--- _id: '12903' article_processing_charge: No author: - first_name: Alois full_name: Schlögl, Alois id: 45BF87EE-F248-11E8-B48F-1D18A9856A87 last_name: Schlögl orcid: 0000-0002-5621-8100 - first_name: Stephan full_name: Stadlbauer, Stephan id: 4D0BC184-F248-11E8-B48F-1D18A9856A87 last_name: Stadlbauer citation: ama: 'Schlögl A, Stadlbauer S. High performance computing at IST Austria: Modelling the human hippocampus. In: AHPC16 - Austrian HPC Meeting 2016. VSC - Vienna Scientific Cluster; 2016:37.' apa: 'Schlögl, A., & Stadlbauer, S. (2016). High performance computing at IST Austria: Modelling the human hippocampus. In AHPC16 - Austrian HPC Meeting 2016 (p. 37). Grundlsee, Austria: VSC - Vienna Scientific Cluster.' chicago: 'Schlögl, Alois, and Stephan Stadlbauer. “High Performance Computing at IST Austria: Modelling the Human Hippocampus.” In AHPC16 - Austrian HPC Meeting 2016, 37. VSC - Vienna Scientific Cluster, 2016.' ieee: 'A. Schlögl and S. Stadlbauer, “High performance computing at IST Austria: Modelling the human hippocampus,” in AHPC16 - Austrian HPC Meeting 2016, Grundlsee, Austria, 2016, p. 37.' ista: 'Schlögl A, Stadlbauer S. 2016. High performance computing at IST Austria: Modelling the human hippocampus. AHPC16 - Austrian HPC Meeting 2016. AHPC: Austrian HPC Meeting, 37.' mla: 'Schlögl, Alois, and Stephan Stadlbauer. “High Performance Computing at IST Austria: Modelling the Human Hippocampus.” AHPC16 - Austrian HPC Meeting 2016, VSC - Vienna Scientific Cluster, 2016, p. 37.' short: A. Schlögl, S. Stadlbauer, in:, AHPC16 - Austrian HPC Meeting 2016, VSC - Vienna Scientific Cluster, 2016, p. 37. conference: end_date: 2016-02-24 location: Grundlsee, Austria name: 'AHPC: Austrian HPC Meeting' start_date: 2016-02-22 date_created: 2023-05-05T12:54:47Z date_published: 2016-02-24T00:00:00Z date_updated: 2023-05-16T07:15:14Z day: '24' ddc: - '000' department: - _id: ScienComp - _id: PeJo file: - access_level: open_access checksum: 4a7b00362e81358d568f5e216fa03c3e content_type: application/pdf creator: dernst date_created: 2023-05-16T07:03:56Z date_updated: 2023-05-16T07:03:56Z file_id: '12968' file_name: 2016_AHPC_Schloegl.pdf file_size: 1073523 relation: main_file success: 1 file_date_updated: 2023-05-16T07:03:56Z has_accepted_license: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc16/BOOKLET_AHPC16.pdf month: '02' oa: 1 oa_version: Published Version page: '37' publication: AHPC16 - Austrian HPC Meeting 2016 publication_status: published publisher: VSC - Vienna Scientific Cluster quality_controlled: '1' status: public title: 'High performance computing at IST Austria: Modelling the human hippocampus' type: conference_abstract user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2016' ... --- _id: '1291' abstract: - lang: eng text: We consider Ising models in two and three dimensions, with short range ferromagnetic and long range, power-law decaying, antiferromagnetic interactions. We let J be the ratio between the strength of the ferromagnetic to antiferromagnetic interactions. The competition between these two kinds of interactions induces the system to form domains of minus spins in a background of plus spins, or vice versa. If the decay exponent p of the long range interaction is larger than d + 1, with d the space dimension, this happens for all values of J smaller than a critical value Jc(p), beyond which the ground state is homogeneous. In this paper, we give a characterization of the infinite volume ground states of the system, for p > 2d and J in a left neighborhood of Jc(p). In particular, we prove that the quasi-one-dimensional states consisting of infinite stripes (d = 2) or slabs (d = 3), all of the same optimal width and orientation, and alternating magnetization, are infinite volume ground states. Our proof is based on localization bounds combined with reflection positivity. acknowledgement: "Open access funding provided by Institute of Science and Technology (IST Austria). The\r\nresearch leading to these results has received funding from the European Research Council under the European\r\nUnion’s Seventh Framework Programme ERC Starting Grant CoMBoS (Grant Agreement No. 239694), from\r\nthe Italian PRIN National Grant Geometric and analytic theory of Hamiltonian systems in finite and infinite\r\ndimensions, and the Austrian Science Fund (FWF), project Nr. P 27533-N27. Part of this work was completed\r\nduring a stay at the Erwin Schrödinger Institute for Mathematical Physics in Vienna (ESI program 2015\r\n“Quantum many-body systems, random matrices, and disorder”), whose hospitality and financial support is\r\ngratefully acknowledged." author: - first_name: Alessandro full_name: Giuliani, Alessandro last_name: Giuliani - first_name: Robert full_name: Seiringer, Robert id: 4AFD0470-F248-11E8-B48F-1D18A9856A87 last_name: Seiringer orcid: 0000-0002-6781-0521 citation: ama: Giuliani A, Seiringer R. Periodic striped ground states in Ising models with competing interactions. Communications in Mathematical Physics. 2016;347(3):983-1007. doi:10.1007/s00220-016-2665-0 apa: Giuliani, A., & Seiringer, R. (2016). Periodic striped ground states in Ising models with competing interactions. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-016-2665-0 chicago: Giuliani, Alessandro, and Robert Seiringer. “Periodic Striped Ground States in Ising Models with Competing Interactions.” Communications in Mathematical Physics. Springer, 2016. https://doi.org/10.1007/s00220-016-2665-0. ieee: A. Giuliani and R. Seiringer, “Periodic striped ground states in Ising models with competing interactions,” Communications in Mathematical Physics, vol. 347, no. 3. Springer, pp. 983–1007, 2016. ista: Giuliani A, Seiringer R. 2016. Periodic striped ground states in Ising models with competing interactions. Communications in Mathematical Physics. 347(3), 983–1007. mla: Giuliani, Alessandro, and Robert Seiringer. “Periodic Striped Ground States in Ising Models with Competing Interactions.” Communications in Mathematical Physics, vol. 347, no. 3, Springer, 2016, pp. 983–1007, doi:10.1007/s00220-016-2665-0. short: A. Giuliani, R. Seiringer, Communications in Mathematical Physics 347 (2016) 983–1007. date_created: 2018-12-11T11:51:11Z date_published: 2016-11-01T00:00:00Z date_updated: 2021-01-12T06:49:40Z day: '01' ddc: - '510' - '530' department: - _id: RoSe doi: 10.1007/s00220-016-2665-0 file: - access_level: open_access checksum: 3c6e08c048fc462e312788be72874bb1 content_type: application/pdf creator: system date_created: 2018-12-12T10:09:02Z date_updated: 2020-07-14T12:44:42Z file_id: '4725' file_name: IST-2016-688-v1+1_s00220-016-2665-0.pdf file_size: 794983 relation: main_file file_date_updated: 2020-07-14T12:44:42Z has_accepted_license: '1' intvolume: ' 347' issue: '3' language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ month: '11' oa: 1 oa_version: Published Version page: 983 - 1007 project: - _id: 25C878CE-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P27533_N27 name: Structure of the Excitation Spectrum for Many-Body Quantum Systems - _id: B67AFEDC-15C9-11EA-A837-991A96BB2854 name: IST Austria Open Access Fund publication: Communications in Mathematical Physics publication_status: published publisher: Springer publist_id: '6025' pubrep_id: '688' quality_controlled: '1' scopus_import: 1 status: public title: Periodic striped ground states in Ising models with competing interactions tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 347 year: '2016' ... --- _id: '1292' abstract: - lang: eng text: We give explicit formulas and algorithms for the computation of the Thurston–Bennequin invariant of a nullhomologous Legendrian knot on a page of a contact open book and on Heegaard surfaces in convex position. Furthermore, we extend the results to rationally nullhomologous knots in arbitrary 3-manifolds. acknowledgement: "The authors are veryg rateful to Hansj ̈org Geiges \r\nfor fruitful discussions and advice and Christian Evers for helpful remarks on a draft version." author: - first_name: Sebastian full_name: Durst, Sebastian last_name: Durst - first_name: Marc full_name: Kegel, Marc last_name: Kegel - first_name: Mirko D full_name: Klukas, Mirko D id: 34927512-F248-11E8-B48F-1D18A9856A87 last_name: Klukas citation: ama: Durst S, Kegel M, Klukas MD. Computing the Thurston–Bennequin invariant in open books. Acta Mathematica Hungarica. 