[{"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1802.02243"}],"type":"journal_article","oa_version":"Preprint","arxiv":1,"publication_status":"published","doi":"10.1103/physrevb.97.220301","extern":"1","abstract":[{"text":"We construct a metamaterial from radio-frequency harmonic oscillators, and find two topologically distinct phases resulting from dissipation engineered into the system. These phases are distinguished by a quantized value of bulk energy transport. The impulse response of our circuit is measured and used to reconstruct the band structure and winding number of circuit eigenfunctions around a dark mode. Our results demonstrate that dissipative topological transport can occur in a wider class of physical systems than considered before.","lang":"eng"}],"oa":1,"month":"06","date_published":"2018-06-04T00:00:00Z","publication_identifier":{"issn":["2469-9950","2469-9969"]},"date_updated":"2021-01-12T08:07:16Z","title":"Topological phase transition measured in a dissipative metamaterial","day":"04","author":[{"last_name":"Rosenthal","first_name":"Eric I.","full_name":"Rosenthal, Eric I."},{"first_name":"Nicole K.","full_name":"Ehrlich, Nicole K.","last_name":"Ehrlich"},{"last_name":"Rudner","first_name":"Mark S.","full_name":"Rudner, Mark S."},{"orcid":"0000-0003-2607-2363","full_name":"Higginbotham, Andrew P","first_name":"Andrew P","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","last_name":"Higginbotham"},{"last_name":"Lehnert","first_name":"K. W.","full_name":"Lehnert, K. W."}],"_id":"6369","date_created":"2019-05-03T09:29:49Z","volume":97,"external_id":{"arxiv":["1802.02243"]},"status":"public","publication":"Physical Review B","quality_controlled":"1","citation":{"ama":"Rosenthal EI, Ehrlich NK, Rudner MS, Higginbotham AP, Lehnert KW. Topological phase transition measured in a dissipative metamaterial. <i>Physical Review B</i>. 2018;97(22). doi:<a href=\"https://doi.org/10.1103/physrevb.97.220301\">10.1103/physrevb.97.220301</a>","ieee":"E. I. Rosenthal, N. K. Ehrlich, M. S. Rudner, A. P. Higginbotham, and K. W. Lehnert, “Topological phase transition measured in a dissipative metamaterial,” <i>Physical Review B</i>, vol. 97, no. 22. American Physical Society (APS), 2018.","mla":"Rosenthal, Eric I., et al. “Topological Phase Transition Measured in a Dissipative Metamaterial.” <i>Physical Review B</i>, vol. 97, no. 22, 220301, American Physical Society (APS), 2018, doi:<a href=\"https://doi.org/10.1103/physrevb.97.220301\">10.1103/physrevb.97.220301</a>.","apa":"Rosenthal, E. I., Ehrlich, N. K., Rudner, M. S., Higginbotham, A. P., &#38; Lehnert, K. W. (2018). Topological phase transition measured in a dissipative metamaterial. <i>Physical Review B</i>. American Physical Society (APS). <a href=\"https://doi.org/10.1103/physrevb.97.220301\">https://doi.org/10.1103/physrevb.97.220301</a>","short":"E.I. Rosenthal, N.K. Ehrlich, M.S. Rudner, A.P. Higginbotham, K.W. Lehnert, Physical Review B 97 (2018).","chicago":"Rosenthal, Eric I., Nicole K. Ehrlich, Mark S. Rudner, Andrew P Higginbotham, and K. W. Lehnert. “Topological Phase Transition Measured in a Dissipative Metamaterial.” <i>Physical Review B</i>. American Physical Society (APS), 2018. <a href=\"https://doi.org/10.1103/physrevb.97.220301\">https://doi.org/10.1103/physrevb.97.220301</a>.","ista":"Rosenthal EI, Ehrlich NK, Rudner MS, Higginbotham AP, Lehnert KW. 2018. Topological phase transition measured in a dissipative metamaterial. Physical Review B. 97(22), 220301."},"language":[{"iso":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","intvolume":"        97","article_number":"220301","issue":"22","publisher":"American Physical Society (APS)","year":"2018"},{"intvolume":"       115","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"year":"2018","publisher":"National Academy of Sciences","issue":"35","citation":{"ista":"Kalinin N, Guzmán Sáenz A, Prieto Y, Shkolnikov M, Kalinina V, Lupercio E. 2018. Self-organized criticality and pattern emergence through the lens of tropical geometry. Proceedings of the National Academy of Sciences of the United States of America. 115(35), E8135–E8142.","chicago":"Kalinin, Nikita, Aldo Guzmán Sáenz, Y Prieto, Mikhail Shkolnikov, V Kalinina, and Ernesto Lupercio. “Self-Organized Criticality and Pattern Emergence through the Lens of Tropical Geometry.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1805847115\">https://doi.org/10.1073/pnas.1805847115</a>.","short":"N. Kalinin, A. Guzmán Sáenz, Y. Prieto, M. Shkolnikov, V. Kalinina, E. Lupercio, Proceedings of the National Academy of Sciences of the United States of America 115 (2018) E8135–E8142.","apa":"Kalinin, N., Guzmán Sáenz, A., Prieto, Y., Shkolnikov, M., Kalinina, V., &#38; Lupercio, E. (2018). Self-organized criticality and pattern emergence through the lens of tropical geometry. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1805847115\">https://doi.org/10.1073/pnas.1805847115</a>","ieee":"N. Kalinin, A. Guzmán Sáenz, Y. Prieto, M. Shkolnikov, V. Kalinina, and E. Lupercio, “Self-organized criticality and pattern emergence through the lens of tropical geometry,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 115, no. 35. National Academy of Sciences, pp. E8135–E8142, 2018.","mla":"Kalinin, Nikita, et al. “Self-Organized Criticality and Pattern Emergence through the Lens of Tropical Geometry.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 115, no. 35, National Academy of Sciences, 2018, pp. E8135–42, doi:<a href=\"https://doi.org/10.1073/pnas.1805847115\">10.1073/pnas.1805847115</a>.","ama":"Kalinin N, Guzmán Sáenz A, Prieto Y, Shkolnikov M, Kalinina V, Lupercio E. Self-organized criticality and pattern emergence through the lens of tropical geometry. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2018;115(35):E8135-E8142. doi:<a href=\"https://doi.org/10.1073/pnas.1805847115\">10.1073/pnas.1805847115</a>"},"quality_controlled":"1","publication":"Proceedings of the National Academy of Sciences of the United States of America","status":"public","external_id":{"isi":["000442861600009"],"arxiv":["1806.09153"]},"ec_funded":1,"scopus_import":"1","department":[{"_id":"TaHa"}],"date_created":"2018-12-11T11:44:26Z","_id":"64","page":"E8135 - E8142","author":[{"last_name":"Kalinin","first_name":"Nikita","full_name":"Kalinin, Nikita"},{"last_name":"Guzmán Sáenz","full_name":"Guzmán Sáenz, Aldo","first_name":"Aldo"},{"last_name":"Prieto","first_name":"Y","full_name":"Prieto, Y"},{"full_name":"Shkolnikov, Mikhail","first_name":"Mikhail","orcid":"0000-0002-4310-178X","last_name":"Shkolnikov","id":"35084A62-F248-11E8-B48F-1D18A9856A87"},{"first_name":"V","full_name":"Kalinina, V","last_name":"Kalinina"},{"first_name":"Ernesto","full_name":"Lupercio, Ernesto","last_name":"Lupercio"}],"volume":115,"day":"28","month":"08","title":"Self-organized criticality and pattern emergence through the lens of tropical geometry","date_updated":"2025-06-03T11:21:16Z","publication_identifier":{"issn":["0027-8424"]},"article_type":"original","date_published":"2018-08-28T00:00:00Z","oa":1,"abstract":[{"lang":"eng","text":"Tropical geometry, an established field in pure mathematics, is a place where string theory, mirror symmetry, computational algebra, auction theory, and so forth meet and influence one another. In this paper, we report on our discovery of a tropical model with self-organized criticality (SOC) behavior. Our model is continuous, in contrast to all known models of SOC, and is a certain scaling limit of the sandpile model, the first and archetypical model of SOC. We describe how our model is related to pattern formation and proportional growth phenomena and discuss the dichotomy between continuous and discrete models in several contexts. Our aim in this context is to present an idealized tropical toy model (cf. Turing reaction-diffusion model), requiring further investigation."}],"project":[{"grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme"}],"oa_version":"Preprint","isi":1,"main_file_link":[{"url":"https://arxiv.org/abs/1806.09153","open_access":"1"}],"type":"journal_article","publist_id":"7990","doi":"10.1073/pnas.1805847115","publication_status":"published","arxiv":1},{"article_number":"20180073","issue":"140","year":"2018","publisher":"The Royal Society","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","intvolume":"        15","department":[{"_id":"KrCh"}],"scopus_import":"1","ec_funded":1,"external_id":{"pmid":["29593089"],"isi":["000428576200023"]},"publication":"Journal of the Royal Society Interface","status":"public","quality_controlled":"1","citation":{"short":"R. Ibsen-Jensen, J. Tkadlec, K. Chatterjee, M. Nowak, Journal of the Royal Society Interface 15 (2018).","apa":"Ibsen-Jensen, R., Tkadlec, J., Chatterjee, K., &#38; Nowak, M. (2018). Language acquisition with communication between learners. <i>Journal of the Royal Society Interface</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rsif.2018.0073\">https://doi.org/10.1098/rsif.2018.0073</a>","ista":"Ibsen-Jensen R, Tkadlec J, Chatterjee K, Nowak M. 2018. Language acquisition with communication between learners. Journal of the Royal Society Interface. 15(140), 20180073.","chicago":"Ibsen-Jensen, Rasmus, Josef Tkadlec, Krishnendu Chatterjee, and Martin Nowak. “Language Acquisition with Communication between Learners.” <i>Journal of the Royal Society Interface</i>. The Royal Society, 2018. <a href=\"https://doi.org/10.1098/rsif.2018.0073\">https://doi.org/10.1098/rsif.2018.0073</a>.","ama":"Ibsen-Jensen R, Tkadlec J, Chatterjee K, Nowak M. Language acquisition with communication between learners. <i>Journal of the Royal Society Interface</i>. 2018;15(140). doi:<a href=\"https://doi.org/10.1098/rsif.2018.0073\">10.1098/rsif.2018.0073</a>","mla":"Ibsen-Jensen, Rasmus, et al. “Language Acquisition with Communication between Learners.” <i>Journal of the Royal Society Interface</i>, vol. 15, no. 140, 20180073, The Royal Society, 2018, doi:<a href=\"https://doi.org/10.1098/rsif.2018.0073\">10.1098/rsif.2018.0073</a>.","ieee":"R. Ibsen-Jensen, J. Tkadlec, K. Chatterjee, and M. Nowak, “Language acquisition with communication between learners,” <i>Journal of the Royal Society Interface</i>, vol. 15, no. 140. The Royal Society, 2018."