[{"volume":91,"intvolume":"        91","status":"public","department":[{"_id":"GaTk"}],"quality_controlled":"1","publication":"Physical Review E Statistical Nonlinear and Soft Matter Physics","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1501.04015"}],"oa":1,"publication_status":"published","publisher":"American Institute of Physics","date_created":"2018-12-11T11:54:49Z","_id":"1940","date_published":"2015-06-15T00:00:00Z","abstract":[{"text":"We typically think of cells as responding to external signals independently by regulating their gene expression levels, yet they often locally exchange information and coordinate. Can such spatial coupling be of benefit for conveying signals subject to gene regulatory noise? Here we extend our information-theoretic framework for gene regulation to spatially extended systems. As an example, we consider a lattice of nuclei responding to a concentration field of a transcriptional regulator (the &quot;input&quot;) by expressing a single diffusible target gene. When input concentrations are low, diffusive coupling markedly improves information transmission; optimal gene activation functions also systematically change. A qualitatively new regulatory strategy emerges where individual cells respond to the input in a nearly step-like fashion that is subsequently averaged out by strong diffusion. While motivated by early patterning events in the Drosophila embryo, our framework is generically applicable to spatially coupled stochastic gene expression models.","lang":"eng"}],"article_number":"062710","month":"06","issue":"6","doi":"10.1103/PhysRevE.91.062710","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:54:13Z","scopus_import":1,"year":"2015","oa_version":"Preprint","author":[{"orcid":"0000-0002-1287-3779","id":"3E999752-F248-11E8-B48F-1D18A9856A87","last_name":"Sokolowski","full_name":"Sokolowski, Thomas R","first_name":"Thomas R"},{"first_name":"Gasper","full_name":"Tkacik, Gasper","last_name":"Tkacik","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article","publist_id":"5145","day":"15","title":"Optimizing information flow in small genetic networks. IV. Spatial coupling","citation":{"ama":"Sokolowski TR, Tkačik G. Optimizing information flow in small genetic networks. IV. Spatial coupling. <i>Physical Review E Statistical Nonlinear and Soft Matter Physics</i>. 2015;91(6). doi:<a href=\"https://doi.org/10.1103/PhysRevE.91.062710\">10.1103/PhysRevE.91.062710</a>","apa":"Sokolowski, T. R., &#38; Tkačik, G. (2015). Optimizing information flow in small genetic networks. IV. Spatial coupling. <i>Physical Review E Statistical Nonlinear and Soft Matter Physics</i>. American Institute of Physics. <a href=\"https://doi.org/10.1103/PhysRevE.91.062710\">https://doi.org/10.1103/PhysRevE.91.062710</a>","short":"T.R. Sokolowski, G. Tkačik, Physical Review E Statistical Nonlinear and Soft Matter Physics 91 (2015).","mla":"Sokolowski, Thomas R., and Gašper Tkačik. “Optimizing Information Flow in Small Genetic Networks. IV. Spatial Coupling.” <i>Physical Review E Statistical Nonlinear and Soft Matter Physics</i>, vol. 91, no. 6, 062710, American Institute of Physics, 2015, doi:<a href=\"https://doi.org/10.1103/PhysRevE.91.062710\">10.1103/PhysRevE.91.062710</a>.","chicago":"Sokolowski, Thomas R, and Gašper Tkačik. “Optimizing Information Flow in Small Genetic Networks. IV. Spatial Coupling.” <i>Physical Review E Statistical Nonlinear and Soft Matter Physics</i>. American Institute of Physics, 2015. <a href=\"https://doi.org/10.1103/PhysRevE.91.062710\">https://doi.org/10.1103/PhysRevE.91.062710</a>.","ieee":"T. R. Sokolowski and G. Tkačik, “Optimizing information flow in small genetic networks. IV. Spatial coupling,” <i>Physical Review E Statistical Nonlinear and Soft Matter Physics</i>, vol. 91, no. 6. American Institute of Physics, 2015.","ista":"Sokolowski TR, Tkačik G. 2015. Optimizing information flow in small genetic networks. IV. Spatial coupling. Physical Review E Statistical Nonlinear and Soft Matter Physics. 91(6), 062710."}},{"project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants","grant_number":"282300"},{"call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme"}],"acknowledgement":"This work was supported by the European Research Council (project ERC-2011-StG-20101109-PSDP); the Agency for Innovation by Science and Technology (IWT) (predoctoral fellowship to H.R.); and the People Programme (Marie Curie Actions) of the European Union","scopus_import":1,"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"date_updated":"2021-01-12T06:54:15Z","doi":"10.1016/j.pbi.2014.12.002","citation":{"short":"H. Rakusová, M. Fendrych, J. Friml, Current Opinion in Plant Biology 23 (2015) 116–123.","ama":"Rakusová H, Fendrych M, Friml J. Intracellular trafficking and PIN-mediated cell polarity during tropic responses in plants. <i>Current Opinion in Plant Biology</i>. 2015;23(2):116-123. doi:<a href=\"https://doi.org/10.1016/j.pbi.2014.12.002\">10.1016/j.pbi.2014.12.002</a>","apa":"Rakusová, H., Fendrych, M., &#38; Friml, J. (2015). Intracellular trafficking and PIN-mediated cell polarity during tropic responses in plants. <i>Current Opinion in Plant Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.pbi.2014.12.002\">https://doi.org/10.1016/j.pbi.2014.12.002</a>","chicago":"Rakusová, Hana, Matyas Fendrych, and Jiří Friml. “Intracellular Trafficking and PIN-Mediated Cell Polarity during Tropic Responses in Plants.” <i>Current Opinion in Plant Biology</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.pbi.2014.12.002\">https://doi.org/10.1016/j.pbi.2014.12.002</a>.","ista":"Rakusová H, Fendrych M, Friml J. 2015. Intracellular trafficking and PIN-mediated cell polarity during tropic responses in plants. Current Opinion in Plant Biology. 23(2), 116–123.","ieee":"H. Rakusová, M. Fendrych, and J. Friml, “Intracellular trafficking and PIN-mediated cell polarity during tropic responses in plants,” <i>Current Opinion in Plant Biology</i>, vol. 23, no. 2. Elsevier, pp. 116–123, 2015.","mla":"Rakusová, Hana, et al. “Intracellular Trafficking and PIN-Mediated Cell Polarity during Tropic Responses in Plants.” <i>Current Opinion in Plant Biology</i>, vol. 23, no. 2, Elsevier, 2015, pp. 116–23, doi:<a href=\"https://doi.org/10.1016/j.pbi.2014.12.002\">10.1016/j.pbi.2014.12.002</a>."},"ec_funded":1,"title":"Intracellular trafficking and PIN-mediated cell polarity during tropic responses in plants","day":"01","publist_id":"5140","type":"journal_article","author":[{"last_name":"Rakusová","full_name":"Rakusová, Hana","first_name":"Hana"},{"id":"43905548-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9767-8699","full_name":"Fendrych, Matyas","first_name":"Matyas","last_name":"Fendrych"},{"first_name":"Jirí","full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"None","year":"2015","publication_status":"published","publisher":"Elsevier","publication":"Current Opinion in Plant Biology","quality_controlled":"1","department":[{"_id":"JiFr"}],"status":"public","intvolume":"        23","volume":23,"page":"116 - 123","issue":"2","month":"02","date_created":"2018-12-11T11:54:51Z","_id":"1944","date_published":"2015-02-01T00:00:00Z"},{"date_created":"2018-12-11T11:55:05Z","month":"01","page":"433 - 444","status":"public","department":[{"_id":"ToHe"}],"quality_controlled":"1","publisher":"ACM","type":"conference","author":[{"full_name":"Gupta, Ashutosh","first_name":"Ashutosh","last_name":"Gupta","id":"335E5684-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Henzinger, Thomas A","first_name":"Thomas A","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000−0002−2985−7724"},{"id":"3B51CAC4-F248-11E8-B48F-1D18A9856A87","first_name":"Arjun","full_name":"Radhakrishna, Arjun","last_name":"Radhakrishna"},{"id":"3D2AAC08-F248-11E8-B48F-1D18A9856A87","full_name":"Samanta, Roopsha","first_name":"Roopsha","last_name":"Samanta"},{"full_name":"Tarrach, Thorsten","first_name":"Thorsten","last_name":"Tarrach","id":"3D6E8F2C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4409-8487"}],"day":"15","title":"Succinct representation of concurrent trace sets","conference":{"start_date":"2015-01-15","end_date":"2015-01-17","name":"POPL: Principles of Programming Languages","location":"Mumbai, India"},"citation":{"short":"A. Gupta, T.A. Henzinger, A. Radhakrishna, R. Samanta, T. Tarrach, in:, ACM, 2015, pp. 433–444.","apa":"Gupta, A., Henzinger, T. A., Radhakrishna, A., Samanta, R., &#38; Tarrach, T. (2015). Succinct representation of concurrent trace sets (pp. 433–444). Presented at the POPL: Principles of Programming Languages, Mumbai, India: ACM. <a href=\"https://doi.org/10.1145/2676726.2677008\">https://doi.org/10.1145/2676726.2677008</a>","ama":"Gupta A, Henzinger TA, Radhakrishna A, Samanta R, Tarrach T. Succinct representation of concurrent trace sets. In: ACM; 2015:433-444. doi:<a href=\"https://doi.org/10.1145/2676726.2677008\">10.1145/2676726.2677008</a>","ieee":"A. Gupta, T. A. Henzinger, A. Radhakrishna, R. Samanta, and T. Tarrach, “Succinct representation of concurrent trace sets,” presented at the POPL: Principles of Programming Languages, Mumbai, India, 2015, pp. 433–444.","ista":"Gupta A, Henzinger TA, Radhakrishna A, Samanta R, Tarrach T. 2015. Succinct representation of concurrent trace sets. POPL: Principles of Programming Languages, 433–444.","chicago":"Gupta, Ashutosh, Thomas A Henzinger, Arjun Radhakrishna, Roopsha Samanta, and Thorsten Tarrach. “Succinct Representation of Concurrent Trace Sets,” 433–44. ACM, 2015. <a href=\"https://doi.org/10.1145/2676726.2677008\">https://doi.org/10.1145/2676726.2677008</a>.","mla":"Gupta, Ashutosh, et al. <i>Succinct Representation of Concurrent Trace Sets</i>. ACM, 2015, pp. 433–44, doi:<a href=\"https://doi.org/10.1145/2676726.2677008\">10.1145/2676726.2677008</a>."},"ddc":["005"],"doi":"10.1145/2676726.2677008","language":[{"iso":"eng"}],"abstract":[{"text":"We present a method and a tool for generating succinct representations of sets of concurrent traces. We focus on trace sets that contain all correct or all incorrect permutations of events from a given trace. We represent trace sets as HB-Formulas that are Boolean combinations of happens-before constraints between events. To generate a representation of incorrect interleavings, our method iteratively explores interleavings that violate the specification and gathers generalizations of the discovered interleavings into an HB-Formula; its complement yields a representation of correct interleavings.