7802","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko"}],"publist_id":"5441","title":"Ultralong-range order in the Fermi-Hubbard model with long-range interactions","department":[{"_id":"MiLe"}],"date_updated":"2021-01-12T06:52:37Z","citation":{"chicago":"Van Loon, Erik, Mikhail Katsnelson, and Mikhail Lemeshko. “Ultralong-Range Order in the Fermi-Hubbard Model with Long-Range Interactions.” Physical Review B. American Physical Society, 2015. https://doi.org/10.1103/PhysRevB.92.081106.","ista":"Van Loon E, Katsnelson M, Lemeshko M. 2015. Ultralong-range order in the Fermi-Hubbard model with long-range interactions. Physical Review B. 92(8), 081106.","mla":"Van Loon, Erik, et al. “Ultralong-Range Order in the Fermi-Hubbard Model with Long-Range Interactions.” Physical Review B, vol. 92, no. 8, 081106, American Physical Society, 2015, doi:10.1103/PhysRevB.92.081106.","ieee":"E. Van Loon, M. Katsnelson, and M. Lemeshko, “Ultralong-range order in the Fermi-Hubbard model with long-range interactions,” Physical Review B, vol. 92, no. 8. American Physical Society, 2015.","short":"E. Van Loon, M. Katsnelson, M. Lemeshko, Physical Review B 92 (2015).","apa":"Van Loon, E., Katsnelson, M., & Lemeshko, M. (2015). Ultralong-range order in the Fermi-Hubbard model with long-range interactions. Physical Review B. American Physical Society. https://doi.org/10.1103/PhysRevB.92.081106","ama":"Van Loon E, Katsnelson M, Lemeshko M. Ultralong-range order in the Fermi-Hubbard model with long-range interactions. Physical Review B. 2015;92(8). doi:10.1103/PhysRevB.92.081106"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)"},"type":"journal_article","_id":"1704","department":[{"_id":"RoSe"}],"file_date_updated":"2020-07-14T12:45:13Z","ddc":["510"],"date_updated":"2021-01-12T06:52:38Z","intvolume":" 105","month":"08","main_file_link":[{"url":"http://arxiv.org/abs/1502.07205","open_access":"1"}],"scopus_import":1,"oa_version":"Preprint","abstract":[{"text":"Given a convex function (Formula presented.) and two hermitian matrices A and B, Lewin and Sabin study in (Lett Math Phys 104:691–705, 2014) the relative entropy defined by (Formula presented.). Among other things, they prove that the so-defined quantity is monotone if and only if (Formula presented.) is operator monotone. The monotonicity is then used to properly define (Formula presented.) for bounded self-adjoint operators acting on an infinite-dimensional Hilbert space by a limiting procedure. More precisely, for an increasing sequence of finite-dimensional projections (Formula presented.) with (Formula presented.) strongly, the limit (Formula presented.) is shown to exist and to be independent of the sequence of projections (Formula presented.). The question whether this sequence converges to its "obvious" limit, namely (Formula presented.), has been left open. We answer this question in principle affirmatively and show that (Formula presented.). If the operators A and B are regular enough, that is (A − B), (Formula presented.) and (Formula presented.) are trace-class, the identity (Formula presented.) holds.","lang":"eng"}],"license":"https://creativecommons.org/licenses/by-nc/4.0/","issue":"10","volume":105,"language":[{"iso":"eng"}],"file":[{"file_name":"2015_LettersMathPhys_Deuchert.pdf","date_created":"2019-01-15T14:42:07Z","creator":"dernst","file_size":484967,"date_updated":"2020-07-14T12:45:13Z","checksum":"fd7307282a314cc1fbbaef77b187516b","file_id":"5836","relation":"main_file","access_level":"open_access","content_type":"application/pdf"}],"publication_status":"published","title":"Note on a family of monotone quantum relative entropies","publist_id":"5432","author":[{"first_name":"Andreas","last_name":"Deuchert","full_name":"Deuchert, Andreas","orcid":"0000-0003-3146-6746"},{"full_name":"Hainzl, Christian","last_name":"Hainzl","first_name":"Christian"},{"first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521","last_name":"Seiringer"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Deuchert, Andreas, Christian Hainzl, and Robert Seiringer. “Note on a Family of Monotone Quantum Relative Entropies.” Letters in Mathematical Physics. Springer, 2015. https://doi.org/10.1007/s11005-015-0787-5.","ista":"Deuchert A, Hainzl C, Seiringer R. 2015. Note on a family of monotone quantum relative entropies. Letters in Mathematical Physics. 105(10), 1449–1466.","mla":"Deuchert, Andreas, et al. “Note on a Family of Monotone Quantum Relative Entropies.” Letters in Mathematical Physics, vol. 105, no. 10, Springer, 2015, pp. 1449–66, doi:10.1007/s11005-015-0787-5.","short":"A. Deuchert, C. Hainzl, R. Seiringer, Letters in Mathematical Physics 105 (2015) 1449–1466.","ieee":"A. Deuchert, C. Hainzl, and R. Seiringer, “Note on a family of monotone quantum relative entropies,” Letters in Mathematical Physics, vol. 105, no. 10. Springer, pp. 1449–1466, 2015.","apa":"Deuchert, A., Hainzl, C., & Seiringer, R. (2015). Note on a family of monotone quantum relative entropies. Letters in Mathematical Physics. Springer. https://doi.org/10.1007/s11005-015-0787-5","ama":"Deuchert A, Hainzl C, Seiringer R. Note on a family of monotone quantum relative entropies. Letters in Mathematical Physics. 2015;105(10):1449-1466. doi:10.1007/s11005-015-0787-5"},"oa":1,"publisher":"Springer","quality_controlled":"1","date_created":"2018-12-11T11:53:34Z","date_published":"2015-08-05T00:00:00Z","doi":"10.1007/s11005-015-0787-5","page":"1449 - 1466","publication":"Letters in Mathematical Physics","day":"05","year":"2015","has_accepted_license":"1"},{"_id":"1703","status":"public","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:52:38Z","citation":{"mla":"Broadhurst, Linda, et al. “An Evaluation of the Genetic Structure of Seed Sources and the Maintenance of Genetic Diversity during Establishment of Two Yellow Box (Eucalyptus Melliodora) Seed-Production Areas.” Australian Journal of Botany, vol. 63, no. 5, CSIRO, 2015, pp. 455–66, doi:10.1071/BT15023.","ieee":"L. Broadhurst, G. Fifield, B. Vanzella, and M. Pickup, “An evaluation of the genetic structure of seed sources and the maintenance of genetic diversity during establishment of two yellow box (Eucalyptus melliodora) seed-production areas,” Australian Journal of Botany, vol. 63, no. 5. CSIRO, pp. 455–466, 2015.","short":"L. Broadhurst, G. Fifield, B. Vanzella, M. Pickup, Australian Journal of Botany 63 (2015) 455–466.","apa":"Broadhurst, L., Fifield, G., Vanzella, B., & Pickup, M. (2015). An evaluation of the genetic structure of seed sources and the maintenance of genetic diversity during establishment of two yellow box (Eucalyptus melliodora) seed-production areas. Australian Journal of Botany. CSIRO. https://doi.org/10.1071/BT15023","ama":"Broadhurst L, Fifield G, Vanzella B, Pickup M. An evaluation of the genetic structure of seed sources and the maintenance of genetic diversity during establishment of two yellow box (Eucalyptus melliodora) seed-production areas. Australian Journal of Botany. 2015;63(5):455-466. doi:10.1071/BT15023","chicago":"Broadhurst, Linda, Graham Fifield, Bindi Vanzella, and Melinda Pickup. “An Evaluation of the Genetic Structure of Seed Sources and the Maintenance of Genetic Diversity during Establishment of Two Yellow Box (Eucalyptus Melliodora) Seed-Production Areas.” Australian Journal of Botany. CSIRO, 2015. https://doi.org/10.1071/BT15023.","ista":"Broadhurst L, Fifield G, Vanzella B, Pickup M. 2015. An evaluation of the genetic structure of seed sources and the maintenance of genetic diversity during establishment of two yellow box (Eucalyptus melliodora) seed-production areas. Australian Journal of Botany. 63(5), 455–466."},"department":[{"_id":"NiBa"}],"title":"An evaluation of the genetic structure of seed sources and the maintenance of genetic diversity during establishment of two yellow box (Eucalyptus melliodora) seed-production areas","publist_id":"5434","author":[{"last_name":"Broadhurst","full_name":"Broadhurst, Linda","first_name":"Linda"},{"full_name":"Fifield, Graham","last_name":"Fifield","first_name":"Graham"},{"full_name":"Vanzella, Bindi","last_name":"Vanzella","first_name":"Bindi"},{"last_name":"Pickup","orcid":"0000-0001-6118-0541","full_name":"Pickup, Melinda","first_name":"Melinda","id":"2C78037E-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"None","abstract":[{"text":"Vegetation clearing and land-use change have depleted many natural plant communities to the point where restoration is required. A major impediment to the success of rebuilding complex vegetation communities is having regular access to sufficient quantities of high-quality seed. Seed-production areas (SPAs) can help generate this seed, but these must be underpinned by a broad genetic base to maximise the evolutionary potential of restored populations. However, genetic bottlenecks can occur at the collection, establishment and production stages in SPAs, requiring genetic evaluation. This is especially relevant for species that may take many years before a return on SPA investment is realised. Two recently established yellow box (Eucalyptus melliodora A.Cunn. ex Schauer, Myrtaceae) SPAs were evaluated to determine whether genetic bottlenecks had occurred between seed collection and SPA establishment. No evidence was found to suggest that a significant loss of genetic diversity had occurred at this stage, although there was a significant difference in diversity between the two SPAs. Complex population genetic structure was also observed in the seed used to source the SPAs, with up to eight groups identified. Plant survival in the SPAs was influenced by seed collection location but not by SPA location and was not associated with genetic diversity. There were also no associations between genetic diversity and plant growth. These data highlighted the importance of chance events when establishing SPAs and indicated that the two yellow box SPAs are likely to provide genetically diverse seed sources for future restoration projects, especially by pooling seed from both SPAs.","lang":"eng"}],"month":"05","intvolume":" 63","publisher":"CSIRO","quality_controlled":"1","scopus_import":1,"day":"26","publication":"Australian Journal of Botany","language":[{"iso":"eng"}],"year":"2015","publication_status":"published","doi":"10.1071/BT15023","date_published":"2015-05-26T00:00:00Z","volume":63,"issue":"5","date_created":"2018-12-11T11:53:34Z","page":"455 - 466"},{"status":"public","type":"conference","conference":{"start_date":"2015-10-04","end_date":"2015-10-06","location":"Banff, AB, Canada","name":"ALT: Algorithmic Learning Theory"},"_id":"1706","department":[{"_id":"ChLa"}],"date_updated":"2021-01-12T06:52:39Z","month":"01","intvolume":" 9355","scopus_import":1,"alternative_title":["LNCS"],"main_file_link":[{"url":"http://arxiv.org/abs/1602.06531","open_access":"1"}],"oa_version":"Preprint","abstract":[{"lang":"eng","text":"We consider a problem of learning kernels for use in SVM classification in the multi-task and lifelong scenarios and provide generalization bounds on the error of a large margin classifier. Our results show that, under mild conditions on the family of kernels used for learning, solving several related tasks simultaneously is beneficial over single task learning. In particular, as the number of observed tasks grows, assuming that in the considered family of kernels there exists one that yields low approximation error on all tasks, the overhead associated with learning such a kernel vanishes and the complexity converges to that of learning when this good kernel is given to the learner."