--- _id: '2469' abstract: - lang: eng text: Cadherins are transmembrane proteins that mediate cell–cell adhesion in animals. By regulating contact formation and stability, cadherins play a crucial role in tissue morphogenesis and homeostasis. Here, we review the three major unctions of cadherins in cell–cell contact formation and stability. Two of those functions lead to a decrease in interfacial ension at the forming cell–cell contact, thereby promoting contact expansion — first, by providing adhesion tension that lowers interfacial tension at the cell–cell contact, and second, by signaling to the actomyosin cytoskeleton in order to reduce cortex tension and thus interfacial tension at the contact. The third function of cadherins in cell–cell contact formation is to stabilize the contact by resisting mechanical forces that pull on the contact. author: - first_name: Jean-Léon full_name: Maître, Jean-Léon id: 48F1E0D8-F248-11E8-B48F-1D18A9856A87 last_name: Maître orcid: 0000-0002-3688-1474 - first_name: Carl-Philipp J full_name: Heisenberg, Carl-Philipp J id: 39427864-F248-11E8-B48F-1D18A9856A87 last_name: Heisenberg orcid: 0000-0002-0912-4566 citation: ama: Maître J-L, Heisenberg C-PJ. Three functions of cadherins in cell adhesion. Current Biology. 2013;23(14):R626-R633. doi:10.1016/j.cub.2013.06.019 apa: Maître, J.-L., & Heisenberg, C.-P. J. (2013). Three functions of cadherins in cell adhesion. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2013.06.019 chicago: Maître, Jean-Léon, and Carl-Philipp J Heisenberg. “Three Functions of Cadherins in Cell Adhesion.” Current Biology. Cell Press, 2013. https://doi.org/10.1016/j.cub.2013.06.019. ieee: J.-L. Maître and C.-P. J. Heisenberg, “Three functions of cadherins in cell adhesion,” Current Biology, vol. 23, no. 14. Cell Press, pp. R626–R633, 2013. ista: Maître J-L, Heisenberg C-PJ. 2013. Three functions of cadherins in cell adhesion. Current Biology. 23(14), R626–R633. mla: Maître, Jean-Léon, and Carl-Philipp J. Heisenberg. “Three Functions of Cadherins in Cell Adhesion.” Current Biology, vol. 23, no. 14, Cell Press, 2013, pp. R626–33, doi:10.1016/j.cub.2013.06.019. short: J.-L. Maître, C.-P.J. Heisenberg, Current Biology 23 (2013) R626–R633. date_created: 2018-12-11T11:57:51Z date_published: 2013-07-22T00:00:00Z date_updated: 2021-01-12T06:57:40Z day: '22' ddc: - '570' department: - _id: CaHe doi: 10.1016/j.cub.2013.06.019 external_id: pmid: - '23885883' file: - access_level: open_access checksum: 6a424b2f007b41d4955a9135793b2162 content_type: application/pdf creator: dernst date_created: 2019-01-24T15:40:22Z date_updated: 2020-07-14T12:45:41Z file_id: '5881' file_name: 2013_CurrentBiology_Maitre.pdf file_size: 247320 relation: main_file file_date_updated: 2020-07-14T12:45:41Z has_accepted_license: '1' intvolume: ' 23' issue: '14' language: - iso: eng month: '07' oa: 1 oa_version: Published Version page: R626 - R633 pmid: 1 publication: Current Biology publication_status: published publisher: Cell Press publist_id: '4433' quality_controlled: '1' scopus_import: 1 status: public title: Three functions of cadherins in cell adhesion 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: 23 year: '2013' ... --- _id: '247' abstract: - lang: eng text: An improved estimate is provided for the number of Fq-rational points on a geometrically irreducible, projective, cubic hypersurface that is not equal to a cone. acknowledgement: "EP/E053262/1\tEngineering and Physical Sciences Research Council" author: - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: Browning TD. The Lang-Weil estimate for cubic hypersurfaces. Canadian Mathematical Bulletin. 2013;56(3):500-502. doi:10.4153/CMB-2011-177-4 apa: Browning, T. D. (2013). The Lang-Weil estimate for cubic hypersurfaces. Canadian Mathematical Bulletin. Unknown. https://doi.org/10.4153/CMB-2011-177-4 chicago: Browning, Timothy D. “The Lang-Weil Estimate for Cubic Hypersurfaces.” Canadian Mathematical Bulletin. Unknown, 2013. https://doi.org/10.4153/CMB-2011-177-4. ieee: T. D. Browning, “The Lang-Weil estimate for cubic hypersurfaces,” Canadian Mathematical Bulletin, vol. 56, no. 3. Unknown, pp. 500–502, 2013. ista: Browning TD. 2013. The Lang-Weil estimate for cubic hypersurfaces. Canadian Mathematical Bulletin. 56(3), 500–502. mla: Browning, Timothy D. “The Lang-Weil Estimate for Cubic Hypersurfaces.” Canadian Mathematical Bulletin, vol. 56, no. 3, Unknown, 2013, pp. 500–02, doi:10.4153/CMB-2011-177-4. short: T.D. Browning, Canadian Mathematical Bulletin 56 (2013) 500–502. date_created: 2018-12-11T11:45:25Z date_published: 2013-08-31T00:00:00Z date_updated: 2021-01-12T06:57:40Z day: '31' doi: 10.4153/CMB-2011-177-4 extern: 1 intvolume: ' 56' issue: '3' month: '08' page: 500 - 502 publication: Canadian Mathematical Bulletin publication_status: published publisher: Unknown publist_id: '7657' quality_controlled: 0 status: public title: The Lang-Weil estimate for cubic hypersurfaces type: journal_article volume: 56 year: '2013' ... --- _id: '2473' abstract: - lang: eng text: 'When a mutation with selective advantage s spreads through a panmictic population, it may cause two lineages at a linked locus to coalesce; the probability of coalescence is exp(−2rT), where T∼log(2Ns)/s is the time to fixation, N is the number of haploid individuals, and r is the recombination rate. Population structure delays fixation, and so weakens the effect of a selective sweep. However, favourable alleles spread through a spatially continuous population behind a narrow wavefront; ancestral lineages are confined at the tip of this front, and so coalesce rapidly. In extremely dense populations, coalescence is dominated by rare fluctuations ahead of the front. However, we show that for moderate densities, a simple quasi-deterministic approximation applies: the rate of coalescence within the front is λ∼2g(η)/(ρℓ), where ρ is the population density and is the characteristic scale of the wavefront; g(η) depends only on the strength of random drift, . The net effect of a sweep on coalescence also depends crucially on whether two lineages are ever both within the wavefront at the same time: even in the extreme case when coalescence within the front is instantaneous, the net rate of coalescence may be lower than in a single panmictic population. Sweeps can also have a substantial impact on the rate of gene flow. A single lineage will jump to a new location when it is hit by a sweep, with mean square displacement ; this can be substantial if the species’ range, L, is large, even if the species-wide rate of sweeps per map length, Λ/R, is small. This effect is half as strong in two dimensions. In contrast, the rate of coalescence between lineages, at random locations in space and on the genetic map, is proportional to (c/L)(Λ/R), where c is the wavespeed: thus, on average, one-dimensional structure is likely to reduce coalescence due to sweeps, relative to panmixis. In two dimensions, genes must move along the front before they can coalesce; this process is rapid, being dominated by rare fluctuations. This leads to a dramatically higher rate of coalescence within the wavefront than if lineages simply diffused along the front. Nevertheless, the net rate of coalescence due to a sweep through a two-dimensional population is likely to be lower than it would be with panmixis.' author: - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 - first_name: Alison full_name: Etheridge, Alison last_name: Etheridge - first_name: Jerome full_name: Kelleher, Jerome last_name: Kelleher - first_name: Amandine full_name: Véber, Amandine last_name: Véber citation: ama: Barton NH, Etheridge A, Kelleher J, Véber A. Genetic hitch-hiking in spatially extended populations. Theoretical Population Biology. 2013;87(8):75-89. doi:10.1016/j.tpb.2012.12.001 apa: Barton, N. H., Etheridge, A., Kelleher, J., & Véber, A. (2013). Genetic hitch-hiking in spatially extended populations. Theoretical Population Biology. Elsevier. https://doi.org/10.1016/j.tpb.2012.12.001 chicago: Barton, Nicholas H, Alison Etheridge, Jerome Kelleher, and Amandine Véber. “Genetic Hitch-Hiking in Spatially Extended Populations.” Theoretical Population Biology. Elsevier, 2013. https://doi.org/10.1016/j.tpb.2012.12.001. ieee: N. H. Barton, A. Etheridge, J. Kelleher, and A. Véber, “Genetic hitch-hiking in spatially extended populations,” Theoretical Population Biology, vol. 87, no. 8. Elsevier, pp. 75–89, 2013. ista: Barton NH, Etheridge A, Kelleher J, Véber A. 2013. Genetic hitch-hiking in spatially extended populations. Theoretical Population Biology. 