\r\n\r\nWe claim that our trace set representations can drive diverse verification, fault localization, repair, and synthesis techniques for concurrent programs. We demonstrate this by using our tool in three case studies involving synchronization synthesis, bug summarization, and abstraction refinement based verification. In each case study, our initial experimental results have been promising.\r\n\r\nIn the first case study, we present an algorithm for inferring missing synchronization from an HB-Formula representing correct interleavings of a given trace. The algorithm applies rules to rewrite specific patterns in the HB-Formula into locks, barriers, and wait-notify constructs. In the second case study, we use an HB-Formula representing incorrect interleavings for bug summarization. While the HB-Formula itself is a concise counterexample summary, we present additional inference rules to help identify specific concurrency bugs such as data races, define-use order violations, and two-stage access bugs. In the final case study, we present a novel predicate learning procedure that uses HB-Formulas representing abstract counterexamples to accelerate counterexample-guided abstraction refinement (CEGAR). In each iteration of the CEGAR loop, the procedure refines the abstraction to eliminate multiple spurious abstract counterexamples drawn from the HB-Formula.","lang":"eng"}],"_id":"1992","date_published":"2015-01-15T00:00:00Z","file":[{"date_created":"2018-12-12T10:17:56Z","relation":"main_file","file_id":"5314","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:45:22Z","checksum":"f0d4395b600f410a191256ac0b73af32","creator":"system","file_size":399462,"file_name":"IST-2015-317-v1+1_author_version.pdf"}],"pubrep_id":"317","file_date_updated":"2020-07-14T12:45:22Z","oa":1,"publication_status":"published","year":"2015","oa_version":"Submitted Version","has_accepted_license":"1","publist_id":"5091","publication_identifier":{"isbn":["978-1-4503-3300-9"]},"scopus_import":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:54:33Z"},{"publication_status":"published","main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4286035/"}],"oa":1,"volume":282,"article_processing_charge":"No","issue":"1799","article_number":"20141976","_id":"1993","date_published":"2015-01-22T00:00:00Z","abstract":[{"lang":"eng","text":"The fitness effects of symbionts on their hosts can be context-dependent, with usually benign symbionts causing detrimental effects when their hosts are stressed, or typically parasitic symbionts providing protection towards their hosts (e.g. against pathogen infection). Here, we studied the novel association between the invasive garden ant Lasius neglectus and its fungal ectosymbiont Laboulbenia formicarum for potential costs and benefits. We tested ants with different Laboulbenia levels for their survival and immunity under resource limitation and exposure to the obligate killing entomopathogen Metarhizium brunneum. While survival of L. neglectus workers under starvation was significantly decreased with increasing Laboulbenia levels, host survival under Metarhizium exposure increased with higher levels of the ectosymbiont, suggesting a symbiont-mediated anti-pathogen protection, which seems to be driven mechanistically by both improved sanitary behaviours and an upregulated immune system. Ants with high Laboulbenia levels showed significantly longer self-grooming and elevated expression of immune genes relevant for wound repair and antifungal responses (β-1,3-glucan binding protein, Prophenoloxidase), compared with ants carrying low Laboulbenia levels. This suggests that the ectosymbiont Laboulbenia formicarum weakens its ant host by either direct resource exploitation or the costs of an upregulated behavioural and immunological response, which, however, provides a prophylactic protection upon later exposure to pathogens. "}],"scopus_import":"1","external_id":{"pmid":["25473011"]},"date_updated":"2023-02-23T14:06:41Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1471-2954"],"issn":["0962-8452"]},"acknowledged_ssus":[{"_id":"EM-Fac"}],"article_type":"original","publist_id":"5090","oa_version":"Submitted Version","year":"2015","publisher":"The Royal Society","publication":"Proceedings of the Royal Society of London Series B Biological Sciences","department":[{"_id":"SyCr"}],"quality_controlled":"1","intvolume":"       282","status":"public","month":"01","date_created":"2018-12-11T11:55:06Z","project":[{"_id":"25DC711C-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Social Vaccination in Ant Colonies: from Individual Mechanisms to Society Effects","grant_number":"243071"},{"name":"Host-Parasite Coevolution","grant_number":"CR-118/3-1","_id":"25DAF0B2-B435-11E9-9278-68D0E5697425"}],"related_material":{"record":[{"id":"9740","relation":"research_data","status":"public"}]},"pmid":1,"acknowledgement":"Funding was obtained by the German Research Foundation (CR 118–2) and an ERC StG (243071) by the European Research Council (both to S.C.).\r\nWe thank Line V. Ugelvig for help with ant collection and statistical discussion, Xavier Espadaler for detailed information on the ant collection site, Birgit Lautenschläger for the electron microscopy images and Eva Sixt for ant drawings. We further thank Jørgen Eilenberg for the fungal strain, Meghan L. Vyleta for genetic strain characterization and immune gene primer development, Paul Schmid-Hempel for discussion, and Line V. Ugelvig, Xavier Espadaler and Christopher D. Pull for comments on the manuscript. S.C., M.K. and S.T. conceived the study; M.K. and A.V.G. performed the experiments; M.K. performed the statistical analysis; S.C. and M.K. wrote the manuscript with intense contributions of A.V.G. and S.T.; all authors approved the manuscript.","language":[{"iso":"eng"}],"doi":"10.1098/rspb.2014.1976","citation":{"mla":"Konrad, Matthias, et al. “Anti-Pathogen Protection versus Survival Costs Mediated by an Ectosymbiont in an Ant Host.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 282, no. 1799, 20141976, The Royal Society, 2015, doi:<a href=\"https://doi.org/10.1098/rspb.2014.1976\">10.1098/rspb.2014.1976</a>.","chicago":"Konrad, Matthias, Anna V Grasse, Simon Tragust, and Sylvia Cremer. “Anti-Pathogen Protection versus Survival Costs Mediated by an Ectosymbiont in an Ant Host.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. The Royal Society, 2015. <a href=\"https://doi.org/10.1098/rspb.2014.1976\">https://doi.org/10.1098/rspb.2014.1976</a>.","ieee":"M. Konrad, A. V. Grasse, S. Tragust, and S. Cremer, “Anti-pathogen protection versus survival costs mediated by an ectosymbiont in an ant host,” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 282, no. 1799. The Royal Society, 2015.","ista":"Konrad M, Grasse AV, Tragust S, Cremer S. 2015. Anti-pathogen protection versus survival costs mediated by an ectosymbiont in an ant host. Proceedings of the Royal Society of London Series B Biological Sciences. 282(1799), 20141976.","ama":"Konrad M, Grasse AV, Tragust S, Cremer S. Anti-pathogen protection versus survival costs mediated by an ectosymbiont in an ant host. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. 2015;282(1799). doi:<a href=\"https://doi.org/10.1098/rspb.2014.1976\">10.1098/rspb.2014.1976</a>","apa":"Konrad, M., Grasse, A. V., Tragust, S., &#38; Cremer, S. (2015). Anti-pathogen protection versus survival costs mediated by an ectosymbiont in an ant host. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rspb.2014.1976\">https://doi.org/10.1098/rspb.2014.1976</a>","short":"M. Konrad, A.V. Grasse, S. Tragust, S. Cremer, Proceedings of the Royal Society of London Series B Biological Sciences 282 (2015)."},"ec_funded":1,"title":"Anti-pathogen protection versus survival costs mediated by an ectosymbiont in an ant host","day":"22","author":[{"last_name":"Konrad","full_name":"Konrad, Matthias","first_name":"Matthias","id":"46528076-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Grasse","first_name":"Anna V","full_name":"Grasse, Anna V","id":"406F989C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tragust","full_name":"Tragust, Simon","first_name":"Simon","id":"35A7A418-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Cremer, Sylvia","first_name":"Sylvia","last_name":"Cremer","orcid":"0000-0002-2193-3868","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article"},{"quality_controlled":"1","department":[{"_id":"CaUh"}],"publication":"Journal of Symbolic Computation","volume":"68/Part 2","status":"public","publisher":"Elsevier","publication_status":"published","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1207.0077"}],"oa":1,"month":"05","abstract":[{"text":"We prove that the three-state toric homogeneous Markov chain model has Markov degree two. In algebraic terminology this means, that a certain class of toric ideals is generated by quadratic binomials. This was conjectured by Haws, Martin del Campo, Takemura and Yoshida, who proved that they are generated by degree six binomials.","lang":"eng"}],"_id":"1997","date_created":"2018-12-11T11:55:07Z","date_published":"2015-05-01T00:00:00Z","page":"285 - 296","issue":"May-June","date_updated":"2021-01-12T06:54:35Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1,"doi":"10.1016/j.jsc.2014.09.014","publist_id":"5082","day":"01","oa_version":"Preprint","year":"2015","author":[{"last_name":"Noren","first_name":"Patrik","full_name":"Noren, Patrik","id":"46870C74-F248-11E8-B48F-1D18A9856A87"}],"type":"journal_article","citation":{"chicago":"Noren, Patrik. “The Three-State Toric Homogeneous Markov Chain Model Has Markov Degree Two.” <i>Journal of Symbolic Computation</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.jsc.2014.09.014\">https://doi.org/10.1016/j.jsc.2014.09.014</a>.","ista":"Noren P. 2015. The three-state toric homogeneous Markov chain model has Markov degree two. Journal of Symbolic Computation. 68/Part 2(May-June), 285–296.","ieee":"P. Noren, “The three-state toric homogeneous Markov chain model has Markov degree two,” <i>Journal of Symbolic Computation</i>, vol. 68/Part 2, no. May-June. Elsevier, pp. 285–296, 2015.","mla":"Noren, Patrik. “The Three-State Toric Homogeneous Markov Chain Model Has Markov Degree Two.” <i>Journal of Symbolic Computation</i>, vol. 68/Part 2, no. May-June, Elsevier, 2015, pp. 285–96, doi:<a href=\"https://doi.org/10.1016/j.jsc.2014.09.014\">10.1016/j.jsc.2014.09.014</a>.","short":"P. Noren, Journal of Symbolic Computation 68/Part 2 (2015) 285–296.","ama":"Noren P. The three-state toric homogeneous Markov chain model has Markov degree two. <i>Journal of Symbolic Computation</i>. 