}],"volume":9355,"ec_funded":1,"language":[{"iso":"eng"}],"publication_status":"published","project":[{"call_identifier":"FP7","_id":"2532554C-B435-11E9-9278-68D0E5697425","name":"Lifelong Learning of Visual Scene Understanding","grant_number":"308036"}],"title":"Multi-task and lifelong learning of kernels","author":[{"last_name":"Pentina","full_name":"Pentina, Anastasia","id":"42E87FC6-F248-11E8-B48F-1D18A9856A87","first_name":"Anastasia"},{"last_name":"Ben David","full_name":"Ben David, Shai","first_name":"Shai"}],"publist_id":"5430","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Pentina, Anastasia, and Shai Ben David. “Multi-Task and Lifelong Learning of Kernels,” 9355:194–208. Springer, 2015. https://doi.org/10.1007/978-3-319-24486-0_13.","ista":"Pentina A, Ben David S. 2015. Multi-task and lifelong learning of kernels. ALT: Algorithmic Learning Theory, LNCS, vol. 9355, 194–208.","mla":"Pentina, Anastasia, and Shai Ben David. Multi-Task and Lifelong Learning of Kernels. Vol. 9355, Springer, 2015, pp. 194–208, doi:10.1007/978-3-319-24486-0_13.","apa":"Pentina, A., & Ben David, S. (2015). Multi-task and lifelong learning of kernels (Vol. 9355, pp. 194–208). Presented at the ALT: Algorithmic Learning Theory, Banff, AB, Canada: Springer. https://doi.org/10.1007/978-3-319-24486-0_13","ama":"Pentina A, Ben David S. Multi-task and lifelong learning of kernels. In: Vol 9355. Springer; 2015:194-208. doi:10.1007/978-3-319-24486-0_13","ieee":"A. Pentina and S. Ben David, “Multi-task and lifelong learning of kernels,” presented at the ALT: Algorithmic Learning Theory, Banff, AB, Canada, 2015, vol. 9355, pp. 194–208.","short":"A. Pentina, S. Ben David, in:, Springer, 2015, pp. 194–208."},"publisher":"Springer","quality_controlled":"1","oa":1,"date_published":"2015-01-01T00:00:00Z","doi":"10.1007/978-3-319-24486-0_13","date_created":"2018-12-11T11:53:35Z","page":"194 - 208","day":"01","year":"2015"},{"ddc":["573"],"date_updated":"2021-01-12T06:52:41Z","department":[{"_id":"DaSi"}],"file_date_updated":"2020-07-14T12:45:13Z","_id":"1712","pubrep_id":"346","status":"public","tmp":{"short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png"},"type":"journal_article","language":[{"iso":"eng"}],"file":[{"access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"5098","checksum":"bbb1ee39ca52929aefe4f48752b166ee","creator":"system","date_updated":"2020-07-14T12:45:13Z","file_size":1023680,"date_created":"2018-12-12T10:14:44Z","file_name":"IST-2015-346-v1+1_Current_Opinion_Review_Ratheesh_et_al_2015.pdf"}],"publication_status":"published","ec_funded":1,"volume":36,"issue":"10","oa_version":"Published Version","abstract":[{"lang":"eng","text":"The majority of immune cells in Drosophila melanogaster are plasmatocytes; they carry out similar functions to vertebrate macrophages, influencing development as well as protecting against infection and cancer. Plasmatocytes, sometimes referred to with the broader term of hemocytes, migrate widely during embryonic development and cycle in the larvae between sessile and circulating positions. Here we discuss the similarities of plasmatocyte developmental migration and its functions to that of vertebrate macrophages, considering the recent controversy regarding the functions of Drosophila PDGF/VEGF related ligands. We also examine recent findings on the significance of adhesion for plasmatocyte migration in the embryo, as well as proliferation, trans-differentiation, and tumor responses in the larva. We spotlight parallels throughout to vertebrate immune responses."}],"intvolume":" 36","month":"10","scopus_import":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Ratheesh A, Belyaeva V, Siekhaus DE. 2015. Drosophila immune cell migration and adhesion during embryonic development and larval immune responses. Current Opinion in Cell Biology. 36(10), 71–79.","chicago":"Ratheesh, Aparna, Vera Belyaeva, and Daria E Siekhaus. “Drosophila Immune Cell Migration and Adhesion during Embryonic Development and Larval Immune Responses.” Current Opinion in Cell Biology. Elsevier, 2015. https://doi.org/10.1016/j.ceb.2015.07.003.","ama":"Ratheesh A, Belyaeva V, Siekhaus DE. Drosophila immune cell migration and adhesion during embryonic development and larval immune responses. Current Opinion in Cell Biology. 2015;36(10):71-79. doi:10.1016/j.ceb.2015.07.003","apa":"Ratheesh, A., Belyaeva, V., & Siekhaus, D. E. (2015). Drosophila immune cell migration and adhesion during embryonic development and larval immune responses. Current Opinion in Cell Biology. Elsevier. https://doi.org/10.1016/j.ceb.2015.07.003","short":"A. Ratheesh, V. Belyaeva, D.E. Siekhaus, Current Opinion in Cell Biology 36 (2015) 71–79.","ieee":"A. Ratheesh, V. Belyaeva, and D. E. Siekhaus, “Drosophila immune cell migration and adhesion during embryonic development and larval immune responses,” Current Opinion in Cell Biology, vol. 36, no. 10. Elsevier, pp. 71–79, 2015.","mla":"Ratheesh, Aparna, et al. “Drosophila Immune Cell Migration and Adhesion during Embryonic Development and Larval Immune Responses.” Current Opinion in Cell Biology, vol. 36, no. 10, Elsevier, 2015, pp. 71–79, doi:10.1016/j.ceb.2015.07.003."},"title":"Drosophila immune cell migration and adhesion during embryonic development and larval immune responses","publist_id":"5421","author":[{"full_name":"Ratheesh, Aparna","last_name":"Ratheesh","first_name":"Aparna","id":"2F064CFE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Belyaeva, Vera","last_name":"Belyaeva","first_name":"Vera","id":"47F080FE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8323-8353","full_name":"Siekhaus, Daria E","last_name":"Siekhaus"}],"project":[{"grant_number":"334077","name":"Investigating the role of transporters in invasive migration through junctions","_id":"2536F660-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"publication":"Current Opinion in Cell Biology","day":"01","year":"2015","has_accepted_license":"1","date_created":"2018-12-11T11:53:36Z","doi":"10.1016/j.ceb.2015.07.003","date_published":"2015-10-01T00:00:00Z","page":"71 - 79","oa":1,"quality_controlled":"1","publisher":"Elsevier"},{"ec_funded":1,"issue":"4","volume":47,"language":[{"iso":"eng"}],"publication_status":"published","intvolume":" 47","month":"07","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1410.3736"}],"scopus_import":1,"oa_version":"Preprint","abstract":[{"lang":"eng","text":"We consider the hollow on the half-plane {(x, y) : y ≤ 0} ⊂ ℝ2 defined by a function u : (-1, 1) → ℝ, u(x) < 0, and a vertical flow of point particles incident on the hollow. It is assumed that u satisfies the so-called single impact condition (SIC): each incident particle is elastically reflected by graph(u) and goes away without hitting the graph of u anymore. We solve the problem: find the function u minimizing the force of resistance created by the flow. We show that the graph of the minimizer is formed by two arcs of parabolas symmetric to each other with respect to the y-axis. Assuming that the resistance of u ≡ 0 equals 1, we show that the minimal resistance equals π/2 - 2arctan(1/2) ≈ 0.6435. This result completes the previously obtained result [SIAM J. Math. Anal., 46 (2014), pp. 2730-2742] stating in particular that the minimal resistance of a hollow in higher dimensions equals 0.5. We additionally consider a similar problem of minimal resistance, where the hollow in the half-space {(x1,...,xd,y) : y ≤ 0} ⊂ ℝd+1 is defined by a radial function U satisfying the SIC, U(x) = u(|x|), with x = (x1,...,xd), u(ξ) < 0 for 0 ≤ ξ < 1, and u(ξ) = 0 for ξ ≥ 1, and the flow is parallel to the y-axis. The minimal resistance is greater than 0.5 (and coincides with 0.6435 when d = 1) and converges to 0.5 as d → ∞."}],"department":[{"_id":"HeEd"}],"date_updated":"2021-01-12T06:52:41Z","status":"public","type":"journal_article","_id":"1710","date_created":"2018-12-11T11:53:36Z","doi":"10.1137/140993843","date_published":"2015-07-14T00:00:00Z","page":"2754 - 2769","publication":"Society for Industrial and Applied Mathematics","day":"14","year":"2015","oa":1,"publisher":"SIAM","quality_controlled":"1","title":"Minimal resistance of curves under the single impact assumption","author":[{"last_name":"Akopyan","full_name":"Akopyan, Arseniy","orcid":"0000-0002-2548-617X","id":"430D2C90-F248-11E8-B48F-1D18A9856A87","first_name":"Arseniy"},{"last_name":"Plakhov","full_name":"Plakhov, Alexander","first_name":"Alexander"}],"publist_id":"5423","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"apa":"Akopyan, A., & Plakhov, A. (2015). Minimal resistance of curves under the single impact assumption. Society for Industrial and Applied Mathematics. SIAM. https://doi.org/10.1137/140993843","ama":"Akopyan A, Plakhov A. Minimal resistance of curves under the single impact assumption. Society for Industrial and Applied Mathematics. 