},"volume":15,"author":[{"orcid":"0000-0003-4783-0389","full_name":"Ibsen-Jensen, Rasmus","first_name":"Rasmus","last_name":"Ibsen-Jensen","id":"3B699956-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-1097-9684","first_name":"Josef","full_name":"Tkadlec, Josef","last_name":"Tkadlec","id":"3F24CCC8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"full_name":"Nowak, Martin","first_name":"Martin","last_name":"Nowak"}],"_id":"198","related_material":{"record":[{"status":"public","relation":"research_data","id":"9814"}],"link":[{"relation":"supplementary_material","url":"https://dx.doi.org/10.6084/m9.figshare.c.4028971"}]},"date_created":"2018-12-11T11:45:09Z","day":"01","article_type":"original","date_published":"2018-03-01T00:00:00Z","date_updated":"2025-04-15T07:26:26Z","publication_identifier":{"eissn":["1742-5662"]},"pmid":1,"title":"Language acquisition with communication between learners","file":[{"checksum":"444e1a9d98eb0e780671be82b13025f3","relation":"main_file","file_size":219837,"access_level":"open_access","file_id":"5955","file_name":"2018_RS_IbsenJensen.pdf","date_updated":"2020-07-14T12:45:22Z","content_type":"application/pdf","creator":"dernst","date_created":"2019-02-12T07:54:37Z"}],"month":"03","abstract":[{"text":"We consider a class of students learning a language from a teacher. The situation can be interpreted as a group of child learners receiving input from the linguistic environment. The teacher provides sample sentences. The students try to learn the grammar from the teacher. In addition to just listening to the teacher, the students can also communicate with each other. The students hold hypotheses about the grammar and change them if they receive counter evidence. The process stops when all students have converged to the correct grammar. We study how the time to convergence depends on the structure of the classroom by introducing and evaluating various complexity measures. We find that structured communication between students, although potentially introducing confusion, can greatly reduce some of the complexity measures. Our theory can also be interpreted as applying to the scientific process, where nature is the teacher and the scientists are the students.","lang":"eng"}],"oa":1,"project":[{"grant_number":"279307","call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications"},{"call_identifier":"FWF","grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"grant_number":"S 11407_N23","call_identifier":"FWF","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425"}],"ddc":["000"],"doi":"10.1098/rsif.2018.0073","publication_status":"published","publist_id":"7715","file_date_updated":"2020-07-14T12:45:22Z","has_accepted_license":"1","isi":1,"type":"journal_article","oa_version":"Submitted Version"},{"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.1702.08177"}],"type":"journal_article","publication_status":"published","doi":"10.1038/nmat5031","arxiv":1,"extern":"1","abstract":[{"text":"Transition-metal dichalcogenides (TMDs) are renowned for their rich and varied bulk properties, while their single-layer variants have become one of the most prominent examples of two-dimensional materials beyond graphene. Their disparate ground states largely depend on transition metal d-electron-derived electronic states, on which the vast majority of attention has been concentrated to date. Here, we focus on the chalcogen-derived states. From density-functional theory calculations together with spin- and angle-resolved photoemission, we find that these generically host a co-existence of type-I and type-II three-dimensional bulk Dirac fermions as well as ladders of topological surface states and surface resonances. We demonstrate how these naturally arise within a single p-orbital manifold as a general consequence of a trigonal crystal field, and as such can be expected across a large number of compounds. Already, we demonstrate their existence in six separate TMDs, opening routes to tune, and ultimately exploit, their topological physics.","lang":"eng"}],"oa":1,"month":"01","pmid":1,"title":"Ubiquitous formation of bulk Dirac cones and topological surface states from a single orbital manifold in transition-metal dichalcogenides","article_type":"original","date_published":"2018-01-01T00:00:00Z","date_updated":"2025-06-10T11:12:41Z","publication_identifier":{"issn":["1476-1122"],"eissn":["1476-4660"]},"day":"01","date_created":"2025-06-10T09:11:05Z","author":[{"full_name":"Bahramy, M. S.","first_name":"M. S.","last_name":"Bahramy"},{"last_name":"Clark","first_name":"O. J.","full_name":"Clark, O. J."},{"last_name":"Yang","first_name":"B.-J.","full_name":"Yang, B.-J."},{"first_name":"J.","full_name":"Feng, J.","last_name":"Feng"},{"full_name":"Bawden, L.","first_name":"L.","last_name":"Bawden"},{"last_name":"Riley","first_name":"J. M.","full_name":"Riley, J. M."},{"last_name":"Marković","full_name":"Marković, I.","first_name":"I."},{"last_name":"Mazzola","full_name":"Mazzola, F.","first_name":"F."},{"full_name":"Sunko, Veronika","first_name":"Veronika","orcid":"0000-0003-2724-3523","id":"23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3","last_name":"Sunko"},{"first_name":"D.","full_name":"Biswas, D.","last_name":"Biswas"},{"first_name":"S. P.","full_name":"Cooil, S. P.","last_name":"Cooil"},{"first_name":"M.","full_name":"Jorge, M.","last_name":"Jorge"},{"first_name":"J. W.","full_name":"Wells, J. W.","last_name":"Wells"},{"last_name":"Leandersson","full_name":"Leandersson, M.","first_name":"M."},{"last_name":"Balasubramanian","first_name":"T.","full_name":"Balasubramanian, T."},{"last_name":"Fujii","first_name":"J.","full_name":"Fujii, J."},{"first_name":"I.","full_name":"Vobornik, I.","last_name":"Vobornik"},{"last_name":"Rault","full_name":"Rault, J. E.","first_name":"J. E."},{"first_name":"T. K.","full_name":"Kim, T. K.","last_name":"Kim"},{"last_name":"Hoesch","first_name":"M.","full_name":"Hoesch, M."},{"last_name":"Okawa","first_name":"K.","full_name":"Okawa, K."},{"first_name":"M.","full_name":"Asakawa, M.","last_name":"Asakawa"},{"last_name":"Sasagawa","first_name":"T.","full_name":"Sasagawa, T."},{"full_name":"Eknapakul, T.","first_name":"T.","last_name":"Eknapakul"},{"first_name":"W.","full_name":"Meevasana, W.","last_name":"Meevasana"},{"first_name":"P. D. C.","full_name":"King, P. D. C.","last_name":"King"}],"page":"21-28","_id":"19806","volume":17,"status":"public","publication":"Nature Materials","OA_type":"green","citation":{"ama":"Bahramy MS, Clark OJ, Yang B-J, et al. Ubiquitous formation of bulk Dirac cones and topological surface states from a single orbital manifold in transition-metal dichalcogenides. <i>Nature Materials</i>. 2018;17:21-28. doi:<a href=\"https://doi.org/10.1038/nmat5031\">10.1038/nmat5031</a>","ieee":"M. S. Bahramy <i>et al.</i>, “Ubiquitous formation of bulk Dirac cones and topological surface states from a single orbital manifold in transition-metal dichalcogenides,” <i>Nature Materials</i>, vol. 17. Springer Nature, pp. 21–28, 2018.","mla":"Bahramy, M. S., et al. “Ubiquitous Formation of Bulk Dirac Cones and Topological Surface States from a Single Orbital Manifold in Transition-Metal Dichalcogenides.” <i>Nature Materials</i>, vol. 17, Springer Nature, 2018, pp. 21–28, doi:<a href=\"https://doi.org/10.1038/nmat5031\">10.1038/nmat5031</a>.","apa":"Bahramy, M. S., Clark, O. J., Yang, B.-J., Feng, J., Bawden, L., Riley, J. M., … King, P. D. C. (2018). Ubiquitous formation of bulk Dirac cones and topological surface states from a single orbital manifold in transition-metal dichalcogenides. <i>Nature Materials</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nmat5031\">https://doi.org/10.1038/nmat5031</a>","short":"M.S. Bahramy, O.J. Clark, B.-J. Yang, J. Feng, L. Bawden, J.M. Riley, I. Marković, F. Mazzola, V. Sunko, D. Biswas, S.P. Cooil, M. Jorge, J.W. Wells, M. Leandersson, T. Balasubramanian, J. Fujii, I. Vobornik, J.E. Rault, T.K. Kim, M. Hoesch, K. Okawa, M. Asakawa, T. Sasagawa, T. Eknapakul, W. Meevasana, P.D.C. King, Nature Materials 17 (2018) 21–28.","chicago":"Bahramy, M. S., O. J. Clark, B.-J. Yang, J. Feng, L. Bawden, J. M. Riley, I. Marković, et al. “Ubiquitous Formation of Bulk Dirac Cones and Topological Surface States from a Single Orbital Manifold in Transition-Metal Dichalcogenides.” <i>Nature Materials</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1038/nmat5031\">https://doi.org/10.1038/nmat5031</a>.","ista":"Bahramy MS, Clark OJ, Yang B-J, Feng J, Bawden L, Riley JM, Marković I, Mazzola F, Sunko V, Biswas D, Cooil SP, Jorge M, Wells JW, Leandersson M, Balasubramanian T, Fujii J, Vobornik I, Rault JE, Kim TK, Hoesch M, Okawa K, Asakawa M, Sasagawa T, Eknapakul T, Meevasana W, King PDC. 2018. Ubiquitous formation of bulk Dirac cones and topological surface states from a single orbital manifold in transition-metal dichalcogenides. Nature Materials. 17, 21–28."},"quality_controlled":"1","external_id":{"pmid":["29180775"],"arxiv":["1702.08177"]},"scopus_import":"1","OA_place":"repository","article_processing_charge":"No","intvolume":"        17","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","publisher":"Springer Nature"},{"scopus_import":"1","citation":{"short":"N. Nandi, T. Scaffidi, P. Kushwaha, S. Khim, M.E. Barber, V. Sunko, F. Mazzola, P.D.C. King, H. Rosner, P.J.W. Moll, M. König, J.E. Moore, S. Hartnoll, A.P. Mackenzie, Npj Quantum Materials 3 (2018).","apa":"Nandi, N., Scaffidi, T., Kushwaha, P., Khim, S., Barber, M. E., Sunko, V., … Mackenzie, A. P. (2018). Unconventional magneto-transport in ultrapure PdCoO2 and PtCoO2. <i>Npj Quantum Materials</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41535-018-0138-8\">https://doi.org/10.1038/s41535-018-0138-8</a>","chicago":"Nandi, Nabhanila, Thomas Scaffidi, Pallavi Kushwaha, Seunghyun Khim, Mark E. Barber, Veronika Sunko, Federico Mazzola, et al. “Unconventional Magneto-Transport in Ultrapure PdCoO2 and PtCoO2.” <i>Npj Quantum Materials</i>. Springer Nature, 2018. <a href=\"https://doi.org/10.1038/s41535-018-0138-8\">https://doi.org/10.1038/s41535-018-0138-8</a>.","ista":"Nandi N, Scaffidi T, Kushwaha P, Khim S, Barber ME, Sunko V, Mazzola F, King PDC, Rosner H, Moll PJW, König M, Moore JE, Hartnoll S, Mackenzie AP. 2018. Unconventional magneto-transport in ultrapure PdCoO2 and PtCoO2. npj Quantum Materials. 3, 66.","ama":"Nandi N, Scaffidi T, Kushwaha P, et al. Unconventional magneto-transport in ultrapure PdCoO2 and PtCoO2. <i>npj Quantum Materials</i>. 2018;3. doi:<a href=\"https://doi.org/10.1038/s41535-018-0138-8\">10.1038/s41535-018-0138-8</a>","mla":"Nandi, Nabhanila, et al. “Unconventional Magneto-Transport in Ultrapure PdCoO2 and PtCoO2.” <i>Npj Quantum Materials</i>, vol. 3, 66, Springer Nature, 2018, doi:<a href=\"https://doi.org/10.1038/s41535-018-0138-8\">10.1038/s41535-018-0138-8</a>.","ieee":"N. Nandi <i>et al.</i>, “Unconventional magneto-transport in ultrapure PdCoO2 and PtCoO2,” <i>npj Quantum Materials</i>, vol. 3. Springer Nature, 2018."},"quality_controlled":"1","OA_type":"gold","status":"public","publication":"npj Quantum Materials","external_id":{"arxiv":["1804.01896"]},"publisher":"Springer Nature","year":"2018","article_number":"66","OA_place":"publisher","intvolume":"         3","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"day":"18","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"volume":3,"date_created":"2025-06-10T09:12:15Z","_id":"19808","author":[{"last_name":"Nandi","first_name":"Nabhanila","full_name":"Nandi, Nabhanila"},{"last_name":"Scaffidi","full_name":"Scaffidi, Thomas","first_name":"Thomas"},{"full_name":"Kushwaha, Pallavi","first_name":"Pallavi","last_name":"Kushwaha"},{"first_name":"Seunghyun","full_name":"Khim, Seunghyun","last_name":"Khim"},{"last_name":"Barber","full_name":"Barber, Mark E.","first_name":"Mark E."},{"last_name":"Sunko","id":"23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3","orcid":"0000-0003-2724-3523","first_name":"Veronika","full_name":"Sunko, Veronika"},{"full_name":"Mazzola, Federico","first_name":"Federico","last_name":"Mazzola"},{"last_name":"King","full_name":"King, Philip D. C.","first_name":"Philip D. C."},{"full_name":"Rosner, Helge","first_name":"Helge","last_name":"Rosner"},{"last_name":"Moll","full_name":"Moll, Philip J. W.","first_name":"Philip J. W."},{"last_name":"König","first_name":"Markus","full_name":"König, Markus"},{"first_name":"Joel E.","full_name":"Moore, Joel E.","last_name":"Moore"},{"full_name":"Hartnoll, Sean","first_name":"Sean","last_name":"Hartnoll"},{"last_name":"Mackenzie","first_name":"Andrew P.","full_name":"Mackenzie, Andrew P."