[{"type":"journal_article","abstract":[{"lang":"eng","text":"he potential for di? erences between genetic paternity and paternity inferred from behavioral observation has long been recognized. These di? erences are associated with the challenge for females of seeking both genetic and material bene? ts; this challenge is less severe in species with polygynous, non-resource-based mating systems (such as leks) than in those with resource-based systems. We pres- ent the ? rst study of paternity patt erns in a non-resource-based species that does not form true leks. We compared paternity inferred from observed mating behavior to genetically assigned paternity in the Satin Bowerbird (Ptilonorhynchus violaceus) using eight microsatellite markers. Mating behavior was observed and recorded via automated video-cameras positioned at all bowers (29?34 bowers each year) in the study site throughout each mating season. We obtained blood samples and identi- ? ed mothers for 11 chicks in 9 nests. For all chicks, the most likely genetic father had been observed to mate with the mother in the year the chick was sampled. All most likely genetic fathers were assigned with high con? dence and all were bower- holding males. These results demonstrate that genetic paternity can be inferred from observed mating behavior with reasonable con? dence in Satin Bowerbirds. Observed male mating-success is therefore a reliable predictor of reproductive success, and this suggests that high skew in observed male mating-success translates directly to high skew in reproductive success. "}],"extern":1,"citation":{"chicago":"Reynolds, Sheila, Katie Dryer, Jonathan P Bollback, J Albert Uy, Gail Patricelli, Timothy Robson, Gerald Borgia, and Michael Braun. “Behavioral Paternity Predicts Genetic Paternity in Satin Bowerbirds, a Species with a Non-Resource-Based Mating System.” <i>The Auk</i>. University of California Press, 2007. <a href=\"https://doi.org/10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2\">https://doi.org/10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2</a>.","short":"S. Reynolds, K. Dryer, J.P. Bollback, J.A. Uy, G. Patricelli, T. Robson, G. Borgia, M. Braun, The Auk 124 (2007) 857–867.","ieee":"S. Reynolds <i>et al.</i>, “Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system,” <i>The Auk</i>, vol. 124, no. 3. University of California Press, pp. 857–867, 2007.","ista":"Reynolds S, Dryer K, Bollback JP, Uy JA, Patricelli G, Robson T, Borgia G, Braun M. 2007. Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system. The Auk. 124(3), 857–867.","ama":"Reynolds S, Dryer K, Bollback JP, et al. Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system. <i>The Auk</i>. 2007;124(3):857-867. doi:<a href=\"https://doi.org/10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2\">10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2</a>","mla":"Reynolds, Sheila, et al. “Behavioral Paternity Predicts Genetic Paternity in Satin Bowerbirds, a Species with a Non-Resource-Based Mating System.” <i>The Auk</i>, vol. 124, no. 3, University of California Press, 2007, pp. 857–67, doi:<a href=\"https://doi.org/10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2\">10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2</a>.","apa":"Reynolds, S., Dryer, K., Bollback, J. P., Uy, J. A., Patricelli, G., Robson, T., … Braun, M. (2007). Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system. <i>The Auk</i>. University of California Press. <a href=\"https://doi.org/10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2\">https://doi.org/10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2</a>"},"volume":124,"quality_controlled":0,"status":"public","day":"01","date_created":"2018-12-11T12:03:19Z","_id":"3436","doi":"10.1642/0004-8038(2007)124[857:BPPGPI]2.0.CO;2","publication_status":"published","publication":"The Auk","publisher":"University of California Press","month":"01","intvolume":"       124","date_published":"2007-01-01T00:00:00Z","issue":"3","author":[{"full_name":"Reynolds, Sheila M","last_name":"Reynolds","first_name":"Sheila"},{"first_name":"Katie","last_name":"Dryer","full_name":"Dryer, Katie"},{"full_name":"Jonathan Bollback","id":"2C6FA9CC-F248-11E8-B48F-1D18A9856A87","first_name":"Jonathan P","orcid":"0000-0002-4624-4612","last_name":"Bollback"},{"full_name":"Uy, J