2015;47(4):2754-2769. doi:10.1137/140993843","short":"A. Akopyan, A. Plakhov, Society for Industrial and Applied Mathematics 47 (2015) 2754–2769.","ieee":"A. Akopyan and A. Plakhov, “Minimal resistance of curves under the single impact assumption,” Society for Industrial and Applied Mathematics, vol. 47, no. 4. SIAM, pp. 2754–2769, 2015.","mla":"Akopyan, Arseniy, and Alexander Plakhov. “Minimal Resistance of Curves under the Single Impact Assumption.” Society for Industrial and Applied Mathematics, vol. 47, no. 4, SIAM, 2015, pp. 2754–69, doi:10.1137/140993843.","ista":"Akopyan A, Plakhov A. 2015. Minimal resistance of curves under the single impact assumption. Society for Industrial and Applied Mathematics. 47(4), 2754–2769.","chicago":"Akopyan, Arseniy, and Alexander Plakhov. “Minimal Resistance of Curves under the Single Impact Assumption.” Society for Industrial and Applied Mathematics. SIAM, 2015. https://doi.org/10.1137/140993843."},"project":[{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"}]},{"status":"public","type":"journal_article","_id":"1730","title":"Discrete systolic inequalities and decompositions of triangulated surfaces","department":[{"_id":"UlWa"}],"publist_id":"5397","author":[{"last_name":"Colin De Verdière","full_name":"Colin De Verdière, Éric","first_name":"Éric"},{"last_name":"Hubard","full_name":"Hubard, Alfredo","first_name":"Alfredo"},{"full_name":"De Mesmay, Arnaud N","last_name":"De Mesmay","first_name":"Arnaud N","id":"3DB2F25C-F248-11E8-B48F-1D18A9856A87"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Colin De Verdière, Éric, et al. “Discrete Systolic Inequalities and Decompositions of Triangulated Surfaces.” Discrete & Computational Geometry, vol. 53, no. 3, Springer, 2015, pp. 587–620, doi:10.1007/s00454-015-9679-9.","ama":"Colin De Verdière É, Hubard A, de Mesmay AN. Discrete systolic inequalities and decompositions of triangulated surfaces. Discrete & Computational Geometry. 2015;53(3):587-620. doi:10.1007/s00454-015-9679-9","apa":"Colin De Verdière, É., Hubard, A., & de Mesmay, A. N. (2015). Discrete systolic inequalities and decompositions of triangulated surfaces. Discrete & Computational Geometry. Springer. https://doi.org/10.1007/s00454-015-9679-9","ieee":"É. Colin De Verdière, A. Hubard, and A. N. de Mesmay, “Discrete systolic inequalities and decompositions of triangulated surfaces,” Discrete & Computational Geometry, vol. 53, no. 3. Springer, pp. 587–620, 2015.","short":"É. Colin De Verdière, A. Hubard, A.N. de Mesmay, Discrete & Computational Geometry 53 (2015) 587–620.","chicago":"Colin De Verdière, Éric, Alfredo Hubard, and Arnaud N de Mesmay. “Discrete Systolic Inequalities and Decompositions of Triangulated Surfaces.” Discrete & Computational Geometry. Springer, 2015. https://doi.org/10.1007/s00454-015-9679-9.","ista":"Colin De Verdière É, Hubard A, de Mesmay AN. 2015. Discrete systolic inequalities and decompositions of triangulated surfaces. Discrete & Computational Geometry. 53(3), 587–620."},"date_updated":"2021-01-12T06:52:49Z","intvolume":" 53","month":"04","oa":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1408.4036"}],"scopus_import":1,"publisher":"Springer","quality_controlled":"1","oa_version":"Preprint","abstract":[{"text":"How much cutting is needed to simplify the topology of a surface? We provide bounds for several instances of this question, for the minimum length of topologically non-trivial closed curves, pants decompositions, and cut graphs with a given combinatorial map in triangulated combinatorial surfaces (or their dual cross-metric counterpart). Our work builds upon Riemannian systolic inequalities, which bound the minimum length of non-trivial closed curves in terms of the genus and the area of the surface. We first describe a systematic way to translate Riemannian systolic inequalities to a discrete setting, and vice-versa. This implies a conjecture by Przytycka and Przytycki (Graph structure theory. Contemporary Mathematics, vol. 147, 1993), a number of new systolic inequalities in the discrete setting, and the fact that a theorem of Hutchinson on the edge-width of triangulated surfaces and Gromov’s systolic inequality for surfaces are essentially equivalent. We also discuss how these proofs generalize to higher dimensions. Then we focus on topological decompositions of surfaces. Relying on ideas of Buser, we prove the existence of pants decompositions of length O(g^(3/2)n^(1/2)) for any triangulated combinatorial surface of genus g with n triangles, and describe an O(gn)-time algorithm to compute such a decomposition. Finally, we consider the problem of embedding a cut graph (or more generally a cellular graph) with a given combinatorial map on a given surface. Using random triangulations, we prove (essentially) that, for any choice of a combinatorial map, there are some surfaces on which any cellular embedding with that combinatorial map has length superlinear in the number of triangles of the triangulated combinatorial surface. There is also a similar result for graphs embedded on polyhedral triangulations.","lang":"eng"}],"date_created":"2018-12-11T11:53:42Z","date_published":"2015-04-02T00:00:00Z","issue":"3","volume":53,"doi":"10.1007/s00454-015-9679-9","page":"587 - 620","publication":"Discrete & Computational Geometry","language":[{"iso":"eng"}],"day":"02","year":"2015","publication_status":"published"},{"acknowledgement":"C.P.B. gratefully acknowledges funding from the Wellcome Trust through a Research Career Development Fellowship (097319/Z/11/Z). This work was supported by the Medical Research Council (U117560541) and Wellcome Trust (WT098326MA, WT098325MA).","abstract":[{"lang":"eng","text":"In the vertebrate neural tube, the morphogen Sonic Hedgehog (Shh) establishes a characteristic pattern of gene expression. Here we quantify the Shh gradient in the developing mouse neural tube and show that while the amplitude of the gradient increases over time, the activity of the pathway transcriptional effectors, Gli proteins, initially increases but later decreases. Computational analysis of the pathway suggests three mechanisms that could contribute to this adaptation: transcriptional upregulation of the inhibitory receptor Ptch1, transcriptional downregulation of Gli and the differential stability of active and inactive Gli isoforms. Consistent with this, Gli2 protein expression is downregulated during neural tube patterning and adaptation continues when the pathway is stimulated downstream of Ptch1. Moreover, the Shh-induced upregulation of Gli2 transcription prevents Gli activity levels from adapting in a different cell type, NIH3T3 fibroblasts, despite the upregulation of Ptch1. Multiple mechanisms therefore contribute to the intracellular dynamics of Shh signalling, resulting in different signalling dynamics in different cell types."}],"intvolume":" 6","month":"04","publisher":"Nature Publishing Group","quality_controlled":0,"publication":"Nature Communications","day":"02","publication_status":"published","year":"2015","date_created":"2018-12-11T11:53:42Z","doi":"10.1038/ncomms7709","date_published":"2015-04-02T00:00:00Z","volume":6,"_id":"1728","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","extern":1,"citation":{"ista":"Cohen M, Kicheva A, Ribeiro A, Blassberg R, Page K, Barnes C, Briscoe J. 2015. Ptch1 and Gli regulate Shh signalling dynamics via multiple mechanisms. Nature Communications. 6.","chicago":"Cohen, Michael, Anna Kicheva, Ana Ribeiro, Robert Blassberg, Karen Page, Chris Barnes, and James Briscoe. “Ptch1 and Gli Regulate Shh Signalling Dynamics via Multiple Mechanisms.” Nature Communications. Nature Publishing Group, 2015. https://doi.org/10.1038/ncomms7709.","short":"M. Cohen, A. Kicheva, A. Ribeiro, R. Blassberg, K. Page, C. Barnes, J. Briscoe, Nature Communications 6 (2015).","ieee":"M. Cohen et al., “Ptch1 and Gli regulate Shh signalling dynamics via multiple mechanisms,” Nature Communications, vol. 6. Nature Publishing Group, 2015.","ama":"Cohen M, Kicheva A, Ribeiro A, et al. Ptch1 and Gli regulate Shh signalling dynamics via multiple mechanisms. Nature Communications. 2015;6. doi:10.1038/ncomms7709","apa":"Cohen, M., Kicheva, A., Ribeiro, A., Blassberg, R., Page, K., Barnes, C., & Briscoe, J. (2015). Ptch1 and Gli regulate Shh signalling dynamics via multiple mechanisms. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms7709","mla":"Cohen, Michael, et al. “Ptch1 and Gli Regulate Shh Signalling Dynamics via Multiple Mechanisms.” Nature Communications, vol. 6, Nature Publishing Group, 2015, doi:10.1038/ncomms7709."},"date_updated":"2021-01-12T06:52:48Z","title":"Ptch1 and Gli regulate Shh signalling dynamics via multiple mechanisms","publist_id":"5399","author":[{"first_name":"Michael","full_name":"Cohen, Michael H","last_name":"Cohen"},{"id":"3959A2A0-F248-11E8-B48F-1D18A9856A87","first_name":"Anna","last_name":"Kicheva","orcid":"0000-0003-4509-4998","full_name":"Anna Kicheva"},{"last_name":"Ribeiro","full_name":"Ribeiro, Ana C","first_name":"Ana"},{"first_name":"Robert","last_name":"Blassberg","full_name":"Blassberg, Robert A"},{"last_name":"Page","full_name":"Page, Karen M","first_name":"Karen"},{"first_name":"Chris","last_name":"Barnes","full_name":"Barnes, Chris P"},{"first_name":"James","last_name":"Briscoe","full_name":"Briscoe, James"}]},{"acknowledgement":"The first author was supported by a JSPS Postdoctoral Fellowship for Research Abroad","quality_controlled":"1","publisher":"Wiley","oa":1,"has_accepted_license":"1","year":"2015","day":"01","publication":"Computer Graphics Forum","page":"473 - 480","date_published":"2015-05-01T00:00:00Z","doi":"10.1111/cgf.12576","date_created":"2018-12-11T11:53:44Z","citation":{"ista":"Ando R, Thürey N, Wojtan C. 2015. A dimension-reduced pressure solver for liquid simulations. Computer Graphics Forum. 34(2), 473–480.","chicago":"Ando, Ryoichi, Nils Thürey, and Chris Wojtan. “A Dimension-Reduced Pressure Solver for Liquid Simulations.” Computer Graphics Forum. Wiley, 2015. https://doi.org/10.1111/cgf.12576.","ieee":"R. Ando, N. Thürey, and C. Wojtan, “A dimension-reduced pressure solver for liquid simulations,” Computer Graphics Forum, vol. 34, no. 2. Wiley, pp. 473–480, 2015.","short":"R. Ando, N. Thürey, C. Wojtan, Computer Graphics Forum 34 (2015) 473–480.","ama":"Ando R, Thürey N, Wojtan C. A dimension-reduced pressure solver for liquid simulations. Computer Graphics Forum. 