2016;150(2):441-455. doi:10.1007/s10474-016-0648-4 apa: Durst, S., Kegel, M., & Klukas, M. D. (2016). Computing the Thurston–Bennequin invariant in open books. Acta Mathematica Hungarica. Springer. https://doi.org/10.1007/s10474-016-0648-4 chicago: Durst, Sebastian, Marc Kegel, and Mirko D Klukas. “Computing the Thurston–Bennequin Invariant in Open Books.” Acta Mathematica Hungarica. Springer, 2016. https://doi.org/10.1007/s10474-016-0648-4. ieee: S. Durst, M. Kegel, and M. D. Klukas, “Computing the Thurston–Bennequin invariant in open books,” Acta Mathematica Hungarica, vol. 150, no. 2. Springer, pp. 441–455, 2016. ista: Durst S, Kegel M, Klukas MD. 2016. Computing the Thurston–Bennequin invariant in open books. Acta Mathematica Hungarica. 150(2), 441–455. mla: Durst, Sebastian, et al. “Computing the Thurston–Bennequin Invariant in Open Books.” Acta Mathematica Hungarica, vol. 150, no. 2, Springer, 2016, pp. 441–55, doi:10.1007/s10474-016-0648-4. short: S. Durst, M. Kegel, M.D. Klukas, Acta Mathematica Hungarica 150 (2016) 441–455. date_created: 2018-12-11T11:51:11Z date_published: 2016-12-01T00:00:00Z date_updated: 2021-01-12T06:49:40Z day: '01' department: - _id: HeEd doi: 10.1007/s10474-016-0648-4 intvolume: ' 150' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/abs/1605.00794 month: '12' oa: 1 oa_version: Preprint page: 441 - 455 publication: Acta Mathematica Hungarica publication_status: published publisher: Springer publist_id: '6023' quality_controlled: '1' scopus_import: 1 status: public title: Computing the Thurston–Bennequin invariant in open books type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 150 year: '2016' ... --- _id: '1293' abstract: - lang: eng text: For a graph G with p vertices the closed convex cone S⪰0(G) consists of all real positive semidefinite p×p matrices whose sparsity pattern is given by G, that is, those matrices with zeros in the off-diagonal entries corresponding to nonedges of G. The extremal rays of this cone and their associated ranks have applications to matrix completion problems, maximum likelihood estimation in Gaussian graphical models in statistics, and Gauss elimination for sparse matrices. While the maximum rank of an extremal ray in S⪰0(G), known as the sparsity order of G, has been characterized for different classes of graphs, we here study all possible extremal ranks of S⪰0(G). We investigate when the geometry of the (±1)-cut polytope of G yields a polyhedral characterization of the set of extremal ranks of S⪰0(G). For a graph G without K5 minors, we show that appropriately chosen normal vectors to the facets of the (±1)-cut polytope of G specify the off-diagonal entries of extremal matrices in S⪰0(G). We also prove that for appropriately chosen scalars the constant term of the linear equation of each facet-supporting hyperplane is the rank of its corresponding extremal matrix in S⪰0(G). Furthermore, we show that if G is series-parallel then this gives a complete characterization of all possible extremal ranks of S⪰0(G). Consequently, the sparsity order problem for series-parallel graphs can be solved in terms of polyhedral geometry. acknowledgement: We wish to thank Alexander Engström and Bernd Sturmfels for various valuable discussions and insights. We also thank the two anonymous referees for their thoughtful feedback on the paper. CU was partially supported by the Austrian Science Fund (FWF) Y 903-N35. author: - first_name: Liam T full_name: Solus, Liam T id: 2AADA620-F248-11E8-B48F-1D18A9856A87 last_name: Solus - first_name: Caroline full_name: Uhler, Caroline id: 49ADD78E-F248-11E8-B48F-1D18A9856A87 last_name: Uhler orcid: 0000-0002-7008-0216 - first_name: Ruriko full_name: Yoshida, Ruriko last_name: Yoshida citation: ama: Solus LT, Uhler C, Yoshida R. Extremal positive semidefinite matrices whose sparsity pattern is given by graphs without K5 minors. Linear Algebra and Its Applications. 2016;509:247-275. doi:10.1016/j.laa.2016.07.026 apa: Solus, L. T., Uhler, C., & Yoshida, R. (2016). Extremal positive semidefinite matrices whose sparsity pattern is given by graphs without K5 minors. Linear Algebra and Its Applications. Elsevier. https://doi.org/10.1016/j.laa.2016.07.026 chicago: Solus, Liam T, Caroline Uhler, and Ruriko Yoshida. “Extremal Positive Semidefinite Matrices Whose Sparsity Pattern Is given by Graphs without K5 Minors.” Linear Algebra and Its Applications. Elsevier, 2016. https://doi.org/10.1016/j.laa.2016.07.026. ieee: L. T. Solus, C. Uhler, and R. Yoshida, “Extremal positive semidefinite matrices whose sparsity pattern is given by graphs without K5 minors,” Linear Algebra and Its Applications, vol. 509. Elsevier, pp. 247–275, 2016. ista: Solus LT, Uhler C, Yoshida R. 2016. Extremal positive semidefinite matrices whose sparsity pattern is given by graphs without K5 minors. Linear Algebra and Its Applications. 509, 247–275. mla: Solus, Liam T., et al. “Extremal Positive Semidefinite Matrices Whose Sparsity Pattern Is given by Graphs without K5 Minors.” Linear Algebra and Its Applications, vol. 509, Elsevier, 2016, pp. 247–75, doi:10.1016/j.laa.2016.07.026. short: L.T. Solus, C. Uhler, R. Yoshida, Linear Algebra and Its Applications 509 (2016) 247–275. date_created: 2018-12-11T11:51:11Z date_published: 2016-11-15T00:00:00Z date_updated: 2021-01-12T06:49:40Z day: '15' department: - _id: CaUh doi: 10.1016/j.laa.2016.07.026 intvolume: ' 509' language: - iso: eng main_file_link: - open_access: '1' url: https://arxiv.org/pdf/1506.06702.pdf month: '11' oa: 1 oa_version: Preprint page: 247 - 275 project: - _id: 2530CA10-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: Y 903-N35 name: 'Gaussian Graphical Models: Theory and Applications' publication: Linear Algebra and Its Applications publication_status: published publisher: Elsevier publist_id: '6024' quality_controlled: '1' scopus_import: 1 status: public title: Extremal positive semidefinite matrices whose sparsity pattern is given by graphs without K5 minors type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 509 year: '2016' ... --- _id: '1295' abstract: - lang: eng text: Voronoi diagrams and Delaunay triangulations have been extensively used to represent and compute geometric features of point configurations. We introduce a generalization to poset diagrams and poset complexes, which contain order-k and degree-k Voronoi diagrams and their duals as special cases. Extending a result of Aurenhammer from 1990, we show how to construct poset diagrams as weighted Voronoi diagrams of average balls. acknowledgement: This work is partially supported by the Toposys project FP7-ICT-318493-STREP, and by ESF under the ACAT Research Network Programme. author: - first_name: Herbert full_name: Edelsbrunner, Herbert id: 3FB178DA-F248-11E8-B48F-1D18A9856A87 last_name: Edelsbrunner orcid: 0000-0002-9823-6833 - first_name: Mabel full_name: Iglesias Ham, Mabel id: 41B58C0C-F248-11E8-B48F-1D18A9856A87 last_name: Iglesias Ham citation: ama: 'Edelsbrunner H, Iglesias Ham M. Multiple covers with balls II: Weighted averages. Electronic Notes in Discrete Mathematics. 