2015;68/Part 2(May-June):285-296. doi:<a href=\"https://doi.org/10.1016/j.jsc.2014.09.014\">10.1016/j.jsc.2014.09.014</a>","apa":"Noren, P. (2015). The three-state toric homogeneous Markov chain model has Markov degree two. <i>Journal of Symbolic Computation</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jsc.2014.09.014\">https://doi.org/10.1016/j.jsc.2014.09.014</a>"},"title":"The three-state toric homogeneous Markov chain model has Markov degree two"},{"issue":"3","article_processing_charge":"No","date_published":"2015-06-23T00:00:00Z","_id":"2006","abstract":[{"lang":"eng","text":"The monotone secant conjecture posits a rich class of polynomial systems, all of whose solutions are real. These systems come from the Schubert calculus on flag manifolds, and the monotone secant conjecture is a compelling generalization of the Shapiro conjecture for Grassmannians (Theorem of Mukhin, Tarasov, and Varchenko). We present some theoretical evidence for this conjecture, as well as computational evidence obtained by 1.9 teraHertz-years of computing, and we discuss some of the phenomena we observed in our data. "}],"main_file_link":[{"url":"http://arxiv.org/abs/1109.3436","open_access":"1"}],"oa":1,"publication_status":"published","volume":24,"year":"2015","oa_version":"Preprint","publist_id":"5070","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:54:40Z","scopus_import":1,"page":"261 - 269","date_created":"2018-12-11T11:55:10Z","month":"06","publisher":"Taylor & Francis","intvolume":"        24","status":"public","department":[{"_id":"CaUh"}],"quality_controlled":"1","publication":"Experimental Mathematics","title":"The monotone secant conjecture in the real Schubert calculus","citation":{"ama":"Hein N, Hillar C, Martin del Campo Sanchez A, Sottile F, Teitler Z. The monotone secant conjecture in the real Schubert calculus. <i>Experimental Mathematics</i>. 2015;24(3):261-269. doi:<a href=\"https://doi.org/10.1080/10586458.2014.980044\">10.1080/10586458.2014.980044</a>","apa":"Hein, N., Hillar, C., Martin del Campo Sanchez, A., Sottile, F., &#38; Teitler, Z. (2015). The monotone secant conjecture in the real Schubert calculus. <i>Experimental Mathematics</i>. Taylor &#38; Francis. <a href=\"https://doi.org/10.1080/10586458.2014.980044\">https://doi.org/10.1080/10586458.2014.980044</a>","short":"N. Hein, C. Hillar, A. Martin del Campo Sanchez, F. Sottile, Z. Teitler, Experimental Mathematics 24 (2015) 261–269.","mla":"Hein, Nicolas, et al. “The Monotone Secant Conjecture in the Real Schubert Calculus.” <i>Experimental Mathematics</i>, vol. 24, no. 3, Taylor &#38; Francis, 2015, pp. 261–69, doi:<a href=\"https://doi.org/10.1080/10586458.2014.980044\">10.1080/10586458.2014.980044</a>.","chicago":"Hein, Nicolas, Christopher Hillar, Abraham Martin del Campo Sanchez, Frank Sottile, and Zach Teitler. “The Monotone Secant Conjecture in the Real Schubert Calculus.” <i>Experimental Mathematics</i>. Taylor &#38; Francis, 2015. <a href=\"https://doi.org/10.1080/10586458.2014.980044\">https://doi.org/10.1080/10586458.2014.980044</a>.","ista":"Hein N, Hillar C, Martin del Campo Sanchez A, Sottile F, Teitler Z. 2015. The monotone secant conjecture in the real Schubert calculus. Experimental Mathematics. 24(3), 261–269.","ieee":"N. Hein, C. Hillar, A. Martin del Campo Sanchez, F. Sottile, and Z. Teitler, “The monotone secant conjecture in the real Schubert calculus,” <i>Experimental Mathematics</i>, vol. 24, no. 3. Taylor &#38; Francis, pp. 261–269, 2015."},"author":[{"last_name":"Hein","first_name":"Nicolas","full_name":"Hein, Nicolas"},{"full_name":"Hillar, Christopher","first_name":"Christopher","last_name":"Hillar"},{"last_name":"Martin Del Campo Sanchez","full_name":"Martin Del Campo Sanchez, Abraham","first_name":"Abraham","id":"4CF47F6A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Frank","full_name":"Sottile, Frank","last_name":"Sottile"},{"last_name":"Teitler","full_name":"Teitler, Zach","first_name":"Zach"}],"type":"journal_article","day":"23","doi":"10.1080/10586458.2014.980044","language":[{"iso":"eng"}]},{"acknowledgement":"Part of the material presented here was contained in the PhD thesis of the first author to which the second author and Thomas Richardson were advisers. The authors wish to thank him for several comments and suggestions. We also thank the reviewers and the Associate Editor for helpful comments. The proof of Proposition 1 uses the idea of Olga Klimova, to whom the authors are also indebted. The second author was supported in part by Grant K-106154 from the Hungarian National Scientific Research Fund (OTKA).","doi":"10.1111/sjos.12139","language":[{"iso":"eng"}],"title":"Iterative scaling in curved exponential families","citation":{"apa":"Klimova, A., &#38; Rudas, T. (2015). Iterative scaling in curved exponential families. <i>Scandinavian Journal of Statistics</i>. Wiley. <a href=\"https://doi.org/10.1111/sjos.12139\">https://doi.org/10.1111/sjos.12139</a>","ama":"Klimova A, Rudas T. Iterative scaling in curved exponential families. <i>Scandinavian Journal of Statistics</i>. 2015;42(3):832-847. doi:<a href=\"https://doi.org/10.1111/sjos.12139\">10.1111/sjos.12139</a>","short":"A. Klimova, T. Rudas, Scandinavian Journal of Statistics 42 (2015) 832–847.","mla":"Klimova, Anna, and Tamás Rudas. “Iterative Scaling in Curved Exponential Families.” <i>Scandinavian Journal of Statistics</i>, vol. 42, no. 3, Wiley, 2015, pp. 832–47, doi:<a href=\"https://doi.org/10.1111/sjos.12139\">10.1111/sjos.12139</a>.","ista":"Klimova A, Rudas T. 2015. Iterative scaling in curved exponential families. Scandinavian Journal of Statistics. 42(3), 832–847.","ieee":"A. Klimova and T. Rudas, “Iterative scaling in curved exponential families,” <i>Scandinavian Journal of Statistics</i>, vol. 42, no. 3. Wiley, pp. 832–847, 2015.","chicago":"Klimova, Anna, and Tamás Rudas. “Iterative Scaling in Curved Exponential Families.” <i>Scandinavian Journal of Statistics</i>. Wiley, 2015. <a href=\"https://doi.org/10.1111/sjos.12139\">https://doi.org/10.1111/sjos.12139</a>."},"author":[{"full_name":"Klimova, Anna","first_name":"Anna","last_name":"Klimova","id":"31934120-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Rudas","full_name":"Rudas, Tamás","first_name":"Tamás"}],"type":"journal_article","day":"01","publisher":"Wiley","intvolume":"        42","status":"public","department":[{"_id":"CaUh"}],"quality_controlled":"1","publication":"Scandinavian Journal of Statistics","page":"832 - 847","date_created":"2018-12-11T11:55:11Z","month":"09","date_updated":"2021-01-12T06:54:41Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1,"year":"2015","oa_version":"Preprint","publist_id":"5068","main_file_link":[{"url":"http://arxiv.org/abs/1307.3282","open_access":"1"}],"oa":1,"publication_status":"published","volume":42,"issue":"3","_id":"2008","date_published":"2015-09-01T00:00:00Z","abstract":[{"lang":"eng","text":"The paper describes a generalized iterative proportional fitting procedure that can be used for maximum likelihood estimation in a special class of the general log-linear model. The models in this class, called relational, apply to multivariate discrete sample spaces that do not necessarily have a Cartesian product structure and may not contain an overall effect. When applied to the cell probabilities, the models without the overall effect are curved exponential families and the values of the sufficient statistics are reproduced by the MLE only up to a constant of proportionality. The paper shows that Iterative Proportional Fitting, Generalized Iterative Scaling, and Improved Iterative Scaling fail to work for such models. The algorithm proposed here is based on iterated Bregman projections. As a by-product, estimates of the multiplicative parameters are also obtained. An implementation of the algorithm is available as an R-package."}]},{"publist_id":"5062","day":"01","year":"2015","oa_version":"Preprint","type":"journal_article","author":[{"last_name":"Klimova","first_name":"Anna","full_name":"Klimova, Anna","id":"31934120-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Uhler, Caroline","first_name":"Caroline","last_name":"Uhler","orcid":"0000-0002-7008-0216","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Tamás","full_name":"Rudas, Tamás","last_name":"Rudas"}],"citation":{"chicago":"Klimova, Anna, Caroline Uhler, and Tamás Rudas. “Faithfulness and Learning Hypergraphs from Discrete Distributions.” <i>Computational Statistics &#38; Data Analysis</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.csda.2015.01.017\">https://doi.org/10.1016/j.csda.2015.01.017</a>.","ieee":"A. Klimova, C. Uhler, and T. Rudas, “Faithfulness and learning hypergraphs from discrete distributions,” <i>Computational Statistics &#38; Data Analysis</i>, vol. 87, no. 7. Elsevier, pp. 57–72, 2015.","ista":"Klimova A, Uhler C, Rudas T. 2015. Faithfulness and learning hypergraphs from discrete distributions. Computational Statistics &#38; Data Analysis. 87(7), 57–72.","mla":"Klimova, Anna, et al. “Faithfulness and Learning Hypergraphs from Discrete Distributions.” <i>Computational Statistics &#38; Data Analysis</i>, vol. 87, no. 7, Elsevier, 2015, pp. 57–72, doi:<a href=\"https://doi.org/10.1016/j.csda.2015.01.017\">10.1016/j.csda.2015.01.017</a>.","short":"A. Klimova, C. Uhler, T. Rudas, Computational Statistics &#38; Data Analysis 87 (2015) 57–72.","ama":"Klimova A, Uhler C, Rudas T. Faithfulness and learning hypergraphs from discrete distributions. <i>Computational Statistics &#38; Data Analysis</i>. 