Albert","first_name":"J Albert","last_name":"Uy"},{"first_name":"Gail","last_name":"Patricelli","full_name":"Patricelli, Gail L"},{"full_name":"Robson, Timothy","first_name":"Timothy","last_name":"Robson"},{"full_name":"Borgia, Gerald","first_name":"Gerald","last_name":"Borgia"},{"last_name":"Braun","first_name":"Michael","full_name":"Braun, Michael J"}],"title":"Behavioral paternity predicts genetic paternity in satin bowerbirds, a species with a non-resource-based mating system","date_updated":"2021-01-12T07:43:27Z","publist_id":"2964","page":"857 - 867","year":"2007"},{"month":"01","intvolume":"         2","date_published":"2007-01-01T00:00:00Z","publisher":"Scholarpedia","date_updated":"2021-01-12T07:43:32Z","author":[{"full_name":"Peter Jonas","orcid":"0000-0001-5001-4804","last_name":"Jonas","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","first_name":"Peter M"},{"full_name":"Buzsáki, György","last_name":"Buzsáki","first_name":"György"}],"title":"Neural inhibition","publist_id":"2937","year":"2007","extern":1,"citation":{"ista":"Jonas PM, Buzsáki G. 2007. Neural inhibition. Scholarpedia. 2.","ieee":"P. M. Jonas and G. Buzsáki, “Neural inhibition,” <i>Scholarpedia</i>, vol. 2. Scholarpedia, 2007.","short":"P.M. Jonas, G. Buzsáki, Scholarpedia 2 (2007).","ama":"Jonas PM, Buzsáki G. Neural inhibition. <i>Scholarpedia</i>. 2007;2. doi:<a href=\"https://doi.org/10.4249/scholarpedia.3286\">10.4249/scholarpedia.3286</a>","chicago":"Jonas, Peter M, and György Buzsáki. “Neural Inhibition.” <i>Scholarpedia</i>. Scholarpedia, 2007. <a href=\"https://doi.org/10.4249/scholarpedia.3286\">https://doi.org/10.4249/scholarpedia.3286</a>.","apa":"Jonas, P. M., &#38; Buzsáki, G. (2007). Neural inhibition. <i>Scholarpedia</i>. Scholarpedia. <a href=\"https://doi.org/10.4249/scholarpedia.3286\">https://doi.org/10.4249/scholarpedia.3286</a>","mla":"Jonas, Peter M., and György Buzsáki. “Neural Inhibition.” <i>Scholarpedia</i>, vol. 2, Scholarpedia, 2007, doi:<a href=\"https://doi.org/10.4249/scholarpedia.3286\">10.4249/scholarpedia.3286</a>."},"volume":2,"type":"journal_article","_id":"3450","date_created":"2018-12-11T12:03:23Z","day":"01","quality_controlled":0,"status":"public","doi":"10.4249/scholarpedia.3286","publication_status":"published","publication":"Scholarpedia"},{"page":"704 - 716","publist_id":"2862","year":"2007","intvolume":"        26","month":"08","date_published":"2007-08-01T00:00:00Z","publisher":"Wiley-Blackwell","date_updated":"2021-01-12T07:44:03Z","issue":"3","title":"Place-selective firing contributes to the reverse-order reactivation of CA1 pyramidal cells during sharp waves in open-field exploration","author":[{"orcid":"0000-0002-5193-4036","last_name":"Csicsvari","first_name":"Jozsef L","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","full_name":"Jozsef Csicsvari"},{"full_name":"Joseph O'Neill","last_name":"O'Neill","first_name":"Joseph","id":"426376DC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Allen","first_name":"Kevin","full_name":"Allen, Kevin"},{"first_name":"Timothy","last_name":"Senior","full_name":"Senior,Timothy"}],"doi":"10.1111/j.1460-9568.2007.05684.x","publication_status":"published","publication":"European Journal of Neuroscience","extern":1,"citation":{"ama":"Csicsvari JL, O’Neill J, Allen K, Senior T. Place-selective firing contributes to the reverse-order reactivation of CA1 pyramidal cells during sharp waves in open-field exploration. <i>European Journal of Neuroscience</i>. 2007;26(3):704-716. doi:<a href=\"https://doi.org/10.1111/j.1460-9568.2007.05684.x\">10.1111/j.1460-9568.2007.05684.x</a>","ieee":"J. L. Csicsvari, J. O’Neill, K. Allen, and T. Senior, “Place-selective firing contributes to the reverse-order reactivation of CA1 pyramidal cells during sharp waves in open-field exploration,” <i>European Journal of Neuroscience</i>, vol. 26, no. 3. Wiley-Blackwell, pp. 704–716, 2007.","short":"J.L. Csicsvari, J. O’Neill, K. Allen, T. Senior, European Journal of Neuroscience 26 (2007) 704–716.","ista":"Csicsvari JL, O’Neill J, Allen K, Senior T. 2007. Place-selective firing contributes to the reverse-order reactivation of CA1 pyramidal cells during sharp waves in open-field exploration. European Journal of Neuroscience. 