87(8), 75–89. mla: Barton, Nicholas H., et al. “Genetic Hitch-Hiking in Spatially Extended Populations.” Theoretical Population Biology, vol. 87, no. 8, Elsevier, 2013, pp. 75–89, doi:10.1016/j.tpb.2012.12.001. short: N.H. Barton, A. Etheridge, J. Kelleher, A. Véber, Theoretical Population Biology 87 (2013) 75–89. date_created: 2018-12-11T11:57:52Z date_published: 2013-01-03T00:00:00Z date_updated: 2021-01-12T06:57:42Z day: '03' ddc: - '570' department: - _id: NiBa doi: 10.1016/j.tpb.2012.12.001 ec_funded: 1 file: - access_level: open_access checksum: 4274ec1f433b838a7d5b941cc9684ca7 content_type: application/pdf creator: system date_created: 2018-12-12T10:18:54Z date_updated: 2020-07-14T12:45:41Z file_id: '5376' file_name: IST-2013-118-v1+1_bartonetalRevision.pdf file_size: 1706282 relation: main_file file_date_updated: 2020-07-14T12:45:41Z has_accepted_license: '1' intvolume: ' 87' issue: '8' language: - iso: eng month: '01' oa: 1 oa_version: Submitted Version page: 75 - 89 project: - _id: 25B07788-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '250152' name: Limits to selection in biology and in evolutionary computation publication: Theoretical Population Biology publication_status: published publisher: Elsevier publist_id: '4428' pubrep_id: '118' quality_controlled: '1' scopus_import: 1 status: public title: Genetic hitch-hiking in spatially extended populations type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 87 year: '2013' ... --- _id: '2478' abstract: - lang: eng text: Despite the pivotal functions of the NMDA receptor (NMDAR) for neural circuit development and synaptic plasticity, the molecular mechanisms underlying the dynamics of NMDAR trafficking are poorly understood. The cell adhesion molecule neuroligin-1 (NL1) modifies NMDAR-dependent synaptic transmission and synaptic plasticity, but it is unclear whether NL1 controls synaptic accumulation or function of the receptors. Here, we provide evidence that NL1 regulates the abundance of NMDARs at postsynaptic sites. This function relies on extracellular, NL1 isoform-specific sequences that facilitate biochemical interactions between NL1 and the NMDAR GluN1 subunit. Our work uncovers NL1 isoform-specific cisinteractions with ionotropic glutamate receptors as a key mechanism for controlling synaptic properties. author: - first_name: Elaine full_name: Budreck, Elaine C last_name: Budreck - first_name: Oh full_name: Kwon, Oh-Bin last_name: Kwon - first_name: Jung full_name: Jung, Jung-Hoon last_name: Jung - first_name: Stéphane full_name: Baudouin, Stéphane J last_name: Baudouin - first_name: Albert full_name: Thommen, Albert last_name: Thommen - first_name: Hye full_name: Kim, Hye-Sun last_name: Kim - first_name: Yugo full_name: Fukazawa, Yugo last_name: Fukazawa - first_name: Harumi full_name: Harumi Harada id: 2E55CDF2-F248-11E8-B48F-1D18A9856A87 last_name: Harada orcid: 0000-0001-7429-7896 - first_name: Katsuhiko full_name: Tabuchi, Katsuhiko last_name: Tabuchi - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Peter full_name: Scheiffele, Peter last_name: Scheiffele - first_name: Joung full_name: Kim, Joung-Hun last_name: Kim citation: ama: Budreck E, Kwon O, Jung J, et al. Neuroligin-1 controls synaptic abundance of NMDA-type glutamate receptors through extracellular coupling. PNAS. 2013;110(2):725-730. doi:10.1073/pnas.1214718110 apa: Budreck, E., Kwon, O., Jung, J., Baudouin, S., Thommen, A., Kim, H., … Kim, J. (2013). Neuroligin-1 controls synaptic abundance of NMDA-type glutamate receptors through extracellular coupling. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1214718110 chicago: Budreck, Elaine, Oh Kwon, Jung Jung, Stéphane Baudouin, Albert Thommen, Hye Kim, Yugo Fukazawa, et al. “Neuroligin-1 Controls Synaptic Abundance of NMDA-Type Glutamate Receptors through Extracellular Coupling.” PNAS. National Academy of Sciences, 2013. https://doi.org/10.1073/pnas.1214718110. ieee: E. Budreck et al., “Neuroligin-1 controls synaptic abundance of NMDA-type glutamate receptors through extracellular coupling,” PNAS, vol. 110, no. 2. National Academy of Sciences, pp. 725–730, 2013. ista: Budreck E, Kwon O, Jung J, Baudouin S, Thommen A, Kim H, Fukazawa Y, Harada H, Tabuchi K, Shigemoto R, Scheiffele P, Kim J. 2013. Neuroligin-1 controls synaptic abundance of NMDA-type glutamate receptors through extracellular coupling. PNAS. 110(2), 725–730. mla: Budreck, Elaine, et al. “Neuroligin-1 Controls Synaptic Abundance of NMDA-Type Glutamate Receptors through Extracellular Coupling.” PNAS, vol. 110, no. 2, National Academy of Sciences, 2013, pp. 725–30, doi:10.1073/pnas.1214718110. short: E. Budreck, O. Kwon, J. Jung, S. Baudouin, A. Thommen, H. Kim, Y. Fukazawa, H. Harada, K. Tabuchi, R. Shigemoto, P. Scheiffele, J. Kim, PNAS 110 (2013) 725–730. date_created: 2018-12-11T11:57:54Z date_published: 2013-01-08T00:00:00Z date_updated: 2021-01-12T06:57:43Z day: '08' doi: 10.1073/pnas.1214718110 extern: 1 intvolume: ' 110' issue: '2' month: '01' page: 725 - 730 publication: PNAS publication_status: published publisher: National Academy of Sciences publist_id: '4423' quality_controlled: 0 status: public title: Neuroligin-1 controls synaptic abundance of NMDA-type glutamate receptors through extracellular coupling type: journal_article volume: 110 year: '2013' ... --- _id: '250' abstract: - lang: eng text: Châtelet surfaces provide a rich source of geometrically rational surfaces that do not always satisfy the Hasse principle. Restricting attention to a special class of Châtelet surfaces, we investigate the frequency that such counter-examples arise over the rational numbers. acknowledgement: While working on this paper, the first author was supported by an IUF Junior and ANR while the second author was supported by ERC grant 306457. author: - first_name: Régis full_name: de la Bretèche, Régis last_name: De La Bretèche - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: De La Bretèche R, Browning TD. Density of Châtelet surfaces failing the Hasse principle. Proceedings of the London Mathematical Society. 2013;108(4):1030-1078. doi:10.1112/plms/pdt060 apa: De La Bretèche, R., & Browning, T. D. (2013). Density of Châtelet surfaces failing the Hasse principle. Proceedings of the London Mathematical Society. Oxford University Press. https://doi.org/10.1112/plms/pdt060 chicago: De La Bretèche, Régis, and Timothy D Browning. “Density of Châtelet Surfaces Failing the Hasse Principle.” Proceedings of the London Mathematical Society. Oxford University Press, 2013. https://doi.org/10.1112/plms/pdt060. ieee: R. De La Bretèche and T. D. Browning, “Density of Châtelet surfaces failing the Hasse principle,” Proceedings of the London Mathematical Society, vol. 108, no. 4. Oxford University Press, pp. 1030–1078, 2013. ista: De La Bretèche R, Browning TD. 2013. Density of Châtelet surfaces failing the Hasse principle. Proceedings of the London Mathematical Society. 108(4), 1030–1078. mla: De La Bretèche, Régis, and Timothy D. Browning. “Density of Châtelet Surfaces Failing the Hasse Principle.” Proceedings of the London Mathematical Society, vol. 108, no. 4, Oxford University Press, 2013, pp. 1030–78, doi:10.1112/plms/pdt060. short: R. De La Bretèche, T.D. Browning, Proceedings of the London Mathematical Society 108 (2013) 1030–1078. date_created: 2018-12-11T11:45:26Z date_published: 2013-11-29T00:00:00Z date_updated: 2021-01-12T06:57:51Z day: '29' doi: 10.1112/plms/pdt060 extern: 1 intvolume: ' 108' issue: '4' main_file_link: - open_access: '1' url: https://arxiv.org/abs/1210.4010 month: '11' oa: 1 page: 1030 - 1078 publication: Proceedings of the London Mathematical Society publication_status: published publisher: Oxford University Press publist_id: '7652' quality_controlled: 0 status: public title: Density of Châtelet surfaces failing the Hasse principle type: journal_article volume: 108 year: '2013' ... --- _id: '251' abstract: - lang: eng text: We study the density of varieties in a certain family which do not satisfy the Hasse principle. This work relies on results recently obtained by Colliot-Thélène [3]. author: - first_name: Régis full_name: de la Bretèche, Régis last_name: De La Bretèche - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: De La Bretèche R, Browning TD. Counter examples to the Hasse principle among certain coflasque tori. Journal de Theorie des Nombres de Bordeaux. 2013;26(1):25-44. doi:10.5802/jtnb.857 apa: De La Bretèche, R., & Browning, T. D. (2013). Counter examples to the Hasse principle among certain coflasque tori. Journal de Theorie Des Nombres de Bordeaux. Universite de Bordeaux I. https://doi.org/10.5802/jtnb.857 chicago: De La Bretèche, Régis, and Timothy D Browning. “Counter Examples to the Hasse Principle among Certain Coflasque Tori.” Journal de Theorie Des Nombres de Bordeaux. Universite de Bordeaux I, 2013. https://doi.org/10.5802/jtnb.857. ieee: R. De La Bretèche and T. D. Browning, “Counter examples to the Hasse principle among certain coflasque tori,” Journal de Theorie des Nombres de Bordeaux, vol. 26, no. 1. Universite de Bordeaux I, pp. 25–44, 2013. ista: De La Bretèche R, Browning TD. 2013. Counter examples to the Hasse principle among certain coflasque tori. Journal de Theorie des Nombres de Bordeaux. 