2015;87(7):57-72. doi:<a href=\"https://doi.org/10.1016/j.csda.2015.01.017\">10.1016/j.csda.2015.01.017</a>","apa":"Klimova, A., Uhler, C., &#38; Rudas, T. (2015). Faithfulness and learning hypergraphs from discrete distributions. <i>Computational Statistics &#38; Data Analysis</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.csda.2015.01.017\">https://doi.org/10.1016/j.csda.2015.01.017</a>"},"title":"Faithfulness and learning hypergraphs from discrete distributions","date_updated":"2021-01-12T06:54:43Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"scopus_import":1,"doi":"10.1016/j.csda.2015.01.017","month":"07","_id":"2014","date_created":"2018-12-11T11:55:13Z","abstract":[{"text":"The concepts of faithfulness and strong-faithfulness are important for statistical learning of graphical models. Graphs are not sufficient for describing the association structure of a discrete distribution. Hypergraphs representing hierarchical log-linear models are considered instead, and the concept of parametric (strong-) faithfulness with respect to a hypergraph is introduced. Strong-faithfulness ensures the existence of uniformly consistent parameter estimators and enables building uniformly consistent procedures for a hypergraph search. The strength of association in a discrete distribution can be quantified with various measures, leading to different concepts of strong-faithfulness. Lower and upper bounds for the proportions of distributions that do not satisfy strong-faithfulness are computed for different parameterizations and measures of association.","lang":"eng"}],"date_published":"2015-07-01T00:00:00Z","page":"57 - 72","issue":"7","quality_controlled":"1","department":[{"_id":"CaUh"}],"publication":"Computational Statistics & Data Analysis","volume":87,"intvolume":"        87","status":"public","publisher":"Elsevier","publication_status":"published","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1404.6617"}],"oa":1},{"date_created":"2018-12-11T11:55:17Z","month":"01","page":"144 - 156","intvolume":"      1853","status":"public","department":[{"_id":"DaSi"}],"quality_controlled":"1","publication":"Biochimica et Biophysica Acta - Molecular Cell Research","publisher":"Elsevier","type":"journal_article","author":[{"first_name":"Daiki","full_name":"Kawada, Daiki","last_name":"Kawada"},{"last_name":"Kobayashi","full_name":"Kobayashi, Hiromu","first_name":"Hiromu"},{"last_name":"Tomita","first_name":"Tsuyoshi","full_name":"Tomita, Tsuyoshi"},{"last_name":"Nakata","first_name":"Eisuke","full_name":"Nakata, Eisuke"},{"last_name":"Nagano","first_name":"Makoto","full_name":"Nagano, Makoto"},{"last_name":"Siekhaus","full_name":"Siekhaus, Daria E","first_name":"Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8323-8353"},{"last_name":"Toshima","full_name":"Toshima, Junko","first_name":"Junko"},{"first_name":"Jiro","full_name":"Toshimaa, Jiro","last_name":"Toshimaa"}],"day":"01","title":"The yeast Arf-GAP Glo3p is required for the endocytic recycling of cell surface proteins","citation":{"short":"D. Kawada, H. Kobayashi, T. Tomita, E. Nakata, M. Nagano, D.E. Siekhaus, J. Toshima, J. Toshimaa, Biochimica et Biophysica Acta - Molecular Cell Research 1853 (2015) 144–156.","apa":"Kawada, D., Kobayashi, H., Tomita, T., Nakata, E., Nagano, M., Siekhaus, D. E., … Toshimaa, J. (2015). The yeast Arf-GAP Glo3p is required for the endocytic recycling of cell surface proteins. <i>Biochimica et Biophysica Acta - Molecular Cell Research</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.bbamcr.2014.10.009\">https://doi.org/10.1016/j.bbamcr.2014.10.009</a>","ama":"Kawada D, Kobayashi H, Tomita T, et al. The yeast Arf-GAP Glo3p is required for the endocytic recycling of cell surface proteins. <i>Biochimica et Biophysica Acta - Molecular Cell Research</i>. 2015;1853(1):144-156. doi:<a href=\"https://doi.org/10.1016/j.bbamcr.2014.10.009\">10.1016/j.bbamcr.2014.10.009</a>","ista":"Kawada D, Kobayashi H, Tomita T, Nakata E, Nagano M, Siekhaus DE, Toshima J, Toshimaa J. 2015. The yeast Arf-GAP Glo3p is required for the endocytic recycling of cell surface proteins. Biochimica et Biophysica Acta - Molecular Cell Research. 1853(1), 144–156.","ieee":"D. Kawada <i>et al.</i>, “The yeast Arf-GAP Glo3p is required for the endocytic recycling of cell surface proteins,” <i>Biochimica et Biophysica Acta - Molecular Cell Research</i>, vol. 1853, no. 1. Elsevier, pp. 144–156, 2015.","chicago":"Kawada, Daiki, Hiromu Kobayashi, Tsuyoshi Tomita, Eisuke Nakata, Makoto Nagano, Daria E Siekhaus, Junko Toshima, and Jiro Toshimaa. “The Yeast Arf-GAP Glo3p Is Required for the Endocytic Recycling of Cell Surface Proteins.” <i>Biochimica et Biophysica Acta - Molecular Cell Research</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.bbamcr.2014.10.009\">https://doi.org/10.1016/j.bbamcr.2014.10.009</a>.","mla":"Kawada, Daiki, et al. “The Yeast Arf-GAP Glo3p Is Required for the Endocytic Recycling of Cell Surface Proteins.” <i>Biochimica et Biophysica Acta - Molecular Cell Research</i>, vol. 1853, no. 1, Elsevier, 2015, pp. 144–56, doi:<a href=\"https://doi.org/10.1016/j.bbamcr.2014.10.009\">10.1016/j.bbamcr.2014.10.009</a>."},"doi":"10.1016/j.bbamcr.2014.10.009","ddc":["570"],"language":[{"iso":"eng"}],"date_published":"2015-01-01T00:00:00Z","_id":"2025","abstract":[{"lang":"eng","text":"Small GTP-binding proteins of the Ras superfamily play diverse roles in intracellular trafficking. Among them, the Rab, Arf, and Rho families function in successive steps of vesicle transport, in forming vesicles from donor membranes, directing vesicle trafficking toward target membranes and docking vesicles onto target membranes. These proteins act as molecular switches that are controlled by a cycle of GTP binding and hydrolysis regulated by guanine nucleotide exchange factors (GEFs) and GTPase-activating proteins (GAPs). In this study we explored the role of GAPs in the regulation of the endocytic pathway using fluorescently labeled yeast mating pheromone α-factor. Among 25 non-essential GAP mutants, we found that deletion of the GLO3 gene, encoding Arf-GAP protein, caused defective internalization of fluorescently labeled α-factor. Quantitative analysis revealed that glo3Δ cells show defective α-factor binding to the cell surface. Interestingly, Ste2p, the α-factor receptor, was mis-localized from the plasma membrane to the vacuole in glo3Δ cells. Domain deletion mutants of Glo3p revealed that a GAP-independent function, as well as the GAP activity, of Glo3p is important for both α-factor binding and Ste2p localization at the cell surface. Additionally, we found that deletion of the GLO3 gene affects the size and number of Arf1p-residing Golgi compartments and causes a defect in transport from the TGN to the plasma membrane. Furthermore, we demonstrated that glo3Δ cells were defective in the late endosome-to-TGN transport pathway, but not in the early endosome-to-TGN transport pathway. These findings suggest novel roles for Arf-GAP Glo3p in endocytic recycling of cell surface proteins."}],"file":[{"date_created":"2018-12-12T10:12:18Z","file_id":"4936","relation":"main_file","content_type":"application/pdf","checksum":"5bb328edebb6a91337cadd7d63f961b7","access_level":"open_access","date_updated":"2020-07-14T12:45:25Z","file_size":926685,"creator":"system","file_name":"IST-2016-615-v1+1_BBAMCR.pdf"}],"issue":"1","volume":1853,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"pubrep_id":"615","file_date_updated":"2020-07-14T12:45:25Z","oa":1,"publication_status":"published","year":"2015","oa_version":"Submitted Version","has_accepted_license":"1","publist_id":"5047","date_updated":"2021-01-12T06:54:48Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1},{"date_updated":"2021-01-12T06:54:51Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1,"doi":"10.1016/j.compfluid.2014.09.021","publist_id":"5042","day":"01","year":"2015","oa_version":"Preprint","type":"journal_article","author":[{"id":"374A3F1A-F248-11E8-B48F-1D18A9856A87","last_name":"Shi","first_name":"Liang","full_name":"Shi, Liang"},{"first_name":"Markus","full_name":"Rampp, Markus","last_name":"Rampp"},{"orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","full_name":"Hof, Björn","first_name":"Björn","last_name":"Hof"},{"last_name":"Avila","first_name":"Marc","full_name":"Avila, Marc"}],"citation":{"apa":"Shi, L., Rampp, M., Hof, B., &#38; Avila, M. (2015). A hybrid MPI-OpenMP parallel implementation for pseudospectral simulations with application to Taylor-Couette flow. <i>Computers and Fluids</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.compfluid.2014.09.021\">https://doi.org/10.1016/j.compfluid.2014.09.021</a>","ama":"Shi L, Rampp M, Hof B, Avila M. A hybrid MPI-OpenMP parallel implementation for pseudospectral simulations with application to Taylor-Couette flow. <i>Computers and Fluids</i>. 2015;106(1):1-11. doi:<a href=\"https://doi.org/10.1016/j.compfluid.2014.09.021\">10.1016/j.compfluid.2014.09.021</a>","short":"L. Shi, M. Rampp, B. Hof, M. Avila, Computers and Fluids 106 (2015) 1–11.","mla":"Shi, Liang, et al. “A Hybrid MPI-OpenMP Parallel Implementation for Pseudospectral Simulations with Application to Taylor-Couette Flow.” <i>Computers and Fluids</i>, vol. 106, no. 1, Elsevier, 2015, pp. 1–11, doi:<a href=\"https://doi.org/10.1016/j.compfluid.2014.09.021\">10.1016/j.compfluid.2014.09.021</a>.","ieee":"L. Shi, M. Rampp, B. Hof, and M. Avila, “A hybrid MPI-OpenMP parallel implementation for pseudospectral simulations with application to Taylor-Couette flow,” <i>Computers and Fluids</i>, vol. 106, no. 1. Elsevier, pp. 1–11, 2015.","ista":"Shi L, Rampp M, Hof B, Avila M. 2015. A hybrid MPI-OpenMP parallel implementation for pseudospectral simulations with application to Taylor-Couette flow. Computers and Fluids. 106(1), 1–11.","chicago":"Shi, Liang, Markus Rampp, Björn Hof, and Marc Avila. “A Hybrid MPI-OpenMP Parallel Implementation for Pseudospectral Simulations with Application to Taylor-Couette Flow.” <i>Computers and Fluids</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.compfluid.2014.09.021\">https://doi.org/10.1016/j.compfluid.2014.09.021</a>."},"title":"A hybrid MPI-OpenMP parallel implementation for pseudospectral simulations with application to Taylor-Couette flow","quality_controlled":"1","department":[{"_id":"BjHo"}],"publication":"Computers and Fluids","volume":106,"status":"public","intvolume":"       106","publication_status":"published","publisher":"Elsevier","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1311.2481"}],"oa":1,"month":"01","_id":"2030","abstract":[{"text":"A hybrid-parallel direct-numerical-simulation method with application to turbulent Taylor-Couette flow is presented. The Navier-Stokes equations are discretized in cylindrical coordinates with the spectral Fourier-Galerkin method in the axial and azimuthal directions, and high-order finite differences in the radial direction. Time is advanced by a second-order, semi-implicit projection scheme, which requires the solution of five Helmholtz/Poisson equations, avoids staggered grids and renders very small slip velocities. Nonlinear terms are evaluated with the pseudospectral method. The code is parallelized using a hybrid MPI-OpenMP strategy, which, compared with a flat MPI parallelization, is simpler to implement, allows to reduce inter-node communications and MPI overhead that become relevant at high processor-core counts, and helps to contain the memory footprint. A strong scaling study shows that the hybrid code maintains scalability up to more than 20,000 processor cores and thus allows to perform simulations at higher resolutions than previously feasible. In particular, it opens up the possibility to simulate turbulent Taylor-Couette flows at Reynolds numbers up to O(105). This enables to probe hydrodynamic turbulence in Keplerian flows