2016;54:169-174. doi:10.1016/j.endm.2016.09.030' apa: 'Edelsbrunner, H., & Iglesias Ham, M. (2016). Multiple covers with balls II: Weighted averages. Electronic Notes in Discrete Mathematics. Elsevier. https://doi.org/10.1016/j.endm.2016.09.030' chicago: 'Edelsbrunner, Herbert, and Mabel Iglesias Ham. “Multiple Covers with Balls II: Weighted Averages.” Electronic Notes in Discrete Mathematics. Elsevier, 2016. https://doi.org/10.1016/j.endm.2016.09.030.' ieee: 'H. Edelsbrunner and M. Iglesias Ham, “Multiple covers with balls II: Weighted averages,” Electronic Notes in Discrete Mathematics, vol. 54. Elsevier, pp. 169–174, 2016.' ista: 'Edelsbrunner H, Iglesias Ham M. 2016. Multiple covers with balls II: Weighted averages. Electronic Notes in Discrete Mathematics. 54, 169–174.' mla: 'Edelsbrunner, Herbert, and Mabel Iglesias Ham. “Multiple Covers with Balls II: Weighted Averages.” Electronic Notes in Discrete Mathematics, vol. 54, Elsevier, 2016, pp. 169–74, doi:10.1016/j.endm.2016.09.030.' short: H. Edelsbrunner, M. Iglesias Ham, Electronic Notes in Discrete Mathematics 54 (2016) 169–174. date_created: 2018-12-11T11:51:12Z date_published: 2016-10-01T00:00:00Z date_updated: 2021-01-12T06:49:41Z day: '01' department: - _id: HeEd doi: 10.1016/j.endm.2016.09.030 ec_funded: 1 intvolume: ' 54' language: - iso: eng month: '10' oa_version: None page: 169 - 174 project: - _id: 255D761E-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '318493' name: Topological Complex Systems publication: Electronic Notes in Discrete Mathematics publication_status: published publisher: Elsevier publist_id: '5976' quality_controlled: '1' scopus_import: 1 status: public title: 'Multiple covers with balls II: Weighted averages' type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 54 year: '2016' ... --- _id: '1303' abstract: - lang: eng text: In bright light, cone-photoreceptors are active and colour vision derives from a comparison of signals in cones with different visual pigments. This comparison begins in the retina, where certain retinal ganglion cells have 'colour-opponent' visual responses-excited by light of one colour and suppressed by another colour. In dim light, rod-photoreceptors are active, but colour vision is impossible because they all use the same visual pigment. Instead, the rod signals are thought to splice into retinal circuits at various points, in synergy with the cone signals. Here we report a new circuit for colour vision that challenges these expectations. A genetically identified type of mouse retinal ganglion cell called JAMB (J-RGC), was found to have colour-opponent responses, OFF to ultraviolet (UV) light and ON to green light. Although the mouse retina contains a green-sensitive cone, the ON response instead originates in rods. Rods and cones both contribute to the response over several decades of light intensity. Remarkably, the rod signal in this circuit is antagonistic to that from cones. For rodents, this UV-green channel may play a role in social communication, as suggested by spectral measurements from the environment. In the human retina, all of the components for this circuit exist as well, and its function can explain certain experiences of colour in dim lights, such as a 'blue shift' in twilight. The discovery of this genetically defined pathway will enable new targeted studies of colour processing in the brain. acknowledgement: This work was supported by grants to M.M. from the NIH and to M.J. from The International Human Frontier Science Program Organization. author: - first_name: Maximilian A full_name: Maximilian Jösch id: 2BD278E6-F248-11E8-B48F-1D18A9856A87 last_name: Jösch orcid: 0000-0002-3937-1330 - first_name: Markus full_name: Meister, Markus last_name: Meister citation: ama: Jösch MA, Meister M. A neuronal circuit for colour vision based on rod-cone opponency. Nature. 2016;532(7598):236-239. doi:10.1038/nature17158 apa: Jösch, M. A., & Meister, M. (2016). A neuronal circuit for colour vision based on rod-cone opponency. Nature. Nature Publishing Group. https://doi.org/10.1038/nature17158 chicago: Jösch, Maximilian A, and Markus Meister. “A Neuronal Circuit for Colour Vision Based on Rod-Cone Opponency.” Nature. Nature Publishing Group, 2016. https://doi.org/10.1038/nature17158. ieee: M. A. Jösch and M. Meister, “A neuronal circuit for colour vision based on rod-cone opponency,” Nature, vol. 532, no. 7598. Nature Publishing Group, pp. 236–239, 2016. ista: Jösch MA, Meister M. 2016. A neuronal circuit for colour vision based on rod-cone opponency. Nature. 532(7598), 236–239. mla: Jösch, Maximilian A., and Markus Meister. “A Neuronal Circuit for Colour Vision Based on Rod-Cone Opponency.” Nature, vol. 532, no. 7598, Nature Publishing Group, 2016, pp. 236–39, doi:10.1038/nature17158. short: M.A. Jösch, M. Meister, Nature 532 (2016) 236–239. date_created: 2018-12-11T11:51:15Z date_published: 2016-04-14T00:00:00Z date_updated: 2021-01-12T06:49:45Z day: '14' doi: 10.1038/nature17158 extern: 1 intvolume: ' 532' issue: '7598' month: '04' page: 236 - 239 publication: Nature publication_status: published publisher: Nature Publishing Group publist_id: '5966' quality_controlled: 0 status: public title: A neuronal circuit for colour vision based on rod-cone opponency type: journal_article volume: 532 year: '2016' ... --- _id: '9704' abstract: - lang: eng text: Emerging infectious diseases (EIDs) have contributed significantly to the current biodiversity crisis, leading to widespread epidemics and population loss. Owing to genetic variation in pathogen virulence, a complete understanding of species decline requires the accurate identification and characterization of EIDs. We explore this issue in the Western honeybee, where increasing mortality of populations in the Northern Hemisphere has caused major concern. Specifically, we investigate the importance of genetic identity of the main suspect in mortality, deformed wing virus (DWV), in driving honeybee loss. Using laboratory experiments and a systematic field survey, we demonstrate that an emerging DWV genotype (DWV-B) is more virulent than the established DWV genotype (DWV-A) and is widespread in the landscape. Furthermore, we show in a simple model that colonies infected with DWV-B collapse sooner than colonies infected with DWV-A. We also identify potential for rapid DWV evolution by revealing extensive genome-wide recombination in vivo. The emergence of DWV-B in naive honeybee populations, including via recombination with DWV-A, could be of significant ecological and economic importance. Our findings emphasize that knowledge of pathogen genetic identity and diversity is critical to understanding drivers of species decline. article_processing_charge: No author: - first_name: Dino full_name: Mcmahon, Dino last_name: Mcmahon - first_name: Myrsini full_name: Natsopoulou, Myrsini last_name: Natsopoulou - first_name: Vincent full_name: Doublet, Vincent last_name: Doublet - first_name: Matthias full_name: Fürst, Matthias id: 393B1196-F248-11E8-B48F-1D18A9856A87 last_name: Fürst orcid: 0000-0002-3712-925X - first_name: Silvio full_name: Weging, Silvio last_name: Weging - first_name: Mark full_name: Brown, Mark last_name: Brown - first_name: Andreas full_name: Gogol Döring, Andreas last_name: Gogol Döring - first_name: Robert full_name: Paxton, Robert last_name: Paxton citation: ama: 'Mcmahon D, Natsopoulou M, Doublet V, et al. Data from: Elevated virulence of an emerging viral genotype as a driver of honeybee loss. 2016. doi:10.5061/dryad.cq7t1' apa: 'Mcmahon, D., Natsopoulou, M., Doublet, V., Fürst, M., Weging, S., Brown, M., … Paxton, R. (2016). Data from: Elevated virulence of an emerging viral genotype as a driver of honeybee loss. Dryad. https://doi.org/10.5061/dryad.cq7t1' chicago: 'Mcmahon, Dino, Myrsini Natsopoulou, Vincent Doublet, Matthias Fürst, Silvio Weging, Mark Brown, Andreas Gogol Döring, and Robert Paxton. “Data from: Elevated Virulence of an Emerging Viral Genotype as a Driver of Honeybee Loss.” Dryad, 2016. https://doi.org/10.5061/dryad.cq7t1.' ieee: 'D. Mcmahon et al., “Data from: Elevated virulence of an emerging viral genotype