26(1), 25–44. mla: De La Bretèche, Régis, and Timothy D. Browning. “Counter Examples to the Hasse Principle among Certain Coflasque Tori.” Journal de Theorie Des Nombres de Bordeaux, vol. 26, no. 1, Universite de Bordeaux I, 2013, pp. 25–44, doi:10.5802/jtnb.857. short: R. De La Bretèche, T.D. Browning, Journal de Theorie Des Nombres de Bordeaux 26 (2013) 25–44. date_created: 2018-12-11T11:45:26Z date_published: 2013-05-14T00:00:00Z date_updated: 2021-01-12T06:57:55Z day: '14' doi: 10.5802/jtnb.857 extern: 1 intvolume: ' 26' issue: '1' month: '05' page: 25 - 44 publication: Journal de Theorie des Nombres de Bordeaux publication_status: published publisher: Universite de Bordeaux I publist_id: '7651' quality_controlled: 0 status: public title: Counter examples to the Hasse principle among certain coflasque tori type: journal_article volume: 26 year: '2013' ... --- _id: '2517' abstract: - lang: eng text: 'Traditional formal methods are based on a Boolean satisfaction notion: a reactive system satisfies, or not, a given specification. We generalize formal methods to also address the quality of systems. As an adequate specification formalism we introduce the linear temporal logic LTL[F]. The satisfaction value of an LTL[F] formula is a number between 0 and 1, describing the quality of the satisfaction. The logic generalizes traditional LTL by augmenting it with a (parameterized) set F of arbitrary functions over the interval [0,1]. For example, F may contain the maximum or minimum between the satisfaction values of subformulas, their product, and their average. The classical decision problems in formal methods, such as satisfiability, model checking, and synthesis, are generalized to search and optimization problems in the quantitative setting. For example, model checking asks for the quality in which a specification is satisfied, and synthesis returns a system satisfying the specification with the highest quality. Reasoning about quality gives rise to other natural questions, like the distance between specifications. We formalize these basic questions and study them for LTL[F]. By extending the automata-theoretic approach for LTL to a setting that takes quality into an account, we are able to solve the above problems and show that reasoning about LTL[F] has roughly the same complexity as reasoning about traditional LTL.' acknowledgement: 'ERC Grant QUALITY. ' alternative_title: - LNCS article_processing_charge: No author: - first_name: Shaull full_name: Almagor, Shaull last_name: Almagor - first_name: Udi full_name: Boker, Udi id: 31E297B6-F248-11E8-B48F-1D18A9856A87 last_name: Boker - first_name: Orna full_name: Kupferman, Orna last_name: Kupferman citation: ama: Almagor S, Boker U, Kupferman O. Formalizing and reasoning about quality. 2013;7966(Part 2):15-27. doi:10.1007/978-3-642-39212-2_3 apa: 'Almagor, S., Boker, U., & Kupferman, O. (2013). Formalizing and reasoning about quality. Presented at the ICALP: Automata, Languages and Programming, Riga, Latvia: Springer. https://doi.org/10.1007/978-3-642-39212-2_3' chicago: Almagor, Shaull, Udi Boker, and Orna Kupferman. “Formalizing and Reasoning about Quality.” Lecture Notes in Computer Science. Springer, 2013. https://doi.org/10.1007/978-3-642-39212-2_3. ieee: S. Almagor, U. Boker, and O. Kupferman, “Formalizing and reasoning about quality,” vol. 7966, no. Part 2. Springer, pp. 15–27, 2013. ista: Almagor S, Boker U, Kupferman O. 2013. Formalizing and reasoning about quality. 7966(Part 2), 15–27. mla: Almagor, Shaull, et al. Formalizing and Reasoning about Quality. Vol. 7966, no. Part 2, Springer, 2013, pp. 15–27, doi:10.1007/978-3-642-39212-2_3. short: S. Almagor, U. Boker, O. Kupferman, 7966 (2013) 15–27. conference: end_date: 2013-07-12 location: Riga, Latvia name: 'ICALP: Automata, Languages and Programming' start_date: 2013-07-08 date_created: 2018-12-11T11:58:08Z date_published: 2013-07-01T00:00:00Z date_updated: 2020-08-11T10:09:47Z day: '01' ddc: - '000' department: - _id: ToHe doi: 10.1007/978-3-642-39212-2_3 ec_funded: 1 file: - access_level: open_access checksum: 85afbf6c18a2c7e377c52c9410e2d824 content_type: application/pdf creator: dernst date_created: 2020-05-15T11:16:12Z date_updated: 2020-07-14T12:45:42Z file_id: '7860' file_name: 2013_ICALP_Almagor.pdf file_size: 363031 relation: main_file file_date_updated: 2020-07-14T12:45:42Z has_accepted_license: '1' intvolume: ' 7966' issue: Part 2 language: - iso: eng month: '07' oa: 1 oa_version: Submitted Version page: 15 - 27 project: - _id: 25832EC2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: S 11407_N23 name: Rigorous Systems Engineering - _id: 25EE3708-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '267989' name: Quantitative Reactive Modeling publication_status: published publisher: Springer publist_id: '4384' quality_controlled: '1' scopus_import: 1 series_title: Lecture Notes in Computer Science status: public title: Formalizing and reasoning about quality type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 7966 year: '2013' ... --- _id: '2518' abstract: - lang: eng text: A class of valued constraint satisfaction problems (VCSPs) is characterised by a valued constraint language, a fixed set of cost functions on a finite domain. An instance of the problem is specified by a sum of cost functions from the language with the goal to minimise the sum. We study which classes of finite-valued languages can be solved exactly by the basic linear programming relaxation (BLP). Thapper and Živný showed [20] that if BLP solves the language then the language admits a binary commutative fractional polymorphism. We prove that the converse is also true. This leads to a necessary and a sufficient condition which can be checked in polynomial time for a given language. In contrast, the previous necessary and sufficient condition due to [20] involved infinitely many inequalities. More recently, Thapper and Živný [21] showed (using, in particular, a technique introduced in this paper) that core languages that do not satisfy our condition are NP-hard. Taken together, these results imply that a finite-valued language can either be solved using Linear Programming or is NP-hard. alternative_title: - LNCS author: - first_name: Vladimir full_name: Kolmogorov, Vladimir id: 3D50B0BA-F248-11E8-B48F-1D18A9856A87 last_name: Kolmogorov citation: ama: 'Kolmogorov V. The power of linear programming for finite-valued CSPs: A constructive characterization. In: Vol 7965. Springer; 2013:625-636. doi:10.1007/978-3-642-39206-1_53' apa: 'Kolmogorov, V. (2013). The power of linear programming for finite-valued CSPs: A constructive characterization (Vol. 7965, pp. 625–636). Presented at the ICALP: Automata, Languages and Programming, Riga, Latvia: Springer. https://doi.org/10.1007/978-3-642-39206-1_53' chicago: 'Kolmogorov, Vladimir. “The Power of Linear Programming for Finite-Valued CSPs: A Constructive Characterization,” 7965:625–36. Springer, 2013. https://doi.org/10.1007/978-3-642-39206-1_53.' ieee: 'V. Kolmogorov, “The power of linear programming for finite-valued CSPs: A constructive characterization,” presented at the ICALP: Automata, Languages and Programming, Riga, Latvia, 2013, vol. 7965, no. 1, pp. 625–636.' ista: 'Kolmogorov V. 2013. The power of linear programming for finite-valued CSPs: A constructive characterization. ICALP: Automata, Languages and Programming, LNCS, vol. 7965, 625–636.' mla: 'Kolmogorov, Vladimir. The Power of Linear Programming for Finite-Valued CSPs: A Constructive Characterization. Vol. 7965, no. 1, Springer, 2013, pp. 625–36, doi:10.1007/978-3-642-39206-1_53.' short: V. Kolmogorov, in:, Springer, 2013, pp. 625–636. conference: end_date: 2013-07-12 location: Riga, Latvia name: 'ICALP: Automata, Languages and Programming' start_date: 2013-07-08 date_created: 2018-12-11T11:58:08Z date_published: 2013-07-01T00:00:00Z date_updated: 2023-02-23T10:35:42Z day: '01' department: - _id: VlKo doi: 10.1007/978-3-642-39206-1_53 external_id: arxiv: - '1207.7213' intvolume: ' 7965' issue: '1' language: - iso: eng main_file_link: - open_access: '1' url: http://arxiv.org/abs/1207.7213 month: '07' oa: 1 oa_version: Preprint page: 625 - 636 publication_status: published publisher: Springer publist_id: '4383' quality_controlled: '1' related_material: record: - id: '2271' relation: later_version status: public scopus_import: 1 status: public title: 'The power of linear programming for finite-valued CSPs: A constructive characterization' type: conference user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 7965 year: '2013' ... --- _id: '2516' abstract: - lang: eng text: 'We study the problem of object recognition for categories for which we have no training examples, a task also called zero-data or zero-shot learning. This situation has hardly been studied in computer vision research, even though it occurs frequently: the world contains tens of thousands of different object classes and for only few of them image collections have been formed and suitably annotated. To tackle the problem we introduce attribute-based classification: objects are identified based on a high-level description that is phrased in terms of semantic attributes, such as the object''s color or shape. Because the identification of each such property transcends the specific learning task at hand, the attribute classifiers can be pre-learned independently, e.g. from existing image datasets unrelated to the current task. Afterwards, new classes can be detected based on their attribute representation, without the need for a new training phase. In this paper we also introduce a new dataset, Animals with Attributes, of over 30,000 images of 50 animal classes, annotated with 85 semantic attributes. Extensive experiments on this and two more datasets show that attribute-based classification indeed is able to categorize images without access to any training images of the target classes.' author: - first_name: Christoph full_name: Lampert, Christoph id: 40C20FD2-F248-11E8-B48F-1D18A9856A87 last_name: Lampert orcid: 0000-0001-8622-7887 - first_name: Hannes full_name: Nickisch, Hannes last_name: Nickisch - first_name: Stefan full_name: Harmeling, Stefan last_name: Harmeling citation: ama: Lampert C, Nickisch H, Harmeling S. Attribute-based classification for zero-shot learning of object categories. IEEE Transactions on Pattern Analysis and Machine Intelligence. 