}],"oa":1,"abstract":[{"text":"The single-band, quasi-two dimensional metals PdCoO2 and PtCoO2 have recently come to prominence because of their extremely long mean free paths, which establish them as some of the most electronically pure materials known, and as potential hosts of previously unobservable regimes of electronic transport. To fully establish their magnetotransport properties, we have studied the magnetoresistance and Hall effect in bulk single crystals to which electrical contacts have been made with high precision using focused ion beam machining. We observe a strong temperature dependence of the Hall resistivity in small applied fields, linked to a large violation of Kohler’s rule in the magnetoresistance. We discuss the extent to which these observations can be accounted for by standard transport theory.","lang":"eng"}],"title":"Unconventional magneto-transport in ultrapure PdCoO2 and PtCoO2","date_updated":"2025-06-10T11:39:41Z","publication_identifier":{"issn":["2397-4648"]},"article_type":"original","date_published":"2018-12-18T00:00:00Z","month":"12","doi":"10.1038/s41535-018-0138-8","publication_status":"published","has_accepted_license":"1","arxiv":1,"oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41535-018-0138-8"}],"type":"journal_article","extern":"1"},{"extern":"1","oa_version":"Preprint","type":"journal_article","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.1712.04184"}],"doi":"10.1103/physrevlett.120.156401","publication_status":"published","arxiv":1,"month":"04","pmid":1,"title":"Fermiology and superconductivity of topological surface states in PdTe2","article_type":"original","date_published":"2018-04-09T00:00:00Z","date_updated":"2025-06-10T12:16:08Z","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"abstract":[{"text":"We study the low-energy surface electronic structure of the transition-metal dichalcogenide superconductor PdTe2 by spin- and angle-resolved photoemission, scanning tunneling microscopy, and density-functional theory-based supercell calculations. Comparing PdTe2 with its sister compound PtSe2, we demonstrate how enhanced interlayer hopping in the Te-based material drives a band inversion within the antibonding 𝑝-orbital manifold well above the Fermi level. We show how this mediates spin-polarized topological surface states which form rich multivalley Fermi surfaces with complex spin textures. Scanning tunneling spectroscopy reveals type-II superconductivity at the surface, and moreover shows no evidence for an unconventional component of its superconducting order parameter, despite the presence of topological surface states.","lang":"eng"}],"oa":1,"date_created":"2025-06-10T09:14:51Z","author":[{"last_name":"Clark","full_name":"Clark, O. J.","first_name":"O. J."},{"full_name":"Neat, M. J.","first_name":"M. J.","last_name":"Neat"},{"first_name":"K.","full_name":"Okawa, K.","last_name":"Okawa"},{"first_name":"L.","full_name":"Bawden, L.","last_name":"Bawden"},{"last_name":"Marković","full_name":"Marković, I.","first_name":"I."},{"last_name":"Mazzola","full_name":"Mazzola, F.","first_name":"F."},{"first_name":"J.","full_name":"Feng, J.","last_name":"Feng"},{"id":"23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3","last_name":"Sunko","full_name":"Sunko, Veronika","first_name":"Veronika","orcid":"0000-0003-2724-3523"},{"full_name":"Riley, J. M.","first_name":"J. M.","last_name":"Riley"},{"last_name":"Meevasana","full_name":"Meevasana, W.","first_name":"W."},{"last_name":"Fujii","full_name":"Fujii, J.","first_name":"J."},{"full_name":"Vobornik, I.","first_name":"I.","last_name":"Vobornik"},{"last_name":"Kim","full_name":"Kim, T. K.","first_name":"T. K."},{"last_name":"Hoesch","first_name":"M.","full_name":"Hoesch, M."},{"full_name":"Sasagawa, T.","first_name":"T.","last_name":"Sasagawa"},{"last_name":"Wahl","first_name":"P.","full_name":"Wahl, P."},{"last_name":"Bahramy","first_name":"M. S.","full_name":"Bahramy, M. S."},{"first_name":"P. D. C.","full_name":"King, P. D. C.","last_name":"King"}],"_id":"19813","volume":120,"day":"09","intvolume":"       120","OA_place":"repository","article_processing_charge":"No","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","publisher":"American Physical Society","issue":"15","article_number":"156401","publication":"Physical Review Letters","status":"public","OA_type":"green","citation":{"ama":"Clark OJ, Neat MJ, Okawa K, et al. Fermiology and superconductivity of topological surface states in PdTe2. <i>Physical Review Letters</i>. 2018;120(15). doi:<a href=\"https://doi.org/10.1103/physrevlett.120.156401\">10.1103/physrevlett.120.156401</a>","mla":"Clark, O. J., et al. “Fermiology and Superconductivity of Topological Surface States in PdTe2.” <i>Physical Review Letters</i>, vol. 120, no. 15, 156401, American Physical Society, 2018, doi:<a href=\"https://doi.org/10.1103/physrevlett.120.156401\">10.1103/physrevlett.120.156401</a>.","ieee":"O. J. Clark <i>et al.</i>, “Fermiology and superconductivity of topological surface states in PdTe2,” <i>Physical Review Letters</i>, vol. 120, no. 15. American Physical Society, 2018.","apa":"Clark, O. J., Neat, M. J., Okawa, K., Bawden, L., Marković, I., Mazzola, F., … King, P. D. C. (2018). Fermiology and superconductivity of topological surface states in PdTe2. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevlett.120.156401\">https://doi.org/10.1103/physrevlett.120.156401</a>","short":"O.J. Clark, M.J. Neat, K. Okawa, L. Bawden, I. Marković, F. Mazzola, J. Feng, V. Sunko, J.M. Riley, W. Meevasana, J. Fujii, I. Vobornik, T.K. Kim, M. Hoesch, T. Sasagawa, P. Wahl, M.S. Bahramy, P.D.C. King, Physical Review Letters 120 (2018).","ista":"Clark OJ, Neat MJ, Okawa K, Bawden L, Marković I, Mazzola F, Feng J, Sunko V, Riley JM, Meevasana W, Fujii J, Vobornik I, Kim TK, Hoesch M, Sasagawa T, Wahl P, Bahramy MS, King PDC. 2018. Fermiology and superconductivity of topological surface states in PdTe2. Physical Review Letters. 120(15), 156401.","chicago":"Clark, O. J., M. J. Neat, K. Okawa, L. Bawden, I. Marković, F. Mazzola, J. Feng, et al. “Fermiology and Superconductivity of Topological Surface States in PdTe2.” <i>Physical Review Letters</i>. American Physical Society, 2018. <a href=\"https://doi.org/10.1103/physrevlett.120.156401\">https://doi.org/10.1103/physrevlett.120.156401</a>."},"quality_controlled":"1","external_id":{"arxiv":["1712.04184"],"pmid":["29756894"]},"scopus_import":"1"},{"pmid":1,"title":"Itinerant ferromagnetism of the Pd-terminated polar surface of PdCoO2","date_published":"2018-12-04T00:00:00Z","article_type":"original","date_updated":"2025-06-10T12:40:00Z","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"12","abstract":[{"lang":"eng","text":"The ability to modulate the collective properties of correlated electron systems at their interfaces and surfaces underpins the burgeoning field of “designer” quantum materials. Here, we show how an electronic reconstruction driven by surface polarity mediates a Stoner-like magnetic instability to itinerant ferromagnetism at the Pd-terminated surface of the nonmagnetic delafossite oxide metal PdCoO2. Combining angle-resolved photoemission spectroscopy and density-functional theory calculations, we show how this leads to a rich multiband surface electronic structure. We find similar surface state dispersions in PdCrO2, suggesting surface ferromagnetism persists in this sister compound despite its bulk antiferromagnetic order."}],"oa":1,"extern":"1","publication_status":"published","doi":"10.1073/pnas.1811873115","arxiv":1,"oa_version":"Preprint","type":"journal_article","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1710.05392","open_access":"1"}],"publisher":"National Academy of Sciences","year":"2018","issue":"51","intvolume":"       115","article_processing_charge":"No","OA_place":"repository","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","status":"public","OA_type":"green","publication":"Proceedings of the National Academy of Sciences","citation":{"chicago":"Mazzola, Federico, Veronika Sunko, Seunghyun Khim, Helge Rosner, Pallavi Kushwaha, Oliver J. Clark, Lewis Bawden, et al. “Itinerant Ferromagnetism of the Pd-Terminated Polar Surface of PdCoO2.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1811873115\">https://doi.org/10.1073/pnas.1811873115</a>.","ista":"Mazzola F, Sunko V, Khim S, Rosner H, Kushwaha P, Clark OJ, Bawden L, Marković I, Kim TK, Hoesch M, Mackenzie AP, King PDC. 2018. Itinerant ferromagnetism of the Pd-terminated polar surface of PdCoO2. Proceedings of the National Academy of Sciences. 115(51), 12956–12960.","apa":"Mazzola, F., Sunko, V., Khim, S., Rosner, H., Kushwaha, P., Clark, O. J., … King, P. D. C. (2018). Itinerant ferromagnetism of the Pd-terminated polar surface of PdCoO2. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1811873115\">https://doi.org/10.1073/pnas.1811873115</a>","short":"F. Mazzola, V. Sunko, S. Khim, H. Rosner, P. Kushwaha, O.J. Clark, L. Bawden, I. Marković, T.K. Kim, M. Hoesch, A.P. Mackenzie, P.D.C. King, Proceedings of the National Academy of Sciences 115 (2018) 12956–12960.","ieee":"F. Mazzola <i>et al.</i>, “Itinerant ferromagnetism of the Pd-terminated polar surface of PdCoO2,” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 51. National Academy of Sciences, pp. 12956–12960, 2018.","mla":"Mazzola, Federico, et al. “Itinerant Ferromagnetism of the Pd-Terminated Polar Surface of PdCoO2.” <i>Proceedings of the National Academy of Sciences</i>, vol. 115, no. 51, National Academy of Sciences, 2018, pp. 12956–60, doi:<a href=\"https://doi.org/10.1073/pnas.1811873115\">10.1073/pnas.1811873115</a>.","ama":"Mazzola F, Sunko V, Khim S, et al. Itinerant ferromagnetism of the Pd-terminated polar surface of PdCoO2. <i>Proceedings of the National Academy of Sciences</i>. 2018;115(51):12956-12960. doi:<a href=\"https://doi.org/10.1073/pnas.1811873115\">10.1073/pnas.1811873115</a>"},"quality_controlled":"1","external_id":{"pmid":["30514820"],"arxiv":["1710.05392"]},"volume":115,"date_created":"2025-06-10T09:19:14Z","author":[{"last_name":"Mazzola","full_name":"Mazzola, Federico","first_name":"Federico"},{"orcid":"0000-0003-2724-3523","first_name":"Veronika","full_name":"Sunko, Veronika","last_name":"Sunko","id":"23cb1cf6-2c7a-11ef-91a4-f72fc19f20b3"},{"full_name":"Khim, Seunghyun","first_name":"Seunghyun","last_name":"Khim"},{"full_name":"Rosner, Helge","first_name":"Helge","last_name":"Rosner"},{"first_name":"Pallavi","full_name":"Kushwaha, Pallavi","last_name":"Kushwaha"},{"last_name":"Clark","full_name":"Clark, Oliver J.","first_name":"Oliver J."},{"last_name":"Bawden","full_name":"Bawden, Lewis","first_name":"Lewis"},{"last_name":"Marković","first_name":"Igor","full_name":"Marković, Igor"},{"first_name":"Timur K.","full_name":"Kim, Timur K.","last_name":"Kim"},{"first_name":"Moritz","full_name":"Hoesch, Moritz","last_name":"Hoesch"},{"last_name":"Mackenzie","full_name":"Mackenzie, Andrew P.","first_name":"Andrew P."},{"last_name":"King","first_name":"Phil D. C.","full_name":"King, Phil D. C."}],"page":"12956-12960","_id":"19819","day":"04"},{"date_created":"2018-12-11T11:45:09Z","author":[{"full_name":"Ma, Wen","first_name":"Wen","last_name":"Ma"},{"last_name":"Veltsos","first_name":"Paris","full_name":"Veltsos, Paris"},{"last_name":"Toups","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9752-7380","first_name":"Melissa A","full_name":"Toups, Melissa A"},{"last_name":"Rodrigues","full_name":"Rodrigues, Nicolas","first_name":"Nicolas"},{"last_name":"Sermier","full_name":"Sermier, Roberto","first_name":"Roberto"},{"full_name":"Jeffries, Daniel","first_name":"Daniel","last_name":"Jeffries"},{"first_name":"Nicolas","full_name":"Perrin, Nicolas","last_name":"Perrin"}],"_id":"199","volume":9,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"day":"12","article_processing_charge":"No","intvolume":"         9","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"MDPI","year":"2018","article_number":"294","issue":"6","publication":"Genes","status":"public","citation":{"short":"W. Ma, P. Veltsos, M.A. Toups, N. Rodrigues, R. Sermier, D. Jeffries, N. Perrin, Genes 9 (2018).","apa":"Ma, W., Veltsos, P., Toups, M. A., Rodrigues, N., Sermier, R., Jeffries, D., &#38; Perrin, N. (2018). Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes. <i>Genes</i>. MDPI. <a href=\"https://doi.org/10.3390/genes9060294\">https://doi.org/10.3390/genes9060294</a>","ista":"Ma W, Veltsos P, Toups MA, Rodrigues N, Sermier R, Jeffries D, Perrin N. 2018. Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes. Genes. 9(6), 294.","chicago":"Ma, Wen, Paris Veltsos, Melissa A Toups, Nicolas Rodrigues, Roberto Sermier, Daniel Jeffries, and Nicolas Perrin. “Tissue Specificity and Dynamics of Sex Biased Gene Expression in a Common Frog Population with Differentiated, yet Homomorphic, Sex Chromosomes.” <i>Genes</i>. MDPI, 2018. <a href=\"https://doi.org/10.3390/genes9060294\">https://doi.org/10.3390/genes9060294</a>.","ama":"Ma W, Veltsos P, Toups MA, et al. Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes. <i>Genes</i>. 2018;9(6). doi:<a href=\"https://doi.org/10.3390/genes9060294\">10.3390/genes9060294</a>","ieee":"W. Ma <i>et al.</i>, “Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes,” <i>Genes</i>, vol. 9, no. 6. MDPI, 2018.","mla":"Ma, Wen, et al. “Tissue Specificity and Dynamics of Sex Biased Gene Expression in a Common Frog Population with Differentiated, yet Homomorphic, Sex Chromosomes.” <i>Genes</i>, vol. 9, no. 6, 294, MDPI, 2018, doi:<a href=\"https://doi.org/10.3390/genes9060294\">10.3390/genes9060294</a>."},"quality_controlled":"1","external_id":{"isi":["000436494200026"]},"department":[{"_id":"BeVi"}],"scopus_import":"1","ddc":["570"],"oa_version":"Published Version","isi":1,"type":"journal_article","publist_id":"7714","publication_status":"published","has_accepted_license":"1","file_date_updated":"2020-07-14T12:45:22Z","doi":"10.3390/genes9060294","file":[{"creator":"dernst","date_created":"2019-02-01T07:52:28Z","content_type":"application/pdf","date_updated":"2020-07-14T12:45:22Z","file_name":"2018_Genes_Ma.pdf","file_id":"5905","checksum":"423069beb1cd3cdd25bf3f464b38f1d7","access_level":"open_access","file_size":3985796,"relation":"main_file"}],"month":"06","title":"Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes","date_published":"2018-06-12T00:00:00Z","date_updated":"2024-12-11T13:13:35Z","abstract":[{"text":"Sex-biased genes are central to the study of sexual selection, sexual antagonism, and sex chromosome evolution. We describe a comprehensive de novo assembled transcriptome in the common frog Rana temporaria based on five developmental stages and three adult tissues from both sexes, obtained from a population with karyotypically homomorphic but genetically differentiated sex chromosomes. This allows the study of sex-biased gene expression throughout development, and its effect on the rate of gene evolution while accounting for pleiotropic expression, which is known to negatively correlate with the evolutionary rate. Overall, sex-biased genes had little overlap among developmental stages and adult tissues. Late developmental stages and gonad tissues had the highest numbers of stage-or tissue-specific genes. We find that pleiotropic gene expression is a better predictor than sex bias for the evolutionary rate of genes, though it often interacts with sex bias. Although genetically differentiated, the sex chromosomes were not enriched in sex-biased genes, possibly due to a very recent arrest of XY recombination. These results extend our understanding of the developmental dynamics, tissue specificity, and genomic localization of sex-biased genes.","lang":"eng"}],"oa":1},{"abstract":[{"text":"Background: Norepinephrine (NE) signaling has a key role in white adipose tissue (WAT) functions, including lipolysis, free fatty acid liberation and, under certain conditions, conversion of white into brite (brown-in-white) adipocytes. However, acute effects of NE stimulation have not been described at the transcriptional network level. Results: We used RNA-seq to uncover a broad transcriptional response. The inference of protein-protein and protein-DNA interaction networks allowed us to identify a set of immediate-early genes (IEGs) with high betweenness, validating our approach and suggesting a hierarchical control of transcriptional regulation. In addition, we identified a transcriptional regulatory network with IEGs as master regulators, including HSF1 and NFIL3 as novel NE-induced IEG candidates. Moreover, a functional enrichment analysis and gene clustering into functional modules suggest a crosstalk between metabolic, signaling, and immune responses. Conclusions: Altogether, our network biology approach explores for the first time the immediate-early systems level response of human adipocytes to acute sympathetic activation, thereby providing a first network basis of early cell fate programs and crosstalks between metabolic and transcriptional networks required for proper WAT function.","lang":"eng"}],"oa":1,"file":[{"checksum":"a56516e734dab589dc7f3e1915973b4d","file_size":4629784,"access_level":"open_access","relation":"main_file","creator":"dernst","date_created":"2018-12-17T14:52:57Z","file_id":"5712","content_type":"application/pdf","file_name":"2018_BMCGenomics_Higareda.pdf","date_updated":"2020-07-14T12:45:23Z"}],"month":"11","title":"Norepinephrine triggers an immediate-early regulatory network response in primary human white adipocytes","article_type":"original","date_published":"2018-11-03T00:00:00Z","date_updated":"2023-09-13T09:10:47Z","publication_identifier":{"issn":["1471-2164"]},"oa_version":"Published Version","type":"journal_article","isi":1,"doi":"10.1186/s12864-018-5173-0","publication_status":"published","publist_id":"8035","has_accepted_license":"1","file_date_updated":"2020-07-14T12:45:23Z","ddc":["570"],"status":"public","publication":"BMC Genomics","citation":{"ieee":"J. Higareda Almaraz <i>et al.</i>, “Norepinephrine triggers an immediate-early regulatory network response in primary human white adipocytes,” <i>BMC Genomics</i>, vol. 19, no. 1. BioMed Central, 2018.","mla":"Higareda Almaraz, Juan, et al. “Norepinephrine Triggers an Immediate-Early Regulatory Network Response in Primary Human White Adipocytes.” <i>BMC Genomics</i>, vol. 19, no. 1, BioMed Central, 2018, doi:<a href=\"https://doi.org/10.1186/s12864-018-5173-0\">10.1186/s12864-018-5173-0</a>.","ama":"Higareda Almaraz J, Karbiener M, Giroud M, et al. Norepinephrine triggers an immediate-early regulatory network response in primary human white adipocytes. <i>BMC Genomics</i>. 2018;19(1). doi:<a href=\"https://doi.org/10.1186/s12864-018-5173-0\">10.1186/s12864-018-5173-0</a>","chicago":"Higareda Almaraz, Juan, Michael Karbiener, Maude Giroud, Florian Pauler, Teresa Gerhalter, Stephan Herzig, and Marcel Scheideler. “Norepinephrine Triggers an Immediate-Early Regulatory Network Response in Primary Human White Adipocytes.” <i>BMC Genomics</i>. BioMed Central, 2018. <a href=\"https://doi.org/10.1186/s12864-018-5173-0\">https://doi.org/10.1186/s12864-018-5173-0</a>.","ista":"Higareda Almaraz J, Karbiener M, Giroud M, Pauler F, Gerhalter T, Herzig S, Scheideler M. 2018. Norepinephrine triggers an immediate-early regulatory network response in primary human white adipocytes. BMC Genomics. 19(1).","apa":"Higareda Almaraz, J., Karbiener, M., Giroud, M., Pauler, F., Gerhalter, T., Herzig, S., &#38; Scheideler, M. (2018). Norepinephrine triggers an immediate-early regulatory network response in primary human white adipocytes. <i>BMC Genomics</i>. BioMed Central. <a href=\"https://doi.org/10.1186/s12864-018-5173-0\">https://doi.org/10.1186/s12864-018-5173-0</a>","short":"J. Higareda Almaraz, M. Karbiener, M. Giroud, F. Pauler, T. Gerhalter, S. Herzig, M. Scheideler, BMC Genomics 19 (2018)."},"quality_controlled":"1","external_id":{"isi":["000450976700002"]},"department":[{"_id":"SiHi"}],"scopus_import":"1","intvolume":"        19","article_processing_charge":"No","language":[{"iso":"eng"}],"acknowledgement":"This work was funded by the German Centre for Diabetes Research (DZD) and the Austrian Science Fund (FWF, P25729-B19).","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","year":"2018","publisher":"BioMed Central","issue":"1","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"day":"03","related_material":{"record":[{"relation":"research_data","status":"public","id":"9807"},{"relation":"research_data","status":"public","id":"9808"}]},"date_created":"2018-12-11T11:44:12Z","author":[{"full_name":"Higareda Almaraz, Juan","first_name":"Juan","last_name":"Higareda Almaraz"},{"first_name":"Michael","full_name":"Karbiener, Michael","last_name":"Karbiener"},{"last_name":"Giroud","first_name":"Maude","full_name":"Giroud, Maude"},{"id":"48EA0138-F248-11E8-B48F-1D18A9856A87","last_name":"Pauler","orcid":"0000-0002-7462-0048","full_name":"Pauler, Florian","first_name":"Florian"},{"first_name":"Teresa","full_name":"Gerhalter, Teresa","last_name":"Gerhalter"},{"first_name":"Stephan","full_name":"Herzig, Stephan","last_name":"Herzig"},{"last_name":"Scheideler","full_name":"Scheideler, Marcel","first_name":"Marcel"}],"_id":"20","volume":19},{"corr_author":"1","day":"21","tmp":{"image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)"},"_id":"200","author":[{"id":"417FCFF4-F248-11E8-B48F-1D18A9856A87","last_name":"Ringbauer","full_name":"Ringbauer, Harald","first_name":"Harald","orcid":"0000-0002-4884-9682"}],"page":"146","date_created":"2018-12-11T11:45:10Z","related_material":{"record":[{"id":"563","relation":"part_of_dissertation","status":"public"},{"relation":"part_of_dissertation","status":"public","id":"1074"}]},"department":[{"_id":"NiBa"}],"citation":{"chicago":"Ringbauer, Harald. “Inferring Recent Demography from Spatial Genetic Structure.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">https://doi.org/10.15479/AT:ISTA:th_963</a>.","ista":"Ringbauer H. 2018. Inferring recent demography from spatial genetic structure. Institute of Science and Technology Austria.","short":"H. Ringbauer, Inferring Recent Demography from Spatial Genetic Structure, Institute of Science and Technology Austria, 2018.","apa":"Ringbauer, H. (2018). <i>Inferring recent demography from spatial genetic structure</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">https://doi.org/10.15479/AT:ISTA:th_963</a>","ieee":"H. Ringbauer, “Inferring recent demography from spatial genetic structure,” Institute of Science and Technology Austria, 2018.","mla":"Ringbauer, Harald. <i>Inferring Recent Demography from Spatial Genetic Structure</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">10.15479/AT:ISTA:th_963</a>.","ama":"Ringbauer H. Inferring recent demography from spatial genetic structure. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_963\">10.15479/AT:ISTA:th_963</a>"},"status":"public","publisher":"Institute of Science and Technology Austria","year":"2018","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","language":[{"iso":"eng"}],"OA_place":"publisher","article_processing_charge":"No","has_accepted_license":"1","publist_id":"7713","file_date_updated":"2020-07-14T12:45:23Z","doi":"10.15479/AT:ISTA:th_963","publication_status":"published","type":"dissertation","oa_version":"Published Version","degree_awarded":"PhD","supervisor":[{"first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"alternative_title":["ISTA Thesis"],"ddc":["576"],"oa":1,"abstract":[{"text":"This thesis is concerned with the inference of current population structure based on geo-referenced genetic data. The underlying idea is that population structure affects its spatial genetic structure. Therefore, genotype information can be utilized to estimate important demographic parameters such as migration rates. These indirect estimates of population structure have become very attractive, as genotype data is now widely available. However, there also has been much concern about these approaches. Importantly, genetic structure can be influenced by many complex patterns, which often cannot be disentangled. Moreover, many methods merely fit heuristic patterns of genetic structure, and do not build upon population genetics theory. Here, I describe two novel inference methods that address these shortcomings. In Chapter 2, I introduce an inference scheme based on a new type of signal, identity by descent (IBD) blocks. Recently, it has become feasible to detect such long blocks of genome shared between pairs of samples. These blocks are direct traces of recent coalescence events. As such, they contain ample signal for inferring recent demography. I examine sharing of IBD blocks in two-dimensional populations with local migration. Using a diffusion approximation, I derive formulas for an isolation by distance pattern of long IBD blocks and show that sharing of long IBD blocks approaches rapid exponential decay for growing sample distance. I describe an inference scheme based on these