in experimentally relevant regimes.","lang":"eng"}],"date_published":"2015-01-01T00:00:00Z","date_created":"2018-12-11T11:55:18Z","page":"1 - 11","issue":"1"},{"publication_status":"published","main_file_link":[{"url":"http://arxiv.org/abs/1407.4225","open_access":"1"}],"oa":1,"volume":115,"issue":"1","_id":"2034","abstract":[{"text":"Opacity is a generic security property, that has been defined on (non-probabilistic) transition systems and later on Markov chains with labels. For a secret predicate, given as a subset of runs, and a function describing the view of an external observer, the value of interest for opacity is a measure of the set of runs disclosing the secret. We extend this definition to the richer framework of Markov decision processes, where non-deterministicchoice is combined with probabilistic transitions, and we study related decidability problems with partial or complete observation hypotheses for the schedulers. We prove that all questions are decidable with complete observation and ω-regular secrets. With partial observation, we prove that all quantitative questions are undecidable but the question whether a system is almost surely non-opaquebecomes decidable for a restricted class of ω-regular secrets, as well as for all ω-regular secrets under finite-memory schedulers.","lang":"eng"}],"date_published":"2015-01-01T00:00:00Z","date_updated":"2021-01-12T06:54:52Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1,"publist_id":"5025","oa_version":"Preprint","year":"2015","publisher":"Elsevier","department":[{"_id":"KrCh"}],"quality_controlled":"1","publication":" Information Processing Letters","status":"public","intvolume":"       115","page":"52 - 59","month":"01","date_created":"2018-12-11T11:55:20Z","project":[{"call_identifier":"FWF","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","grant_number":"P 23499-N23"},{"_id":"25863FF4-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"S11407","name":"Game Theory"},{"_id":"2581B60A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"language":[{"iso":"eng"}],"doi":"10.1016/j.ipl.2014.09.001","ec_funded":1,"citation":{"ama":"Bérard B, Chatterjee K, Sznajder N. Probabilistic opacity for Markov decision processes. <i> Information Processing Letters</i>. 2015;115(1):52-59. doi:<a href=\"https://doi.org/10.1016/j.ipl.2014.09.001\">10.1016/j.ipl.2014.09.001</a>","apa":"Bérard, B., Chatterjee, K., &#38; Sznajder, N. (2015). Probabilistic opacity for Markov decision processes. <i> Information Processing Letters</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ipl.2014.09.001\">https://doi.org/10.1016/j.ipl.2014.09.001</a>","short":"B. Bérard, K. Chatterjee, N. Sznajder,  Information Processing Letters 115 (2015) 52–59.","mla":"Bérard, Béatrice, et al. “Probabilistic Opacity for Markov Decision Processes.” <i> Information Processing Letters</i>, vol. 115, no. 1, Elsevier, 2015, pp. 52–59, doi:<a href=\"https://doi.org/10.1016/j.ipl.2014.09.001\">10.1016/j.ipl.2014.09.001</a>.","chicago":"Bérard, Béatrice, Krishnendu Chatterjee, and Nathalie Sznajder. “Probabilistic Opacity for Markov Decision Processes.” <i> Information Processing Letters</i>. Elsevier, 2015. <a href=\"https://doi.org/10.1016/j.ipl.2014.09.001\">https://doi.org/10.1016/j.ipl.2014.09.001</a>.","ista":"Bérard B, Chatterjee K, Sznajder N. 2015. Probabilistic opacity for Markov decision processes.  Information Processing Letters. 115(1), 52–59.","ieee":"B. Bérard, K. Chatterjee, and N. Sznajder, “Probabilistic opacity for Markov decision processes,” <i> Information Processing Letters</i>, vol. 115, no. 1. Elsevier, pp. 52–59, 2015."},"title":"Probabilistic opacity for Markov decision processes","day":"01","author":[{"last_name":"Bérard","full_name":"Bérard, Béatrice","first_name":"Béatrice"},{"orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","last_name":"Chatterjee"},{"full_name":"Sznajder, Nathalie","first_name":"Nathalie","last_name":"Sznajder"}],"type":"journal_article"},{"status":"public","intvolume":"        15","publication":"Foundations of Computational Mathematics","department":[{"_id":"HeEd"}],"quality_controlled":"1","publisher":"Springer","date_created":"2018-12-11T11:55:20Z","month":"10","page":"1213 - 1244","ddc":["000"],"doi":"10.1007/s10208-014-9223-y","language":[{"iso":"eng"}],"project":[{"_id":"255D761E-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Topological Complex Systems","grant_number":"318493"}],"acknowledgement":"This research is partially supported by the Toposys project FP7-ICT-318493-STREP, by ESF under the ACAT Research Network Programme, by the Russian Government under mega project 11.G34.31.0053, and by the Polish National Science Center under Grant No. N201 419639.","type":"journal_article","author":[{"last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9823-6833"},{"orcid":"0000-0002-3536-9866","id":"4483EF78-F248-11E8-B48F-1D18A9856A87","first_name":"Grzegorz","full_name":"Jablonski, Grzegorz","last_name":"Jablonski"},{"full_name":"Mrozek, Marian","first_name":"Marian","last_name":"Mrozek"}],"day":"01","title":"The persistent homology of a self-map","citation":{"short":"H. Edelsbrunner, G. Jablonski, M. Mrozek, Foundations of Computational Mathematics 15 (2015) 1213–1244.","ama":"Edelsbrunner H, Jablonski G, Mrozek M. The persistent homology of a self-map. <i>Foundations of Computational Mathematics</i>. 2015;15(5):1213-1244. doi:<a href=\"https://doi.org/10.1007/s10208-014-9223-y\">10.1007/s10208-014-9223-y</a>","apa":"Edelsbrunner, H., Jablonski, G., &#38; Mrozek, M. (2015). The persistent homology of a self-map. <i>Foundations of Computational Mathematics</i>. Springer. <a href=\"https://doi.org/10.1007/s10208-014-9223-y\">https://doi.org/10.1007/s10208-014-9223-y</a>","chicago":"Edelsbrunner, Herbert, Grzegorz Jablonski, and Marian Mrozek. “The Persistent Homology of a Self-Map.” <i>Foundations of Computational Mathematics</i>. Springer, 2015. <a href=\"https://doi.org/10.1007/s10208-014-9223-y\">https://doi.org/10.1007/s10208-014-9223-y</a>.","ista":"Edelsbrunner H, Jablonski G, Mrozek M. 2015. The persistent homology of a self-map. Foundations of Computational Mathematics. 15(5), 1213–1244.","ieee":"H. Edelsbrunner, G. Jablonski, and M. Mrozek, “The persistent homology of a self-map,” <i>Foundations of Computational Mathematics</i>, vol. 15, no. 5. Springer, pp. 1213–1244, 2015.","mla":"Edelsbrunner, Herbert, et al. “The Persistent Homology of a Self-Map.” <i>Foundations of Computational Mathematics</i>, vol. 15, no. 5, Springer, 2015, pp. 1213–44, doi:<a href=\"https://doi.org/10.1007/s10208-014-9223-y\">10.1007/s10208-014-9223-y</a>."},"ec_funded":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"pubrep_id":"486","volume":15,"file_date_updated":"2020-07-14T12:45:26Z","oa":1,"publication_status":"published","date_published":"2015-10-01T00:00:00Z","_id":"2035","abstract":[{"text":"Considering a continuous self-map and the induced endomorphism on homology, we study the eigenvalues and eigenspaces of the latter. Taking a filtration of representations, we define the persistence of the eigenspaces, effectively introducing a hierarchical organization of the map. The algorithm that computes this information for a finite sample is proved to be stable, and to give the correct answer for a sufficiently dense sample. Results computed with an implementation of the algorithm provide evidence of its practical utility.\r\n","lang":"eng"}],"file":[{"checksum":"3566f3a8b0c1bc550e62914a88c584ff","access_level":"open_access","date_updated":"2020-07-14T12:45:26Z","creator":"system","file_size":1317546,"file_name":"IST-2016-486-v1+1_s10208-014-9223-y.pdf","date_created":"2018-12-12T10:08:10Z","file_id":"4670","relation":"main_file","content_type":"application/pdf"}],"issue":"5","scopus_import":1,"date_updated":"2021-01-12T06:54:53Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","has_accepted_license":"1","year":"2015","publist_id":"5022"},{"month":"02","_id":"2085","date_created":"2018-12-11T11:55:37Z","abstract":[{"text":"We study the spectrum of a large system of N identical bosons interacting via a two-body potential with strength 1/N. In this mean-field regime, Bogoliubov's theory predicts that the spectrum of the N-particle Hamiltonian can be approximated by that of an effective quadratic Hamiltonian acting on Fock space, which describes the fluctuations around a condensed state. Recently, Bogoliubov's theory has been justified rigorously in the case that the low-energy eigenvectors of the N-particle Hamiltonian display complete condensation in the unique minimizer of the corresponding Hartree functional. In this paper, we shall justify Bogoliubov's theory for the high-energy part of the spectrum of the N-particle Hamiltonian corresponding to (non-linear) excited states of the Hartree functional. Moreover, we shall extend the existing results on the excitation spectrum to the case of non-uniqueness and/or degeneracy of the Hartree minimizer. In particular, the latter covers the case of rotating Bose gases, when the rotation speed is large enough to break the symmetry and to produce multiple quantized vortices in the Hartree minimizer. ","lang":"eng"}],"date_published":"2015-02-01T00:00:00Z","page":"381 - 417","issue":"2","department":[{"_id":"RoSe"}],"quality_controlled":"1","publication":"Archive for Rational Mechanics and Analysis","volume":215,"status":"public","intvolume":"       215","publication_status":"published","publisher":"Springer","main_file_link":[{"url":"http://arxiv.org/abs/1402.1153","open_access":"1"}],"oa":1,"publist_id":"4951","day":"01","year":"2015","oa_version":"Preprint","type":"journal_article","author":[{"last_name":"Nam","first_name":"Phan","full_name":"Nam, Phan","id":"404092F4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Seiringer, Robert","first_name":"Robert","last_name":"Seiringer","orcid":"0000-0002-6781-0521","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87"}],"citation":{"ama":"Nam P, Seiringer R. Collective excitations of Bose gases in the mean-field regime. <i>Archive for Rational Mechanics and Analysis</i>. 