26(3), 704–716.","chicago":"Csicsvari, Jozsef L, Joseph O’Neill, Kevin Allen, and Timothy Senior. “Place-Selective Firing Contributes to the Reverse-Order Reactivation of CA1 Pyramidal Cells during Sharp Waves in Open-Field Exploration.” <i>European Journal of Neuroscience</i>. Wiley-Blackwell, 2007. <a href=\"https://doi.org/10.1111/j.1460-9568.2007.05684.x\">https://doi.org/10.1111/j.1460-9568.2007.05684.x</a>.","apa":"Csicsvari, J. L., O’Neill, J., Allen, K., &#38; Senior, T. (2007). Place-selective firing contributes to the reverse-order reactivation of CA1 pyramidal cells during sharp waves in open-field exploration. <i>European Journal of Neuroscience</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/j.1460-9568.2007.05684.x\">https://doi.org/10.1111/j.1460-9568.2007.05684.x</a>","mla":"Csicsvari, Jozsef L., et al. “Place-Selective Firing Contributes to the Reverse-Order Reactivation of CA1 Pyramidal Cells during Sharp Waves in Open-Field Exploration.” <i>European Journal of Neuroscience</i>, vol. 26, no. 3, Wiley-Blackwell, 2007, pp. 704–16, doi:<a href=\"https://doi.org/10.1111/j.1460-9568.2007.05684.x\">10.1111/j.1460-9568.2007.05684.x</a>."},"volume":26,"type":"journal_article","abstract":[{"text":"On the linear track, the recent firing sequences of CA1 place cells recur during sharp wave/ripple patterns (SWRs) in a reverse temporal order [Foster &amp; Wilson (2006) Nature, 440, 680-683]. We have found similar reverse-order reactivation during SWRs in open-field exploration where the firing sequence of cells varied before each SWR. Both the onset times and the firing patterns of cells showed a tendency for reversed sequences during SWRs. These effects were observed for SWRs that occurred during exploration, but not for those during longer immobility periods. Additionally, reverse reactivation was stronger when it was preceded by higher speed (&gt; 5 cm/s) run periods. The trend for reverse-order SWR reactivation was not significantly different in familiar and novel environments, even though SWR-associated firing rates of both pyramidal cells and interneurons were reduced in novel environments as compared with familiar. During exploration-associated SWRs (eSWR) place cells retain place-selective firing [O'Neill et al. (2006) Neuron, 49, 143-155]. Here, we have shown that each cell's firing onset was more delayed and firing probability more reduced during eSWRs the further the rat was from the middle of the cell's place field; that is, cells receiving less momentary place-related excitatory drive fired later during SWR events. However, even controlling for place field distance, the recent firing of cells was still significantly correlated with SWR reactivation sequences. We therefore propose that both place-related drive and the firing history of cells contribute to reverse reactivation during eSWRs.","lang":"eng"}],"date_created":"2018-12-11T12:03:46Z","_id":"3523","quality_controlled":0,"day":"01","status":"public"},{"main_file_link":[{"url":"https://hal.archives-ouvertes.fr/hal-00201055","open_access":"1"}],"publication_status":"published","doi":"10.1145/1236246.1236267","type":"conference","abstract":[{"lang":"eng","text":"The main result of this paper is an extension of de Silva's Weak Delaunay Theorem to smoothly embedded curves and surfaces in Euclidean space. Assuming a sufficiently fine sampling, we prove that i + 1 points in the sample span an i-simplex in the restricted Delaunay triangulation iff every subset of the i + 1 points has a weak witness."}],"extern":1,"citation":{"mla":"Attali, Dominique, et al. <i>Weak Witnesses for Delaunay Triangulations of Submanifolds</i>. ACM, 2007, pp. 143–50, doi:<a href=\"https://doi.org/10.1145/1236246.1236267\">10.1145/1236246.1236267</a>.","apa":"Attali, D., Edelsbrunner, H., &#38; Mileyko, Y. (2007). Weak witnesses for Delaunay triangulations of submanifolds (pp. 143–150). Presented at the SPM: Symposium on Solid and Physical Modeling, ACM. <a href=\"https://doi.org/10.1145/1236246.1236267\">https://doi.org/10.1145/1236246.1236267</a>","chicago":"Attali, Dominique, Herbert Edelsbrunner, and Yuriy Mileyko. “Weak Witnesses for Delaunay Triangulations of Submanifolds,” 143–50. ACM, 2007. <a href=\"https://doi.org/10.1145/1236246.1236267\">https://doi.org/10.1145/1236246.1236267</a>.","ama":"Attali D, Edelsbrunner H, Mileyko Y. Weak witnesses for Delaunay triangulations of submanifolds. In: ACM; 2007:143-150. doi:<a href=\"https://doi.org/10.1145/1236246.1236267\">10.1145/1236246.1236267</a>","ista":"Attali D, Edelsbrunner H, Mileyko Y. 2007. Weak witnesses for Delaunay triangulations of submanifolds. SPM: Symposium on Solid and Physical Modeling, 143–150.","short":"D. Attali, H. Edelsbrunner, Y. Mileyko, in:, ACM, 2007, pp. 143–150.","ieee":"D. Attali, H. Edelsbrunner, and Y. Mileyko, “Weak witnesses for Delaunay triangulations of submanifolds,” presented at the SPM: Symposium on Solid and Physical Modeling, 2007, pp. 143–150."