2015;34(2):473-480. doi:10.1111/cgf.12576","apa":"Ando, R., Thürey, N., & Wojtan, C. (2015). A dimension-reduced pressure solver for liquid simulations. Computer Graphics Forum. Wiley. https://doi.org/10.1111/cgf.12576","mla":"Ando, Ryoichi, et al. “A Dimension-Reduced Pressure Solver for Liquid Simulations.” Computer Graphics Forum, vol. 34, no. 2, Wiley, 2015, pp. 473–80, doi:10.1111/cgf.12576."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publist_id":"5389","author":[{"first_name":"Ryoichi","full_name":"Ando, Ryoichi","last_name":"Ando"},{"first_name":"Nils","last_name":"Thürey","full_name":"Thürey, Nils"},{"id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher J","orcid":"0000-0001-6646-5546","full_name":"Wojtan, Christopher J","last_name":"Wojtan"}],"title":"A dimension-reduced pressure solver for liquid simulations","abstract":[{"lang":"eng","text":"This work presents a method for efficiently simplifying the pressure projection step in a liquid simulation. We first devise a straightforward dimension reduction technique that dramatically reduces the cost of solving the pressure projection. Next, we introduce a novel change of basis that satisfies free-surface boundary conditions exactly, regardless of the accuracy of the pressure solve. When combined, these ideas greatly reduce the computational complexity of the pressure solve without compromising free surface boundary conditions at the highest level of detail. Our techniques are easy to parallelize, and they effectively eliminate the computational bottleneck for large liquid simulations."}],"oa_version":"Submitted Version","scopus_import":1,"month":"05","intvolume":" 34","publication_status":"published","file":[{"creator":"system","file_size":6312352,"date_updated":"2020-07-14T12:45:15Z","file_name":"IST-2016-607-v1+1_coarsegrid.pdf","date_created":"2018-12-12T10:16:30Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","checksum":"590752bf977855b337a80f78a9bc2404","file_id":"5218"}],"language":[{"iso":"eng"}],"issue":"2","volume":34,"_id":"1735","type":"journal_article","status":"public","pubrep_id":"607","date_updated":"2023-02-23T10:12:11Z","ddc":["000"],"file_date_updated":"2020-07-14T12:45:15Z","department":[{"_id":"ChWo"}]},{"_id":"1734","type":"journal_article","status":"public","citation":{"chicago":"Klehm, Oliver, Fabrice Rousselle, Marios Papas, Derek Bradley, Christophe Hery, Bernd Bickel, Wojciech Jarosz, and Thabo Beeler. “Recent Advances in Facial Appearance Capture.” Computer Graphics Forum. Wiley-Blackwell, 2015. https://doi.org/10.1111/cgf.12594.","ista":"Klehm O, Rousselle F, Papas M, Bradley D, Hery C, Bickel B, Jarosz W, Beeler T. 2015. Recent advances in facial appearance capture. Computer Graphics Forum. 34(2), 709–733.","mla":"Klehm, Oliver, et al. “Recent Advances in Facial Appearance Capture.” Computer Graphics Forum, vol. 34, no. 2, Wiley-Blackwell, 2015, pp. 709–33, doi:10.1111/cgf.12594.","ama":"Klehm O, Rousselle F, Papas M, et al. Recent advances in facial appearance capture. Computer Graphics Forum. 2015;34(2):709-733. doi:10.1111/cgf.12594","apa":"Klehm, O., Rousselle, F., Papas, M., Bradley, D., Hery, C., Bickel, B., … Beeler, T. (2015). Recent advances in facial appearance capture. Computer Graphics Forum. Wiley-Blackwell. https://doi.org/10.1111/cgf.12594","short":"O. Klehm, F. Rousselle, M. Papas, D. Bradley, C. Hery, B. Bickel, W. Jarosz, T. Beeler, Computer Graphics Forum 34 (2015) 709–733.","ieee":"O. Klehm et al., “Recent advances in facial appearance capture,” Computer Graphics Forum, vol. 34, no. 2. Wiley-Blackwell, pp. 709–733, 2015."},"date_updated":"2021-01-12T06:52:52Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publist_id":"5391","author":[{"full_name":"Klehm, Oliver","last_name":"Klehm","first_name":"Oliver"},{"first_name":"Fabrice","full_name":"Rousselle, Fabrice","last_name":"Rousselle"},{"first_name":"Marios","last_name":"Papas","full_name":"Papas, Marios"},{"full_name":"Bradley, Derek","last_name":"Bradley","first_name":"Derek"},{"full_name":"Hery, Christophe","last_name":"Hery","first_name":"Christophe"},{"last_name":"Bickel","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Wojciech","full_name":"Jarosz, Wojciech","last_name":"Jarosz"},{"first_name":"Thabo","last_name":"Beeler","full_name":"Beeler, Thabo"}],"department":[{"_id":"BeBi"}],"title":"Recent advances in facial appearance capture","abstract":[{"text":"Facial appearance capture is now firmly established within academic research and used extensively across various application domains, perhaps most prominently in the entertainment industry through the design of virtual characters in video games and films. While significant progress has occurred over the last two decades, no single survey currently exists that discusses the similarities, differences, and practical considerations of the available appearance capture techniques as applied to human faces. A central difficulty of facial appearance capture is the way light interacts with skin-which has a complex multi-layered structure-and the interactions that occur below the skin surface can, by definition, only be observed indirectly. In this report, we distinguish between two broad strategies for dealing with this complexity. "Image-based methods" try to exhaustively capture the exact face appearance under different lighting and viewing conditions, and then render the face through weighted image combinations. "Parametric methods" instead fit the captured reflectance data to some parametric appearance model used during rendering, allowing for a more lightweight and flexible representation but at the cost of potentially increased rendering complexity or inexact reproduction. The goal of this report is to provide an overview that can guide practitioners and researchers in assessing the tradeoffs between current approaches and identifying directions for future advances in facial appearance capture.","lang":"eng"}],"oa_version":"None","scopus_import":1,"quality_controlled":"1","publisher":"Wiley-Blackwell","main_file_link":[{"url":"https://graphics.ethz.ch/~mpapas/publications/fac_star.pdf"}],"month":"05","intvolume":" 34","year":"2015","publication_status":"published","day":"01","language":[{"iso":"eng"}],"publication":"Computer Graphics Forum","page":"709 - 733","volume":34,"doi":"10.1111/cgf.12594","date_published":"2015-05-01T00:00:00Z","issue":"2","date_created":"2018-12-11T11:53:43Z"},{"date_published":"2015-06-15T00:00:00Z","doi":"10.1038/ejhg.2014.165","date_created":"2018-12-11T11:54:01Z","page":"753 - 760","day":"15","publication":"European Journal of Human Genetics","year":"2015","publisher":"Nature Publishing Group","quality_controlled":"1","oa":1,"title":"Loss-of-function variants of SETD5 cause intellectual disability and the core phenotype of microdeletion 3p25.3 syndrome","publist_id":"5324","author":[{"last_name":"Kuechler","full_name":"Kuechler, Alma","first_name":"Alma"},{"first_name":"Alexander","full_name":"Zink, Alexander","last_name":"Zink"},{"full_name":"Wieland, Thomas","last_name":"Wieland","first_name":"Thomas"},{"first_name":"Hermann","last_name":"Lüdecke","full_name":"Lüdecke, Hermann"},{"first_name":"Kirsten","full_name":"Cremer, Kirsten","last_name":"Cremer"},{"first_name":"Leonardo","last_name":"Salviati","full_name":"Salviati, Leonardo"},{"first_name":"Pamela","last_name":"Magini","full_name":"Magini, Pamela"},{"last_name":"Najafi","full_name":"Najafi, Kimia","first_name":"Kimia"},{"first_name":"Christiane","full_name":"Zweier, Christiane","last_name":"Zweier"},{"full_name":"Czeschik, Johanna","last_name":"Czeschik","first_name":"Johanna"},{"last_name":"Aretz","full_name":"Aretz, Stefan","first_name":"Stefan"},{"first_name":"Sabine","last_name":"Endele","full_name":"Endele, Sabine"},{"first_name":"Federica","full_name":"Tamburrino, Federica","last_name":"Tamburrino"},{"first_name":"Claudia","full_name":"Pinato, Claudia","last_name":"Pinato"},{"first_name":"Maurizio","full_name":"Clementi, Maurizio","last_name":"Clementi"},{"first_name":"Jasmin","full_name":"Gundlach, Jasmin","last_name":"Gundlach"},{"first_name":"Carina","last_name":"Maylahn","full_name":"Maylahn, Carina"},{"first_name":"Laura","last_name":"Mazzanti","full_name":"Mazzanti, Laura"},{"full_name":"Wohlleber, Eva","last_name":"Wohlleber","first_name":"Eva"},{"first_name":"Thomas","full_name":"Schwarzmayr, Thomas","last_name":"Schwarzmayr"},{"full_name":"Kariminejad, Roxana","last_name":"Kariminejad","first_name":"Roxana"},{"full_name":"Schlessinger, Avner","last_name":"Schlessinger","first_name":"Avner"},{"first_name":"Dagmar","last_name":"Wieczorek","full_name":"Wieczorek, Dagmar"},{"first_name":"Tim","full_name":"Strom, Tim","last_name":"Strom"},{"full_name":"Novarino, Gaia","orcid":"0000-0002-7673-7178","last_name":"Novarino","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","first_name":"Gaia"},{"full_name":"Engels, Hartmut","last_name":"Engels","first_name":"Hartmut"}],"external_id":{"pmid":["25138099"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Kuechler, Alma, et al. “Loss-of-Function Variants of SETD5 Cause Intellectual Disability and the Core Phenotype of Microdeletion 3p25.3 Syndrome.” European Journal of Human Genetics, vol. 23, no. 6, Nature Publishing Group, 2015, pp. 753–60, doi:10.1038/ejhg.2014.165.","ieee":"A. Kuechler et al., “Loss-of-function variants of SETD5 cause intellectual disability and the core phenotype of microdeletion 3p25.3 syndrome,” European Journal of Human Genetics, vol. 23, no. 6. Nature Publishing Group, pp. 753–760, 2015.","short":"A. Kuechler, A. Zink, T. Wieland, H. Lüdecke, K. Cremer, L. Salviati, P. Magini, K. Najafi, C. Zweier, J. Czeschik, S. Aretz, S. Endele, F. Tamburrino, C. Pinato, M. Clementi, J. Gundlach, C. Maylahn, L. Mazzanti, E. Wohlleber, T. Schwarzmayr, R. Kariminejad, A. Schlessinger, D. Wieczorek, T. Strom, G. Novarino, H. Engels, European Journal of Human Genetics 23 (2015) 753–760.","apa":"Kuechler, A., Zink, A., Wieland, T., Lüdecke, H., Cremer, K., Salviati, L., … Engels, H. (2015). Loss-of-function variants of SETD5 cause intellectual disability and the core phenotype of microdeletion 3p25.3 syndrome. European Journal of Human Genetics. Nature Publishing Group. https://doi.org/10.1038/ejhg.2014.165","ama":"Kuechler A, Zink A, Wieland T, et al. Loss-of-function variants of SETD5 cause intellectual disability and the core phenotype of microdeletion 3p25.3 syndrome. European Journal of Human Genetics. 