as a driver of honeybee loss.” Dryad, 2016.' ista: 'Mcmahon D, Natsopoulou M, Doublet V, Fürst M, Weging S, Brown M, Gogol Döring A, Paxton R. 2016. Data from: Elevated virulence of an emerging viral genotype as a driver of honeybee loss, Dryad, 10.5061/dryad.cq7t1.' mla: 'Mcmahon, Dino, et al. Data from: Elevated Virulence of an Emerging Viral Genotype as a Driver of Honeybee Loss. Dryad, 2016, doi:10.5061/dryad.cq7t1.' short: D. Mcmahon, M. Natsopoulou, V. Doublet, M. Fürst, S. Weging, M. Brown, A. Gogol Döring, R. Paxton, (2016). date_created: 2021-07-23T08:30:38Z date_published: 2016-05-06T00:00:00Z date_updated: 2023-02-21T16:54:31Z day: '06' department: - _id: SyCr doi: 10.5061/dryad.cq7t1 main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.cq7t1 month: '05' oa: 1 oa_version: Published Version publisher: Dryad related_material: record: - id: '1262' relation: used_in_publication status: public status: public title: 'Data from: Elevated virulence of an emerging viral genotype as a driver of honeybee loss' type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9710' abstract: - lang: eng text: Much of quantitative genetics is based on the ‘infinitesimal model’, under which selection has a negligible effect on the genetic variance. This is typically justified by assuming a very large number of loci with additive effects. However, it applies even when genes interact, provided that the number of loci is large enough that selection on each of them is weak relative to random drift. In the long term, directional selection will change allele frequencies, but even then, the effects of epistasis on the ultimate change in trait mean due to selection may be modest. Stabilising selection can maintain many traits close to their optima, even when the underlying alleles are weakly selected. However, the number of traits that can be optimised is apparently limited to ~4Ne by the ‘drift load’, and this is hard to reconcile with the apparent complexity of many organisms. Just as for the mutation load, this limit can be evaded by a particular form of negative epistasis. A more robust limit is set by the variance in reproductive success. This suggests that selection accumulates information most efficiently in the infinitesimal regime, when selection on individual alleles is weak, and comparable with random drift. A review of evidence on selection strength suggests that although most variance in fitness may be because of alleles with large Nes, substantial amounts of adaptation may be because of alleles in the infinitesimal regime, in which epistasis has modest effects. article_processing_charge: No author: - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 citation: ama: 'Barton NH. Data from: How does epistasis influence the response to selection? 2016. doi:10.5061/dryad.s5s7r' apa: 'Barton, N. H. (2016). Data from: How does epistasis influence the response to selection? Dryad. https://doi.org/10.5061/dryad.s5s7r' chicago: 'Barton, Nicholas H. “Data from: How Does Epistasis Influence the Response to Selection?” Dryad, 2016. https://doi.org/10.5061/dryad.s5s7r.' ieee: 'N. H. Barton, “Data from: How does epistasis influence the response to selection?” Dryad, 2016.' ista: 'Barton NH. 2016. Data from: How does epistasis influence the response to selection?, Dryad, 10.5061/dryad.s5s7r.' mla: 'Barton, Nicholas H. Data from: How Does Epistasis Influence the Response to Selection? Dryad, 2016, doi:10.5061/dryad.s5s7r.' short: N.H. Barton, (2016). date_created: 2021-07-23T11:45:47Z date_published: 2016-09-23T00:00:00Z date_updated: 2025-05-28T11:57:03Z day: '23' department: - _id: NiBa doi: 10.5061/dryad.s5s7r main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.s5s7r month: '09' oa: 1 oa_version: Published Version publisher: Dryad related_material: record: - id: '1199' relation: used_in_publication status: public status: public title: 'Data from: How does epistasis influence the response to selection?' type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9720' abstract: - lang: eng text: 'Summary: Declining populations of bee pollinators are a cause of concern, with major repercussions for biodiversity loss and food security. RNA viruses associated with honeybees represent a potential threat to other insect pollinators, but the extent of this threat is poorly understood. This study aims to attain a detailed understanding of the current and ongoing risk of emerging infectious disease (EID) transmission between managed and wild pollinator species across a wide range of RNA viruses. Within a structured large-scale national survey across 26 independent sites, we quantify the prevalence and pathogen loads of multiple RNA viruses in co-occurring managed honeybee (Apis mellifera) and wild bumblebee (Bombus spp.) populations. We then construct models that compare virus prevalence between wild and managed pollinators. Multiple RNA viruses associated with honeybees are widespread in sympatric wild bumblebee populations. Virus prevalence in honeybees is a significant predictor of virus prevalence in bumblebees, but we remain cautious in speculating over the principle direction of pathogen transmission. We demonstrate species-specific differences in prevalence, indicating significant variation in disease susceptibility or tolerance. Pathogen loads within individual bumblebees may be high and in the case of at least one RNA virus, prevalence is higher in wild bumblebees than in managed honeybee populations. Our findings indicate widespread transmission of RNA viruses between managed and wild bee pollinators, pointing to an interconnected network of potential disease pressures within and among pollinator species. In the context of the biodiversity crisis, our study emphasizes the importance of targeting a wide range of pathogens and defining host associations when considering potential drivers of population decline.' article_processing_charge: No author: - first_name: Dino full_name: Mcmahon, Dino last_name: Mcmahon - first_name: Matthias full_name: Fürst, Matthias id: 393B1196-F248-11E8-B48F-1D18A9856A87 last_name: Fürst orcid: 0000-0002-3712-925X - first_name: Jesicca full_name: Caspar, Jesicca last_name: Caspar - first_name: Panagiotis full_name: Theodorou, Panagiotis last_name: Theodorou - first_name: Mark full_name: Brown, Mark last_name: Brown - first_name: Robert full_name: Paxton, Robert last_name: Paxton citation: ama: 'Mcmahon D, Fürst M, Caspar J, Theodorou P, Brown M, Paxton R. Data from: A sting in the spit: widespread cross-infection of multiple RNA viruses across wild and managed bees. 2016. doi:10.5061/dryad.4b565' apa: 'Mcmahon, D., Fürst, M., Caspar, J., Theodorou, P., Brown, M., & Paxton, R. (2016). Data from: A sting in the spit: widespread cross-infection of multiple RNA viruses across wild and managed bees. Dryad. https://doi.org/10.5061/dryad.4b565' chicago: 'Mcmahon, Dino, Matthias Fürst, Jesicca Caspar, Panagiotis Theodorou, Mark Brown, and Robert Paxton. “Data from: A Sting in the Spit: Widespread Cross-Infection of Multiple RNA Viruses across Wild and Managed Bees.” Dryad, 2016. https://doi.org/10.5061/dryad.4b565.' ieee: 'D. Mcmahon, M. Fürst, J. Caspar, P. Theodorou, M. Brown, and R. Paxton, “Data from: A sting in the spit: widespread cross-infection of multiple RNA viruses across wild and managed bees.” Dryad, 2016.' ista: 'Mcmahon D, Fürst M, Caspar J, Theodorou P, Brown M, Paxton R. 2016. Data from: A sting in the spit: widespread cross-infection of multiple RNA viruses across wild and managed bees, Dryad, 10.5061/dryad.4b565.' mla: 'Mcmahon, Dino, et al. Data from: A Sting in the Spit: Widespread Cross-Infection of Multiple RNA Viruses across Wild and Managed Bees. Dryad, 2016, doi:10.5061/dryad.4b565.' short: D. Mcmahon, M. Fürst, J. Caspar, P. Theodorou, M. Brown, R. Paxton, (2016). date_created: 2021-07-26T09:14:19Z date_published: 