},"day":"01","status":"public","quality_controlled":0,"_id":"3561","date_created":"2018-12-11T12:03:58Z","publist_id":"2824","conference":{"name":"SPM: Symposium on Solid and Physical Modeling"},"page":"143 - 150","year":"2007","publisher":"ACM","month":"06","date_published":"2007-06-01T00:00:00Z","oa":1,"author":[{"full_name":"Attali, Dominique","first_name":"Dominique","last_name":"Attali"},{"full_name":"Herbert Edelsbrunner","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert"},{"full_name":"Mileyko, Yuriy","first_name":"Yuriy","last_name":"Mileyko"}],"title":"Weak witnesses for Delaunay triangulations of submanifolds","date_updated":"2021-01-12T07:44:19Z"},{"page":"27 - 34","publist_id":"2782","conference":{"name":"AHS: NASA/ESA Conference on Adaptive Hardware and Systems"},"year":"2007","month":"08","date_published":"2007-08-20T00:00:00Z","publisher":"IEEE","date_updated":"2021-01-12T07:44:35Z","title":"Multiobjective optimal design of MEMS-based reconfigurable and evolvable sensor networks for space applications","author":[{"full_name":"Yang, Erfu","first_name":"Erfu","last_name":"Yang"},{"last_name":"Haridas","first_name":"Nakul","full_name":"Haridas, Nakul"},{"first_name":"Ahmed","last_name":"El Rayis","full_name":"El-Rayis, Ahmed O"},{"full_name":"Erdogan, Ahmet T","last_name":"Erdogan","first_name":"Ahmet"},{"last_name":"Arslan","first_name":"Tughrul","full_name":"Arslan, Tughrul"},{"full_name":"Nicholas Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton"}],"doi":"10.1109/AHS.2007.76","publication_status":"published","extern":1,"citation":{"apa":"Yang, E., Haridas, N., El Rayis, A., Erdogan, A., Arslan, T., &#38; Barton, N. H. (2007). Multiobjective optimal design of MEMS-based reconfigurable and evolvable sensor networks for space applications (pp. 27–34). Presented at the AHS: NASA/ESA Conference on Adaptive Hardware and Systems, IEEE. <a href=\"https://doi.org/10.1109/AHS.2007.76\">https://doi.org/10.1109/AHS.2007.76</a>","mla":"Yang, Erfu, et al. <i>Multiobjective Optimal Design of MEMS-Based Reconfigurable and Evolvable Sensor Networks for Space Applications</i>. IEEE, 2007, pp. 27–34, doi:<a href=\"https://doi.org/10.1109/AHS.2007.76\">10.1109/AHS.2007.76</a>.","ama":"Yang E, Haridas N, El Rayis A, Erdogan A, Arslan T, Barton NH. Multiobjective optimal design of MEMS-based reconfigurable and evolvable sensor networks for space applications. In: IEEE; 2007:27-34. doi:<a href=\"https://doi.org/10.1109/AHS.2007.76\">10.1109/AHS.2007.76</a>","ieee":"E. Yang, N. Haridas, A. El Rayis, A. Erdogan, T. Arslan, and N. H. Barton, “Multiobjective optimal design of MEMS-based reconfigurable and evolvable sensor networks for space applications,” presented at the AHS: NASA/ESA Conference on Adaptive Hardware and Systems, 2007, pp. 27–34.","short":"E. Yang, N. Haridas, A. El Rayis, A. Erdogan, T. Arslan, N.H. Barton, in:, IEEE, 2007, pp. 27–34.","ista":"Yang E, Haridas N, El Rayis A, Erdogan A, Arslan T, Barton NH. 2007. Multiobjective optimal design of MEMS-based reconfigurable and evolvable sensor networks for space applications. AHS: NASA/ESA Conference on Adaptive Hardware and Systems, 27–34.","chicago":"Yang, Erfu, Nakul Haridas, Ahmed El Rayis, Ahmet Erdogan, Tughrul Arslan, and Nicholas H Barton. “Multiobjective Optimal Design of MEMS-Based Reconfigurable and Evolvable Sensor Networks for Space Applications,” 27–34. IEEE, 2007. <a href=\"https://doi.org/10.1109/AHS.2007.76\">https://doi.org/10.1109/AHS.2007.76</a>."