2015;215(2):381-417. doi:<a href=\"https://doi.org/10.1007/s00205-014-0781-6\">10.1007/s00205-014-0781-6</a>","apa":"Nam, P., &#38; Seiringer, R. (2015). Collective excitations of Bose gases in the mean-field regime. <i>Archive for Rational Mechanics and Analysis</i>. Springer. <a href=\"https://doi.org/10.1007/s00205-014-0781-6\">https://doi.org/10.1007/s00205-014-0781-6</a>","short":"P. Nam, R. Seiringer, Archive for Rational Mechanics and Analysis 215 (2015) 381–417.","mla":"Nam, Phan, and Robert Seiringer. “Collective Excitations of Bose Gases in the Mean-Field Regime.” <i>Archive for Rational Mechanics and Analysis</i>, vol. 215, no. 2, Springer, 2015, pp. 381–417, doi:<a href=\"https://doi.org/10.1007/s00205-014-0781-6\">10.1007/s00205-014-0781-6</a>.","chicago":"Nam, Phan, and Robert Seiringer. “Collective Excitations of Bose Gases in the Mean-Field Regime.” <i>Archive for Rational Mechanics and Analysis</i>. Springer, 2015. <a href=\"https://doi.org/10.1007/s00205-014-0781-6\">https://doi.org/10.1007/s00205-014-0781-6</a>.","ista":"Nam P, Seiringer R. 2015. Collective excitations of Bose gases in the mean-field regime. Archive for Rational Mechanics and Analysis. 215(2), 381–417.","ieee":"P. Nam and R. Seiringer, “Collective excitations of Bose gases in the mean-field regime,” <i>Archive for Rational Mechanics and Analysis</i>, vol. 215, no. 2. Springer, pp. 381–417, 2015."},"title":"Collective excitations of Bose gases in the mean-field regime","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T06:55:13Z","language":[{"iso":"eng"}],"scopus_import":1,"doi":"10.1007/s00205-014-0781-6"},{"title":"The Altshuler-Shklovskii formulas for random band matrices I: the unimodular case","citation":{"ama":"Erdös L, Knowles A. The Altshuler-Shklovskii formulas for random band matrices I: the unimodular case. <i>Communications in Mathematical Physics</i>. 2015;333(3):1365-1416. doi:<a href=\"https://doi.org/10.1007/s00220-014-2119-5\">10.1007/s00220-014-2119-5</a>","apa":"Erdös, L., &#38; Knowles, A. (2015). The Altshuler-Shklovskii formulas for random band matrices I: the unimodular case. <i>Communications in Mathematical Physics</i>. Springer. <a href=\"https://doi.org/10.1007/s00220-014-2119-5\">https://doi.org/10.1007/s00220-014-2119-5</a>","short":"L. Erdös, A. Knowles, Communications in Mathematical Physics 333 (2015) 1365–1416.","mla":"Erdös, László, and Antti Knowles. “The Altshuler-Shklovskii Formulas for Random Band Matrices I: The Unimodular Case.” <i>Communications in Mathematical Physics</i>, vol. 333, no. 3, Springer, 2015, pp. 1365–416, doi:<a href=\"https://doi.org/10.1007/s00220-014-2119-5\">10.1007/s00220-014-2119-5</a>.","chicago":"Erdös, László, and Antti Knowles. “The Altshuler-Shklovskii Formulas for Random Band Matrices I: The Unimodular Case.” <i>Communications in Mathematical Physics</i>. Springer, 2015. <a href=\"https://doi.org/10.1007/s00220-014-2119-5\">https://doi.org/10.1007/s00220-014-2119-5</a>.","ista":"Erdös L, Knowles A. 2015. The Altshuler-Shklovskii formulas for random band matrices I: the unimodular case. Communications in Mathematical Physics. 333(3), 1365–1416.","ieee":"L. Erdös and A. Knowles, “The Altshuler-Shklovskii formulas for random band matrices I: the unimodular case,” <i>Communications in Mathematical Physics</i>, vol. 333, no. 3. Springer, pp. 1365–1416, 2015."},"oa_version":"Preprint","year":"2015","type":"journal_article","author":[{"first_name":"László","full_name":"Erdös, László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603"},{"last_name":"Knowles","full_name":"Knowles, Antti","first_name":"Antti"}],"day":"01","publist_id":"4818","doi":"10.1007/s00220-014-2119-5","date_updated":"2021-01-12T06:55:43Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":1,"issue":"3","page":"1365 - 1416","date_created":"2018-12-11T11:56:05Z","_id":"2166","date_published":"2015-02-01T00:00:00Z","abstract":[{"lang":"eng","text":"We consider the spectral statistics of large random band matrices on mesoscopic energy scales. We show that the correlation function of the local eigenvalue density exhibits a universal power law behaviour that differs from the Wigner-Dyson- Mehta statistics. This law had been predicted in the physics literature by Altshuler and Shklovskii in (Zh Eksp Teor Fiz (Sov Phys JETP) 91(64):220(127), 1986); it describes the correlations of the eigenvalue density in general metallic sampleswith weak disorder. Our result rigorously establishes the Altshuler-Shklovskii formulas for band matrices. In two dimensions, where the leading term vanishes owing to an algebraic cancellation, we identify the first non-vanishing term and show that it differs substantially from the prediction of Kravtsov and Lerner in (Phys Rev Lett 74:2563-2566, 1995). The proof is given in the current paper and its companion (Ann. H. Poincaré. arXiv:1309.5107, 2014). "}],"month":"02","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1309.5106"}],"oa":1,"publisher":"Springer","publication_status":"published","volume":333,"intvolume":"       333","status":"public","department":[{"_id":"LaEr"}],"quality_controlled":"1","publication":"Communications in Mathematical Physics"},{"related_material":{"record":[{"status":"public","relation":"earlier_version","id":"2518"}]},"doi":"10.1137/130945648","language":[{"iso":"eng"}],"title":"The power of linear programming for general-valued CSPs","citation":{"mla":"Kolmogorov, Vladimir, et al. “The Power of Linear Programming for General-Valued CSPs.” <i>SIAM Journal on Computing</i>, vol. 44, no. 1, SIAM, 2015, pp. 1–36, doi:<a href=\"https://doi.org/10.1137/130945648\">10.1137/130945648</a>.","ieee":"V. Kolmogorov, J. Thapper, and S. Živný, “The power of linear programming for general-valued CSPs,” <i>SIAM Journal on Computing</i>, vol. 44, no. 1. SIAM, pp. 1–36, 2015.","ista":"Kolmogorov V, Thapper J, Živný S. 2015. The power of linear programming for general-valued CSPs. SIAM Journal on Computing. 44(1), 1–36.","chicago":"Kolmogorov, Vladimir, Johan Thapper, and Stanislav Živný. “The Power of Linear Programming for General-Valued CSPs.” <i>SIAM Journal on Computing</i>. SIAM, 2015. <a href=\"https://doi.org/10.1137/130945648\">https://doi.org/10.1137/130945648</a>.","apa":"Kolmogorov, V., Thapper, J., &#38; Živný, S. (2015). The power of linear programming for general-valued CSPs. <i>SIAM Journal on Computing</i>. SIAM. <a href=\"https://doi.org/10.1137/130945648\">https://doi.org/10.1137/130945648</a>","ama":"Kolmogorov V, Thapper J, Živný S. The power of linear programming for general-valued CSPs. <i>SIAM Journal on Computing</i>. 2015;44(1):1-36. doi:<a href=\"https://doi.org/10.1137/130945648\">10.1137/130945648</a>","short":"V. Kolmogorov, J. Thapper, S. Živný, SIAM Journal on Computing 44 (2015) 1–36."},"type":"journal_article","author":[{"first_name":"Vladimir","full_name":"Kolmogorov, Vladimir","last_name":"Kolmogorov","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Thapper, Johan","first_name":"Johan","last_name":"Thapper"},{"last_name":"Živný","first_name":"Stanislav","full_name":"Živný, Stanislav"}],"day":"01","publisher":"SIAM","intvolume":"        44","status":"public","publication":"SIAM Journal on Computing","quality_controlled":"1","department":[{"_id":"VlKo"}],"page":"1 - 36","date_created":"2018-12-11T11:56:41Z","month":"02","external_id":{"arxiv":["1311.4219"]},"scopus_import":1,"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-02-23T10:46:30Z","oa_version":"Preprint","year":"2015","publist_id":"4673","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1311.4219"}],"oa":1,"publication_status":"published","volume":44,"issue":"1","arxiv":1,"_id":"2271","date_published":"2015-02-01T00:00:00Z","abstract":[{"lang":"eng","text":"A class of valued constraint satisfaction problems (VCSPs) is characterised by a valued constraint language, a fixed set of cost functions on a finite domain. Finite-valued constraint languages contain functions that take on rational costs and general-valued constraint languages contain functions that take on rational or infinite costs. An instance of the problem is specified by a sum of functions from the language with the goal to minimise the sum. This framework includes and generalises well-studied constraint satisfaction problems (CSPs) and maximum constraint satisfaction problems (Max-CSPs).\r\nOur main result is a precise algebraic characterisation of valued constraint languages whose instances can be solved exactly by the basic linear programming relaxation (BLP). For a general-valued constraint language Γ, BLP is a decision procedure for Γ if and only if Γ admits a symmetric fractional polymorphism of every arity. For a finite-valued constraint language Γ, BLP is a decision procedure if and only if Γ admits a symmetric fractional polymorphism of some arity, or equivalently, if Γ admits a symmetric fractional polymorphism of arity 2.\r\nUsing these results, we obtain tractability of several novel and previously widely-open classes of VCSPs, including problems over valued constraint languages that are: (1) submodular on arbitrary lattices; (2) bisubmodular (also known as k-submodular) on arbitrary finite domains; (3) weakly (and hence strongly) tree-submodular on arbitrary trees. "}]},{"volume":61,"status":"public","intvolume":"        61","quality_controlled":"1","publication":"IEEE Transactions on Information Theory","main_file_link":[{"url":"https://arxiv.org/abs/1304.5220","open_access":"1"}],"oa":1,"publisher":"IEEE","publication_status":"published","date_created":"2019-07-31T06:50:34Z","_id":"6736","date_published":"2015-09-01T00:00:00Z","abstract":[{"text":"Motivated by the significant performance gains which polar codes experience under successive cancellation list decoding, their scaling exponent is studied as a function of the list size. In particular, the error probability is fixed, and the tradeoff between the block length and back-off from capacity is analyzed. A lower bound is provided on the error probability under MAP decoding with list size L for any binary-input memoryless output-symmetric channel and for any class of linear codes such that their minimum distance is unbounded as the block length grows large. Then, it is shown that under MAP decoding, although the introduction of a list can significantly improve the involved constants, the scaling exponent itself, i.e., the speed at which capacity is approached, stays unaffected for any finite list size. In particular, this result applies to polar codes, since their minimum distance tends to infinity as the block length increases. A similar result is proved for genie-aided successive cancellation decoding when transmission takes place over the binary erasure channel, namely, the scaling exponent remains constant for any fixed number of helps from the genie. Note that since genie-aided successive cancellation decoding might be strictly worse than successive cancellation list decoding, the problem of establishing the scaling exponent of the latter remains open.","lang":"eng"}],"extern":"1","month":"09","issue":"9","page":"4838-4851","arxiv":1,"doi":"10.1109/tit.2015.2453315","language":[{"iso":"eng"}],"date_updated":"2021-01-12T08:08:45Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"arxiv":["1304.5220"]},"oa_version":"Preprint","year":"2015","author":[{"last_name":"Mondelli","full_name":"Mondelli, Marco","first_name":"Marco","orcid":"0000-0002-3242-7020","id":"27EB676C-8706-11E9-9510-7717E6697425"},{"last_name":"Hassani","full_name":"Hassani, Hamed","first_name":"Hamed"},{"first_name":"Rudiger","full_name":"Urbanke, Rudiger","last_name":"Urbanke"}],"type":"journal_article","day":"01","title":"Scaling exponent of list decoders with applications to polar codes","citation":{"apa":"Mondelli, M., Hassani, H., &#38; Urbanke, R. (2015). Scaling exponent of list decoders with applications to polar codes. <i>IEEE Transactions on Information Theory</i>. IEEE. <a href=\"https://doi.org/10.1109/tit.2015.2453315\">https://doi.org/10.1109/tit.2015.2453315</a>","ama":"Mondelli M, Hassani H, Urbanke R. Scaling exponent of list decoders with applications to polar codes. <i>IEEE Transactions on Information Theory</i>. 