2013;36(3):453-465. doi:10.1109/TPAMI.2013.140 apa: Lampert, C., Nickisch, H., & Harmeling, S. (2013). Attribute-based classification for zero-shot learning of object categories. IEEE Transactions on Pattern Analysis and Machine Intelligence. IEEE. https://doi.org/10.1109/TPAMI.2013.140 chicago: Lampert, Christoph, Hannes Nickisch, and Stefan Harmeling. “Attribute-Based Classification for Zero-Shot Learning of Object Categories.” IEEE Transactions on Pattern Analysis and Machine Intelligence. IEEE, 2013. https://doi.org/10.1109/TPAMI.2013.140. ieee: C. Lampert, H. Nickisch, and S. Harmeling, “Attribute-based classification for zero-shot learning of object categories,” IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 36, no. 3. IEEE, pp. 453–465, 2013. ista: Lampert C, Nickisch H, Harmeling S. 2013. Attribute-based classification for zero-shot learning of object categories. IEEE Transactions on Pattern Analysis and Machine Intelligence. 36(3), 453–465. mla: Lampert, Christoph, et al. “Attribute-Based Classification for Zero-Shot Learning of Object Categories.” IEEE Transactions on Pattern Analysis and Machine Intelligence, vol. 36, no. 3, IEEE, 2013, pp. 453–65, doi:10.1109/TPAMI.2013.140. short: C. Lampert, H. Nickisch, S. Harmeling, IEEE Transactions on Pattern Analysis and Machine Intelligence 36 (2013) 453–465. date_created: 2018-12-11T11:58:08Z date_published: 2013-07-30T00:00:00Z date_updated: 2021-01-12T06:57:58Z day: '30' department: - _id: ChLa doi: 10.1109/TPAMI.2013.140 intvolume: ' 36' issue: '3' language: - iso: eng month: '07' oa_version: None page: 453 - 465 publication: IEEE Transactions on Pattern Analysis and Machine Intelligence publication_status: published publisher: IEEE publist_id: '4385' quality_controlled: '1' scopus_import: 1 status: public title: Attribute-based classification for zero-shot learning of object categories type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 36 year: '2013' ... --- _id: '2520' abstract: - lang: eng text: "We propose a probabilistic model to infer supervised latent variables in\r\nthe Hamming space from observed data. Our model allows simultaneous\r\ninference of the number of binary latent variables, and their values. The\r\nlatent variables preserve neighbourhood structure of the data in a sense\r\nthat objects in the same semantic concept have similar latent values, and\r\nobjects in different concepts have dissimilar latent values. We formulate\r\nthe supervised infinite latent variable problem based on an intuitive\r\nprinciple of pulling objects together if they are of the same type, and\r\npushing them apart if they are not. We then combine this principle with a\r\nflexible Indian Buffet Process prior on the latent variables. We show that\r\nthe inferred supervised latent variables can be directly used to perform a\r\nnearest neighbour search for the purpose of retrieval. We introduce a new\r\napplication of dynamically extending hash codes, and show how to\r\neffectively couple the structure of the hash codes with continuously\r\ngrowing structure of the neighbourhood preserving infinite latent feature\r\nspace." author: - first_name: Novi full_name: Quadrianto, Novi last_name: Quadrianto - first_name: Viktoriia full_name: Sharmanska, Viktoriia id: 2EA6D09E-F248-11E8-B48F-1D18A9856A87 last_name: Sharmanska orcid: 0000-0003-0192-9308 - first_name: David full_name: Knowles, David last_name: Knowles - first_name: Zoubin full_name: Ghahramani, Zoubin last_name: Ghahramani citation: ama: 'Quadrianto N, Sharmanska V, Knowles D, Ghahramani Z. The supervised IBP: Neighbourhood preserving infinite latent feature models. In: Proceedings of the 29th Conference Uncertainty in Artificial Intelligence. AUAI Press; 2013:527-536.' apa: 'Quadrianto, N., Sharmanska, V., Knowles, D., & Ghahramani, Z. (2013). The supervised IBP: Neighbourhood preserving infinite latent feature models. In Proceedings of the 29th conference uncertainty in Artificial Intelligence (pp. 527–536). Bellevue, WA, United States: AUAI Press.' chicago: 'Quadrianto, Novi, Viktoriia Sharmanska, David Knowles, and Zoubin Ghahramani. “The Supervised IBP: Neighbourhood Preserving Infinite Latent Feature Models.” In Proceedings of the 29th Conference Uncertainty in Artificial Intelligence, 527–36. AUAI Press, 2013.' ieee: 'N. Quadrianto, V. Sharmanska, D. Knowles, and Z. Ghahramani, “The supervised IBP: Neighbourhood preserving infinite latent feature models,” in Proceedings of the 29th conference uncertainty in Artificial Intelligence, Bellevue, WA, United States, 2013, pp. 527–536.' ista: 'Quadrianto N, Sharmanska V, Knowles D, Ghahramani Z. 2013. The supervised IBP: Neighbourhood preserving infinite latent feature models. Proceedings of the 29th conference uncertainty in Artificial Intelligence. UAI: Uncertainty in Artificial Intelligence, 527–536.' mla: 'Quadrianto, Novi, et al. “The Supervised IBP: Neighbourhood Preserving Infinite Latent Feature Models.” Proceedings of the 29th Conference Uncertainty in Artificial Intelligence, AUAI Press, 2013, pp. 527–36.' short: N. Quadrianto, V. Sharmanska, D. Knowles, Z. Ghahramani, in:, Proceedings of the 29th Conference Uncertainty in Artificial Intelligence, AUAI Press, 2013, pp. 527–536. conference: end_date: 2013-07-15 location: Bellevue, WA, United States name: 'UAI: Uncertainty in Artificial Intelligence' start_date: 2013-07-11 date_created: 2018-12-11T11:58:09Z date_published: 2013-07-11T00:00:00Z date_updated: 2023-02-23T10:46:36Z day: '11' ddc: - '000' department: - _id: ChLa file: - access_level: open_access checksum: 325f20c4b926bd74d39006b97df572bd content_type: application/pdf creator: system date_created: 2018-12-12T10:15:16Z date_updated: 2020-07-14T12:45:42Z file_id: '5134' file_name: IST-2013-137-v1+1_QuaShaKnoGha13.pdf file_size: 1117100 relation: main_file file_date_updated: 2020-07-14T12:45:42Z has_accepted_license: '1' language: - iso: eng month: '07' oa: 1 oa_version: Submitted Version page: 527 - 536 publication: Proceedings of the 29th conference uncertainty in Artificial Intelligence publication_identifier: isbn: - '9780974903996' publication_status: published publisher: AUAI Press publist_id: '4381' pubrep_id: '137' quality_controlled: '1' scopus_import: 1 status: public title: 'The supervised IBP: Neighbourhood preserving infinite latent feature models' type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2013' ... --- _id: '253' author: - first_name: Timothy D full_name: Timothy Browning id: 35827D50-F248-11E8-B48F-1D18A9856A87 last_name: Browning orcid: 0000-0002-8314-0177 citation: ama: 'Browning TD. Counting rational points on cubic hypersurfaces: Corrigendum. Mathematika. 2013;60(1):101-107. doi:10.1112/S0025579313000132' apa: 'Browning, T. D. (2013). Counting rational points on cubic hypersurfaces: Corrigendum. Mathematika. Unknown. https://doi.org/10.1112/S0025579313000132' chicago: 'Browning, Timothy D. “Counting Rational Points on Cubic Hypersurfaces: Corrigendum.” Mathematika. Unknown, 2013. https://doi.org/10.1112/S0025579313000132.' ieee: 'T. D. Browning, “Counting rational points on cubic hypersurfaces: Corrigendum,” Mathematika, vol. 60, no. 1. Unknown, pp. 101–107, 2013.' ista: 'Browning TD. 2013. Counting rational points on cubic hypersurfaces: Corrigendum. Mathematika. 60(1), 101–107.' mla: 'Browning, Timothy D. “Counting Rational Points on Cubic Hypersurfaces: Corrigendum.” Mathematika, vol. 60, no. 1, Unknown, 2013, pp. 101–07, doi:10.1112/S0025579313000132.' short: T.D. Browning, Mathematika 60 (2013) 101–107. date_created: 2018-12-11T11:45:27Z date_published: 2013-09-06T00:00:00Z date_updated: 2021-01-12T06:58:03Z day: '06' doi: 10.1112/S0025579313000132 extern: 1 intvolume: ' 60' issue: '1' month: '09' page: 101 - 107 publication: Mathematika publication_status: published publisher: Unknown publist_id: '7649' quality_controlled: 0 status: public title: 'Counting rational points on cubic hypersurfaces: Corrigendum' type: journal_article volume: 60 year: '2013' ... --- _id: '2692' abstract: - lang: eng text: The group III metabotropic glutamate (mGlu) receptors mGlu7 and mGlu8 are receiving increased attention as potential novel therapeutic targets for anxiety disorders. The effects mediated by these receptors appear to result from a complex interplay of facilitatory and inhibitory actions at different brain sites in the anxiety/fear circuits. To better understand the effect of mGlu7 and mGlu8 receptors on extinction of contextual fear and their critical sites of action in the fear networks, we focused on the amygdala. Direct injection into the basolateral complex of the amygdala of the mGlu7 receptor agonist AMN082 facilitated extinction, whereas the mGlu8 receptor agonist (S)-3,4-DCPG sustained freezing during the extinction acquisition trial. We also determined at the ultrastructural level the synaptic distribution of these receptors in the basal nucleus (BA) and