},"type":"conference","abstract":[{"lang":"eng","text":"In this paper, the multiobjective optimal design of space-based reconfigurable sensor networks with novel adaptive MEMS antennas is investigated by using multiobjective evolutionary algorithms. The non-dominated sorting genetic algorithm II (NSGA-II) is employed to obtain multi-criteria Pareto-optimal solutions, which allows system designers to easily make a reasonable trade-off choice from the set of non-dominated solutions according to their preferences and system requirements. As a case study, a cluster-based satellite sensing network is simulated under multiple objectives. Most importantly, this paper also presents the application of our newly designed adaptive MEMS antennas together with the NSGA-II to the multiobjective optimal design of space-based reconfigurable sensor networks."}],"_id":"3601","date_created":"2018-12-11T12:04:11Z","status":"public","day":"20","quality_controlled":0},{"title":"Evolution","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","author":[{"full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H"},{"full_name":"Briggs, Derek","last_name":"Briggs","first_name":"Derek"},{"last_name":"Eisen","first_name":"Jonathan","full_name":"Eisen, Jonathan"},{"full_name":"Goldstein, David","first_name":"David","last_name":"Goldstein"},{"full_name":"Patel, Nipam","last_name":"Patel","first_name":"Nipam"}],"date_updated":"2021-12-21T15:55:28Z","publisher":"Cold Spring Harbor Laboratory Press","month":"06","date_published":"2007-06-30T00:00:00Z","year":"2007","language":[{"iso":"eng"}],"publist_id":"2709","article_processing_charge":"No","page":"XIV, 833","quality_controlled":"1","day":"30","status":"public","_id":"3674","date_created":"2018-12-11T12:04:33Z","type":"book","abstract":[{"text":"Evolution permeates all of biology. But researchers in molecular and cellular biology, genetics, developmental biology, microbiology, and neuroscience have only recently begun to think seriously in terms of evolution. The chief reasons for this shift are the growing list of organisms with sequenced genomes; the increasingly sophisticated ways of interpreting those sequences; and the ever more powerful experimental techniques (and wider range of model organisms) with which to ask questions about evolution as well as mechanism.\r\n\r\nEvolution serves as a primary text for undergraduate and graduate courses in evolution. It is also a text working scientists can use to educate themselves on how evolution affects their fields. It differs from currently available alternatives in containing more molecular biology than is traditionally the case. But this is not at the expense of traditional evolutionary theory. Indeed, a glance at the Table of Contents and the authors' interests reveals the range of material covered in this book. The authors are world-renowned in population genetics, bacterial genomics, paleontology, human genetics, and developmental biology. The integration of molecular biology and evolutionary biology reflects the current direction of much research among evolutionary scientists.","lang":"eng"}],"publication_identifier":{"isbn":["978-087969684-9"]},"citation":{"apa":"Barton, N. H., Briggs, D., Eisen, J., Goldstein, D., &#38; Patel, N. (2007). <i>Evolution</i>. Cold Spring Harbor Laboratory Press.","mla":"Barton, Nicholas H., et al. <i>Evolution</i>. Cold Spring Harbor Laboratory Press, 2007.","ama":"Barton NH, Briggs D, Eisen J, Goldstein D, Patel N. <i>Evolution</i>. Cold Spring Harbor Laboratory Press; 2007.","ieee":"N. H. Barton, D. Briggs, J. Eisen, D. Goldstein, and N. Patel, <i>Evolution</i>. Cold Spring Harbor Laboratory Press, 2007.","short":"N.H. Barton, D. Briggs, J. Eisen, D. Goldstein, N. Patel, Evolution, Cold Spring Harbor Laboratory Press, 2007.","ista":"Barton NH, Briggs D, Eisen J, Goldstein D, Patel N. 2007. Evolution, Cold Spring Harbor Laboratory Press, XIV, 833p.","chicago":"Barton, Nicholas H, Derek Briggs, Jonathan Eisen, David Goldstein, and Nipam Patel. <i>Evolution</i>. Cold Spring Harbor Laboratory Press, 2007."