2015;61(9):4838-4851. doi:<a href=\"https://doi.org/10.1109/tit.2015.2453315\">10.1109/tit.2015.2453315</a>","short":"M. Mondelli, H. Hassani, R. Urbanke, IEEE Transactions on Information Theory 61 (2015) 4838–4851.","mla":"Mondelli, Marco, et al. “Scaling Exponent of List Decoders with Applications to Polar Codes.” <i>IEEE Transactions on Information Theory</i>, vol. 61, no. 9, IEEE, 2015, pp. 4838–51, doi:<a href=\"https://doi.org/10.1109/tit.2015.2453315\">10.1109/tit.2015.2453315</a>.","ieee":"M. Mondelli, H. Hassani, and R. Urbanke, “Scaling exponent of list decoders with applications to polar codes,” <i>IEEE Transactions on Information Theory</i>, vol. 61, no. 9. IEEE, pp. 4838–4851, 2015.","ista":"Mondelli M, Hassani H, Urbanke R. 2015. Scaling exponent of list decoders with applications to polar codes. IEEE Transactions on Information Theory. 61(9), 4838–4851.","chicago":"Mondelli, Marco, Hamed Hassani, and Rudiger Urbanke. “Scaling Exponent of List Decoders with Applications to Polar Codes.” <i>IEEE Transactions on Information Theory</i>. IEEE, 2015. <a href=\"https://doi.org/10.1109/tit.2015.2453315\">https://doi.org/10.1109/tit.2015.2453315</a>."}},{"publication_status":"published","publisher":"IEEE","oa":1,"main_file_link":[{"url":"https://arxiv.org/abs/1401.6060","open_access":"1"}],"publication":"IEEE Transactions on Information Theory","quality_controlled":"1","intvolume":"        61","status":"public","volume":61,"arxiv":1,"page":"783-800","issue":"2","month":"02","extern":"1","_id":"6737","date_published":"2015-02-01T00:00:00Z","abstract":[{"text":"This paper presents polar coding schemes for the two-user discrete memoryless broadcast channel (DM-BC) which achieve Marton's region with both common and private messages. This is the best achievable rate region known to date, and it is tight for all classes of two-user DM-BCs whose capacity regions are known. To accomplish this task, we first construct polar codes for both the superposition as well as binning strategy. By combining these two schemes, we obtain Marton's region with private messages only. Finally, we show how to handle the case of common information. The proposed coding schemes possess the usual advantages of polar codes, i.e., they have low encoding and decoding complexity and a superpolynomial decay rate of the error probability. We follow the lead of Goela, Abbe, and Gastpar, who recently introduced polar codes emulating the superposition and binning schemes. To align the polar indices, for both schemes, their solution involves some degradedness constraints that are assumed to hold between the auxiliary random variables and channel outputs. To remove these constraints, we consider the transmission of k blocks and employ a chaining construction that guarantees the proper alignment of the polarized indices. The techniques described in this paper are quite general, and they can be adopted to many other multiterminal scenarios whenever there polar indices need to be aligned.","lang":"eng"}],"date_created":"2019-07-31T07:03:38Z","external_id":{"arxiv":["1401.6060"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2021-01-12T08:08:46Z","language":[{"iso":"eng"}],"doi":"10.1109/tit.2014.2368555","citation":{"ama":"Mondelli M, Hassani H, Sason I, Urbanke R. Achieving Marton’s region for broadcast channels using polar codes. <i>IEEE Transactions on Information Theory</i>. 2015;61(2):783-800. doi:<a href=\"https://doi.org/10.1109/tit.2014.2368555\">10.1109/tit.2014.2368555</a>","apa":"Mondelli, M., Hassani, H., Sason, I., &#38; Urbanke, R. (2015). Achieving Marton’s region for broadcast channels using polar codes. <i>IEEE Transactions on Information Theory</i>. IEEE. <a href=\"https://doi.org/10.1109/tit.2014.2368555\">https://doi.org/10.1109/tit.2014.2368555</a>","short":"M. Mondelli, H. Hassani, I. Sason, R. Urbanke, IEEE Transactions on Information Theory 61 (2015) 783–800.","mla":"Mondelli, Marco, et al. “Achieving Marton’s Region for Broadcast Channels Using Polar Codes.” <i>IEEE Transactions on Information Theory</i>, vol. 61, no. 2, IEEE, 2015, pp. 783–800, doi:<a href=\"https://doi.org/10.1109/tit.2014.2368555\">10.1109/tit.2014.2368555</a>.","chicago":"Mondelli, Marco, Hamed Hassani, Igal Sason, and Rudiger Urbanke. “Achieving Marton’s Region for Broadcast Channels Using Polar Codes.” <i>IEEE Transactions on Information Theory</i>. IEEE, 2015. <a href=\"https://doi.org/10.1109/tit.2014.2368555\">https://doi.org/10.1109/tit.2014.2368555</a>.","ista":"Mondelli M, Hassani H, Sason I, Urbanke R. 2015. Achieving Marton’s region for broadcast channels using polar codes. IEEE Transactions on Information Theory. 61(2), 783–800.","ieee":"M. Mondelli, H. Hassani, I. Sason, and R. Urbanke, “Achieving Marton’s region for broadcast channels using polar codes,” <i>IEEE Transactions on Information Theory</i>, vol. 61, no. 2. IEEE, pp. 783–800, 2015."},"title":"Achieving Marton’s region for broadcast channels using polar codes","day":"01","type":"journal_article","author":[{"last_name":"Mondelli","first_name":"Marco","full_name":"Mondelli, Marco","orcid":"0000-0002-3242-7020","id":"27EB676C-8706-11E9-9510-7717E6697425"},{"full_name":"Hassani, Hamed","first_name":"Hamed","last_name":"Hassani"},{"first_name":"Igal","full_name":"Sason, Igal","last_name":"Sason"},{"full_name":"Urbanke, Rudiger","first_name":"Rudiger","last_name":"Urbanke"}],"oa_version":"Preprint","year":"2015"},{"publication_identifier":{"issn":["1098-0121","1550-235X"]},"doi":"10.1103/physrevb.92.180509","date_updated":"2021-01-12T08:11:42Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","author":[{"first_name":"Jing Fei","full_name":"Yu, Jing Fei","last_name":"Yu"},{"last_name":"Ramshaw","full_name":"Ramshaw, B. J.","first_name":"B. J."},{"last_name":"Kokanović","first_name":"I.","full_name":"Kokanović, I."},{"full_name":"Modic, Kimberly A","first_name":"Kimberly A","last_name":"Modic","id":"13C26AC0-EB69-11E9-87C6-5F3BE6697425","orcid":"0000-0001-9760-3147"},{"last_name":"Harrison","first_name":"N.","full_name":"Harrison, N."},{"last_name":"Day","full_name":"Day, James","first_name":"James"},{"last_name":"Liang","full_name":"Liang, Ruixing","first_name":"Ruixing"},{"full_name":"Hardy, W. N.","first_name":"W. N.","last_name":"Hardy"},{"last_name":"Bonn","full_name":"Bonn, D. A.","first_name":"D. A."},{"last_name":"McCollam","full_name":"McCollam, A.","first_name":"A."},{"last_name":"Julian","full_name":"Julian, S. R.","first_name":"S. R."},{"full_name":"Cooper, J. R.","first_name":"J. R.","last_name":"Cooper"}],"year":"2015","oa_version":"None","article_type":"original","day":"23","title":"Magnetization of underdoped YBa2Cu3Oy above the irreversibility field","citation":{"apa":"Yu, J. F., Ramshaw, B. J., Kokanović, I., Modic, K. A., Harrison, N., Day, J., … Cooper, J. R. (2015). Magnetization of underdoped YBa2Cu3Oy above the irreversibility field. <i>Physical Review B</i>. APS. <a href=\"https://doi.org/10.1103/physrevb.92.180509\">https://doi.org/10.1103/physrevb.92.180509</a>","ama":"Yu JF, Ramshaw BJ, Kokanović I, et al. Magnetization of underdoped YBa2Cu3Oy above the irreversibility field. <i>Physical Review B</i>. 2015;92(18). doi:<a href=\"https://doi.org/10.1103/physrevb.92.180509\">10.1103/physrevb.92.180509</a>","short":"J.F. Yu, B.J. Ramshaw, I. Kokanović, K.A. Modic, N. Harrison, J. Day, R. Liang, W.N. Hardy, D.A. Bonn, A. McCollam, S.R. Julian, J.R. Cooper, Physical Review B 92 (2015).","mla":"Yu, Jing Fei, et al. “Magnetization of Underdoped YBa2Cu3Oy above the Irreversibility Field.” <i>Physical Review B</i>, vol. 92, no. 18, 180509, APS, 2015, doi:<a href=\"https://doi.org/10.1103/physrevb.92.180509\">10.1103/physrevb.92.180509</a>.","ista":"Yu JF, Ramshaw BJ, Kokanović I, Modic KA, Harrison N, Day J, Liang R, Hardy WN, Bonn DA, McCollam A, Julian SR, Cooper JR. 2015. Magnetization of underdoped YBa2Cu3Oy above the irreversibility field. Physical Review B. 92(18), 180509.","ieee":"J. F. Yu <i>et al.</i>, “Magnetization of underdoped YBa2Cu3Oy above the irreversibility field,” <i>Physical Review B</i>, vol. 92, no. 18. APS, 2015.","chicago":"Yu, Jing Fei, B. J. Ramshaw, I. Kokanović, Kimberly A Modic, N. Harrison, James Day, Ruixing Liang, et al. “Magnetization of Underdoped YBa2Cu3Oy above the Irreversibility Field.” <i>Physical Review B</i>. APS, 2015. <a href=\"https://doi.org/10.1103/physrevb.92.180509\">https://doi.org/10.1103/physrevb.92.180509</a>."