2016-01-22T00:00:00Z date_updated: 2023-02-23T10:17:25Z day: '22' department: - _id: SyCr doi: 10.5061/dryad.4b565 main_file_link: - open_access: '1' url: https://doi.org/10.5061/dryad.4b565 month: '01' oa: 1 oa_version: Published Version publisher: Dryad related_material: record: - id: '1855' relation: used_in_publication status: public status: public title: 'Data from: A sting in the spit: widespread cross-infection of multiple RNA viruses across wild and managed bees' type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '983' abstract: - lang: eng text: The half-filled Landau level is expected to be approximately particle-hole symmetric, which requires an extension of the Halperin-Lee-Read (HLR) theory of the compressible state observed at this filling. Recent work indicates that, when particle-hole symmetry is preserved, the composite fermions experience a quantized π-Berry phase upon winding around the composite Fermi surface, analogous to Dirac fermions at the surface of a 3D topological insulator. In contrast, the effective low-energy theory of the composite fermion liquid originally proposed by HLR lacks particle-hole symmetry and has vanishing Berry phase. In this paper, we explain how thermoelectric transport measurements can be used to test the Dirac nature of the composite fermions by quantitatively extracting this Berry phase. First, we point out that longitudinal thermopower (Seebeck effect) is nonvanishing because of the unusual nature of particle-hole symmetry in this context and is not sensitive to the Berry phase. In contrast, we find that off-diagonal thermopower (Nernst effect) is directly related to the topological structure of the composite Fermi surface, vanishing for zero Berry phase and taking its maximal value for π Berry phase. In contrast, in purely electrical transport signatures, the Berry phase contributions appear as small corrections to a large background signal, making the Nernst effect a promising diagnostic of the Dirac nature of composite fermions. acknowledgement: We thank B. I. Halperin, N. Cooper, C. Wang, J. Alicea, and M. Zaletel for insightful conversations. A. C. P. and M. S. were supported by the Gordon and Betty Moore Foundation’s EPiQS Initiative through Grant No. GBMF4307. A. V. was supported by a Simons Investigator grant. author: - first_name: Andrew full_name: Potter, Andrew C last_name: Potter - first_name: Maksym full_name: Maksym Serbyn id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 - first_name: Ashvin full_name: Vishwanath, Ashvin K last_name: Vishwanath citation: ama: Potter A, Serbyn M, Vishwanath A. Thermoelectric transport signatures of Dirac composite fermions in the half-filled Landau level. Physical Review X. 2016;6(3). doi:10.1103/PhysRevX.6.031026 apa: Potter, A., Serbyn, M., & Vishwanath, A. (2016). Thermoelectric transport signatures of Dirac composite fermions in the half-filled Landau level. Physical Review X. American Physical Society. https://doi.org/10.1103/PhysRevX.6.031026 chicago: Potter, Andrew, Maksym Serbyn, and Ashvin Vishwanath. “Thermoelectric Transport Signatures of Dirac Composite Fermions in the Half-Filled Landau Level.” Physical Review X. American Physical Society, 2016. https://doi.org/10.1103/PhysRevX.6.031026. ieee: A. Potter, M. Serbyn, and A. Vishwanath, “Thermoelectric transport signatures of Dirac composite fermions in the half-filled Landau level,” Physical Review X, vol. 6, no. 3. American Physical Society, 2016. ista: Potter A, Serbyn M, Vishwanath A. 2016. Thermoelectric transport signatures of Dirac composite fermions in the half-filled Landau level. Physical Review X. 6(3). mla: Potter, Andrew, et al. “Thermoelectric Transport Signatures of Dirac Composite Fermions in the Half-Filled Landau Level.” Physical Review X, vol. 6, no. 3, American Physical Society, 2016, doi:10.1103/PhysRevX.6.031026. short: A. Potter, M. Serbyn, A. Vishwanath, Physical Review X 6 (2016). date_created: 2018-12-11T11:49:32Z date_published: 2016-01-01T00:00:00Z date_updated: 2021-01-12T08:22:25Z day: '01' doi: 10.1103/PhysRevX.6.031026 extern: 1 intvolume: ' 6' issue: '3' main_file_link: - open_access: '1' url: https://arxiv.org/abs/1512.06852 month: '01' oa: 1 publication: Physical Review X publication_status: published publisher: American Physical Society publist_id: '6417' quality_controlled: 0 status: public title: Thermoelectric transport signatures of Dirac composite fermions in the half-filled Landau level type: journal_article volume: 6 year: '2016' ... --- _id: '984' abstract: - lang: eng text: The entanglement spectrum of the reduced density matrix contains information beyond the von Neumann entropy and provides unique insights into exotic orders or critical behavior of quantum systems. Here, we show that strongly disordered systems in the many-body localized phase have power-law entanglement spectra, arising from the presence of extensively many local integrals of motion. The power-law entanglement spectrum distinguishes many-body localized systems from ergodic systems, as well as from ground states of gapped integrable models or free systems in the vicinity of scale-invariant critical points. We confirm our results using large-scale exact diagonalization. In addition, we develop a matrix-product state algorithm which allows us to access the eigenstates of large systems close to the localization transition, and discuss general implications of our results for variational studies of highly excited eigenstates in many-body localized systems. acknowledgement: We thank M. Stoudenmire and C. Turner for useful discussions. M. S. was supported by Gordon and Betty Moore Foundation's EPiQS Initiative through Grant No. GBMF4307. This research was supported in part by the National Science Foundation under Grant No. NSF PHY11-25915, and by the Swiss National Science Foundation and Alfred Sloan Foundation (D. A.). This work made use of the facilities of N8 HPC Centre of Excellence, provided and funded by the N8 consortium and EPSRC (Grant No. EP/K000225/1). The Centre is coordinated by the Universities of Leeds and Manchester. author: - first_name: Maksym full_name: Maksym Serbyn id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 - first_name: Alexios full_name: Alexios Michailidis id: 36EBAD38-F248-11E8-B48F-1D18A9856A87 last_name: Michailidis - first_name: Dmitry full_name: Abanin, Dmitry A last_name: Abanin - first_name: Zlatko full_name: Papić, Zlatko last_name: Papić citation: ama: Serbyn M, Michailidis A, Abanin D, Papić Z. Power-law entanglement spectrum in many-body localized phases. Physical Review Letters. 2016;117(16). doi:10.1103/PhysRevLett.117.160601 apa: Serbyn, M., Michailidis, A., Abanin, D., & Papić, Z. (2016). Power-law entanglement spectrum in many-body localized phases. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.117.160601 chicago: Serbyn, Maksym, Alexios Michailidis, Dmitry Abanin, and Zlatko Papić. “Power-Law Entanglement Spectrum in Many-Body Localized Phases.” Physical Review Letters. American Physical Society, 2016. https://doi.org/10.1103/PhysRevLett.117.160601. ieee: M. Serbyn, A. Michailidis, D. Abanin, and Z. Papić, “Power-law entanglement spectrum in many-body localized phases,” Physical Review Letters, vol. 117, no. 16. American Physical Society, 2016. ista: Serbyn M, Michailidis A, Abanin D, Papić Z. 2016. Power-law entanglement spectrum in many-body localized phases. Physical Review Letters. 