},"extern":"1","oa_version":"None","related_material":{"link":[{"relation":"other","url":"https://koha.app.ist.ac.at/cgi-bin/koha/opac-detail.pl?biblionumber=3251&query_desc=au%2Cwrdl%3A%20nicholas%20barton","description":"available via catalog IST BookList"},{"url":"http://www.evolution-textbook.org/","relation":"supplementary_material"}]},"publication_status":"published"},{"doi":"10.1007/978-3-540-74936-3_21","publication_status":"published","date_created":"2018-12-11T12:04:35Z","_id":"3681","quality_controlled":0,"status":"public","day":"09","citation":{"chicago":"Ulges, Adrian, Christoph Lampert, Daniel Keysers, and Thomas Breuel. “Optimal Dominant Motion Estimation Using Adaptive Search of Transformation Space,” 4713:204–13. Springer, 2007. <a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">https://doi.org/10.1007/978-3-540-74936-3_21</a>.","ista":"Ulges A, Lampert C, Keysers D, Breuel T. 2007. Optimal dominant motion estimation using adaptive search of transformation space. DAGM: German Association For Pattern Recognition, LCNS, vol. 4713, 204–213.","ieee":"A. Ulges, C. Lampert, D. Keysers, and T. Breuel, “Optimal dominant motion estimation using adaptive search of transformation space,” presented at the DAGM: German Association For Pattern Recognition, 2007, vol. 4713, pp. 204–213.","short":"A. Ulges, C. Lampert, D. Keysers, T. Breuel, in:, Springer, 2007, pp. 204–213.","ama":"Ulges A, Lampert C, Keysers D, Breuel T. Optimal dominant motion estimation using adaptive search of transformation space. In: Vol 4713. Springer; 2007:204-213. doi:<a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">10.1007/978-3-540-74936-3_21</a>","mla":"Ulges, Adrian, et al. <i>Optimal Dominant Motion Estimation Using Adaptive Search of Transformation Space</i>. Vol. 4713, Springer, 2007, pp. 204–13, doi:<a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">10.1007/978-3-540-74936-3_21</a>.","apa":"Ulges, A., Lampert, C., Keysers, D., &#38; Breuel, T. (2007). Optimal dominant motion estimation using adaptive search of transformation space (Vol. 4713, pp. 204–213). Presented at the DAGM: German Association For Pattern Recognition, Springer. <a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">https://doi.org/10.1007/978-3-540-74936-3_21</a>"},"extern":1,"volume":4713,"type":"conference","abstract":[{"lang":"eng","text":"The extraction of a parametric global motion from a motion field is a task with several applications in video processing. We present two probabilistic formulations of the problem and carry out optimization using the RAST algorithm, a geometric matching method novel to motion estimation in video. RAST uses an exhaustive and adaptive search of transformation space and thus gives – in contrast to local sampling optimization techniques used in the past – a globally optimal solution. Among other applications, our framework can thus be used as a source of ground truth for benchmarking motion estimation algorithms.\n\nOur main contributions are: first, the novel combination of a state-of-the-art MAP criterion for dominant motion estimation with a search procedure that guarantees global optimality. Second, experimental results that illustrate the superior performance of our approach on synthetic flow fields as well as real-world video streams. Third, a significant speedup of the search achieved by extending the model with an additional smoothness prior."}],"year":"2007","page":"204 - 213","publist_id":"2695","conference":{"name":"DAGM: German Association For Pattern Recognition"},"date_updated":"2021-01-12T07:45:06Z","title":"Optimal dominant motion estimation using adaptive search of transformation space","author":[{"full_name":"Ulges, Adrian","first_name":"Adrian","last_name":"Ulges"},{"full_name":"Christoph Lampert","first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8622-7887","last_name":"Lampert"},{"first_name":"Daniel","last_name":"Keysers","full_name":"Keysers,Daniel"},{"full_name":"Breuel,Thomas M","first_name":"Thomas","last_name":"Breuel"}],"month":"11","intvolume":"      4713","date_published":"2007-11-09T00:00:00Z","alternative_title":["LCNS"],"publisher":"Springer"},{"type":"report","abstract":[{"text":"Recent years have seen huge advances in object recognition from images. Recognition rates beyond 95% are the rule rather than the exception on many datasets. However, most state-of-the-art methods can only decide if an object is present or not. They are not able to provide information on the object location or extent within in the image.\n\nWe report on a simple yet powerful scheme that extends many existing recognition methods to also perform localization of object bounding boxes. This is achieved by maximizing the classification score over all possible subrectangles in the image. Despite the impression that this would be computationally intractable, we show that in many situations efficient algorithms exist which solve a generalized maximum subrectangle problem.