results. It can robustly estimate the dispersal rate and population density, which is demonstrated on simulated data. I also show an application to estimate mean migration and the rate of recent population growth within Eastern Europe. Chapter 3 is about a novel method to estimate barriers to gene flow in a two dimensional population. This inference scheme utilizes geographically localized allele frequency fluctuations - a classical isolation by distance signal. The strength of these local fluctuations increases on average next to a barrier, and there is less correlation across it. I again use a framework of diffusion of ancestral lineages to model this effect, and provide an efficient numerical implementation to fit the results to geo-referenced biallelic SNP data. This inference scheme is able to robustly estimate strong barriers to gene flow, as tests on simulated data confirm.","lang":"eng"}],"date_updated":"2026-04-08T14:06:37Z","publication_identifier":{"issn":["2663-337X"]},"pubrep_id":"963","date_published":"2018-02-21T00:00:00Z","title":"Inferring recent demography from spatial genetic structure","month":"02","file":[{"file_size":5792935,"access_level":"open_access","relation":"main_file","checksum":"8cc534d2b528ae017acf80874cce48c9","date_created":"2018-12-12T10:14:55Z","creator":"system","file_id":"5111","file_name":"IST-2018-963-v1+1_thesis.pdf","content_type":"application/pdf","date_updated":"2020-07-14T12:45:23Z"},{"content_type":"application/zip","file_id":"6224","date_updated":"2020-07-14T12:45:23Z","file_name":"2018_thesis_ringbauer_source.zip","creator":"dernst","date_created":"2019-04-05T09:30:12Z","access_level":"closed","relation":"source_file","file_size":113365,"checksum":"6af18d7e5a7e2728ceda2f41ee24f628"}]},{"supervisor":[{"full_name":"Edelsbrunner, Herbert","first_name":"Herbert","orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","last_name":"Edelsbrunner"}],"alternative_title":["ISTA Thesis"],"ddc":["514","516"],"file_date_updated":"2020-07-14T12:45:24Z","doi":"10.15479/AT:ISTA:th_1026","publist_id":"7712","has_accepted_license":"1","publication_status":"published","type":"dissertation","oa_version":"Published Version","degree_awarded":"PhD","date_updated":"2026-04-08T14:04:03Z","publication_identifier":{"issn":["2663-337X"]},"pubrep_id":"1026","date_published":"2018-06-11T00:00:00Z","title":"Multiple covers with balls","month":"06","file":[{"content_type":"application/zip","file_id":"5918","date_updated":"2020-07-14T12:45:24Z","file_name":"IST-2018-1025-v2+5_ist-thesis-iglesias-11June2018(1).zip","date_created":"2019-02-05T07:43:31Z","creator":"kschuh","relation":"source_file","file_size":11827713,"access_level":"closed","checksum":"dd699303623e96d1478a6ae07210dd05"},{"relation":"main_file","access_level":"open_access","file_size":4783846,"checksum":"ba163849a190d2b41d66fef0e4983294","content_type":"application/pdf","date_updated":"2020-07-14T12:45:24Z","file_name":"IST-2018-1025-v2+4_ThesisIglesiasFinal11June2018.pdf","file_id":"5919","creator":"kschuh","date_created":"2019-02-05T07:43:45Z"}],"oa":1,"abstract":[{"lang":"eng","text":"We describe arrangements of three-dimensional spheres from a geometrical and topological point of view. Real data (fitting this setup) often consist of soft spheres which show certain degree of deformation while strongly packing against each other. In this context, we answer the following questions: If we model a soft packing of spheres by hard spheres that are allowed to overlap, can we measure the volume in the overlapped areas? Can we be more specific about the overlap volume, i.e. quantify how much volume is there covered exactly twice, three times, or k times? What would be a good optimization criteria that rule the arrangement of soft spheres while making a good use of the available space? Fixing a particular criterion, what would be the optimal sphere configuration? The first result of this thesis are short formulas for the computation of volumes covered by at least k of the balls. The formulas exploit information contained in the order-k Voronoi diagrams and its closely related Level-k complex. The used complexes lead to a natural generalization into poset diagrams, a theoretical formalism that contains the order-k and degree-k diagrams as special cases. In parallel, we define different criteria to determine what could be considered an optimal arrangement from a geometrical point of view. Fixing a criterion, we find optimal soft packing configurations in 2D and 3D where the ball centers lie on a lattice. As a last step, we use tools from computational topology on real physical data, to show the potentials of higher-order diagrams in the description of melting crystals. The results of the experiments leaves us with an open window to apply the theories developed in this thesis in real applications."}],"_id":"201","page":"171","author":[{"full_name":"Iglesias Ham, Mabel","first_name":"Mabel","last_name":"Iglesias Ham","id":"41B58C0C-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T11:45:10Z","corr_author":"1","day":"11","year":"2018","publisher":"Institute of Science and Technology Austria","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","language":[{"iso":"eng"}],"OA_place":"publisher","article_processing_charge":"No","department":[{"_id":"HeEd"}],"citation":{"mla":"Iglesias Ham, Mabel. <i>Multiple Covers with Balls</i>. Institute of Science and Technology Austria, 2018, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">10.15479/AT:ISTA:th_1026</a>.","ieee":"M. Iglesias Ham, “Multiple covers with balls,” Institute of Science and Technology Austria, 2018.","ama":"Iglesias Ham M. Multiple covers with balls. 2018. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">10.15479/AT:ISTA:th_1026</a>","ista":"Iglesias Ham M. 2018. Multiple covers with balls. Institute of Science and Technology Austria.","chicago":"Iglesias Ham, Mabel. “Multiple Covers with Balls.” Institute of Science and Technology Austria, 2018. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">https://doi.org/10.15479/AT:ISTA:th_1026</a>.","short":"M. Iglesias Ham, Multiple Covers with Balls, Institute of Science and Technology Austria, 2018.","apa":"Iglesias Ham, M. (2018). <i>Multiple covers with balls</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:th_1026\">https://doi.org/10.15479/AT:ISTA:th_1026</a>"},"status":"public"},{"day":"17","volume":7,"date_created":"2018-12-11T11:55:13Z","_id":"2015","author":[{"full_name":"Raskutti, Garvesh","first_name":"Garvesh","last_name":"Raskutti"},{"last_name":"Uhler","id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7008-0216","full_name":"Uhler, Caroline","first_name":"Caroline"}],"quality_controlled":"1","citation":{"ama":"Raskutti G, Uhler C. Learning directed acyclic graphs based on sparsest permutations. <i>STAT</i>. 2018;7(1). doi:<a href=\"https://doi.org/10.1002/sta4.183\">10.1002/sta4.183</a>","ieee":"G. Raskutti and C. Uhler, “Learning directed acyclic graphs based on sparsest permutations,” <i>STAT</i>, vol. 7, no. 1. Wiley, 2018.","mla":"Raskutti, Garvesh, and Caroline Uhler. “Learning Directed Acyclic Graphs Based on Sparsest Permutations.” <i>STAT</i>, vol. 7, no. 1, e183, Wiley, 2018, doi:<a href=\"https://doi.org/10.1002/sta4.183\">10.1002/sta4.183</a>.","short":"G. Raskutti, C. Uhler, STAT 7 (2018).","apa":"Raskutti, G., &#38; Uhler, C. (2018). Learning directed acyclic graphs based on sparsest permutations. <i>STAT</i>. Wiley. <a href=\"https://doi.org/10.1002/sta4.183\">https://doi.org/10.1002/sta4.183</a>","chicago":"Raskutti, Garvesh, and Caroline Uhler. “Learning Directed Acyclic Graphs Based on Sparsest Permutations.” <i>STAT</i>. Wiley, 2018. <a href=\"https://doi.org/10.1002/sta4.183\">https://doi.org/10.1002/sta4.183</a>.","ista":"Raskutti G, Uhler C. 2018. Learning directed acyclic graphs based on sparsest permutations. STAT. 7(1), e183."},"publication":"STAT","status":"public","external_id":{"arxiv":["1307.0366"]},"publisher":"Wiley","year":"2018","issue":"1","article_number":"e183","intvolume":"         7","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"doi":"10.1002/sta4.183","publication_status":"published","publist_id":"5061","arxiv":1,"oa_version":"Preprint","type":"journal_article","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/1307.0366"}],"extern":"1","oa":1,"abstract":[{"text":"We consider the problem of learning a Bayesian network or directed acyclic graph model from observational data. A number of constraint‐based, score‐based and hybrid algorithms have been developed for this purpose. Statistical consistency guarantees of these algorithms rely on the faithfulness assumption, which has been shown to be restrictive especially for graphs with cycles in the skeleton. We here propose the sparsest permutation (SP) algorithm, showing that learning Bayesian networks is possible under strictly weaker assumptions than faithfulness. This comes at a computational price, thereby indicating a statistical‐computational trade‐off for causal inference algorithms. In the Gaussian noiseless setting, we prove that the SP algorithm boils down to finding the permutation of the variables with the sparsest Cholesky decomposition of the inverse covariance matrix, which is equivalent to ℓ0‐penalized maximum likelihood estimation. We end with a simulation study showing that in line with the proven stronger consistency guarantees, and the SP algorithm compares favourably to standard causal inference algorithms in terms of accuracy for a given sample size.","lang":"eng"}],"title":"Learning directed acyclic graphs based on sparsest permutations","date_updated":"2021-01-12T06:54:44Z","article_type":"original","date_published":"2018-04-17T00:00:00Z","month":"04"},{"month":"06","title":"Auxin methylation is required for differential growth in Arabidopsis","article_type":"original","date_published":"2018-06-26T00:00:00Z","date_updated":"2026-04-28T08:29:26Z","abstract":[{"text":"Asymmetric auxin distribution is instrumental for the differential growth that causes organ bending on tropic stimuli and curvatures during plant development. Local differences in auxin concentrations are achieved mainly by polarized cellular distribution of PIN auxin transporters, but whether other mechanisms involving auxin homeostasis are also relevant for the formation of auxin gradients is not clear. Here we show that auxin methylation is required for asymmetric auxin distribution across the hypocotyl, particularly during its response to gravity. We found that loss-of-function mutants in Arabidopsis IAA CARBOXYL METHYLTRANSFERASE1 (IAMT1) prematurely unfold the apical hook, and that their hypocotyls are impaired in gravitropic reorientation. This defect is linked to an auxin-dependent increase in PIN gene expression, leading to an increased polar auxin transport and lack of asymmetric distribution of PIN3 in the iamt1 mutant. Gravitropic reorientation in the iamt1 mutant could be restored with either endodermis-specific expression of IAMT1 or partial inhibition of polar auxin transport, which also results in normal PIN gene expression levels. We propose that IAA methylation is necessary in gravity-sensing cells to restrict polar auxin transport within the range of auxin levels that allow for differential responses.","lang":"eng"}],"oa":1,"project":[{"grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants"}],"oa_version":"Submitted Version","isi":1,"type":"journal_article","main_file_link":[{"open_access":"1","url":"http://eprints.nottingham.ac.uk/52388/"}],"publication_status":"published","doi":"10.1073/pnas.1806565115","publist_id":"7710","intvolume":"       115","OA_place":"repository","article_processing_charge":"No","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"National Academy of Sciences","year":"2018","issue":"26","publication":"PNAS","OA_type":"green","status":"public","quality_controlled":"1","citation":{"chicago":"Abbas, Mohamad, García J Hernández, Stephan Pollmann, Sophia L Samodelov, Martina Kolb, Jiří Friml, Ulrich Z Hammes, Matias D Zurbriggen, Miguel Blázquez, and David Alabadí. “Auxin Methylation Is Required for Differential Growth in Arabidopsis.” <i>PNAS</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1806565115\">https://doi.org/10.1073/pnas.1806565115</a>.","ista":"Abbas M, Hernández GJ, Pollmann S, Samodelov SL, Kolb M, Friml J, Hammes UZ, Zurbriggen MD, Blázquez M, Alabadí D. 2018. Auxin methylation is required for differential growth in Arabidopsis. PNAS. 115(26), 6864–6869.","apa":"Abbas, M., Hernández, G. J., Pollmann, S., Samodelov, S. L., Kolb, M., Friml, J., … Alabadí, D. (2018). Auxin methylation is required for differential growth in Arabidopsis. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1806565115\">https://doi.org/10.1073/pnas.1806565115</a>","short":"M. Abbas, G.J. Hernández, S. Pollmann, S.L. Samodelov, M. Kolb, J. Friml, U.Z. Hammes, M.D. Zurbriggen, M. Blázquez, D. Alabadí, PNAS 115 (2018) 6864–6869.","ieee":"M. Abbas <i>et al.</i>, “Auxin methylation is required for differential growth in Arabidopsis,” <i>PNAS</i>, vol. 115, no. 26. National Academy of Sciences, pp. 6864–6869, 2018.","mla":"Abbas, Mohamad, et al. “Auxin Methylation Is Required for Differential Growth in Arabidopsis.” <i>PNAS</i>, vol. 115, no. 26, National Academy of Sciences, 2018, pp. 6864–69, doi:<a href=\"https://doi.org/10.1073/pnas.1806565115\">10.1073/pnas.1806565115</a>.","ama":"Abbas M, Hernández GJ, Pollmann S, et al. Auxin methylation is required for differential growth in Arabidopsis. <i>PNAS</i>. 2018;115(26):6864-6869. doi:<a href=\"https://doi.org/10.1073/pnas.1806565115\">10.1073/pnas.1806565115</a>"},"external_id":{"isi":["000436245000096"]},"ec_funded":1,"department":[{"_id":"JiFr"}],"scopus_import":"1","date_created":"2018-12-11T11:45:11Z","author":[{"id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87","last_name":"Abbas","full_name":"Abbas, Mohamad","first_name":"Mohamad"},{"first_name":"García J","full_name":"Hernández, García J","last_name":"Hernández"},{"last_name":"Pollmann","full_name":"Pollmann, Stephan","first_name":"Stephan"},{"last_name":"Samodelov","full_name":"Samodelov, Sophia L","first_name":"Sophia L"},{"last_name":"Kolb","full_name":"Kolb, Martina","first_name":"Martina"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"},{"last_name":"Hammes","full_name":"Hammes, Ulrich Z","first_name":"Ulrich Z"},{"full_name":"Zurbriggen, Matias D","first_name":"Matias D","last_name":"Zurbriggen"},{"full_name":"Blázquez, Miguel","first_name":"Miguel","last_name":"Blázquez"},{"first_name":"David","full_name":"Alabadí, David","last_name":"Alabadí"}],"page":"6864-6869","_id":"203","volume":115,"day":"26"},{"project":[{"name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"338804"}],"isi":1,"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1608.05163"}],"type":"journal_article","oa_version":"Preprint","arxiv":1,"publist_id":"6383","publication_status":"published","doi":"10.1093/imrn/rnw330","month":"05","date_published":"2018-05-18T00:00:00Z","date_updated":"2026-04-08T13:55:03Z","publication_identifier":{"issn":["1073-7928"]},"title":"Fluctuations of rectangular young diagrams of interlacing wigner eigenvalues","abstract":[{"text":"We prove a new central limit theorem (CLT) for the difference of linear eigenvalue statistics of a Wigner random matrix H and its minor H and find that the fluctuation is much smaller than the fluctuations of the individual linear statistics, as a consequence of the strong correlation between the eigenvalues of H and H. In particular, our theorem identifies the fluctuation of Kerov's rectangular Young diagrams, defined by the interlacing eigenvalues ofH and H, around their asymptotic shape, the Vershik'Kerov'Logan'Shepp curve. Young diagrams equipped with the Plancherel measure follow the same limiting shape. For this, algebraically motivated, ensemble a CLT has been obtained in Ivanov and Olshanski [20] which is structurally similar to our result but the variance is different, indicating that the analogy between the two models has its limitations. Moreover, our theorem shows that Borodin's result [7] on the convergence of the spectral distribution of Wigner matrices to a Gaussian free field also holds in derivative sense.","lang":"eng"}],"oa":1,"page":"3255-3298","author":[{"full_name":"Erdös, László","first_name":"László","orcid":"0000-0001-5366-9603","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Schröder, Dominik J","first_name":"Dominik J","orcid":"0000-0002-2904-1856","last_name":"Schröder","id":"408ED176-F248-11E8-B48F-1D18A9856A87"}],"_id":"1012","related_material":{"record":[{"id":"6179","relation":"dissertation_contains","status":"public"}]},"date_created":"2018-12-11T11:49:41Z","volume":2018,"day":"18","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","intvolume":"      2018","issue":"10","publisher":"Oxford University Press","year":"2018","external_id":{"isi":["000441668300009"],"arxiv":["1608.05163"]},"status":"public","publication":"International Mathematics Research Notices","citation":{"ieee":"L. Erdös and D. J. Schröder, “Fluctuations of rectangular young diagrams of interlacing wigner eigenvalues,” <i>International Mathematics Research Notices</i>, vol. 2018, no. 10. Oxford University Press, pp. 3255–3298, 2018.","mla":"Erdös, László, and Dominik J. Schröder. “Fluctuations of Rectangular Young Diagrams of Interlacing Wigner Eigenvalues.” <i>International Mathematics Research Notices</i>, vol. 2018, no. 10, Oxford University Press, 2018, pp. 3255–98, doi:<a href=\"https://doi.org/10.1093/imrn/rnw330\">10.1093/imrn/rnw330</a>.","ama":"Erdös L, Schröder DJ. Fluctuations of rectangular young diagrams of interlacing wigner eigenvalues. <i>International Mathematics Research Notices</i>. 2018;2018(10):3255-3298. doi:<a href=\"https://doi.org/10.1093/imrn/rnw330\">10.1093/imrn/rnw330</a>","ista":"Erdös L, Schröder DJ. 2018. Fluctuations of rectangular young diagrams of interlacing wigner eigenvalues. International Mathematics Research Notices. 2018(10), 3255–3298.","chicago":"Erdös, László, and Dominik J Schröder. “Fluctuations of Rectangular Young Diagrams of Interlacing Wigner Eigenvalues.” <i>International Mathematics Research Notices</i>. Oxford University Press, 2018. <a href=\"https://doi.org/10.1093/imrn/rnw330\">https://doi.org/10.1093/imrn/rnw330</a>.","short":"L. Erdös, D.J. Schröder, International Mathematics Research Notices 2018 (2018) 3255–3298.","apa":"Erdös, L., &#38; Schröder, D. J. (2018). Fluctuations of rectangular young diagrams of interlacing wigner eigenvalues. <i>International Mathematics Research Notices</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/imrn/rnw330\">https://doi.org/10.1093/imrn/rnw330</a>"},"quality_controlled":"1","department":[{"_id":"LaEr"}],"scopus_import":"1","ec_funded":1},{"volume":116,"date_created":"2021-11-26T12:08:02Z","author":[{"last_name":"Michaels","first_name":"Thomas C. T.","full_name":"Michaels, Thomas C. T."},{"full_name":"Liu, Lucie X.","first_name":"Lucie X.","last_name":"Liu"},{"last_name":"Curk","full_name":"Curk, Samo","first_name":"Samo"},{"first_name":"Peter G.","full_name":"Bolhuis, Peter G.","last_name":"Bolhuis"},{"last_name":"Šarić","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","first_name":"Anđela","orcid":"0000-0002-7854-2139"},{"first_name":"Tuomas P. J.","full_name":"Knowles, Tuomas P. J.","last_name":"Knowles"}],"page":"3055-3065","_id":"10358","day":"24","year":"2018","publisher":"Taylor & Francis","issue":"21-22","intvolume":"       116","article_processing_charge":"No","acknowledgement":"We thank Claudia Flandoli for the help with illustrations.","language":[{"iso":"eng"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","scopus_import":"1","status":"public","publication":"Molecular Physics","citation":{"ama":"Michaels TCT, Liu LX, Curk S, Bolhuis PG, Šarić A, Knowles TPJ. Reaction rate theory for supramolecular kinetics: application to protein aggregation. <i>Molecular Physics</i>. 2018;116(21-22):3055-3065. doi:<a href=\"https://doi.org/10.1080/00268976.2018.1474280\">10.1080/00268976.2018.1474280</a>","mla":"Michaels, Thomas C. T., et al. “Reaction Rate Theory for Supramolecular Kinetics: Application to Protein Aggregation.” <i>Molecular Physics</i>, vol. 116, no. 21–22, Taylor &#38; Francis, 2018, pp. 3055–65, doi:<a href=\"https://doi.org/10.1080/00268976.2018.1474280\">10.1080/00268976.2018.1474280</a>.","ieee":"T. C. T. Michaels, L. X. Liu, S. Curk, P. G. Bolhuis, A. Šarić, and T. P. J. Knowles, “Reaction rate theory for supramolecular kinetics: application to protein aggregation,” <i>Molecular Physics</i>, vol. 116, no. 21–22. Taylor &#38; Francis, pp. 3055–3065, 2018.","short":"T.C.T. Michaels, L.X. Liu, S. Curk, P.G. Bolhuis, A. Šarić, T.P.J. Knowles, Molecular Physics 116 (2018) 3055–3065.","apa":"Michaels, T. C. T., Liu, L. X., Curk, S., Bolhuis, P. G., Šarić, A., &#38; Knowles, T. P. J. (2018). Reaction rate theory for supramolecular kinetics: application to protein aggregation. <i>Molecular Physics</i>. Taylor &#38; Francis. <a href=\"https://doi.org/10.1080/00268976.2018.1474280\">https://doi.org/10.1080/00268976.2018.1474280</a>","ista":"Michaels TCT, Liu LX, Curk S, Bolhuis PG, Šarić A, Knowles TPJ. 2018. Reaction rate theory for supramolecular kinetics: application to protein aggregation. Molecular Physics. 116(21–22), 3055–3065.","chicago":"Michaels, Thomas C. T., Lucie X. Liu, Samo Curk, Peter G. Bolhuis, Anđela Šarić, and Tuomas P. J. Knowles. “Reaction Rate Theory for Supramolecular Kinetics: Application to Protein Aggregation.” <i>Molecular Physics</i>. Taylor &#38; Francis, 2018. <a href=\"https://doi.org/10.1080/00268976.2018.1474280\">https://doi.org/10.1080/00268976.2018.1474280</a>."},"quality_controlled":"1","external_id":{"arxiv":["1803.04851"]},"keyword":["physical chemistry"],"extern":"1","doi":"10.1080/00268976.2018.1474280","publication_status":"published","arxiv":1,"oa_version":"Preprint","type":"journal_article","main_file_link":[{"url":"https://arxiv.org/abs/1803.04851","open_access":"1"}],"title":"Reaction rate theory for supramolecular kinetics: application to protein aggregation","date_published":"2018-05-24T00:00:00Z","article_type":"original","publication_identifier":{"eissn":["1362-3028"],"issn":["0026-8976"]},"date_updated":"2021-11-26T12:39:58Z","month":"05","abstract":[{"text":"Probing reaction mechanisms of supramolecular processes in soft and biological matter, such as protein aggregation, is inherently challenging. This is because these processes involve multiple molecular mechanisms that are associated with the rearrangement of large numbers of weak bonds, resulting in complex free energy landscapes with many kinetic barriers. Reaction rate measurements at different temperatures can offer unprecedented insights into the underlying molecular mechanisms. However, to be able to interpret such measurements, a key challenge is to establish which properties of the complex free energy landscapes are probed by the reaction rate. Here, we present a reaction rate theory for supramolecular kinetics based on Kramers theory of diffusive reactions over multiple kinetic barriers. We find that reaction rates for protein aggregation are of the Arrhenius–Eyring type and that the associated activation energies probe only one relevant barrier along the respective free energy landscapes. We apply this advancement to interpret, in experiments and in coarse-grained computer simulations, reaction rates of amyloid aggregation in terms of molecular mechanisms and associated thermodynamic signatures. These results suggest a practical extension of the concept of rate-determining steps for complex supramolecular processes and establish a general platform for probing the underlying energy landscape using kinetic measurements.","lang":"eng"}],"oa":1},{"volume":18,"_id":"10359","author":[{"first_name":"Tine","full_name":"Curk, Tine","last_name":"Curk"},{"last_name":"Wirnsberger","full_name":"Wirnsberger, Peter","first_name":"Peter"},{"last_name":"Dobnikar","first_name":"Jure","full_name":"Dobnikar, Jure"},{"last_name":"Frenkel","full_name":"Frenkel, Daan","first_name":"Daan"},{"last_name":"Šarić","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela","first_name":"Anđela","orcid":"0000-0002-7854-2139"}],"page":"5350-5356","date_created":"2021-11-26T12:15:47Z","day":"18","issue":"9","publisher":"American Chemical Society","year":"2018","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","acknowledgement":"We acknowledge discussions with Giuseppe Battaglia as well as support from the Herchel Smith scholarship (T.C.), the CAS PIFI fellowship (T.C.), the UCL Institute for the Physics of Living Systems (T.C. and A.