117(16). mla: Serbyn, Maksym, et al. “Power-Law Entanglement Spectrum in Many-Body Localized Phases.” Physical Review Letters, vol. 117, no. 16, American Physical Society, 2016, doi:10.1103/PhysRevLett.117.160601. short: M. Serbyn, A. Michailidis, D. Abanin, Z. Papić, Physical Review Letters 117 (2016). date_created: 2018-12-11T11:49:32Z date_published: 2016-10-16T00:00:00Z date_updated: 2021-01-12T08:22:25Z day: '16' doi: 10.1103/PhysRevLett.117.160601 extern: 1 intvolume: ' 117' issue: '16' main_file_link: - open_access: '1' url: https://arxiv.org/abs/1605.05737 month: '10' oa: 1 publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '6414' quality_controlled: 0 status: public title: Power-law entanglement spectrum in many-body localized phases type: journal_article volume: 117 year: '2016' ... --- _id: '985' abstract: - lang: eng text: We report on magnetotransport studies of dual-gated, Bernal-stacked trilayer graphene (TLG) encapsulated in boron nitride crystals. We observe a quantum Hall effect staircase which indicates a complete lifting of the 12-fold degeneracy of the zeroth Landau level. As a function of perpendicular electric field, our data exhibit a sequence of phase transitions between all integer quantum Hall states in the filling factor interval -8<ν<0. We develop a theoretical model and argue that, in contrast to monolayer and bilayer graphene, the observed Landau level splittings and quantum Hall phase transitions can be understood within a single-particle picture, but imply the presence of a charge density imbalance between the inner and outer layers of TLG, even at charge neutrality and zero transverse electric field. Our results indicate the importance of a previously unaccounted band structure parameter which, together with a more accurate estimate of the other tight-binding parameters, results in a significantly improved determination of the electronic and Landau level structure of TLG. acknowledgement: This work has been primarily supported by the National Science Foundation (DMR-1405221) for device fabrication and transport, and partly by ONR Young Investigator Award N00014-13-1-0610 for data analysis. author: - first_name: Leonardo full_name: Campos, Leonardo C last_name: Campos - first_name: Thiti full_name: Taychatanapat, Thiti last_name: Taychatanapat - first_name: Maksym full_name: Maksym Serbyn id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 - first_name: Kawin full_name: Surakitbovorn, Kawin N last_name: Surakitbovorn - first_name: Kenji full_name: Watanabe, Kenji last_name: Watanabe - first_name: Takashi full_name: Taniguchi, Takashi last_name: Taniguchi - first_name: Dmitry full_name: Abanin, Dmitry A last_name: Abanin - first_name: Pablo full_name: Jarillo-Herrero, Pablo last_name: Jarillo Herrero citation: ama: Campos L, Taychatanapat T, Serbyn M, et al. Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene. Physical Review Letters. 2016;117(6). doi:10.1103/PhysRevLett.117.066601 apa: Campos, L., Taychatanapat, T., Serbyn, M., Surakitbovorn, K., Watanabe, K., Taniguchi, T., … Jarillo Herrero, P. (2016). Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.117.066601 chicago: Campos, Leonardo, Thiti Taychatanapat, Maksym Serbyn, Kawin Surakitbovorn, Kenji Watanabe, Takashi Taniguchi, Dmitry Abanin, and Pablo Jarillo Herrero. “Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene.” Physical Review Letters. American Physical Society, 2016. https://doi.org/10.1103/PhysRevLett.117.066601. ieee: L. Campos et al., “Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene,” Physical Review Letters, vol. 117, no. 6. American Physical Society, 2016. ista: Campos L, Taychatanapat T, Serbyn M, Surakitbovorn K, Watanabe K, Taniguchi T, Abanin D, Jarillo Herrero P. 2016. Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene. Physical Review Letters. 117(6). mla: Campos, Leonardo, et al. “Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene.” Physical Review Letters, vol. 117, no. 6, American Physical Society, 2016, doi:10.1103/PhysRevLett.117.066601. short: L. Campos, T. Taychatanapat, M. Serbyn, K. Surakitbovorn, K. Watanabe, T. Taniguchi, D. Abanin, P. Jarillo Herrero, Physical Review Letters 117 (2016). date_created: 2018-12-11T11:49:33Z date_published: 2016-04-01T00:00:00Z date_updated: 2021-01-12T08:22:26Z day: '01' doi: 10.1103/PhysRevLett.117.066601 extern: 1 intvolume: ' 117' issue: '6' main_file_link: - open_access: '1' url: https://arxiv.org/abs/1607.00784 month: '04' oa: 1 publication: Physical Review Letters publication_status: published publisher: American Physical Society publist_id: '6415' quality_controlled: 0 status: public title: Landau Level Splittings, Phase Transitions, and Nonuniform Charge Distribution in Trilayer Graphene type: journal_article volume: 117 year: '2016' ... --- _id: '986' abstract: - lang: eng text: The many-body localization transition (MBLT) between ergodic and many-body localized phases in disordered interacting systems is a subject of much recent interest. The statistics of eigenenergies is known to be a powerful probe of crossovers between ergodic and integrable systems in simpler examples of quantum chaos. We consider the evolution of the spectral statistics across the MBLT, starting with mapping to a Brownian motion process that analytically relates the spectral properties to the statistics of matrix elements. We demonstrate that the flow from Wigner-Dyson to Poisson statistics is a two-stage process. First, a fractal enhancement of matrix elements upon approaching the MBLT from the delocalized side produces an effective power-law interaction between energy levels, and leads to a plasma model for level statistics. At the second stage, the gas of eigenvalues has local interactions and the level statistics belongs to a semi-Poisson universality class. We verify our findings numerically on the XXZ spin chain. We provide a microscopic understanding of the level statistics across the MBLT and discuss implications for the transition that are strong constraints on possible theories. author: - first_name: Maksym full_name: Maksym Serbyn id: 47809E7E-F248-11E8-B48F-1D18A9856A87 last_name: Serbyn orcid: 0000-0002-2399-5827 - first_name: Joel full_name: Moore, Joel E last_name: Moore citation: ama: Serbyn M, Moore J. Spectral statistics across the many-body localization transition. Physical Review B - Condensed Matter and Materials Physics. 2016;93(4). doi:10.1103/PhysRevB.93.041424 apa: Serbyn, M., & Moore, J. (2016). Spectral statistics across the many-body localization transition. Physical Review B - Condensed Matter and Materials Physics. American Physical Society. https://doi.org/10.1103/PhysRevB.93.041424 chicago: Serbyn, Maksym, and Joel Moore. “Spectral Statistics across the Many-Body Localization Transition.” Physical Review B - Condensed Matter and Materials Physics. American Physical Society, 2016. https://doi.org/10.1103/PhysRevB.93.041424. ieee: M. Serbyn and J. Moore, “Spectral statistics across the many-body localization transition,” Physical Review B - Condensed Matter and Materials Physics, vol. 93, no. 4. American Physical Society, 2016. ista: Serbyn M, Moore J. 2016. Spectral statistics across the many-body localization transition. Physical Review B - Condensed Matter and Materials Physics. 93(4). mla: Serbyn, Maksym, and Joel Moore. “Spectral Statistics across the Many-Body Localization Transition.” Physical Review B - Condensed Matter and Materials Physics, vol. 93, no. 4, American Physical Society, 2016, doi:10.1103/PhysRevB.93.041424. short: M. Serbyn, J. Moore, Physical Review B - Condensed Matter and Materials Physics 93 (2016). date_created: 2018-12-11T11:49:33Z date_published: 2016-01-29T00:00:00Z date_updated: 2021-01-12T08:22:26Z day: '29' doi: 10.1103/PhysRevB.93.041424 extern: 1 intvolume: ' 93' issue: '4' main_file_link: - open_access: '1' url: https://arxiv.org/abs/1508.07293 month: '01' oa: 1 publication: Physical Review B - Condensed Matter and Materials Physics publication_status: published publisher: American Physical Society publist_id: '6416' quality_controlled: 0 status: public title: Spectral statistics across the many-body localization transition type: journal_article volume: 93 year: '2016' ... --- _id: '9862' article_processing_charge: No author: - first_name: Camille full_name: Roux, Camille last_name: Roux - first_name: Christelle full_name: Fraisse, Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 - first_name: Jonathan full_name: Romiguier, Jonathan last_name: Romiguier - first_name: Youann full_name: Anciaux, Youann last_name: Anciaux - first_name: Nicolas full_name: Galtier, Nicolas last_name: Galtier - first_name: Nicolas full_name: Bierne, Nicolas last_name: Bierne citation: ama: Roux C, Fraisse C, Romiguier J, Anciaux Y, Galtier N, Bierne N. Simulation study to test the robustness of ABC in face of recent times of divergence. 