2015;23(6):753-760. doi:10.1038/ejhg.2014.165","chicago":"Kuechler, Alma, Alexander Zink, Thomas Wieland, Hermann Lüdecke, Kirsten Cremer, Leonardo Salviati, Pamela Magini, et al. “Loss-of-Function Variants of SETD5 Cause Intellectual Disability and the Core Phenotype of Microdeletion 3p25.3 Syndrome.” European Journal of Human Genetics. Nature Publishing Group, 2015. https://doi.org/10.1038/ejhg.2014.165.","ista":"Kuechler A, Zink A, Wieland T, Lüdecke H, Cremer K, Salviati L, Magini P, Najafi K, Zweier C, Czeschik J, Aretz S, Endele S, Tamburrino F, Pinato C, Clementi M, Gundlach J, Maylahn C, Mazzanti L, Wohlleber E, Schwarzmayr T, Kariminejad R, Schlessinger A, Wieczorek D, Strom T, Novarino G, Engels H. 2015. Loss-of-function variants of SETD5 cause intellectual disability and the core phenotype of microdeletion 3p25.3 syndrome. European Journal of Human Genetics. 23(6), 753–760."},"issue":"6","volume":23,"language":[{"iso":"eng"}],"publication_status":"published","month":"06","intvolume":" 23","main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4795044/"}],"pmid":1,"oa_version":"Submitted Version","abstract":[{"lang":"eng","text":"Intellectual disability (ID) has an estimated prevalence of 2-3%. Due to its extreme heterogeneity, the genetic basis of ID remains elusive in many cases. Recently, whole exome sequencing (WES) studies revealed that a large proportion of sporadic cases are caused by de novo gene variants. To identify further genes involved in ID, we performed WES in 250 patients with unexplained ID and their unaffected parents and included exomes of 51 previously sequenced child-parents trios in the analysis. Exome analysis revealed de novo intragenic variants in SET domain-containing 5 (SETD5) in two patients. One patient carried a nonsense variant, and the other an 81 bp deletion located across a splice-donor site. Chromosomal microarray diagnostics further identified four de novo non-recurrent microdeletions encompassing SETD5. CRISPR/Cas9 mutation modelling of the two intragenic variants demonstrated nonsense-mediated decay of the resulting transcripts, pointing to a loss-of-function (LoF) and haploinsufficiency as the common disease-causing mechanism of intragenic SETD5 sequence variants and SETD5-containing microdeletions. In silico domain prediction of SETD5, a predicted SET domain-containing histone methyltransferase (HMT), substantiated the presence of a SET domain and identified a novel putative PHD domain, strengthening a functional link to well-known histone-modifying ID genes. All six patients presented with ID and certain facial dysmorphisms, suggesting that SETD5 sequence variants contribute substantially to the microdeletion 3p25.3 phenotype. The present report of two SETD5 LoF variants in 301 patients demonstrates a prevalence of 0.7% and thus SETD5 variants as a relatively frequent cause of ID."}],"department":[{"_id":"GaNo"}],"date_updated":"2021-01-12T06:53:12Z","status":"public","type":"journal_article","_id":"1789"},{"abstract":[{"lang":"eng","text":"We fabricate and characterize a microscale silicon opto-electromechanical system whose mechanical motion is coupled capacitively to an electrical circuit and optically via radiation pressure to a photonic crystal cavity. To achieve large electromechanical interaction strength, we implement an inverse shadow mask fabrication scheme which obtains capacitor gaps as small as 30 nm while maintaining a silicon surface quality necessary for minimizing optical loss. Using the sensitive optical read-out of the photonic crystal cavity, we characterize the linear and nonlinear capacitive coupling to the fundamental ωm=2π = 63 MHz in-plane flexural motion of the structure, showing that the large electromechanical coupling in such devices may be suitable for realizing efficient microwave-to-optical signal conversion."}],"acknowledgement":"This work was supported by the DARPA MESO program, the AFOSR Hybrid Nanophotonics MURI, the Institute for Quantum Information and Matter, an NSF Physics Frontiers Center with support of the Gordon and Betty Moore Foundation, and the Kavli Nanoscience Institute at Caltech. AP gratefully acknowledge funding from EU through Marie Curie Actions, project NEMO (GA 298861). AT acknowledges partial financial support from the ERC through the advanced grant SoulMan","publisher":"Optical Society of America","quality_controlled":0,"month":"02","intvolume":" 23","publication_status":"published","year":"2015","day":"09","publication":"Optics Express","page":"3196 - 3208","doi":"10.1364/OE.23.003196","issue":"3","volume":23,"date_published":"2015-02-09T00:00:00Z","date_created":"2018-12-11T11:54:01Z","_id":"1788","type":"journal_article","status":"public","citation":{"chicago":"Pitanti, Alessandro, Johannes M Fink, Amir Safavi Naeini, Jeff Hill, Chan Lei, Alessandro Tredicucci, and Oskar Painter. “Strong Opto-Electro-Mechanical Coupling in a Silicon Photonic Crystal Cavity.” Optics Express. Optical Society of America, 2015. https://doi.org/10.1364/OE.23.003196.","ista":"Pitanti A, Fink JM, Safavi Naeini A, Hill J, Lei C, Tredicucci A, Painter O. 2015. Strong opto-electro-mechanical coupling in a silicon photonic crystal cavity. Optics Express. 23(3), 3196–3208.","mla":"Pitanti, Alessandro, et al. “Strong Opto-Electro-Mechanical Coupling in a Silicon Photonic Crystal Cavity.” Optics Express, vol. 23, no. 3, Optical Society of America, 2015, pp. 3196–208, doi:10.1364/OE.23.003196.","apa":"Pitanti, A., Fink, J. M., Safavi Naeini, A., Hill, J., Lei, C., Tredicucci, A., & Painter, O. (2015). Strong opto-electro-mechanical coupling in a silicon photonic crystal cavity. Optics Express. Optical Society of America. https://doi.org/10.1364/OE.23.003196","ama":"Pitanti A, Fink JM, Safavi Naeini A, et al. Strong opto-electro-mechanical coupling in a silicon photonic crystal cavity. Optics Express. 2015;23(3):3196-3208. doi:10.1364/OE.23.003196","ieee":"A. Pitanti et al., “Strong opto-electro-mechanical coupling in a silicon photonic crystal cavity,” Optics Express, vol. 23, no. 3. Optical Society of America, pp. 3196–3208, 2015.","short":"A. Pitanti, J.M. Fink, A. Safavi Naeini, J. Hill, C. Lei, A. Tredicucci, O. Painter, Optics Express 23 (2015) 3196–3208."},"date_updated":"2021-01-12T06:53:12Z","extern":1,"publist_id":"5325","author":[{"full_name":"Pitanti, Alessandro","last_name":"Pitanti","first_name":"Alessandro"},{"id":"4B591CBA-F248-11E8-B48F-1D18A9856A87","first_name":"Johannes M","last_name":"Fink","full_name":"Johannes Fink","orcid":"0000-0001-8112-028X"},{"full_name":"Safavi-Naeini, Amir H","last_name":"Safavi Naeini","first_name":"Amir"},{"first_name":"Jeff","full_name":"Hill, Jeff T","last_name":"Hill"},{"full_name":"Lei, Chan U","last_name":"Lei","first_name":"Chan"},{"first_name":"Alessandro","full_name":"Tredicucci, Alessandro","last_name":"Tredicucci"},{"first_name":"Oskar","last_name":"Painter","full_name":"Painter, Oskar J"}],"title":"Strong opto-electro-mechanical coupling in a silicon photonic crystal cavity"},{"publication":"Scientific Reports","day":"12","year":"2015","has_accepted_license":"1","date_created":"2018-12-11T11:54:06Z","doi":"10.1038/srep10781","date_published":"2015-06-12T00:00:00Z","oa":1,"publisher":"Nature Publishing Group","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Altmeyer, Sebastian, et al. “Transition to Turbulence in Taylor-Couette Ferrofluidic Flow.” Scientific Reports, vol. 5, 10781, Nature Publishing Group, 2015, doi:10.1038/srep10781.","ama":"Altmeyer S, Do Y, Lai Y. Transition to turbulence in Taylor-Couette ferrofluidic flow. Scientific Reports. 2015;5. doi:10.1038/srep10781","apa":"Altmeyer, S., Do, Y., & Lai, Y. (2015). Transition to turbulence in Taylor-Couette ferrofluidic flow. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/srep10781","ieee":"S. Altmeyer, Y. Do, and Y. Lai, “Transition to turbulence in Taylor-Couette ferrofluidic flow,” Scientific Reports, vol. 5. Nature Publishing Group, 2015.","short":"S. Altmeyer, Y. Do, Y. Lai, Scientific Reports 5 (2015).","chicago":"Altmeyer, Sebastian, Younghae Do, and Ying Lai. “Transition to Turbulence in Taylor-Couette Ferrofluidic Flow.” Scientific Reports. Nature Publishing Group, 2015. https://doi.org/10.1038/srep10781.","ista":"Altmeyer S, Do Y, Lai Y. 2015. Transition to turbulence in Taylor-Couette ferrofluidic flow. Scientific Reports. 5, 10781."},"title":"Transition to turbulence in Taylor-Couette ferrofluidic flow","author":[{"last_name":"Altmeyer","full_name":"Altmeyer, Sebastian","orcid":"0000-0001-5964-0203","id":"2EE67FDC-F248-11E8-B48F-1D18A9856A87","first_name":"Sebastian"},{"full_name":"Do, Younghae","last_name":"Do","first_name":"Younghae"},{"last_name":"Lai","full_name":"Lai, Ying","first_name":"Ying"}],"publist_id":"5306","article_number":"10781","language":[{"iso":"eng"}],"file":[{"date_updated":"2020-07-14T12:45:16Z","file_size":2449723,"creator":"system","date_created":"2018-12-12T10:17:26Z","file_name":"IST-2016-450-v1+1_srep10781.pdf","content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"7716f582f8c9d82d8f2bf80bf896b440","file_id":"5280"}],"publication_status":"published","volume":5,"oa_version":"Published Version","abstract":[{"lang":"eng","text":"It is known that in classical fluids turbulence typically occurs at high Reynolds numbers. But can turbulence occur at low Reynolds numbers? Here we investigate the transition to turbulence in the classic Taylor-Couette system in which the rotating fluids are manufactured ferrofluids with magnetized nanoparticles embedded in liquid carriers. We find that, in the presence of a magnetic field transverse to the symmetry axis of the system, turbulence can occur at Reynolds numbers that are at least one order of magnitude smaller than those in conventional fluids. This is established by extensive computational ferrohydrodynamics through a detailed investigation of transitions in the flow structure, and characterization of behaviors of physical quantities such as the energy, the wave number, and the angular momentum through the bifurcations. A finding is that, as the magnetic field is increased, onset of turbulence can be determined accurately and reliably. Our results imply that experimental investigation of turbulence may be feasible by using ferrofluids. Our study of transition to and evolution of turbulence in the Taylor-Couette ferrofluidic flow system provides insights into the challenging problem of turbulence control."