\n\nWe show how our method is applicable to a variety object detection frameworks and demonstrate its performance by applying it to the popular bag of visual words model, achieving competitive results on the PASCAL VOC 2006 dataset.","lang":"eng"}],"extern":1,"citation":{"mla":"Blaschko, Matthew, et al. “Efficient Subwindow Search for Object Localization.” <i>Unknown</i>, no. 164, Max-Planck-Institute for Biological Cybernetics, 2007.","apa":"Blaschko, M., Hofmann, T., &#38; Lampert, C. (2007). <i>Efficient subwindow search for object localization</i>. <i>Unknown</i>. Max-Planck-Institute for Biological Cybernetics.","chicago":"Blaschko, Matthew, Thomas Hofmann, and Christoph Lampert. <i>Efficient Subwindow Search for Object Localization</i>. <i>Unknown</i>. Max-Planck-Institute for Biological Cybernetics, 2007.","short":"M. Blaschko, T. Hofmann, C. Lampert, Efficient Subwindow Search for Object Localization, Max-Planck-Institute for Biological Cybernetics, 2007.","ieee":"M. Blaschko, T. Hofmann, and C. Lampert, <i>Efficient subwindow search for object localization</i>, no. 164. Max-Planck-Institute for Biological Cybernetics, 2007.","ista":"Blaschko M, Hofmann T, Lampert C. 2007. Efficient subwindow search for object localization, Max-Planck-Institute for Biological Cybernetics,p.","ama":"Blaschko M, Hofmann T, Lampert C. <i>Efficient Subwindow Search for Object Localization</i>. Max-Planck-Institute for Biological Cybernetics; 2007."},"day":"01","status":"public","quality_controlled":0,"_id":"3687","date_created":"2018-12-11T12:04:37Z","main_file_link":[{"url":"http://www.kyb.tuebingen.mpg.de/fileadmin/user_upload/files/publications/TR-164_[0].pdf","open_access":"0"}],"publication_status":"published","publication":"Unknown","publisher":"Max-Planck-Institute for Biological Cybernetics","month":"08","date_published":"2007-08-01T00:00:00Z","issue":"164","title":"Efficient subwindow search for object localization","author":[{"last_name":"Blaschko","first_name":"Matthew","full_name":"Blaschko,Matthew B"},{"last_name":"Hofmann","first_name":"Thomas","full_name":"Hofmann,Thomas"},{"full_name":"Christoph Lampert","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph","orcid":"0000-0001-8622-7887","last_name":"Lampert"}],"date_updated":"2019-04-26T07:22:33Z","publist_id":"2681","year":"2007"},{"extern":1,"citation":{"short":"A. Ulges, C. Lampert, D. Keysers, T. Breuel, in:, Springer, 2007, pp. 204–213.","ieee":"A. Ulges, C. Lampert, D. Keysers, and T. Breuel, “Optimal dominant motion estimation using adaptive search of transformation space,” presented at the DAGM: German Association For Pattern Recognition, 2007, vol. 4713, pp. 204–213.","ista":"Ulges A, Lampert C, Keysers D, Breuel T. 2007. Optimal dominant motion estimation using adaptive search of transformation space. DAGM: German Association For Pattern Recognition, LNCS, vol. 4713, 204–213.","ama":"Ulges A, Lampert C, Keysers D, Breuel T. Optimal dominant motion estimation using adaptive search of transformation space. In: Vol 4713. Springer; 2007:204-213. doi:<a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">10.1007/978-3-540-74936-3_21</a>","chicago":"Ulges, Adrian, Christoph Lampert, Daniel Keysers, and Thomas Breuel. “Optimal Dominant Motion Estimation Using Adaptive Search of Transformation Space,” 4713:204–13. Springer, 2007. <a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">https://doi.org/10.1007/978-3-540-74936-3_21</a>.","apa":"Ulges, A., Lampert, C., Keysers, D., &#38; Breuel, T. (2007). Optimal dominant motion estimation using adaptive search of transformation space (Vol. 4713, pp. 204–213). Presented at the DAGM: German Association For Pattern Recognition, Springer. <a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">https://doi.org/10.1007/978-3-540-74936-3_21</a>","mla":"Ulges, Adrian, et al. <i>Optimal Dominant Motion Estimation Using Adaptive Search of Transformation Space</i>. Vol. 4713, Springer, 2007, pp. 204–13, doi:<a href=\"https://doi.org/10.1007/978-3-540-74936-3_21\">10.1007/978-3-540-74936-3_21</a>."