},"intvolume":"        92","status":"public","volume":92,"publication":"Physical Review B","quality_controlled":"1","publication_status":"published","publisher":"APS","date_published":"2015-11-23T00:00:00Z","_id":"7070","date_created":"2019-11-19T13:22:06Z","abstract":[{"text":"Torque magnetization measurements on YBa2Cu3Oy (YBCO) at doping y=6.67 (p=0.12), in dc fields (B) up to 33 T and temperatures down to 4.5 K, show that weak diamagnetism persists above the extrapolated irreversibility field Hirr(T=0)≈24 T. The differential susceptibility dM/dB, however, is more rapidly suppressed for B≳16 T than expected from the properties of the low field superconducting state, and saturates at a low value for fields B≳24 T. In addition, torque measurements on a p=0.11 YBCO crystal in pulsed field up to 65 T and temperatures down to 8 K show similar behavior, with no additional features at higher fields. We offer two candidate scenarios to explain these observations: (a) superconductivity survives but is heavily suppressed at high field by competition with charge-density-wave (CDW) order; (b) static superconductivity disappears near 24 T and is followed by a region of fluctuating superconductivity, which causes dM/dB to saturate at high field. The diamagnetic signal observed above 50 T for the p=0.11 crystal at 40 K and below may be caused by changes in the normal state susceptibility rather than bulk or fluctuating superconductivity. There will be orbital (Landau) diamagnetism from electron pockets and possibly a reduction in spin susceptibility caused by the stronger three-dimensional ordered CDW.","lang":"eng"}],"month":"11","extern":"1","article_number":"180509","article_processing_charge":"No","issue":"18"},{"article_type":"original","year":"2015","oa_version":"None","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-02-23T13:08:24Z","external_id":{"pmid":["26168304"]},"publication_identifier":{"issn":["2040-3364","2040-3372"]},"issue":"30","article_processing_charge":"No","_id":"7456","abstract":[{"lang":"eng","text":"The rational design of monodisperse ferroelectric nanocrystals with controlled size and shape and their organization into hierarchical structures has been a critical step for understanding the polar ordering in nanoscale ferroelectrics, as well as the design of nanocrystal-based functional materials which harness the properties of individual nanoparticles and the collective interactions between them. We report here on the synthesis and self-assembly of aggregate-free, single-crystalline titanium-based perovskite nanoparticles with controlled morphology and surface composition by using a simple, easily scalable and highly versatile colloidal route. Single-crystalline, non-aggregated BaTiO3 colloidal nanocrystals, used as a model system, have been prepared under solvothermal conditions at temperatures as low as 180 °C. The shape of the nanocrystals was tuned from spheroidal to cubic upon changing the polarity of the solvent, whereas their size was varied from 16 to 30 nm for spheres and 5 to 78 nm for cubes by changing the concentration of the precursors and the reaction time, respectively. The hydrophobic, oleic acid-passivated nanoparticles exhibit very good solubility in non-polar solvents and can be rendered dispersible in polar solvents by a simple process involving the oxidative cleavage of the double bond upon treating the nanopowders with the Lemieux–von Rudloff reagent. Lattice dynamic analysis indicated that regardless of their size, BaTiO3 nanocrystals present local disorder within the perovskite unit cell, associated with the existence of polar ordering. We also demonstrate for the first time that, in addition to being used for fabricating large area, crack-free, highly uniform films, BaTiO3 nanocubes can serve as building blocks for the design of 2D and 3D mesoscale structures, such as superlattices and superparticles. Interestingly, the type of superlattice structure (simple cubic or face centered cubic) appears to be determined by the type of solvent in which the nanocrystals were dispersed. This approach provides an excellent platform for the synthesis of other titanium-based perovskite colloidal nanocrystals with controlled chemical composition, surface structure and morphology and for their assembly into complex architectures, therefore opening the door for the design of novel mesoscale functional materials/nanocomposites with potential applications in energy conversion, data storage and the biomedical field."}],"date_published":"2015-08-14T00:00:00Z","publication_status":"published","volume":7,"citation":{"mla":"Caruntu, Daniela, et al. “Solvothermal Synthesis and Controlled Self-Assembly of Monodisperse Titanium-Based Perovskite Colloidal Nanocrystals.” <i>Nanoscale</i>, vol. 7, no. 30, RSC, 2015, pp. 12955–69, doi:<a href=\"https://doi.org/10.1039/c5nr00737b\">10.1039/c5nr00737b</a>.","ista":"Caruntu D, Rostamzadeh T, Costanzo T, Salemizadeh Parizi S, Caruntu G. 2015. Solvothermal synthesis and controlled self-assembly of monodisperse titanium-based perovskite colloidal nanocrystals. Nanoscale. 7(30), 12955–12969.","ieee":"D. Caruntu, T. Rostamzadeh, T. Costanzo, S. Salemizadeh Parizi, and G. Caruntu, “Solvothermal synthesis and controlled self-assembly of monodisperse titanium-based perovskite colloidal nanocrystals,” <i>Nanoscale</i>, vol. 7, no. 30. RSC, pp. 12955–12969, 2015.","chicago":"Caruntu, Daniela, Taha Rostamzadeh, Tommaso Costanzo, Saman Salemizadeh Parizi, and Gabriel Caruntu. “Solvothermal Synthesis and Controlled Self-Assembly of Monodisperse Titanium-Based Perovskite Colloidal Nanocrystals.” <i>Nanoscale</i>. RSC, 2015. <a href=\"https://doi.org/10.1039/c5nr00737b\">https://doi.org/10.1039/c5nr00737b</a>.","apa":"Caruntu, D., Rostamzadeh, T., Costanzo, T., Salemizadeh Parizi, S., &#38; Caruntu, G. (2015). Solvothermal synthesis and controlled self-assembly of monodisperse titanium-based perovskite colloidal nanocrystals. <i>Nanoscale</i>. RSC. <a href=\"https://doi.org/10.1039/c5nr00737b\">https://doi.org/10.1039/c5nr00737b</a>","ama":"Caruntu D, Rostamzadeh T, Costanzo T, Salemizadeh Parizi S, Caruntu G. Solvothermal synthesis and controlled self-assembly of monodisperse titanium-based perovskite colloidal nanocrystals. <i>Nanoscale</i>. 2015;7(30):12955-12969. doi:<a href=\"https://doi.org/10.1039/c5nr00737b\">10.1039/c5nr00737b</a>","short":"D. Caruntu, T. Rostamzadeh, T. Costanzo, S. Salemizadeh Parizi, G. Caruntu, Nanoscale 7 (2015) 12955–12969."},"title":"Solvothermal synthesis and controlled self-assembly of monodisperse titanium-based perovskite colloidal nanocrystals","day":"14","author":[{"full_name":"Caruntu, Daniela","first_name":"Daniela","last_name":"Caruntu"},{"last_name":"Rostamzadeh","first_name":"Taha","full_name":"Rostamzadeh, Taha"},{"last_name":"Costanzo","first_name":"Tommaso","full_name":"Costanzo, Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","orcid":"0000-0001-9732-3815"},{"first_name":"Saman","full_name":"Salemizadeh Parizi, Saman","last_name":"Salemizadeh Parizi"},{"last_name":"Caruntu","first_name":"Gabriel","full_name":"Caruntu, Gabriel"}],"type":"journal_article","pmid":1,"language":[{"iso":"eng"}],"doi":"10.1039/c5nr00737b","page":"12955-12969","extern":"1","month":"08","date_created":"2020-02-05T14:16:37Z","publisher":"RSC","quality_controlled":"1","publication":"Nanoscale","status":"public","intvolume":"         7"},{"intvolume":"         5","status":"public","volume":5,"publication":"RSC Advances","quality_controlled":"1","publication_status":"published","publisher":"RSC","_id":"7457","date_published":"2015-09-01T00:00:00Z","abstract":[{"lang":"eng","text":"A new organic–inorganic ferroelectric hybrid capacitor designed by uniformly incorporating surface modified monodisperse 15 nm ferroelectric BaTiO3 nanocubes into non-polar polymer blends of poly(methyl methacrylate) (PMMA) polymer and acrylonitrile-butadiene-styrene (ABS) terpolymer is described. The investigation of spatial distribution of nanofillers via a non-distractive thermal pulse method illustrates that the surface functionalization of nanocubes plays a key role in the uniform distribution of charge polarization within the polymer matrix. The discharged energy density of the nanocomposite with 30 vol% BaTiO3 nanocubes is ∼44 × 10−3 J cm−3, which is almost six times higher than that of the neat polymer. The facile processing, along with the superior mechanical and electrical properties of the BaTiO3/PMMA–ABS nanocomposites make them suitable for implementation into capacitive electrical energy storage devices."}],"date_created":"2020-02-05T14:17:26Z","month":"09","extern":"1","article_processing_charge":"No","issue":"93","page":"76356-76362","publication_identifier":{"issn":["2046-2069"]},"doi":"10.1039/c5ra11347d","date_updated":"2023-02-23T13:08:26Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","author":[{"full_name":"Parizi, Saman Salemizadeh","first_name":"Saman Salemizadeh","last_name":"Parizi"},{"full_name":"Conley, Gavin","first_name":"Gavin","last_name":"Conley"},{"full_name":"Costanzo, Tommaso","first_name":"Tommaso","last_name":"Costanzo","orcid":"0000-0001-9732-3815","id":"D93824F4-D9BA-11E9-BB12-F207E6697425"},{"first_name":"Bob","full_name":"Howell, Bob","last_name":"Howell"},{"last_name":"Mellinger","first_name":"Axel","full_name":"Mellinger, Axel"},{"last_name":"Caruntu","first_name":"Gabriel","full_name":"Caruntu, Gabriel"}],"year":"2015","oa_version":"Submitted Version","article_type":"original","day":"01","title":"Fabrication of barium titanate/acrylonitrile-butadiene styrene/poly(methyl methacrylate) nanocomposite films for hybrid ferroelectric capacitors","citation":{"ista":"Parizi SS, Conley G, Costanzo T, Howell B, Mellinger A, Caruntu G. 2015. Fabrication of barium titanate/acrylonitrile-butadiene styrene/poly(methyl methacrylate) nanocomposite films for hybrid ferroelectric capacitors. RSC Advances. 5(93), 76356–76362.","ieee":"S. S. Parizi, G. Conley, T. Costanzo, B. Howell, A. Mellinger, and G. Caruntu, “Fabrication of barium titanate/acrylonitrile-butadiene styrene/poly(methyl methacrylate) nanocomposite films for hybrid ferroelectric capacitors,” <i>RSC Advances</i>, vol. 5, no. 93. RSC, pp. 76356–76362, 2015.","chicago":"Parizi, Saman Salemizadeh, Gavin Conley, Tommaso Costanzo, Bob Howell, Axel Mellinger, and Gabriel Caruntu. “Fabrication of Barium Titanate/Acrylonitrile-Butadiene Styrene/Poly(Methyl Methacrylate) Nanocomposite Films for Hybrid Ferroelectric Capacitors.” <i>RSC Advances</i>. RSC, 2015. <a href=\"https://doi.org/10.1039/c5ra11347d\">https://doi.org/10.1039/c5ra11347d</a>.","mla":"Parizi, Saman Salemizadeh, et al. “Fabrication of Barium Titanate/Acrylonitrile-Butadiene Styrene/Poly(Methyl Methacrylate) Nanocomposite Films for Hybrid Ferroelectric Capacitors.” <i>RSC Advances</i>, vol. 5, no. 93, RSC, 2015, pp. 76356–62, doi:<a href=\"https://doi.org/10.1039/c5ra11347d\">10.1039/c5ra11347d</a>.","short":"S.S. Parizi, G. Conley, T. Costanzo, B. Howell, A. Mellinger, G. Caruntu, RSC Advances 5 (2015) 76356–76362.","apa":"Parizi, S. S., Conley, G., Costanzo, T., Howell, B., Mellinger, A., &#38; Caruntu, G. (2015). Fabrication of barium titanate/acrylonitrile-butadiene styrene/poly(methyl methacrylate) nanocomposite films for hybrid ferroelectric capacitors. <i>RSC Advances</i>. RSC. <a href=\"https://doi.org/10.1039/c5ra11347d\">https://doi.org/10.1039/c5ra11347d</a>","ama":"Parizi SS, Conley G, Costanzo T, Howell B, Mellinger A, Caruntu G. Fabrication of barium titanate/acrylonitrile-butadiene styrene/poly(methyl methacrylate) nanocomposite films for hybrid ferroelectric capacitors. <i>RSC Advances</i>. 2015;5(93):76356-76362. doi:<a href=\"https://doi.org/10.1039/c5ra11347d\">10.1039/c5ra11347d</a>"}}]