intercalated cell clusters (ITCs) of the amygdala. Both areas are thought to exert key roles in fear extinction. We demonstrate that mGlu7 and mGlu8 receptors are located in different presynaptic terminals forming both asymmetric and symmetric synapses, and that they preferentially target neurons expressing mGlu1α receptors mostly located around ITCs. In addition we show that mGlu7 and mGlu8 receptors were segregated to different inputs to a significant extent. In particular, mGlu7a receptors were primarily onto glutamatergic afferents arising from the BA or midline thalamic nuclei, but not the medial prefrontal cortex (mPFC), as revealed by combined anterograde tracing and pre-embedding electron microscopy. On the other hand, mGlu8a showed a more restricted distribution in the BA and appeared absent from thalamic, mPFC and intrinsic inputs. This segregation of mGlu7 and mGlu8 receptors in different neuronal pathways of the fear circuit might explain the distinct effects on fear extinction training observed with mGlu7 and mGlu8 receptor agonists. author: - first_name: Alice full_name: Dobi, Alice last_name: Dobi - first_name: Simone full_name: Sartori, Simone B last_name: Sartori - first_name: Daniela full_name: Busti, Daniela last_name: Busti - first_name: Herman full_name: Van Der Putten, Herman V last_name: Van Der Putten - first_name: Nicolas full_name: Singewald, Nicolas last_name: Singewald - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Francesco full_name: Ferraguti, Francesco last_name: Ferraguti citation: ama: Dobi A, Sartori S, Busti D, et al. Neural substrates for the distinct effects of presynaptic group III metabotropic glutamate receptors on extinction of contextual fear conditioning in mice. Neuropharmacology. 2013;66:274-289. doi:10.1016/j.neuropharm.2012.05.025 apa: Dobi, A., Sartori, S., Busti, D., Van Der Putten, H., Singewald, N., Shigemoto, R., & Ferraguti, F. (2013). Neural substrates for the distinct effects of presynaptic group III metabotropic glutamate receptors on extinction of contextual fear conditioning in mice. Neuropharmacology. Elsevier. https://doi.org/10.1016/j.neuropharm.2012.05.025 chicago: Dobi, Alice, Simone Sartori, Daniela Busti, Herman Van Der Putten, Nicolas Singewald, Ryuichi Shigemoto, and Francesco Ferraguti. “Neural Substrates for the Distinct Effects of Presynaptic Group III Metabotropic Glutamate Receptors on Extinction of Contextual Fear Conditioning in Mice.” Neuropharmacology. Elsevier, 2013. https://doi.org/10.1016/j.neuropharm.2012.05.025. ieee: A. Dobi et al., “Neural substrates for the distinct effects of presynaptic group III metabotropic glutamate receptors on extinction of contextual fear conditioning in mice,” Neuropharmacology, vol. 66. Elsevier, pp. 274–289, 2013. ista: Dobi A, Sartori S, Busti D, Van Der Putten H, Singewald N, Shigemoto R, Ferraguti F. 2013. Neural substrates for the distinct effects of presynaptic group III metabotropic glutamate receptors on extinction of contextual fear conditioning in mice. Neuropharmacology. 66, 274–289. mla: Dobi, Alice, et al. “Neural Substrates for the Distinct Effects of Presynaptic Group III Metabotropic Glutamate Receptors on Extinction of Contextual Fear Conditioning in Mice.” Neuropharmacology, vol. 66, Elsevier, 2013, pp. 274–89, doi:10.1016/j.neuropharm.2012.05.025. short: A. Dobi, S. Sartori, D. Busti, H. Van Der Putten, N. Singewald, R. Shigemoto, F. Ferraguti, Neuropharmacology 66 (2013) 274–289. date_created: 2018-12-11T11:59:06Z date_published: 2013-03-01T00:00:00Z date_updated: 2021-01-12T06:59:05Z day: '01' doi: 10.1016/j.neuropharm.2012.05.025 extern: 1 intvolume: ' 66' month: '03' page: 274 - 289 publication: Neuropharmacology publication_status: published publisher: Elsevier publist_id: '4205' quality_controlled: 0 status: public title: Neural substrates for the distinct effects of presynaptic group III metabotropic glutamate receptors on extinction of contextual fear conditioning in mice type: journal_article volume: 66 year: '2013' ... --- _id: '2691' abstract: - lang: eng text: P/Q-type voltage-dependent calcium channels play key roles in transmitter release, integration of dendritic signals, generation of dendritic spikes, and gene expression. High intracellular calcium concentration transient produced by these channels is restricted to tens to hundreds of nanometers from the channels. Therefore, precise localization of these channels along the plasma membrane was long sought to decipher how each neuronal cell function is controlled. Here, we analyzed the distribution of Cav2.1 subunit of the P/Q-type channel using highly sensitive SDS-digested freeze-fracture replica labeling in the rat cerebellar Purkinje cells. The labeling efficiency was such that the number of immunogold particles in each parallel fiber active zone was comparable to that of functional channels calculated from previous reports. Two distinct patterns of Cav2.1 distribution, scattered and clustered, were found in Purkinje cells. The scattered Cav2.1 had a somatodendritic gradient with the density of immunogold particles increasing 2.5-fold from soma to distal dendrites. The other population with 74-fold higher density than the scattered particles was found within clusters of intramembrane particles on the P-face of soma and primary dendrites. Both populations of Cav2.1 were found as early as P3 and increased in the second postnatal week to a mature level. Using double immunogold labeling, we found that virtually all of the Cav2.1 clusters were colocalized with two types of calcium-activated potassium channels, BK and SK2, with the nearest neighbor distance of 40∼nm. Calcium nanodomain created by the opening of Cav2.1 channels likely activates the two channels that limit the extent of depolarization. author: - first_name: Dwi full_name: Indriati, Dwi Wahyu last_name: Indriati - first_name: Naomi full_name: Kamasawa, Naomi last_name: Kamasawa - first_name: Ko full_name: Matsui, Ko last_name: Matsui - first_name: Andrea full_name: Meredith, Andrea L last_name: Meredith - first_name: Masahiko full_name: Watanabe, Masahiko last_name: Watanabe - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 citation: ama: 'Indriati D, Kamasawa N, Matsui K, Meredith A, Watanabe M, Shigemoto R. Quantitative localization of Cav2.1 (P/Q-Type) voltage-dependent calcium channels in Purkinje cells: Somatodendritic gradient and distinct somatic coclustering with calcium-activated potassium channels. Journal of Neuroscience. 2013;33(8):3668-3678. doi:10.1523/JNEUROSCI.2921-12.2013' apa: 'Indriati, D., Kamasawa, N., Matsui, K., Meredith, A., Watanabe, M., & Shigemoto, R. (2013). Quantitative localization of Cav2.1 (P/Q-Type) voltage-dependent calcium channels in Purkinje cells: Somatodendritic gradient and distinct somatic coclustering with calcium-activated potassium channels. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.2921-12.2013' chicago: 'Indriati, Dwi, Naomi Kamasawa, Ko Matsui, Andrea Meredith, Masahiko Watanabe, and Ryuichi Shigemoto. “Quantitative Localization of Cav2.1 (P/Q-Type) Voltage-Dependent Calcium Channels in Purkinje Cells: Somatodendritic Gradient and Distinct Somatic Coclustering with Calcium-Activated Potassium Channels.” Journal of Neuroscience. Society for Neuroscience, 2013. https://doi.org/10.1523/JNEUROSCI.2921-12.2013.' ieee: 'D. Indriati, N. Kamasawa, K. Matsui, A. Meredith, M. Watanabe, and R. Shigemoto, “Quantitative localization of Cav2.1 (P/Q-Type) voltage-dependent calcium channels in Purkinje cells: Somatodendritic gradient and distinct somatic coclustering with calcium-activated potassium channels,” Journal of Neuroscience, vol. 33, no. 8. Society for Neuroscience, pp. 3668–3678, 2013.' ista: 'Indriati D, Kamasawa N, Matsui K, Meredith A, Watanabe M, Shigemoto R. 2013. Quantitative localization of Cav2.1 (P/Q-Type) voltage-dependent calcium channels in Purkinje cells: Somatodendritic gradient and distinct somatic coclustering with calcium-activated potassium channels. Journal of Neuroscience. 