2016. doi:10.1371/journal.pbio.2000234.s016 apa: Roux, C., Fraisse, C., Romiguier, J., Anciaux, Y., Galtier, N., & Bierne, N. (2016). Simulation study to test the robustness of ABC in face of recent times of divergence. Public Library of Science. https://doi.org/10.1371/journal.pbio.2000234.s016 chicago: Roux, Camille, Christelle Fraisse, Jonathan Romiguier, Youann Anciaux, Nicolas Galtier, and Nicolas Bierne. “Simulation Study to Test the Robustness of ABC in Face of Recent Times of Divergence.” Public Library of Science, 2016. https://doi.org/10.1371/journal.pbio.2000234.s016. ieee: C. Roux, C. Fraisse, J. Romiguier, Y. Anciaux, N. Galtier, and N. Bierne, “Simulation study to test the robustness of ABC in face of recent times of divergence.” Public Library of Science, 2016. ista: Roux C, Fraisse C, Romiguier J, Anciaux Y, Galtier N, Bierne N. 2016. Simulation study to test the robustness of ABC in face of recent times of divergence, Public Library of Science, 10.1371/journal.pbio.2000234.s016. mla: Roux, Camille, et al. Simulation Study to Test the Robustness of ABC in Face of Recent Times of Divergence. Public Library of Science, 2016, doi:10.1371/journal.pbio.2000234.s016. short: C. Roux, C. Fraisse, J. Romiguier, Y. Anciaux, N. Galtier, N. Bierne, (2016). date_created: 2021-08-10T08:20:17Z date_updated: 2023-02-21T16:21:20Z day: '27' department: - _id: BeVi - _id: NiBa doi: 10.1371/journal.pbio.2000234.s016 month: '12' oa_version: Published Version publisher: Public Library of Science related_material: record: - id: '1158' relation: used_in_publication status: public status: public title: Simulation study to test the robustness of ABC in face of recent times of divergence type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9863' article_processing_charge: No author: - first_name: Camille full_name: Roux, Camille last_name: Roux - first_name: Christelle full_name: Fraisse, Christelle id: 32DF5794-F248-11E8-B48F-1D18A9856A87 last_name: Fraisse orcid: 0000-0001-8441-5075 - first_name: Jonathan full_name: Romiguier, Jonathan last_name: Romiguier - first_name: Youann full_name: Anciaux, Youann last_name: Anciaux - first_name: Nicolas full_name: Galtier, Nicolas last_name: Galtier - first_name: Nicolas full_name: Bierne, Nicolas last_name: Bierne citation: ama: Roux C, Fraisse C, Romiguier J, Anciaux Y, Galtier N, Bierne N. Accessions of surveyed individuals, geographic locations and summary statistics. 2016. doi:10.1371/journal.pbio.2000234.s017 apa: Roux, C., Fraisse, C., Romiguier, J., Anciaux, Y., Galtier, N., & Bierne, N. (2016). Accessions of surveyed individuals, geographic locations and summary statistics. Public Library of Science. https://doi.org/10.1371/journal.pbio.2000234.s017 chicago: Roux, Camille, Christelle Fraisse, Jonathan Romiguier, Youann Anciaux, Nicolas Galtier, and Nicolas Bierne. “Accessions of Surveyed Individuals, Geographic Locations and Summary Statistics.” Public Library of Science, 2016. https://doi.org/10.1371/journal.pbio.2000234.s017. ieee: C. Roux, C. Fraisse, J. Romiguier, Y. Anciaux, N. Galtier, and N. Bierne, “Accessions of surveyed individuals, geographic locations and summary statistics.” Public Library of Science, 2016. ista: Roux C, Fraisse C, Romiguier J, Anciaux Y, Galtier N, Bierne N. 2016. Accessions of surveyed individuals, geographic locations and summary statistics, Public Library of Science, 10.1371/journal.pbio.2000234.s017. mla: Roux, Camille, et al. Accessions of Surveyed Individuals, Geographic Locations and Summary Statistics. Public Library of Science, 2016, doi:10.1371/journal.pbio.2000234.s017. short: C. Roux, C. Fraisse, J. Romiguier, Y. Anciaux, N. Galtier, N. Bierne, (2016). date_created: 2021-08-10T08:22:52Z date_updated: 2023-02-21T16:21:20Z day: '27' department: - _id: BeVi - _id: NiBa doi: 10.1371/journal.pbio.2000234.s017 month: '12' oa_version: Published Version publisher: Public Library of Science related_material: record: - id: '1158' relation: used_in_publication status: public status: public title: Accessions of surveyed individuals, geographic locations and summary statistics type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9864' abstract: - lang: eng text: Viral capsids are structurally constrained by interactions among the amino acids (AAs) of their constituent proteins. Therefore, epistasis is expected to evolve among physically interacting sites and to influence the rates of substitution. To study the evolution of epistasis, we focused on the major structural protein of the ϕX174 phage family by, first, reconstructing the ancestral protein sequences of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each ancestral haplotype and the extant species, we estimated, in silico, the distribution of free energies and epistasis of the capsid structure. We found that free energy has not significantly increased but epistasis has. We decomposed epistasis up to fifth order and found that higher-order epistasis sometimes compensates pairwise interactions making the free energy seem additive. The dN/dS ratio is low, suggesting strong purifying selection, and that structure is under stabilizing selection. We synthesized phages carrying ancestral haplotypes of the coat protein gene and measured their fitness experimentally. Our findings indicate that stabilizing mutations can have higher fitness, and that fitness optima do not necessarily coincide with energy minima. article_processing_charge: No author: - first_name: Rodrigo A full_name: Fernandes Redondo, Rodrigo A id: 409D5C96-F248-11E8-B48F-1D18A9856A87 last_name: Fernandes Redondo orcid: 0000-0002-5837-2793 - first_name: Harold full_name: de Vladar, Harold id: 2A181218-F248-11E8-B48F-1D18A9856A87 last_name: de Vladar orcid: 0000-0002-5985-7653 - first_name: Tomasz full_name: Włodarski, Tomasz last_name: Włodarski - first_name: Jonathan P full_name: Bollback, Jonathan P id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87 last_name: Bollback orcid: 0000-0002-4624-4612 citation: ama: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. 2016. doi:10.6084/m9.figshare.4315652.v1 apa: Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., & Bollback, J. P. (2016). Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family. The Royal Society. https://doi.org/10.6084/m9.figshare.4315652.v1 chicago: Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan P Bollback. “Data from Evolutionary Interplay between Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.” The Royal Society, 2016. https://doi.org/10.6084/m9.figshare.4315652.v1. ieee: R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family.” The Royal Society, 2016. ista: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2016. Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family, The Royal Society, 10.6084/m9.figshare.4315652.v1. mla: Fernandes Redondo, Rodrigo A., et al. Data from Evolutionary Interplay between Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family. The Royal Society, 2016, doi:10.6084/m9.figshare.4315652.v1. short: R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, (2016). date_created: 2021-08-10T08:29:47Z date_published: 2016-12-14T00:00:00Z date_updated: 2025-05-28T11:57:06Z day: '14' department: - _id: NiBa - _id: JoBo doi: 10.6084/m9.figshare.4315652.v1 main_file_link: - open_access: '1' url: https://doi.org/10.6084/m9.figshare.4315652.v1 month: '12' oa: 1 oa_version: Published Version publisher: The Royal Society related_material: record: - id: '1077' relation: used_in_publication status: public status: public title: Data from evolutionary interplay between structure, energy and epistasis in the coat protein of the ϕX174 phage family type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9866' article_processing_charge: No author: - first_name: Marcin P full_name: Zagórski, Marcin P id: 343DA0DC-F248-11E8-B48F-1D18A9856A87 last_name: Zagórski orcid: 0000-0001-7896-7762 - first_name: Zdzisław full_name: Burda, Zdzisław last_name: Burda - first_name: Bartłomiej full_name: Wacław, Bartłomiej last_name: Wacław citation: ama: Zagórski MP, Burda Z, Wacław B. ZIP-archived directory containing all data and computer programs. 2016. doi:10.1371/journal.pcbi.1005218.s009 apa: Zagórski, M. P., Burda, Z., & Wacław, B. (2016). ZIP-archived directory containing all data and computer programs. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1005218.s009 chicago: Zagórski, Marcin P, Zdzisław Burda, and Bartłomiej Wacław. “ZIP-Archived Directory Containing All Data and Computer Programs.” Public Library of Science, 2016. https://doi.org/10.1371/journal.pcbi.1005218.s009. ieee: M. P. Zagórski, Z. Burda, and B. Wacław, “ZIP-archived directory containing all data and computer programs.” Public Library of Science, 2016. ista: Zagórski MP, Burda Z, Wacław B. 2016. ZIP-archived directory containing all data and computer programs, Public Library of Science, 10.1371/journal.pcbi.1005218.s009. mla: Zagórski, Marcin P., et al. ZIP-Archived Directory Containing All Data and Computer Programs. Public Library of Science, 2016, doi:10.1371/journal.pcbi.1005218.s009. short: M.P. Zagórski, Z. Burda, B. Wacław, (2016). date_created: 2021-08-10T08:37:20Z date_published: 2016-12-09T00:00:00Z date_updated: 2023-02-21T16:24:29Z day: '09' department: - _id: AnKi doi: 10.1371/journal.pcbi.1005218.s009 month: '12' oa_version: Published Version publisher: Public Library of Science related_material: record: - id: '1167' relation: used_in_publication status: public status: public title: ZIP-archived directory containing all data and computer programs type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9867' abstract: - lang: eng text: In the beginning of our experiment, subjects were asked to read a few pages on their computer screens that would explain the rules of the subsequent game. Here, we provide these instructions, translated from German. article_processing_charge: No author: - first_name: Christian full_name: Hilbe, Christian id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87 last_name: Hilbe orcid: 0000-0001-5116-955X - first_name: Kristin full_name: Hagel, Kristin last_name: Hagel - first_name: Manfred full_name: Milinski, Manfred last_name: Milinski citation: ama: Hilbe C, Hagel K, Milinski M. Experimental game instructions. 2016. doi:10.1371/journal.pone.0163867.s008 apa: Hilbe, C., Hagel, K., & Milinski, M. (2016). Experimental game instructions. Public Library of Science. https://doi.org/10.1371/journal.pone.0163867.s008 chicago: Hilbe, Christian, Kristin Hagel, and Manfred Milinski. “Experimental Game Instructions.” Public Library of Science, 2016. https://doi.org/10.1371/journal.pone.0163867.s008. ieee: C. Hilbe, K. Hagel, and M. Milinski, “Experimental game instructions.” Public Library of Science, 2016. ista: Hilbe C, Hagel K, Milinski M. 2016. Experimental game instructions, Public Library of Science, 10.1371/journal.pone.0163867.s008. mla: Hilbe, Christian, et al. Experimental Game Instructions. Public Library of Science, 2016, doi:10.1371/journal.pone.0163867.s008. short: C. Hilbe, K. Hagel, M. Milinski, (2016). date_created: 2021-08-10T08:42:00Z date_updated: 2023-02-21T16:59:01Z day: '04' department: - _id: KrCh doi: 10.1371/journal.pone.0163867.s008 month: '10' oa_version: Published Version publisher: Public Library of Science related_material: record: - id: '1322' relation: used_in_publication status: public status: public title: Experimental game instructions type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9868' abstract: - lang: eng text: The raw data file containing the experimental decisions of all our study subjects. article_processing_charge: No author: - first_name: Christian full_name: Hilbe, Christian id: 2FDF8F3C-F248-11E8-B48F-1D18A9856A87 last_name: Hilbe orcid: 0000-0001-5116-955X - first_name: Kristin full_name: Hagel, Kristin last_name: Hagel - first_name: Manfred full_name: Milinski, Manfred last_name: Milinski citation: ama: Hilbe C, Hagel K, Milinski M. Experimental data. 2016. doi:10.1371/journal.pone.0163867.s009 apa: Hilbe, C., Hagel, K., & Milinski, M. (2016). Experimental data. Public Library of Science. https://doi.org/10.1371/journal.pone.0163867.s009 chicago: Hilbe, Christian, Kristin Hagel, and Manfred Milinski. “Experimental Data.” Public Library of Science, 2016. https://doi.org/10.1371/journal.pone.0163867.s009. ieee: C. Hilbe, K. Hagel, and M. Milinski, “Experimental data.” Public Library of Science, 2016. ista: Hilbe C, Hagel K, Milinski M. 2016. Experimental data, Public Library of Science, 10.1371/journal.pone.0163867.s009. mla: Hilbe, Christian, et al. Experimental Data. Public Library of Science, 2016, doi:10.1371/journal.pone.0163867.s009. short: C. Hilbe, K. Hagel, M. Milinski, (2016). date_created: 2021-08-10T08:45:00Z date_published: 2016-10-04T00:00:00Z date_updated: 2023-02-21T16:59:01Z day: '04' department: - _id: KrCh doi: 10.1371/journal.pone.0163867.s009 month: '10' oa_version: Published Version publisher: Public Library of Science related_material: record: - id: '1322' relation: used_in_publication status: public status: public title: Experimental data type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ... --- _id: '9869' abstract: - lang: eng text: A lower bound on the error of a positional estimator with limited positional information is derived. article_processing_charge: No author: - first_name: Patrick full_name: Hillenbrand, Patrick last_name: Hillenbrand - first_name: Ulrich full_name: Gerland, Ulrich last_name: Gerland - first_name: Gašper full_name: Tkačik, Gašper id: 3D494DCA-F248-11E8-B48F-1D18A9856A87 last_name: Tkačik orcid: 0000-0002-6699-1455 citation: ama: Hillenbrand P, Gerland U, Tkačik G. Error bound on an estimator of position. 2016. doi:10.1371/journal.pone.0163628.s001 apa: Hillenbrand, P., Gerland, U., & Tkačik, G. (2016). Error bound on an estimator of position. Public Library of Science. https://doi.org/10.1371/journal.pone.0163628.s001 chicago: Hillenbrand, Patrick, Ulrich Gerland, and Gašper Tkačik. “Error Bound on an Estimator of Position.” Public Library of Science, 2016. https://doi.org/10.1371/journal.pone.0163628.s001. ieee: P. Hillenbrand, U. Gerland, and G. Tkačik, “Error bound on an estimator of position.” Public Library of Science, 2016. ista: Hillenbrand P, Gerland U, Tkačik G. 2016. Error bound on an estimator of position, Public Library of Science, 10.1371/journal.pone.0163628.s001. mla: Hillenbrand, Patrick, et al. Error Bound on an Estimator of Position. Public Library of Science, 2016, doi:10.1371/journal.pone.0163628.s001. short: P. Hillenbrand, U. Gerland, G. Tkačik, (2016). date_created: 2021-08-10T08:53:48Z date_published: 2016-09-27T00:00:00Z date_updated: 2023-02-21T16:56:40Z day: '27' department: - _id: GaTk doi: 10.1371/journal.pone.0163628.s001 month: '09' oa_version: Published Version publisher: Public Library of Science related_material: record: - id: '1270' relation: used_in_publication status: public status: public title: Error bound on an estimator of position type: research_data_reference user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf year: '2016' ...