Š.), the Austrian Academy of Sciences through a DOC fellowship (P.W.), the European Union Horizon 2020 programme under ETN grant no. 674979-NANOTRANS and FET grant no. 766972-NANOPHLOW (J.D. and D.F.), the Engineering and Physical Sciences Research Council (D.F. and A.Š.), the Academy of Medical Sciences and Wellcome Trust (A.Š.), and the Royal Society (A.Š.). We thank Claudia Flandoli for help with Figure 1.","language":[{"iso":"eng"}],"article_processing_charge":"No","intvolume":"        18","scopus_import":"1","external_id":{"pmid":["29667410"]},"quality_controlled":"1","citation":{"apa":"Curk, T., Wirnsberger, P., Dobnikar, J., Frenkel, D., &#38; Šarić, A. (2018). Controlling cargo trafficking in multicomponent membranes. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.nanolett.8b00786\">https://doi.org/10.1021/acs.nanolett.8b00786</a>","short":"T. Curk, P. Wirnsberger, J. Dobnikar, D. Frenkel, A. Šarić, Nano Letters 18 (2018) 5350–5356.","ista":"Curk T, Wirnsberger P, Dobnikar J, Frenkel D, Šarić A. 2018. Controlling cargo trafficking in multicomponent membranes. Nano Letters. 18(9), 5350–5356.","chicago":"Curk, Tine, Peter Wirnsberger, Jure Dobnikar, Daan Frenkel, and Anđela Šarić. “Controlling Cargo Trafficking in Multicomponent Membranes.” <i>Nano Letters</i>. American Chemical Society, 2018. <a href=\"https://doi.org/10.1021/acs.nanolett.8b00786\">https://doi.org/10.1021/acs.nanolett.8b00786</a>.","ama":"Curk T, Wirnsberger P, Dobnikar J, Frenkel D, Šarić A. Controlling cargo trafficking in multicomponent membranes. <i>Nano Letters</i>. 2018;18(9):5350-5356. doi:<a href=\"https://doi.org/10.1021/acs.nanolett.8b00786\">10.1021/acs.nanolett.8b00786</a>","mla":"Curk, Tine, et al. “Controlling Cargo Trafficking in Multicomponent Membranes.” <i>Nano Letters</i>, vol. 18, no. 9, American Chemical Society, 2018, pp. 5350–56, doi:<a href=\"https://doi.org/10.1021/acs.nanolett.8b00786\">10.1021/acs.nanolett.8b00786</a>.","ieee":"T. Curk, P. Wirnsberger, J. Dobnikar, D. Frenkel, and A. Šarić, “Controlling cargo trafficking in multicomponent membranes,” <i>Nano Letters</i>, vol. 18, no. 9. American Chemical Society, pp. 5350–5356, 2018."},"publication":"Nano Letters","status":"public","keyword":["mechanical engineering","condensed matter physics"],"extern":"1","doi":"10.1021/acs.nanolett.8b00786","publication_status":"published","type":"journal_article","main_file_link":[{"url":"https://arxiv.org/abs/1712.10147","open_access":"1"}],"oa_version":"Preprint","date_updated":"2021-11-26T15:14:08Z","publication_identifier":{"issn":["1530-6984"],"eissn":["1530-6992"]},"article_type":"original","date_published":"2018-04-18T00:00:00Z","title":"Controlling cargo trafficking in multicomponent membranes","pmid":1,"month":"04","oa":1,"abstract":[{"lang":"eng","text":"Biological membranes typically contain a large number of different components dispersed in small concentrations in the main membrane phase, including proteins, sugars, and lipids of varying geometrical properties. Most of these components do not bind the cargo. Here, we show that such “inert” components can be crucial for the precise control of cross-membrane trafficking. Using a statistical mechanics model and molecular dynamics simulations, we demonstrate that the presence of inert membrane components of small isotropic curvatures dramatically influences cargo endocytosis, even if the total spontaneous curvature of such a membrane remains unchanged. Curved lipids, such as cholesterol, as well as asymmetrically included proteins and tethered sugars can, therefore, actively participate in the control of the membrane trafficking of nanoscopic cargo. We find that even a low-level expression of curved inert membrane components can determine the membrane selectivity toward the cargo size and can be used to selectively target membranes of certain compositions. Our results suggest a robust and general method of controlling cargo trafficking by adjusting the membrane composition without needing to alter the concentration of receptors or the average membrane curvature. This study indicates that cells can prepare for any trafficking event by incorporating curved inert components in either of the membrane leaflets."}]},{"oa_version":"Published Version","isi":1,"type":"journal_article","publist_id":"7950","file_date_updated":"2018-12-18T09:46:00Z","has_accepted_license":"1","doi":"10.1111/mpp.12698","publication_status":"published","ddc":["580"],"oa":1,"abstract":[{"text":"The biotrophic pathogen Ustilago maydis, the causative agent of corn smut disease, infects one of the most important crops worldwide – Zea mays. To successfully colonize its host, U. maydis secretes proteins, known as effectors, that suppress plant defense responses and facilitate the establishment of biotrophy. In this work, we describe the U. maydis effector protein Cce1. Cce1 is essential for virulence and is upregulated during infection. Through microscopic analysis and in vitro assays, we show that Cce1 is secreted from hyphae during filamentous growth of the fungus. Strikingly, Δcce1 mutants are blocked at early stages of infection and induce callose deposition as a plant defense response. Cce1 is highly conserved among smut fungi and the Ustilago bromivora ortholog complemented the virulence defect of the SG200Δcce1 deletion strain. These data indicate that Cce1 is a core effector with apoplastic localization that is essential for U. maydis to infect its host.","lang":"eng"}],"month":"10","file":[{"file_id":"5740","content_type":"application/pdf","date_updated":"2018-12-18T09:46:00Z","file_name":"2018_MolecPlantPath_Seitner.pdf","date_created":"2018-12-18T09:46:00Z","creator":"dernst","success":1,"access_level":"open_access","relation":"main_file","file_size":682335}],"title":"The core effector Cce1 is required for early infection of maize by Ustilago maydis","date_updated":"2023-09-19T10:06:42Z","date_published":"2018-10-01T00:00:00Z","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"day":"01","date_created":"2018-12-11T11:44:39Z","_id":"104","author":[{"last_name":"Seitner","full_name":"Seitner, Denise","first_name":"Denise"},{"full_name":"Uhse, Simon","first_name":"Simon","last_name":"Uhse"},{"orcid":"0000-0003-1286-7368","first_name":"Michelle C","full_name":"Gallei, Michelle C","id":"35A03822-F248-11E8-B48F-1D18A9856A87","last_name":"Gallei"},{"first_name":"Armin","full_name":"Djamei, Armin","last_name":"Djamei"}],"page":"2277 - 2287","volume":19,"citation":{"ama":"Seitner D, Uhse S, Gallei MC, Djamei A. The core effector Cce1 is required for early infection of maize by Ustilago maydis. <i>Molecular Plant Pathology</i>. 2018;19(10):2277-2287. doi:<a href=\"https://doi.org/10.1111/mpp.12698\">10.1111/mpp.12698</a>","ieee":"D. Seitner, S. Uhse, M. C. Gallei, and A. Djamei, “The core effector Cce1 is required for early infection of maize by Ustilago maydis,” <i>Molecular Plant Pathology</i>, vol. 19, no. 10. Wiley, pp. 2277–2287, 2018.","mla":"Seitner, Denise, et al. “The Core Effector Cce1 Is Required for Early Infection of Maize by Ustilago Maydis.” <i>Molecular Plant Pathology</i>, vol. 19, no. 10, Wiley, 2018, pp. 2277–87, doi:<a href=\"https://doi.org/10.1111/mpp.12698\">10.1111/mpp.12698</a>.","short":"D. Seitner, S. Uhse, M.C. Gallei, A. Djamei, Molecular Plant Pathology 19 (2018) 2277–2287.","apa":"Seitner, D., Uhse, S., Gallei, M. C., &#38; Djamei, A. (2018). The core effector Cce1 is required for early infection of maize by Ustilago maydis. <i>Molecular Plant Pathology</i>. Wiley. <a href=\"https://doi.org/10.1111/mpp.12698\">https://doi.org/10.1111/mpp.12698</a>","ista":"Seitner D, Uhse S, Gallei MC, Djamei A. 2018. The core effector Cce1 is required for early infection of maize by Ustilago maydis. Molecular Plant Pathology. 19(10), 2277–2287.","chicago":"Seitner, Denise, Simon Uhse, Michelle C Gallei, and Armin Djamei. “The Core Effector Cce1 Is Required for Early Infection of Maize by Ustilago Maydis.” <i>Molecular Plant Pathology</i>. Wiley, 2018. <a href=\"https://doi.org/10.1111/mpp.12698\">https://doi.org/10.1111/mpp.12698</a>."},"quality_controlled":"1","status":"public","publication":"Molecular Plant Pathology","external_id":{"isi":["000445624100006"]},"scopus_import":"1","department":[{"_id":"GradSch"}],"article_processing_charge":"No","intvolume":"        19","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","acknowledgement":"the Austrian Science Fund (FWF): [P27429‐B22, P27818‐B22, I 3033‐B22], and the Austrian Academy of Science (OEAW).","language":[{"iso":"eng"}],"publisher":"Wiley","year":"2018","issue":"10"},{"conference":{"start_date":"2018-01-07","name":"POPL: Programming Languages","location":"Los Angeles, CA, United States","end_date":"2018-01-13"},"project":[{"_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","grant_number":"P 23499-N23"},{"name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"S 11407_N23"},{"grant_number":"279307","call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications"}],"ddc":["000"],"arxiv":1,"has_accepted_license":"1","file_date_updated":"2025-05-20T09:44:47Z","publication_status":"published","doi":"10.1145/3158119","type":"journal_article","oa_version":"Published Version","article_type":"original","date_published":"2018-01-01T00:00:00Z","date_updated":"2025-05-20T09:45:10Z","publication_identifier":{"eissn":["2475-1421"]},"title":"Data-centric dynamic partial order reduction","file":[{"date_created":"2025-05-20T09:44:47Z","creator":"dernst","file_name":"2018_ACM_Chalupa.pdf","file_id":"19716","date_updated":"2025-05-20T09:44:47Z","content_type":"application/pdf","checksum":"b27ab1745f6dba2387deb785798a657c","relation":"main_file","access_level":"open_access","file_size":388891,"success":1}],"month":"01","abstract":[{"lang":"eng","text":"We present a new dynamic partial-order reduction method for stateless model checking of concurrent programs. A common approach for exploring program behaviors relies on enumerating the traces of the program, without storing the visited states (aka stateless exploration). As the number of distinct traces grows exponentially, dynamic partial-order reduction (DPOR) techniques have been successfully used to partition the space of traces into equivalence classes (Mazurkiewicz partitioning), with the goal of exploring only few representative traces from each class.\r\n\r\nWe introduce a new equivalence on traces under sequential consistency semantics, which we call the observation equivalence. Two traces are observationally equivalent if every read event observes the same write event in both traces. While the traditional Mazurkiewicz equivalence is control-centric, our new definition is data-centric. We show that our observation equivalence is coarser than the Mazurkiewicz equivalence, and in many cases even exponentially coarser. We devise a DPOR exploration of the trace space, called data-centric DPOR, based on the observation equivalence."