33(8), 3668–3678.' mla: 'Indriati, Dwi, et al. “Quantitative Localization of Cav2.1 (P/Q-Type) Voltage-Dependent Calcium Channels in Purkinje Cells: Somatodendritic Gradient and Distinct Somatic Coclustering with Calcium-Activated Potassium Channels.” Journal of Neuroscience, vol. 33, no. 8, Society for Neuroscience, 2013, pp. 3668–78, doi:10.1523/JNEUROSCI.2921-12.2013.' short: D. Indriati, N. Kamasawa, K. Matsui, A. Meredith, M. Watanabe, R. Shigemoto, Journal of Neuroscience 33 (2013) 3668–3678. date_created: 2018-12-11T11:59:05Z date_published: 2013-02-20T00:00:00Z date_updated: 2021-01-12T06:59:05Z day: '20' doi: 10.1523/JNEUROSCI.2921-12.2013 extern: 1 intvolume: ' 33' issue: '8' month: '02' page: 3668 - 3678 publication: Journal of Neuroscience publication_status: published publisher: Society for Neuroscience publist_id: '4206' quality_controlled: 0 status: public title: 'Quantitative localization of Cav2.1 (P/Q-Type) voltage-dependent calcium channels in Purkinje cells: Somatodendritic gradient and distinct somatic coclustering with calcium-activated potassium channels' type: journal_article volume: 33 year: '2013' ... --- _id: '2690' abstract: - lang: eng text: Establishing the spatiotemporal concentration profile of neurotransmitter following synaptic vesicular release is essential for our understanding of inter-neuronal communication. Such profile is a determinant of synaptic strength, short-term plasticity and inter-synaptic crosstalk. Synaptically released glutamate has been suggested to reach a few millimolar in concentration and last for <1 ms. The synaptic cleft is often conceived as a single concentration compartment, whereas a huge gradient likely exists. Modelling studies have attempted to describe this gradient, but two key parameters, the number of glutamate in a vesicle (NGlu) and its diffusion coefficient (DGlu) in the extracellular space, remained unresolved. To determine this profile, the rat calyx of Held synapse at postnatal day 12-16 was studied where diffusion of glutamate occurs two-dimensionally and where quantification of AMPA receptor distribution on individual postsynaptic specialization on medial nucleus of the trapezoid body principal cells is possible using SDS-digested freeze-fracture replica labelling. To assess the performance of these receptors as glutamate sensors, a kinetic model of the receptors was constructed from outside-out patch recordings. From here, we simulated synaptic responses and compared them with the EPSC recordings. Combinations of NGlu and DGlu with an optimum of 7000 and 0.3 μm2 ms-1 reproduced the data, suggesting slow diffusion. Further simulations showed that a single vesicle does not saturate the synaptic receptors, and that glutamate spillover does not affect the conductance amplitude at this synapse. Using the estimated profile, we also evaluated how the number of multiple vesicle releases at individual active zones affects the amplitude of postsynaptic signals. author: - first_name: Timotheus full_name: Budisantoso, Timotheus last_name: Budisantoso - first_name: Harumi full_name: Harumi Harada id: 2E55CDF2-F248-11E8-B48F-1D18A9856A87 last_name: Harada orcid: 0000-0001-7429-7896 - first_name: Naomi full_name: Kamasawa, Naomi last_name: Kamasawa - first_name: Yugo full_name: Fukazawa, Yugo last_name: Fukazawa - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Ko full_name: Matsui, Ko last_name: Matsui citation: ama: Budisantoso T, Harada H, Kamasawa N, Fukazawa Y, Shigemoto R, Matsui K. Evaluation of glutamate concentration transient in the synaptic cleft of the rat calyx of Held. Journal of Physiology. 2013;591(1):219-239. doi:10.1113/jphysiol.2012.241398 apa: Budisantoso, T., Harada, H., Kamasawa, N., Fukazawa, Y., Shigemoto, R., & Matsui, K. (2013). Evaluation of glutamate concentration transient in the synaptic cleft of the rat calyx of Held. Journal of Physiology. Wiley-Blackwell. https://doi.org/10.1113/jphysiol.2012.241398 chicago: Budisantoso, Timotheus, Harumi Harada, Naomi Kamasawa, Yugo Fukazawa, Ryuichi Shigemoto, and Ko Matsui. “Evaluation of Glutamate Concentration Transient in the Synaptic Cleft of the Rat Calyx of Held.” Journal of Physiology. Wiley-Blackwell, 2013. https://doi.org/10.1113/jphysiol.2012.241398. ieee: T. Budisantoso, H. Harada, N. Kamasawa, Y. Fukazawa, R. Shigemoto, and K. Matsui, “Evaluation of glutamate concentration transient in the synaptic cleft of the rat calyx of Held,” Journal of Physiology, vol. 591, no. 1. Wiley-Blackwell, pp. 219–239, 2013. ista: Budisantoso T, Harada H, Kamasawa N, Fukazawa Y, Shigemoto R, Matsui K. 2013. Evaluation of glutamate concentration transient in the synaptic cleft of the rat calyx of Held. Journal of Physiology. 591(1), 219–239. mla: Budisantoso, Timotheus, et al. “Evaluation of Glutamate Concentration Transient in the Synaptic Cleft of the Rat Calyx of Held.” Journal of Physiology, vol. 591, no. 1, Wiley-Blackwell, 2013, pp. 219–39, doi:10.1113/jphysiol.2012.241398. short: T. Budisantoso, H. Harada, N. Kamasawa, Y. Fukazawa, R. Shigemoto, K. Matsui, Journal of Physiology 591 (2013) 219–239. date_created: 2018-12-11T11:59:05Z date_published: 2013-01-01T00:00:00Z date_updated: 2021-01-12T06:59:04Z day: '01' doi: 10.1113/jphysiol.2012.241398 extern: 1 intvolume: ' 591' issue: '1' month: '01' page: 219 - 239 publication: Journal of Physiology publication_status: published publisher: Wiley-Blackwell publist_id: '4207' quality_controlled: 0 status: public title: Evaluation of glutamate concentration transient in the synaptic cleft of the rat calyx of Held type: journal_article volume: 591 year: '2013' ... --- _id: '2693' abstract: - lang: eng text: Inhibitory parvalbumin-containing interneurons (PVIs) control neuronal discharge and support the generation of theta- and gammafrequency oscillations in cortical networks. Fast GABAergic input onto PVIs is crucial for their synchronization and oscillatory entrainment, but the role of metabotropic GABAB receptors (GABABRs) in mediating slow presynaptic and postsynaptic inhibition remains unknown. In this study, we have combined high-resolution immunoelectron microscopy, whole-cell patch-clamp recording, and computational modeling to investigate the subcellular distribution and effects of GABABRs and their postsynaptic effector Kir3 channels in rat hippocampal PVIs. Pre-embedding immunogold labeling revealed that the receptors and channels localize at high levels to the extrasynaptic membrane of parvalbumin-immunoreactive dendrites. Immunoreactivity forGABABRs was also present at lower levels on PVI axon terminals. Whole-cell recordings further showed that synaptically released GABA in response to extracellular stimulation evokes large GABABR-mediated slow IPSCs in perisomatic-targeting (PT) PVIs, but only small or no currents in dendrite-targeting (DT) PVIs. In contrast, paired recordings demonstrated that GABABR activation results in presynaptic inhibition at the output synapses of both PT and DT PVIs, but more strongly in the latter. Finally, computational analysis indicated that GABAB IPSCs can phasically modulate the discharge of PT interneurons at theta frequencies. In summary, our results show that GABABRs differentially mediate slow presynaptic and postsynaptic inhibition in PVIs and can contribute to the dynamic modulation of their activity during oscillations. Furthermore, these data provide evidence for a compartment-specific molecular divergence of hippocampal PVI subtypes, suggesting that activation of GABABRs may shift the balance between perisomatic and dendritic inhibition. author: - first_name: Sam full_name: Booker, Sam A last_name: Booker - first_name: Anna full_name: Gross, Anna last_name: Gross - first_name: Daniel full_name: Althof, Daniel last_name: Althof - first_name: Ryuichi full_name: Ryuichi Shigemoto id: 499F3ABC-F248-11E8-B48F-1D18A9856A87 last_name: Shigemoto orcid: 0000-0001-8761-9444 - first_name: Bernhard full_name: Bettler, Bernhard last_name: Bettler - first_name: Michael full_name: Frotscher, Michael last_name: Frotscher - first_name: Matthew full_name: Hearing, Matthew C last_name: Hearing - first_name: Kevin full_name: Wickman, Kevin D last_name: Wickman - first_name: Masahiko full_name: Watanabe, Masahiko last_name: Watanabe - first_name: Ákos full_name: Kulik, Ákos last_name: Kulik - first_name: Imre full_name: Vida, Imre last_name: Vida citation: ama: Booker S, Gross A, Althof D, et al. Differential GABAB-receptor-mediated effects in perisomatic- and dendrite-targeting parvalbumin interneurons. Journal of Neuroscience. 2013;33(18):7961-7974. doi:10.1523/JNEUROSCI.1186-12.2013 apa: Booker, S., Gross, A., Althof, D., Shigemoto, R., Bettler, B., Frotscher, M., … Vida, I. (2013). Differential GABAB-receptor-mediated effects in perisomatic- and dendrite-targeting parvalbumin interneurons. Journal of Neuroscience. Society for Neuroscience. https://doi.org/10.1523/JNEUROSCI.1186-12.2013 chicago: Booker, Sam, Anna Gross, Daniel Althof, Ryuichi Shigemoto, Bernhard Bettler, Michael Frotscher, Matthew Hearing, et al. “Differential GABAB-Receptor-Mediated Effects in Perisomatic- and Dendrite-Targeting Parvalbumin Interneurons.” Journal of Neuroscience. Society for Neuroscience, 2013. https://doi.org/10.1523/JNEUROSCI.1186-12.2013. ieee: S. Booker et al., “Differential GABAB-receptor-mediated effects in perisomatic- and dendrite-targeting parvalbumin interneurons,” Journal of Neuroscience, vol. 33, no. 18. Society for Neuroscience, pp. 7961–7974, 2013. ista: Booker S, Gross A, Althof D, Shigemoto R, Bettler B, Frotscher M, Hearing M, Wickman K, Watanabe M, Kulik Á, Vida I. 2013. Differential GABAB-receptor-mediated effects in perisomatic- and dendrite-targeting parvalbumin interneurons. Journal of Neuroscience. 