}],"intvolume":" 5","month":"06","scopus_import":1,"ddc":["530"],"date_updated":"2021-01-12T06:53:18Z","department":[{"_id":"BjHo"}],"file_date_updated":"2020-07-14T12:45:16Z","_id":"1804","pubrep_id":"450","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article"},{"extern":1,"date_updated":"2021-01-12T06:53:18Z","citation":{"mla":"Rei, Damien, et al. “Basolateral Amygdala Bidirectionally Modulates Stress Induced Hippocampal Learning and Memory Deficits through a P25/Cdk5-Dependent Pathway.” PNAS, vol. 112, no. 23, National Academy of Sciences, 2015, pp. 7291–96, doi:10.1073/pnas.1415845112.","short":"D. Rei, X. Mason, J. Seo, J. Gräff, A. Rudenko, J. Wang, R. Rueda, S. Siegert, S. Cho, R. Canter, A. Mungenast, K. Deisseroth, L. Tsai, PNAS 112 (2015) 7291–7296.","ieee":"D. Rei et al., “Basolateral amygdala bidirectionally modulates stress induced hippocampal learning and memory deficits through a p25/Cdk5-dependent pathway,” PNAS, vol. 112, no. 23. National Academy of Sciences, pp. 7291–7296, 2015.","apa":"Rei, D., Mason, X., Seo, J., Gräff, J., Rudenko, A., Wang, J., … Tsai, L. (2015). Basolateral amygdala bidirectionally modulates stress induced hippocampal learning and memory deficits through a p25/Cdk5-dependent pathway. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1415845112","ama":"Rei D, Mason X, Seo J, et al. Basolateral amygdala bidirectionally modulates stress induced hippocampal learning and memory deficits through a p25/Cdk5-dependent pathway. PNAS. 2015;112(23):7291-7296. doi:10.1073/pnas.1415845112","chicago":"Rei, Damien, Xenos Mason, Jinsoo Seo, Johannes Gräff, Andrii Rudenko, Jùn Wang, Richard Rueda, et al. “Basolateral Amygdala Bidirectionally Modulates Stress Induced Hippocampal Learning and Memory Deficits through a P25/Cdk5-Dependent Pathway.” PNAS. National Academy of Sciences, 2015. https://doi.org/10.1073/pnas.1415845112.","ista":"Rei D, Mason X, Seo J, Gräff J, Rudenko A, Wang J, Rueda R, Siegert S, Cho S, Canter R, Mungenast A, Deisseroth K, Tsai L. 2015. Basolateral amygdala bidirectionally modulates stress induced hippocampal learning and memory deficits through a p25/Cdk5-dependent pathway. PNAS. 112(23), 7291–7296."},"title":"Basolateral amygdala bidirectionally modulates stress induced hippocampal learning and memory deficits through a p25/Cdk5-dependent pathway","author":[{"first_name":"Damien","full_name":"Rei, Damien","last_name":"Rei"},{"full_name":"Mason, Xenos","last_name":"Mason","first_name":"Xenos"},{"first_name":"Jinsoo","last_name":"Seo","full_name":"Seo, Jinsoo"},{"full_name":"Gräff, Johannes","last_name":"Gräff","first_name":"Johannes"},{"full_name":"Rudenko, Andrii","last_name":"Rudenko","first_name":"Andrii"},{"full_name":"Wang, Jùn","last_name":"Wang","first_name":"Jùn"},{"first_name":"Richard","last_name":"Rueda","full_name":"Rueda, Richard"},{"orcid":"0000-0001-8635-0877","full_name":"Sandra Siegert","last_name":"Siegert","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87","first_name":"Sandra"},{"first_name":"Sukhee","full_name":"Cho, Sukhee","last_name":"Cho"},{"first_name":"Rebecca","full_name":"Canter, Rebecca G","last_name":"Canter"},{"first_name":"Alison","full_name":"Mungenast, Alison E","last_name":"Mungenast"},{"full_name":"Deisseroth, Karl A","last_name":"Deisseroth","first_name":"Karl"},{"first_name":"Lihuei","full_name":"Tsai, Lihuei","last_name":"Tsai"}],"publist_id":"5307","_id":"1803","status":"public","type":"journal_article","publication":"PNAS","day":"09","year":"2015","publication_status":"published","date_created":"2018-12-11T11:54:06Z","volume":112,"doi":"10.1073/pnas.1415845112","date_published":"2015-06-09T00:00:00Z","issue":"23","page":"7291 - 7296","acknowledgement":"AG047661; NIH; Schweizerische Nationalfonds zur Förderung der Wissenschaftlichen Forschung\nNS051874; NIH; Schweizerische Nationalfonds zur Förderung der Wissenschaftlichen Forschung\nSNSF; Schweizerische Nationalfonds zur Förderung der Wissenschaftlichen Forschung","abstract":[{"text":"Repeated stress has been suggested to underlie learning and memory deficits via the basolateral amygdala (BLA) and the hippocampus; however, the functional contribution of BLA inputs to the hippocampus and their molecular repercussions are not well understood. Here we show that repeated stress is accompanied by generation of the Cdk5 (cyclin-dependent kinase 5)-activator p25, up-regulation and phosphorylation of glucocorticoid receptors, increased HDAC2 expression, and reduced expression of memoryrelated genes in the hippocampus. A combination of optogenetic and pharmacosynthetic approaches shows that BLA activation is both necessary and sufficient for stress-associated molecular changes and memory impairments. Furthermore, we show that this effect relies on direct glutamatergic projections from the BLA to the dorsal hippocampus. Finally, we show that p25 generation is necessary for the stress-induced memory dysfunction. Taken together, our data provide a neural circuit model for stress-induced hippocampal memory deficits through BLA activity-dependent p25 generation.","lang":"eng"}],"intvolume":" 112","month":"06","publisher":"National Academy of Sciences","quality_controlled":0},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:53:20Z","citation":{"mla":"Goldman, Michael, and Jimena Royo-Letelier. “Sharp Interface Limit for Two Components Bose-Einstein Condensates.” ESAIM - Control, Optimisation and Calculus of Variations, vol. 21, no. 3, EDP Sciences, 2015, pp. 603–24, doi:10.1051/cocv/2014040.","ieee":"M. Goldman and J. Royo-Letelier, “Sharp interface limit for two components Bose-Einstein condensates,” ESAIM - Control, Optimisation and Calculus of Variations, vol. 21, no. 3. EDP Sciences, pp. 603–624, 2015.","short":"M. Goldman, J. Royo-Letelier, ESAIM - Control, Optimisation and Calculus of Variations 21 (2015) 603–624.","ama":"Goldman M, Royo-Letelier J. Sharp interface limit for two components Bose-Einstein condensates. ESAIM - Control, Optimisation and Calculus of Variations. 2015;21(3):603-624. doi:10.1051/cocv/2014040","apa":"Goldman, M., & Royo-Letelier, J. (2015). Sharp interface limit for two components Bose-Einstein condensates. ESAIM - Control, Optimisation and Calculus of Variations. EDP Sciences. https://doi.org/10.1051/cocv/2014040","chicago":"Goldman, Michael, and Jimena Royo-Letelier. “Sharp Interface Limit for Two Components Bose-Einstein Condensates.” ESAIM - Control, Optimisation and Calculus of Variations. EDP Sciences, 2015. https://doi.org/10.1051/cocv/2014040.","ista":"Goldman M, Royo-Letelier J. 2015. Sharp interface limit for two components Bose-Einstein condensates. ESAIM - Control, Optimisation and Calculus of Variations. 21(3), 603–624."},"title":"Sharp interface limit for two components Bose-Einstein condensates","department":[{"_id":"RoSe"}],"author":[{"last_name":"Goldman","full_name":"Goldman, Michael","first_name":"Michael"},{"last_name":"Royo-Letelier","full_name":"Royo-Letelier, Jimena","id":"4D3BED28-F248-11E8-B48F-1D18A9856A87","first_name":"Jimena"}],"publist_id":"5303","_id":"1807","status":"public","type":"journal_article","day":"01","publication":"ESAIM - Control, Optimisation and Calculus of Variations","language":[{"iso":"eng"}],"year":"2015","publication_status":"published","volume":21,"issue":"3","doi":"10.1051/cocv/2014040","date_published":"2015-05-01T00:00:00Z","date_created":"2018-12-11T11:54:07Z","page":"603 - 624","oa_version":"Preprint","abstract":[{"text":"We study a double Cahn-Hilliard type functional related to the Gross-Pitaevskii energy of two-components Bose-Einstein condensates. In the case of large but same order intercomponent and intracomponent coupling strengths, we prove Γ-convergence to a perimeter minimisation functional with an inhomogeneous surface tension. We study the asymptotic behavior of the surface tension as the ratio between the intercomponent and intracomponent coupling strengths becomes very small or very large and obtain good agreement with the physical literature. We obtain as a consequence, symmetry breaking of the minimisers for the harmonic potential.","lang":"eng"}],"month":"05","intvolume":" 21","quality_controlled":"1","publisher":"EDP Sciences","scopus_import":1,"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1401.1727"}],"oa":1},{"day":"01","publication":"Nature Neuroscience","publication_status":"published","year":"2015","doi":"10.1038/nn.4023","date_published":"2015-07-01T00:00:00Z","volume":18,"date_created":"2018-12-11T11:54:05Z","page":"1008 - 1016","acknowledgement":"S.S. was supported by a Human Frontier Science Program (HFSP) long-term postdoctoral fellowship and a Swiss National Science Foundation fellowship for prospective researchers. E.J.K. was supported by a Simons Foundation Postdoctoral Fellowship. A.R. was supported by a NARSAD Young Investigator Award. This work was supported by a Seed Grant from the Simons Center for the Social Brain and US National Institutes of Health grant RO1 MH 091115 to L.