}],"oa":1,"volume":2,"author":[{"first_name":"Marek","full_name":"Chalupa, Marek","last_name":"Chalupa"},{"last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"id":"49704004-F248-11E8-B48F-1D18A9856A87","last_name":"Pavlogiannis","full_name":"Pavlogiannis, Andreas","first_name":"Andreas","orcid":"0000-0002-8943-0722"},{"last_name":"Sinha","first_name":"Nishant","full_name":"Sinha, Nishant"},{"full_name":"Vaidya, Kapil","first_name":"Kapil","last_name":"Vaidya"}],"_id":"10417","related_material":{"record":[{"id":"5448","status":"public","relation":"earlier_version"},{"id":"5456","status":"public","relation":"earlier_version"}]},"date_created":"2021-12-05T23:01:49Z","day":"01","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_number":"31","issue":"POPL","publisher":"Association for Computing Machinery","year":"2018","acknowledgement":"The research was partly supported by Austrian Science Fund (FWF) Grant No P23499- N23, FWF\r\nNFN Grant No S11407-N23 (RiSE/SHiNE), ERC Start grant (279307: Graph Games), and Czech\r\nScience Foundation grant GBP202/12/G061.","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","OA_place":"publisher","intvolume":"         2","department":[{"_id":"KrCh"}],"scopus_import":"1","ec_funded":1,"external_id":{"arxiv":["1610.01188"]},"publication":"Proceedings of the ACM on Programming Languages","OA_type":"hybrid","status":"public","quality_controlled":"1","citation":{"chicago":"Chalupa, Marek, Krishnendu Chatterjee, Andreas Pavlogiannis, Nishant Sinha, and Kapil Vaidya. “Data-Centric Dynamic Partial Order Reduction.” <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery, 2018. <a href=\"https://doi.org/10.1145/3158119\">https://doi.org/10.1145/3158119</a>.","ista":"Chalupa M, Chatterjee K, Pavlogiannis A, Sinha N, Vaidya K. 2018. Data-centric dynamic partial order reduction. Proceedings of the ACM on Programming Languages. 2(POPL), 31.","short":"M. Chalupa, K. Chatterjee, A. Pavlogiannis, N. Sinha, K. Vaidya, Proceedings of the ACM on Programming Languages 2 (2018).","apa":"Chalupa, M., Chatterjee, K., Pavlogiannis, A., Sinha, N., &#38; Vaidya, K. (2018). Data-centric dynamic partial order reduction. <i>Proceedings of the ACM on Programming Languages</i>. Los Angeles, CA, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3158119\">https://doi.org/10.1145/3158119</a>","mla":"Chalupa, Marek, et al. “Data-Centric Dynamic Partial Order Reduction.” <i>Proceedings of the ACM on Programming Languages</i>, vol. 2, no. POPL, 31, Association for Computing Machinery, 2018, doi:<a href=\"https://doi.org/10.1145/3158119\">10.1145/3158119</a>.","ieee":"M. Chalupa, K. Chatterjee, A. Pavlogiannis, N. Sinha, and K. Vaidya, “Data-centric dynamic partial order reduction,” <i>Proceedings of the ACM on Programming Languages</i>, vol. 2, no. POPL. Association for Computing Machinery, 2018.","ama":"Chalupa M, Chatterjee K, Pavlogiannis A, Sinha N, Vaidya K. Data-centric dynamic partial order reduction. <i>Proceedings of the ACM on Programming Languages</i>. 2018;2(POPL). doi:<a href=\"https://doi.org/10.1145/3158119\">10.1145/3158119</a>"}},{"isi":1,"type":"journal_article","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1702.05172"}],"oa_version":"Preprint","arxiv":1,"doi":"10.1007/s00283-018-9795-5","publication_status":"published","publist_id":"7948","oa":1,"abstract":[{"lang":"eng","text":"The goal of this article is to introduce the reader to the theory of intrinsic geometry of convex surfaces. We illustrate the power of the tools by proving a theorem on convex surfaces containing an arbitrarily long closed simple geodesic. Let us remind ourselves that a curve in a surface is called geodesic if every sufficiently short arc of the curve is length minimizing; if, in addition, it has no self-intersections, we call it simple geodesic. A tetrahedron with equal opposite edges is called isosceles. The axiomatic method of Alexandrov geometry allows us to work with the metrics of convex surfaces directly, without approximating it first by a smooth or polyhedral metric. Such approximations destroy the closed geodesics on the surface; therefore it is difficult (if at all possible) to apply approximations in the proof of our theorem. On the other hand, a proof in the smooth or polyhedral case usually admits a translation into Alexandrov’s language; such translation makes the result more general. In fact, our proof resembles a translation of the proof given by Protasov. Note that the main theorem implies in particular that a smooth convex surface does not have arbitrarily long simple closed geodesics. However we do not know a proof of this corollary that is essentially simpler than the one presented below."}],"month":"09","date_updated":"2023-09-13T08:49:16Z","date_published":"2018-09-01T00:00:00Z","title":"Long geodesics on convex surfaces","day":"01","_id":"106","page":"26 - 31","author":[{"orcid":"0000-0002-2548-617X","first_name":"Arseniy","full_name":"Akopyan, Arseniy","last_name":"Akopyan","id":"430D2C90-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Petrunin, Anton","first_name":"Anton","last_name":"Petrunin"}],"date_created":"2018-12-11T11:44:40Z","volume":40,"external_id":{"arxiv":["1702.05172"],"isi":["000444141200005"]},"quality_controlled":"1","citation":{"mla":"Akopyan, Arseniy, and Anton Petrunin. “Long Geodesics on Convex Surfaces.” <i>Mathematical Intelligencer</i>, vol. 40, no. 3, Springer, 2018, pp. 26–31, doi:<a href=\"https://doi.org/10.1007/s00283-018-9795-5\">10.1007/s00283-018-9795-5</a>.","ieee":"A. Akopyan and A. Petrunin, “Long geodesics on convex surfaces,” <i>Mathematical Intelligencer</i>, vol. 40, no. 3. Springer, pp. 26–31, 2018.","ama":"Akopyan A, Petrunin A. Long geodesics on convex surfaces. <i>Mathematical Intelligencer</i>. 2018;40(3):26-31. doi:<a href=\"https://doi.org/10.1007/s00283-018-9795-5\">10.1007/s00283-018-9795-5</a>","ista":"Akopyan A, Petrunin A. 2018. Long geodesics on convex surfaces. Mathematical Intelligencer. 40(3), 26–31.","chicago":"Akopyan, Arseniy, and Anton Petrunin. “Long Geodesics on Convex Surfaces.” <i>Mathematical Intelligencer</i>. Springer, 2018. <a href=\"https://doi.org/10.1007/s00283-018-9795-5\">https://doi.org/10.1007/s00283-018-9795-5</a>.","short":"A. Akopyan, A. Petrunin, Mathematical Intelligencer 40 (2018) 26–31.","apa":"Akopyan, A., &#38; Petrunin, A. (2018). Long geodesics on convex surfaces. <i>Mathematical Intelligencer</i>. Springer. <a href=\"https://doi.org/10.1007/s00283-018-9795-5\">https://doi.org/10.1007/s00283-018-9795-5</a>"},"status":"public","publication":"Mathematical Intelligencer","scopus_import":"1","department":[{"_id":"HeEd"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","language":[{"iso":"eng"}],"intvolume":"        40","article_processing_charge":"No","issue":"3","year":"2018","publisher":"Springer"},{"title":"Quantitative transport measurements of fractional quantum Hall energy gaps in edgeless graphene devices","article_type":"original","date_published":"2018-11-28T00:00:00Z","date_updated":"2022-01-14T13:48:35Z","publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"month":"11","abstract":[{"text":"Owing to their wide tunability, multiple internal degrees of freedom, and low disorder, graphene heterostructures are emerging as a promising experimental platform for fractional quantum Hall (FQH) studies. Here, we report FQH thermal activation gap measurements in dual graphite-gated monolayer graphene devices fabricated in an edgeless Corbino geometry. In devices with substrate-induced sublattice splitting, we find a tunable crossover between single- and multicomponent FQH states in the zero energy Landau level. Activation gaps in the single-component regime show excellent agreement with numerical calculations using a single broadening parameter \r\nΓ≈7.2K. In the first excited Landau level, in contrast, FQH gaps are strongly influenced by Landau level mixing, and we observe an unexpected valley-ordered state at integer filling ν=−4.","lang":"eng"}],"oa":1,"keyword":["general physics and astronomy"],"extern":"1","doi":"10.1103/physrevlett.121.226801","publication_status":"published","arxiv":1,"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1805.04199"}],"type":"journal_article","publisher":"American Physical Society","year":"2018","article_number":"226801","issue":"22","article_processing_charge":"No","intvolume":"       121","language":[{"iso":"eng"}],"acknowledgement":"We thank Cory Dean, S. Chen, Y. Zeng, M. Yankowitz, and J. Li for discussing their unpublished data and for sharing the stack inversion technique. The authors acknowledge further discussions of the results with I. Sodemann, M. Zaletel, C. Nayak, and J. Jain. A. F. Y., H. P., H. Z., and E. M. S. were supported by the ARO under awards 69188PHH and MURI W911NF-17-1-0323. A portion of this work was performed at the National High Magnetic Field Laboratory, which is supported by National Science Foundation Cooperative Agreement No. DMR-1644779 and the State of Florida. K. W. and T. T. acknowledge support from the Elemental Strategy Initiative conducted by the MEXT, Japan, and JSPS KAKENHI Grant No. JP15K21722. E. M. S. acknowledges the support of the Elings Prize Fellowship in Science of the California Nanosystems Institute at the University of California, Santa Barbara. A. F. Y. acknowledges the support of the David and Lucile Packard Foundation.","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","scopus_import":"1","status":"public","publication":"Physical Review Letters","quality_controlled":"1","citation":{"ama":"Polshyn H, Zhou H, Spanton EM, Taniguchi T, Watanabe K, Young AF. Quantitative transport measurements of fractional quantum Hall energy gaps in edgeless graphene devices. <i>Physical Review Letters</i>. 2018;121(22). doi:<a href=\"https://doi.org/10.1103/physrevlett.121.226801\">10.1103/physrevlett.121.226801</a>","ieee":"H. Polshyn, H. Zhou, E. M. Spanton, T. Taniguchi, K. Watanabe, and A. F. Young, “Quantitative transport measurements of fractional quantum Hall energy gaps in edgeless graphene devices,” <i>Physical Review Letters</i>, vol. 121, no. 22. American Physical Society, 2018.","mla":"Polshyn, Hryhoriy, et al. “Quantitative Transport Measurements of Fractional Quantum Hall Energy Gaps in Edgeless Graphene Devices.” <i>Physical Review Letters</i>, vol. 121, no. 22, 226801, American Physical Society, 2018, doi:<a href=\"https://doi.org/10.1103/physrevlett.121.226801\">10.1103/physrevlett.121.226801</a>.","apa":"Polshyn, H., Zhou, H., Spanton, E. M., Taniguchi, T., Watanabe, K., &#38; Young, A. F. (2018). Quantitative transport measurements of fractional quantum Hall energy gaps in edgeless graphene devices. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/physrevlett.121.226801\">https://doi.org/10.1103/physrevlett.121.226801</a>","short":"H. Polshyn, H. Zhou, E.M. Spanton, T. Taniguchi, K. Watanabe, A.F. Young, Physical Review Letters 121 (2018).","chicago":"Polshyn, Hryhoriy, H. Zhou, E. M. Spanton, T. Taniguchi, K. Watanabe, and A. F. Young. “Quantitative Transport Measurements of Fractional Quantum Hall Energy Gaps in Edgeless Graphene Devices.” <i>Physical Review Letters</i>. American Physical Society, 2018. <a href=\"https://doi.org/10.1103/physrevlett.121.226801\">https://doi.org/10.1103/physrevlett.121.226801</a>.","ista":"Polshyn H, Zhou H, Spanton EM, Taniguchi T, Watanabe K, Young AF. 2018. Quantitative transport measurements of fractional quantum Hall energy gaps in edgeless graphene devices. Physical Review Letters. 121(22), 226801."},"external_id":{"arxiv":["1805.04199"]},"volume":121,"date_created":"2022-01-14T12:15:47Z","author":[{"full_name":"Polshyn, Hryhoriy","first_name":"Hryhoriy","orcid":"0000-0001-8223-8896","last_name":"Polshyn","id":"edfc7cb1-526e-11ec-b05a-e6ecc27e4e48"},{"full_name":"Zhou, H.","first_name":"H.","last_name":"Zhou"},{"last_name":"Spanton","full_name":"Spanton, E. M.","first_name":"E. M."},{"last_name":"Taniguchi","first_name":"T.","full_name":"Taniguchi, T."},{"last_name":"Watanabe","first_name":"K.","full_name":"Watanabe, K."},{"last_name":"Young","full_name":"Young, A. F.","first_name":"A. F."}],"_id":"10626","day":"28"}]