33(18), 7961–7974. mla: Booker, Sam, et al. “Differential GABAB-Receptor-Mediated Effects in Perisomatic- and Dendrite-Targeting Parvalbumin Interneurons.” Journal of Neuroscience, vol. 33, no. 18, Society for Neuroscience, 2013, pp. 7961–74, doi:10.1523/JNEUROSCI.1186-12.2013. short: S. Booker, A. Gross, D. Althof, R. Shigemoto, B. Bettler, M. Frotscher, M. Hearing, K. Wickman, M. Watanabe, Á. Kulik, I. Vida, Journal of Neuroscience 33 (2013) 7961–7974. date_created: 2018-12-11T11:59:06Z date_published: 2013-05-01T00:00:00Z date_updated: 2021-01-12T06:59:05Z day: '01' doi: 10.1523/JNEUROSCI.1186-12.2013 extern: 1 intvolume: ' 33' issue: '18' month: '05' page: 7961 - 7974 publication: Journal of Neuroscience publication_status: published publisher: Society for Neuroscience publist_id: '4204' quality_controlled: 0 status: public title: Differential GABAB-receptor-mediated effects in perisomatic- and dendrite-targeting parvalbumin interneurons type: journal_article volume: 33 year: '2013' ... --- _id: '2698' abstract: - lang: eng text: We consider non-interacting particles subject to a fixed external potential V and a self-generated magnetic field B. The total energy includes the field energy β∫B2 and we minimize over all particle states and magnetic fields. In the case of spin-1/2 particles this minimization leads to the coupled Maxwell-Pauli system. The parameter β tunes the coupling strength between the field and the particles and it effectively determines the strength of the field. We investigate the stability and the semiclassical asymptotics, h→0, of the total ground state energy E(β,h,V). The relevant parameter measuring the field strength in the semiclassical limit is κ=βh. We are not able to give the exact leading order semiclassical asymptotics uniformly in κ or even for fixed κ. We do however give upper and lower bounds on E with almost matching dependence on κ. In the simultaneous limit h→0 and κ→∞ we show that the standard non-magnetic Weyl asymptotics holds. The same result also holds for the spinless case, i.e. where the Pauli operator is replaced by the Schrödinger operator. author: - first_name: László full_name: Erdös, László id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Søren full_name: Fournais, Søren last_name: Fournais - first_name: Jan full_name: Solovej, Jan last_name: Solovej citation: ama: Erdös L, Fournais S, Solovej J. Stability and semiclassics in self-generated fields. Journal of the European Mathematical Society. 2013;15(6):2093-2113. doi:10.4171/JEMS/416 apa: Erdös, L., Fournais, S., & Solovej, J. (2013). Stability and semiclassics in self-generated fields. Journal of the European Mathematical Society. European Mathematical Society. https://doi.org/10.4171/JEMS/416 chicago: Erdös, László, Søren Fournais, and Jan Solovej. “Stability and Semiclassics in Self-Generated Fields.” Journal of the European Mathematical Society. European Mathematical Society, 2013. https://doi.org/10.4171/JEMS/416. ieee: L. Erdös, S. Fournais, and J. Solovej, “Stability and semiclassics in self-generated fields,” Journal of the European Mathematical Society, vol. 15, no. 6. European Mathematical Society, pp. 2093–2113, 2013. ista: Erdös L, Fournais S, Solovej J. 2013. Stability and semiclassics in self-generated fields. Journal of the European Mathematical Society. 15(6), 2093–2113. mla: Erdös, László, et al. “Stability and Semiclassics in Self-Generated Fields.” Journal of the European Mathematical Society, vol. 15, no. 6, European Mathematical Society, 2013, pp. 2093–113, doi:10.4171/JEMS/416. short: L. Erdös, S. Fournais, J. Solovej, Journal of the European Mathematical Society 15 (2013) 2093–2113. date_created: 2018-12-11T11:59:07Z date_published: 2013-10-16T00:00:00Z date_updated: 2021-01-12T06:59:07Z day: '16' department: - _id: LaEr doi: 10.4171/JEMS/416 external_id: arxiv: - '1105.0506' intvolume: ' 15' issue: '6' language: - iso: eng main_file_link: - open_access: '1' url: http://arxiv.org/abs/1105.0506 month: '10' oa: 1 oa_version: Preprint page: 2093 - 2113 publication: Journal of the European Mathematical Society publication_status: published publisher: European Mathematical Society publist_id: '4198' quality_controlled: '1' status: public title: Stability and semiclassics in self-generated fields type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 15 year: '2013' ... --- _id: '2697' abstract: - lang: eng text: We consider Hermitian and symmetric random band matrices H = (h xy ) in d⩾1 d ⩾ 1 dimensions. The matrix entries h xy , indexed by x,y∈(Z/LZ)d x , y ∈ ( Z / L Z ) d , are independent, centred random variables with variances sxy=E|hxy|2 s x y = E | h x y | 2 . We assume that s xy is negligible if |x − y| exceeds the band width W. In one dimension we prove that the eigenvectors of H are delocalized if W≫L4/5 W ≫ L 4 / 5 . We also show that the magnitude of the matrix entries |Gxy|2 | G x y | 2 of the resolvent G=G(z)=(H−z)−1 G = G ( z ) = ( H - z ) - 1 is self-averaging and we compute E|Gxy|2 E | G x y | 2 . We show that, as L→∞ L → ∞ and W≫L4/5 W ≫ L 4 / 5 , the behaviour of E|Gxy|2 E | G x y | 2 is governed by a diffusion operator whose diffusion constant we compute. Similar results are obtained in higher dimensions. author: - first_name: László full_name: László Erdös id: 4DBD5372-F248-11E8-B48F-1D18A9856A87 last_name: Erdös orcid: 0000-0001-5366-9603 - first_name: Antti full_name: Knowles, Antti last_name: Knowles - first_name: Horng full_name: Yau, Horng-Tzer last_name: Yau - first_name: Jun full_name: Yin, Jun last_name: Yin citation: ama: Erdös L, Knowles A, Yau H, Yin J. Delocalization and diffusion profile for random band matrices. Communications in Mathematical Physics. 2013;323(1):367-416. doi:10.1007/s00220-013-1773-3 apa: Erdös, L., Knowles, A., Yau, H., & Yin, J. (2013). Delocalization and diffusion profile for random band matrices. Communications in Mathematical Physics. Springer. https://doi.org/10.1007/s00220-013-1773-3 chicago: Erdös, László, Antti Knowles, Horng Yau, and Jun Yin. “Delocalization and Diffusion Profile for Random Band Matrices.” Communications in Mathematical Physics. Springer, 2013. https://doi.org/10.1007/s00220-013-1773-3. ieee: L. Erdös, A. Knowles, H. Yau, and J. Yin, “Delocalization and diffusion profile for random band matrices,” Communications in Mathematical Physics, vol. 323, no. 1. Springer, pp. 367–416, 2013. ista: Erdös L, Knowles A, Yau H, Yin J. 2013. Delocalization and diffusion profile for random band matrices. Communications in Mathematical Physics. 323(1), 367–416. mla: Erdös, László, et al. “Delocalization and Diffusion Profile for Random Band Matrices.” Communications in Mathematical Physics, vol. 323, no. 1, Springer, 2013, pp. 367–416, doi:10.1007/s00220-013-1773-3. short: L. Erdös, A. Knowles, H. Yau, J. Yin, Communications in Mathematical Physics 323 (2013) 367–416. date_created: 2018-12-11T11:59:07Z date_published: 2013-10-01T00:00:00Z date_updated: 2021-01-12T06:59:07Z day: '01' doi: 10.1007/s00220-013-1773-3 extern: 1 intvolume: ' 323' issue: '1' main_file_link: - open_access: '1' url: http://arxiv.org/abs/1205.5669 month: '10' oa: 1 page: 367 - 416 publication: Communications in Mathematical Physics publication_status: published publisher: Springer publist_id: '4199' quality_controlled: 0 status: public title: Delocalization and diffusion profile for random band matrices type: journal_article volume: 323 year: '2013' ... --- _id: '2718' abstract: - lang: eng text: Even though both population and quantitative genetics, and evolutionary computation, deal with the same questions, they have developed largely independently of each other. I review key results from each field, emphasising those that apply independently of the (usually unknown) relation between genotype and phenotype. The infinitesimal model provides a simple framework for predicting the response of complex traits to selection, which in biology has proved remarkably successful. This allows one to choose the schedule of population sizes and selection intensities that will maximise the response to selection, given that the total number of individuals realised, C = ∑t Nt, is constrained. This argument shows that for an additive trait (i.e., determined by the sum of effects of the genes), the optimum population size and the maximum possible response (i.e., the total change in trait mean) are both proportional to √C. author: - first_name: Nicholas H full_name: Barton, Nicholas H id: 4880FE40-F248-11E8-B48F-1D18A9856A87 last_name: Barton orcid: 0000-0002-8548-5240 - first_name: Tiago full_name: Paixao, Tiago id: 2C5658E6-F248-11E8-B48F-1D18A9856A87 last_name: Paixao orcid: 0000-0003-2361-3953 citation: ama: 'Barton NH, Paixao T. Can quantitative and population genetics help us understand evolutionary computation? In: Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation. ACM; 2013:1573-1580. doi:10.1145/2463372.2463568' apa: 'Barton, N. H., & Paixao, T. (2013). Can quantitative and population genetics help us understand evolutionary computation? In Proceedings of the 15th annual conference on Genetic and evolutionary computation (pp. 1573–1580). Amsterdam, Netherlands: ACM. https://doi.org/10.1145/2463372.2463568' chicago: Barton, Nicholas H, and Tiago Paixao. “Can Quantitative and Population Genetics Help Us Understand Evolutionary Computation?” In Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, 1573–80. ACM, 2013. https://doi.org/10.1145/2463372.2463568. ieee: N. H. Barton and T. Paixao, “Can quantitative and population genetics help us understand evolutionary computation?,” in Proceedings of the 15th annual conference on Genetic and evolutionary computation, Amsterdam, Netherlands, 2013, pp. 1573–1580. ista: 'Barton NH, Paixao T. 2013. Can quantitative and population genetics help us understand evolutionary computation? Proceedings of the 15th annual conference on Genetic and evolutionary computation. GECCO: Genetic and evolutionary computation conference, 1573–1580.' mla: Barton, Nicholas H., and Tiago Paixao. “Can Quantitative and Population Genetics Help Us Understand Evolutionary Computation?” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 1573–80, doi:10.1145/2463372.2463568. short: N.H. Barton, T. Paixao, in:, Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 1573–1580. conference: end_date: 2013-07-10 location: Amsterdam, Netherlands name: 'GECCO: Genetic and evolutionary computation conference' start_date: 2013-07-06 date_created: 2018-12-11T11:59:14Z date_published: 2013-07-01T00:00:00Z date_updated: 2021-01-12T06:59:15Z day: '01' ddc: - '570' department: - _id: NiBa - _id: CaGu doi: 10.1145/2463372.2463568 ec_funded: 1 file: - access_level: open_access checksum: 9d9be9090ce5c20766e0eb076ace5b98 content_type: application/pdf creator: system date_created: 2018-12-12T10:15:38Z date_updated: 2020-07-14T12:45:45Z file_id: '5159' file_name: IST-2016-564-v1+1_NickGECCO_2013_1_-1.pdf file_size: 475844 relation: main_file file_date_updated: 2020-07-14T12:45:45Z has_accepted_license: '1' language: - iso: eng month: '07' oa: 1 oa_version: Submitted Version page: 1573 - 1580 project: - _id: 25B07788-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '250152' name: Limits to selection in biology and in evolutionary computation publication: Proceedings of the 15th annual conference on Genetic and evolutionary computation publication_status: published publisher: ACM publist_id: '4174' pubrep_id: '564' quality_controlled: '1' scopus_import: 1 status: public title: Can quantitative and population genetics help us understand evolutionary computation? type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2013' ... --- _id: '2720' abstract: - lang: eng text: 'Knowledge of the rate and fitness effects of mutations is essential for understanding the process of evolution. Mutations are inherently difficult to study because they are rare and are frequently eliminated by natural selection. In the ciliate Tetrahymena thermophila, mutations can accumulate in the germline genome without being exposed to selection. We have conducted a mutation accumulation (MA) experiment in this species. Assuming that all mutations are deleterious and have the same effect, we estimate that the deleterious mutation rate per haploid germline genome per generation is U = 0.0047 (95% credible interval: 0.0015, 0.0125), and that germline mutations decrease fitness by s = 11% when expressed in a homozygous state (95% CI: 4.4%, 27%). We also estimate that deleterious mutations are partially recessive on average (h = 0.26; 95% CI: –0.022, 0.62) and that the rate of lethal mutations is <10% of the deleterious mutation rate. Comparisons between the observed evolutionary responses in the germline and somatic genomes and the results from individual-based simulations of MA suggest that the two genomes have similar mutational parameters. These are the first estimates of the deleterious mutation rate and fitness effects from the eukaryotic supergroup Chromalveolata and are within the range of those of other eukaryotes.' article_processing_charge: No author: - first_name: Hongan full_name: Long, Hongan last_name: Long - first_name: Tiago full_name: Paixao, Tiago id: 2C5658E6-F248-11E8-B48F-1D18A9856A87 last_name: Paixao orcid: 0000-0003-2361-3953 - first_name: Ricardo full_name: Azevedo, Ricardo last_name: Azevedo - first_name: Rebecca full_name: Zufall, Rebecca last_name: Zufall citation: ama: Long H, Paixao T, Azevedo R, Zufall R. Accumulation of spontaneous mutations in the ciliate Tetrahymena thermophila. Genetics. 2013;195(2):527-540. doi:10.1534/genetics.113.153536 apa: Long, H., Paixao, T., Azevedo, R., & Zufall, R. (2013). Accumulation of spontaneous mutations in the ciliate Tetrahymena thermophila. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.113.153536 chicago: Long, Hongan, Tiago Paixao, Ricardo Azevedo, and Rebecca Zufall. “Accumulation of Spontaneous Mutations in the Ciliate Tetrahymena Thermophila.” Genetics. Genetics Society of America, 2013. https://doi.org/10.1534/genetics.113.153536. ieee: H. Long, T. Paixao, R. Azevedo, and R. Zufall, “Accumulation of spontaneous mutations in the ciliate Tetrahymena thermophila,” Genetics, vol. 195, no. 2. Genetics Society of America, pp. 527–540, 2013. ista: Long H, Paixao T, Azevedo R, Zufall R. 2013. Accumulation of spontaneous mutations in the ciliate Tetrahymena thermophila. Genetics. 195(2), 527–540. mla: Long, Hongan, et al. “Accumulation of Spontaneous Mutations in the Ciliate Tetrahymena Thermophila.” Genetics, vol. 195, no. 2, Genetics Society of America, 2013, pp. 527–40, doi:10.1534/genetics.113.153536. short: H. Long, T. Paixao, R. Azevedo, R. Zufall, Genetics 195 (2013) 527–540. date_created: 2018-12-11T11:59:15Z date_published: 2013-10-01T00:00:00Z date_updated: 2021-01-12T06:59:16Z day: '01' department: - _id: NiBa - _id: CaGu doi: 10.1534/genetics.113.153536 ec_funded: 1 external_id: pmid: - '23934880' intvolume: ' 195' issue: '2' language: - iso: eng main_file_link: - open_access: '1' url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3781978/ month: '10' oa: 1 oa_version: Submitted Version page: 527-540 pmid: 1 project: - _id: 25B07788-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '250152' name: Limits to selection in biology and in evolutionary computation publication: Genetics publication_status: published publisher: Genetics Society of America publist_id: '4172' quality_controlled: '1' scopus_import: 1 status: public title: Accumulation of spontaneous mutations in the ciliate Tetrahymena thermophila type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 195 year: '2013' ... --- _id: '2719' abstract: - lang: eng text: Prediction of the evolutionary process is a long standing problem both in the theory of evolutionary biology and evolutionary computation (EC). It has long been realized that heritable variation is crucial to both the response to selection and the success of genetic algorithms. However, not all variation contributes in the same way to the response. Quantitative genetics has developed a large body of work trying to estimate and understand how different components of the variance in fitness in the population contribute to the response to selection. We illustrate how to apply some concepts of quantitative genetics to the analysis of genetic algorithms. In particular, we derive estimates for the short term prediction of the response to selection and we use variance decomposition to gain insight on local aspects of the landscape. Finally, we propose a new population based genetic algorithm that uses these methods to improve its operation. author: - first_name: Tiago full_name: Paixao, Tiago id: 2C5658E6-F248-11E8-B48F-1D18A9856A87 last_name: Paixao orcid: 0000-0003-2361-3953 - 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: 'Paixao T, Barton NH. A variance decomposition approach to the analysis of genetic algorithms. In: Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation. ACM; 2013:845-852. doi:10.1145/2463372.2463470' apa: 'Paixao, T., & Barton, N. H. (2013). A variance decomposition approach to the analysis of genetic algorithms. In Proceedings of the 15th annual conference on Genetic and evolutionary computation (pp. 845–852). Amsterdam, Netherlands: ACM. https://doi.org/10.1145/2463372.2463470' chicago: Paixao, Tiago, and Nicholas H Barton. “A Variance Decomposition Approach to the Analysis of Genetic Algorithms.” In Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, 845–52. ACM, 2013. https://doi.org/10.1145/2463372.2463470. ieee: T. Paixao and N. H. Barton, “A variance decomposition approach to the analysis of genetic algorithms,” in Proceedings of the 15th annual conference on Genetic and evolutionary computation, Amsterdam, Netherlands, 2013, pp. 845–852. ista: 'Paixao T, Barton NH. 2013. A variance decomposition approach to the analysis of genetic algorithms. Proceedings of the 15th annual conference on Genetic and evolutionary computation. GECCO: Genetic and evolutionary computation conference, 845–852.' mla: Paixao, Tiago, and Nicholas H. Barton. “A Variance Decomposition Approach to the Analysis of Genetic Algorithms.” Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 845–52, doi:10.1145/2463372.2463470. short: T. Paixao, N.H. Barton, in:, Proceedings of the 15th Annual Conference on Genetic and Evolutionary Computation, ACM, 2013, pp. 845–852. conference: end_date: 2013-07-10 location: Amsterdam, Netherlands name: 'GECCO: Genetic and evolutionary computation conference' start_date: 2013-07-06 date_created: 2018-12-11T11:59:15Z date_published: 2013-07-01T00:00:00Z date_updated: 2021-01-12T06:59:15Z day: '01' department: - _id: NiBa - _id: CaGu doi: 10.1145/2463372.2463470 ec_funded: 1 language: - iso: eng month: '07' oa_version: None page: 845 - 852 project: - _id: 25B07788-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '250152' name: Limits to selection in biology and in evolutionary computation publication: Proceedings of the 15th annual conference on Genetic and evolutionary computation publication_status: published publisher: ACM publist_id: '4173' quality_controlled: '1' scopus_import: 1 status: public title: A variance decomposition approach to the analysis of genetic algorithms type: conference user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2013' ...