-H.T.","abstract":[{"text":"Noncoding variants in the human MIR137 gene locus increase schizophrenia risk with genome-wide significance. However, the functional consequence of these risk alleles is unknown. Here we examined induced human neurons harboring the minor alleles of four disease-associated single nucleotide polymorphisms in MIR137. We observed increased MIR137 levels compared to those in major allele–carrying cells. microRNA-137 gain of function caused downregulation of the presynaptic target genes complexin-1 (Cplx1), Nsf and synaptotagmin-1 (Syt1), leading to impaired vesicle release. In vivo, miR-137 gain of function resulted in changes in synaptic vesicle pool distribution, impaired induction of mossy fiber long-term potentiation and deficits in hippocampus-dependent learning and memory. By sequestering endogenous miR-137, we were able to ameliorate the synaptic phenotypes. Moreover, reinstatement of Syt1 expression partially restored synaptic plasticity, demonstrating the importance of Syt1 as a miR-137 target. Our data provide new insight into the mechanism by which miR-137 dysregulation can impair synaptic plasticity in the hippocampus.","lang":"eng"}],"month":"07","intvolume":" 18","publisher":"Nature Publishing Group","quality_controlled":0,"extern":1,"citation":{"ista":"Siegert S, Seo J, Kwon E, Rudenko A, Cho S, Wang W, Flood Z, Martorell A, Ericsson M, Mungenast A, Tsai L. 2015. The schizophrenia risk gene product miR-137 alters presynaptic plasticity. Nature Neuroscience. 18, 1008–1016.","chicago":"Siegert, Sandra, Jinsoo Seo, Ester Kwon, Andrii Rudenko, Sukhee Cho, Wenyuan Wang, Zachary Flood, et al. “The Schizophrenia Risk Gene Product MiR-137 Alters Presynaptic Plasticity.” Nature Neuroscience. Nature Publishing Group, 2015. https://doi.org/10.1038/nn.4023.","short":"S. Siegert, J. Seo, E. Kwon, A. Rudenko, S. Cho, W. Wang, Z. Flood, A. Martorell, M. Ericsson, A. Mungenast, L. Tsai, Nature Neuroscience 18 (2015) 1008–1016.","ieee":"S. Siegert et al., “The schizophrenia risk gene product miR-137 alters presynaptic plasticity,” Nature Neuroscience, vol. 18. Nature Publishing Group, pp. 1008–1016, 2015.","ama":"Siegert S, Seo J, Kwon E, et al. The schizophrenia risk gene product miR-137 alters presynaptic plasticity. Nature Neuroscience. 2015;18:1008-1016. doi:10.1038/nn.4023","apa":"Siegert, S., Seo, J., Kwon, E., Rudenko, A., Cho, S., Wang, W., … Tsai, L. (2015). The schizophrenia risk gene product miR-137 alters presynaptic plasticity. Nature Neuroscience. Nature Publishing Group. https://doi.org/10.1038/nn.4023","mla":"Siegert, Sandra, et al. “The Schizophrenia Risk Gene Product MiR-137 Alters Presynaptic Plasticity.” Nature Neuroscience, vol. 18, Nature Publishing Group, 2015, pp. 1008–16, doi:10.1038/nn.4023."},"date_updated":"2021-01-12T06:53:18Z","title":"The schizophrenia risk gene product miR-137 alters presynaptic plasticity","publist_id":"5308","author":[{"full_name":"Sandra Siegert","orcid":"0000-0001-8635-0877","last_name":"Siegert","first_name":"Sandra","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jinsoo","last_name":"Seo","full_name":"Seo, Jinsoo"},{"full_name":"Kwon, Ester J","last_name":"Kwon","first_name":"Ester"},{"first_name":"Andrii","full_name":"Rudenko, Andrii","last_name":"Rudenko"},{"first_name":"Sukhee","last_name":"Cho","full_name":"Cho, Sukhee"},{"last_name":"Wang","full_name":"Wang, Wenyuan","first_name":"Wenyuan"},{"first_name":"Zachary","full_name":"Flood, Zachary C","last_name":"Flood"},{"full_name":"Martorell, Anthony J","last_name":"Martorell","first_name":"Anthony"},{"first_name":"Maria","last_name":"Ericsson","full_name":"Ericsson, Maria"},{"first_name":"Alison","full_name":"Mungenast, Alison E","last_name":"Mungenast"},{"first_name":"Lihuei","last_name":"Tsai","full_name":"Tsai, Lihuei"}],"_id":"1802","status":"public","type":"journal_article"},{"department":[{"_id":"ToBo"}],"file_date_updated":"2020-07-14T12:45:17Z","date_updated":"2021-01-12T06:53:21Z","ddc":["570"],"type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"status":"public","pubrep_id":"493","_id":"1810","volume":27,"ec_funded":1,"publication_status":"published","file":[{"date_created":"2018-12-12T10:17:23Z","file_name":"IST-2016-493-v1+1_1-s2.0-S1369527415000594-main.pdf","creator":"system","date_updated":"2020-07-14T12:45:17Z","file_size":1047255,"checksum":"1683bb0f42ef892a5b3b71a050d65d25","file_id":"5277","access_level":"open_access","relation":"main_file","content_type":"application/pdf"}],"language":[{"iso":"eng"}],"scopus_import":1,"month":"06","intvolume":" 27","abstract":[{"text":"Combining antibiotics is a promising strategy for increasing treatment efficacy and for controlling resistance evolution. When drugs are combined, their effects on cells may be amplified or weakened, that is the drugs may show synergistic or antagonistic interactions. Recent work revealed the underlying mechanisms of such drug interactions by elucidating the drugs'; joint effects on cell physiology. Moreover, new treatment strategies that use drug combinations to exploit evolutionary tradeoffs were shown to affect the rate of resistance evolution in predictable ways. High throughput studies have further identified drug candidates based on their interactions with established antibiotics and general principles that enable the prediction of drug interactions were suggested. Overall, the conceptual and technical foundation for the rational design of potent drug combinations is rapidly developing.","lang":"eng"}],"oa_version":"Published Version","author":[{"id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","first_name":"Mark Tobias","last_name":"Bollenbach","orcid":"0000-0003-4398-476X","full_name":"Bollenbach, Mark Tobias"}],"publist_id":"5298","title":"Antimicrobial interactions: Mechanisms and implications for drug discovery and resistance evolution","citation":{"ieee":"M. T. Bollenbach, “Antimicrobial interactions: Mechanisms and implications for drug discovery and resistance evolution,” Current Opinion in Microbiology, vol. 27. Elsevier, pp. 1–9, 2015.","short":"M.T. Bollenbach, Current Opinion in Microbiology 27 (2015) 1–9.","apa":"Bollenbach, M. T. (2015). Antimicrobial interactions: Mechanisms and implications for drug discovery and resistance evolution. Current Opinion in Microbiology. Elsevier. https://doi.org/10.1016/j.mib.2015.05.008","ama":"Bollenbach MT. Antimicrobial interactions: Mechanisms and implications for drug discovery and resistance evolution. Current Opinion in Microbiology. 2015;27:1-9. doi:10.1016/j.mib.2015.05.008","mla":"Bollenbach, Mark Tobias. “Antimicrobial Interactions: Mechanisms and Implications for Drug Discovery and Resistance Evolution.” Current Opinion in Microbiology, vol. 27, Elsevier, 2015, pp. 1–9, doi:10.1016/j.mib.2015.05.008.","ista":"Bollenbach MT. 2015. Antimicrobial interactions: Mechanisms and implications for drug discovery and resistance evolution. Current Opinion in Microbiology. 27, 1–9.","chicago":"Bollenbach, Mark Tobias. “Antimicrobial Interactions: Mechanisms and Implications for Drug Discovery and Resistance Evolution.” Current Opinion in Microbiology. Elsevier, 2015. https://doi.org/10.1016/j.mib.2015.05.008."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"grant_number":"P27201-B22","name":"Revealing the mechanisms underlying drug interactions","call_identifier":"FWF","_id":"25E9AF9E-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FP7","_id":"25E83C2C-B435-11E9-9278-68D0E5697425","grant_number":"303507","name":"Optimality principles in responses to antibiotics"},{"name":"Revealing the fundamental limits of cell growth","grant_number":"RGP0042/2013","_id":"25EB3A80-B435-11E9-9278-68D0E5697425"}],"page":"1 - 9","doi":"10.1016/j.mib.2015.05.008","date_published":"2015-06-01T00:00:00Z","date_created":"2018-12-11T11:54:08Z","has_accepted_license":"1","year":"2015","day":"01","publication":"Current Opinion in Microbiology","publisher":"Elsevier","quality_controlled":"1","oa":1},{"language":[{"iso":"eng"}],"file":[{"content_type":"application/pdf","relation":"main_file","access_level":"open_access","checksum":"551f751a75b39b89a1db2f7f498f9a49","file_id":"5184","file_size":1900925,"date_updated":"2020-07-14T12:45:17Z","creator":"system","file_name":"IST-2016-446-v1+1_document.pdf","date_created":"2018-12-12T10:15:59Z"}],"publication_status":"published","volume":17,"issue":"4","oa_version":"Published Version","abstract":[{"lang":"eng","text":"We investigate the occurrence of rotons in a quadrupolar Bose–Einstein condensate confined to two dimensions. Depending on the particle density, the ratio of the contact and quadrupole–quadrupole interactions, and the alignment of the quadrupole moments with respect to the confinement plane, the dispersion relation features two or four point-like roton minima or one ring-shaped minimum. We map out the entire parameter space of the roton behavior and identify the instability regions. We propose to observe the exotic rotons by monitoring the characteristic density wave dynamics resulting from a short local perturbation, and discuss the possibilities to detect the predicted effects in state-of-the-art experiments with ultracold homonuclear molecules.\r\n"}],"intvolume":" 17","month":"04","scopus_import":1,"ddc":["530"],"date_updated":"2021-01-12T06:53:22Z","file_date_updated":"2020-07-14T12:45:17Z","department":[{"_id":"MiLe"}],"_id":"1812","pubrep_id":"446","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","publication":"New Journal of Physics","day":"01","year":"2015","has_accepted_license":"1","date_created":"2018-12-11T11:54:09Z","doi":"10.1088/1367-2630/17/4/045005","date_published":"2015-04-01T00:00:00Z","oa":1,"publisher":"IOP Publishing Ltd.","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Lahrz M, Lemeshko M, Mathey L. 2015. Exotic roton excitations in quadrupolar Bose–Einstein condensates . New Journal of Physics. 17(4), 045005.","chicago":"Lahrz, Martin, Mikhail Lemeshko, and Ludwig Mathey. “Exotic Roton Excitations in Quadrupolar Bose–Einstein Condensates .” New Journal of Physics. IOP Publishing Ltd., 2015. https://doi.org/10.1088/1367-2630/17/4/045005.","ama":"Lahrz M, Lemeshko M, Mathey L. Exotic roton excitations in quadrupolar Bose–Einstein condensates . New Journal of Physics. 2015;17(4). doi:10.1088/1367-2630/17/4/045005","apa":"Lahrz, M., Lemeshko, M., & Mathey, L. (2015). Exotic roton excitations in quadrupolar Bose–Einstein condensates . New Journal of Physics. IOP Publishing Ltd. https://doi.org/10.1088/1367-2630/17/4/045005","ieee":"M. Lahrz, M. Lemeshko, and L. Mathey, “Exotic roton excitations in quadrupolar Bose–Einstein condensates ,” New Journal of Physics, vol. 17, no. 4. IOP Publishing Ltd., 2015.","short":"M. Lahrz, M. Lemeshko, L. Mathey, New Journal of Physics 17 (2015).","mla":"Lahrz, Martin, et al. “Exotic Roton Excitations in Quadrupolar Bose–Einstein Condensates .” New Journal of Physics, vol. 17, no. 4, 045005, IOP Publishing Ltd., 2015, doi:10.1088/1367-2630/17/4/045005."},"title":"Exotic roton excitations in quadrupolar Bose–Einstein condensates ","article_processing_charge":"No","publist_id":"5294","author":[{"first_name":"Martin","last_name":"Lahrz","full_name":"Lahrz, Martin"},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","last_name":"Lemeshko","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802"},{"first_name":"Ludwig","last_name":"Mathey","full_name":"Mathey, Ludwig"}],"article_number":"045005"},{"language":[{"iso":"eng"}],"publication_status":"published","issue":"5","volume":56,"ec_funded":1,"oa_version":"Preprint","abstract":[{"text":"Atomic form factors are widely used for the characterization of targets and specimens, from crystallography to biology. By using recent mathematical results, here we derive an analytical expression for the atomic form factor within the independent particle model constructed from nonrelativistic screened hydrogenic wave functions. The range of validity of this analytical expression is checked by comparing the analytically obtained form factors with the ones obtained within the Hartee-Fock method. As an example, we apply our analytical expression for the atomic form factor to evaluate the differential cross section for Rayleigh scattering off neutral atoms.","lang":"eng"}],"month":"05","intvolume":" 56","scopus_import":1,"main_file_link":[{"url":"http://arxiv.org/abs/1409.0110","open_access":"1"}],"date_updated":"2021-01-12T06:53:21Z","department":[{"_id":"MiLe"}],"_id":"1811","status":"public","type":"journal_article","day":"20","publication":"Journal of Mathematical Physics","year":"2015","doi":"10.1063/1.4921227","date_published":"2015-05-20T00:00:00Z","date_created":"2018-12-11T11:54:08Z","acknowledgement":"The research leading to these results has received funding from the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement n◦ [291734]. F.F. acknowledges support by Fundação de Amparo à Pesquisa do estado de Minas Gerais (FAPEMIG), by Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), and by the Austrian Science Fund (FWF) through the START Grant No. Y 591-N16.","publisher":"American Institute of Physics","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Safari, Laleh, José Santos, Pedro Amaro, Kari Jänkälä, and Filippo Fratini. “Analytical Evaluation of Atomic Form Factors: Application to Rayleigh Scattering.” Journal of Mathematical Physics. American Institute of Physics, 2015. https://doi.org/10.1063/1.4921227.","ista":"Safari L, Santos J, Amaro P, Jänkälä K, Fratini F. 2015. Analytical evaluation of atomic form factors: Application to Rayleigh scattering. Journal of Mathematical Physics. 56(5), 052105.","mla":"Safari, Laleh, et al. “Analytical Evaluation of Atomic Form Factors: Application to Rayleigh Scattering.” Journal of Mathematical Physics, vol. 56, no. 5, 052105, American Institute of Physics, 2015, doi:10.1063/1.4921227.","ama":"Safari L, Santos J, Amaro P, Jänkälä K, Fratini F. Analytical evaluation of atomic form factors: Application to Rayleigh scattering. Journal of Mathematical Physics. 2015;56(5). doi:10.1063/1.4921227","apa":"Safari, L., Santos, J., Amaro, P., Jänkälä, K., & Fratini, F. (2015). Analytical evaluation of atomic form factors: Application to Rayleigh scattering. Journal of Mathematical Physics. American Institute of Physics. https://doi.org/10.1063/1.4921227","short":"L. Safari, J. Santos, P. Amaro, K. Jänkälä, F. Fratini, Journal of Mathematical Physics 56 (2015).","ieee":"L. Safari, J. Santos, P. Amaro, K. Jänkälä, and F. Fratini, “Analytical evaluation of atomic form factors: Application to Rayleigh scattering,” Journal of Mathematical Physics, vol. 56, no. 5. American Institute of Physics, 2015."},"title":"Analytical evaluation of atomic form factors: Application to Rayleigh scattering","author":[{"id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","first_name":"Laleh","last_name":"Safari","full_name":"Safari, Laleh"},{"full_name":"Santos, José","last_name":"Santos","first_name":"José"},{"first_name":"Pedro","last_name":"Amaro","full_name":"Amaro, Pedro"},{"first_name":"Kari","full_name":"Jänkälä, Kari","last_name":"Jänkälä"},{"first_name":"Filippo","last_name":"Fratini","full_name":"Fratini, Filippo"}],"publist_id":"5295","article_number":"052105","project":[{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","grant_number":"291734"}]},{"day":"18","publication":"Physical Review Letters","language":[{"iso":"eng"}],"year":"2015","publication_status":"published","date_published":"2015-05-18T00:00:00Z","volume":114,"doi":"10.1103/PhysRevLett.114.203001","issue":"20","date_created":"2018-12-11T11:54:09Z","oa_version":"Preprint","abstract":[{"lang":"eng","text":"We develop a microscopic theory describing a quantum impurity whose rotational degree of freedom is coupled to a many-particle bath. We approach the problem by introducing the concept of an “angulon”—a quantum rotor dressed by a quantum field—and reveal its quasiparticle properties using a combination of variational and diagrammatic techniques. Our theory predicts renormalization of the impurity rotational structure, such as that observed in experiments with molecules in superfluid helium droplets, in terms of a rotational Lamb shift induced by the many-particle environment. Furthermore, we discover a rich many-body-induced fine structure, emerging in rotational spectra due to a redistribution of angular momentum within the quantum many-body system."}],"month":"05","intvolume":" 114","scopus_import":1,"quality_controlled":"1","publisher":"American Physical Society","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1502.03447"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"apa":"Schmidt, R., & Lemeshko, M. (2015). Rotation of quantum impurities in the presence of a many-body environment. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.114.203001","ama":"Schmidt R, Lemeshko M. Rotation of quantum impurities in the presence of a many-body environment. Physical Review Letters. 2015;114(20). doi:10.1103/PhysRevLett.114.203001","ieee":"R. Schmidt and M. Lemeshko, “Rotation of quantum impurities in the presence of a many-body environment,” Physical Review Letters, vol. 114, no. 20. American Physical Society, 2015.","short":"R. Schmidt, M. Lemeshko, Physical Review Letters 114 (2015).","mla":"Schmidt, Richard, and Mikhail Lemeshko. “Rotation of Quantum Impurities in the Presence of a Many-Body Environment.” Physical Review Letters, vol. 114, no. 20, 203001, American Physical Society, 2015, doi:10.1103/PhysRevLett.114.203001.","ista":"Schmidt R, Lemeshko M. 2015. Rotation of quantum impurities in the presence of a many-body environment. Physical Review Letters. 114(20), 203001.","chicago":"Schmidt, Richard, and Mikhail Lemeshko. “Rotation of Quantum Impurities in the Presence of a Many-Body Environment.” Physical Review Letters. American Physical Society, 2015. https://doi.org/10.1103/PhysRevLett.114.203001."},"date_updated":"2021-01-12T06:53:22Z","department":[{"_id":"MiLe"}],"title":"Rotation of quantum impurities in the presence of a many-body environment","author":[{"first_name":"Richard","last_name":"Schmidt","full_name":"Schmidt, Richard"},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","last_name":"Lemeshko","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802"}],"publist_id":"5293","article_number":"203001","_id":"1813","status":"public","type":"journal_article"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:53:20Z","citation":{"ista":"Gupta A, Henzinger TA. 2015. Guest editors’ introduction to special issue on computational methods in systems biology. ACM Transactions on Modeling and Computer Simulation. 25(2), 7.","chicago":"Gupta, Ashutosh, and Thomas A Henzinger. “Guest Editors’ Introduction to Special Issue on Computational Methods in Systems Biology.” ACM Transactions on Modeling and Computer Simulation. ACM, 2015. https://doi.org/10.1145/2745799.","ieee":"A. Gupta and T. A. Henzinger, “Guest editors’ introduction to special issue on computational methods in systems biology,” ACM Transactions on Modeling and Computer Simulation, vol. 25, no. 2. ACM, 2015.","short":"A. Gupta, T.A. Henzinger, ACM Transactions on Modeling and Computer Simulation 25 (2015).","ama":"Gupta A, Henzinger TA. Guest editors’ introduction to special issue on computational methods in systems biology. ACM Transactions on Modeling and Computer Simulation. 2015;25(2). doi:10.1145/2745799","apa":"Gupta, A., & Henzinger, T. A. (2015). Guest editors’ introduction to special issue on computational methods in systems biology. ACM Transactions on Modeling and Computer Simulation. ACM. https://doi.org/10.1145/2745799","mla":"Gupta, Ashutosh, and Thomas A. Henzinger. “Guest Editors’ Introduction to Special Issue on Computational Methods in Systems Biology.” ACM Transactions on Modeling and Computer Simulation, vol. 25, no. 2, 7, ACM, 2015, doi:10.1145/2745799."},"title":"Guest editors' introduction to special issue on computational methods in systems biology","department":[{"_id":"ToHe"}],"publist_id":"5302","author":[{"last_name":"Gupta","full_name":"Gupta, Ashutosh","id":"335E5684-F248-11E8-B48F-1D18A9856A87","first_name":"Ashutosh"},{"full_name":"Henzinger, Thomas A","orcid":"0000−0002−2985−7724","last_name":"Henzinger","first_name":"Thomas A","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"}],"article_number":"7","_id":"1808","status":"public","type":"journal_article","day":"01","language":[{"iso":"eng"}],"publication":"ACM Transactions on Modeling and Computer Simulation","publication_status":"published","year":"2015","date_published":"2015-05-01T00:00:00Z","doi":"10.1145/2745799","volume":25,"issue":"2","date_created":"2018-12-11T11:54:07Z","oa_version":"None","month":"05","intvolume":" 25","publisher":"ACM","quality_controlled":"1"}]