},"volume":4713,"type":"conference","abstract":[{"text":"The extraction of a parametric global motion from a motion field is a task with several applications in video processing. We present two probabilistic formulations of the problem and carry out optimization using the RAST algorithm, a geometric matching method novel to motion estimation in video. RAST uses an exhaustive and adaptive search of transformation space and thus gives – in contrast to local sampling optimization techniques used in the past – a globally optimal solution. Among other applications, our framework can thus be used as a source of ground truth for benchmarking motion estimation algorithms.\n\nOur main contributions are: first, the novel combination of a state-of-the-art MAP criterion for dominant motion estimation with a search procedure that guarantees global optimality. Second, experimental results that illustrate the superior performance of our approach on synthetic flow fields as well as real-world video streams. Third, a significant speedup of the search achieved by extending the model with an additional smoothness prior.","lang":"eng"}],"date_created":"2018-12-11T12:04:42Z","_id":"3701","quality_controlled":0,"status":"public","day":"09","doi":"10.1007/978-3-540-74936-3_21","publication_status":"published","month":"11","intvolume":"      4713","alternative_title":["LNCS"],"date_published":"2007-11-09T00:00:00Z","publisher":"Springer","date_updated":"2021-01-12T07:51:35Z","author":[{"full_name":"Ulges, Adrian","first_name":"Adrian","last_name":"Ulges"},{"last_name":"Lampert","orcid":"0000-0001-8622-7887","first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Christoph Lampert"},{"full_name":"Keysers,Daniel","last_name":"Keysers","first_name":"Daniel"},{"full_name":"Breuel,Thomas M","last_name":"Breuel","first_name":"Thomas"}],"title":"Optimal dominant motion estimation using adaptive search of transformation space","page":"204 - 213","conference":{"name":"DAGM: German Association For Pattern Recognition"},"publist_id":"2656","year":"2007"},{"citation":{"ieee":"H. L. Janovjak, H. Knaus, and D. Mueller, “Transmembrane helices have rough energy surfaces,” <i>Journal of the American Chemical Society</i>, vol. 129, no. 2. ACS, pp. 246–247, 2007.","short":"H.L. Janovjak, H. Knaus, D. Mueller, Journal of the American Chemical Society 129 (2007) 246–247.","ista":"Janovjak HL, Knaus H, Mueller D. 2007. Transmembrane helices have rough energy surfaces. Journal of the American Chemical Society. 129(2), 246–247.","ama":"Janovjak HL, Knaus H, Mueller D. Transmembrane helices have rough energy surfaces. <i>Journal of the American Chemical Society</i>. 2007;129(2):246-247. doi:<a href=\"https://doi.org/10.1021/ja065684a\">10.1021/ja065684a</a>","chicago":"Janovjak, Harald L, Helene Knaus, and Daniel Mueller. “Transmembrane Helices Have Rough Energy Surfaces.” <i>Journal of the American Chemical Society</i>. ACS, 2007. <a href=\"https://doi.org/10.1021/ja065684a\">https://doi.org/10.1021/ja065684a</a>.","apa":"Janovjak, H. L., Knaus, H., &#38; Mueller, D. (2007). Transmembrane helices have rough energy surfaces. <i>Journal of the American Chemical Society</i>. ACS. <a href=\"https://doi.org/10.1021/ja065684a\">https://doi.org/10.1021/ja065684a</a>","mla":"Janovjak, Harald L., et al. “Transmembrane Helices Have Rough Energy Surfaces.” <i>Journal of the American Chemical Society</i>, vol. 129, no. 2, ACS, 2007, pp. 246–47, doi:<a href=\"https://doi.org/10.1021/ja065684a\">10.1021/ja065684a</a>."},"extern":1,"volume":129,"type":"journal_article","abstract":[{"lang":"eng","text":"The folding and function of proteins is guided by their multidimensional energy landscapes. Local corrugations on rugged energy surfaces determine the dynamics of functionally related conformational changes and molecular flexibilities. By varying the temperature during the force-induced unfolding of the membrane protein bacteriorhodopsin, we directly determined the energy roughness of individual transmembrane α-helices. All helices have rugged energy surfaces with an overall roughness scale of 4−6 kBT, in line with the vital roles of transmembrane helices as functional and structural building blocks. Interestingly, the mechanical unfolding of misfolded membrane proteins in vivo is likely to occur on similarly energy rugged surfaces, which may also provide an energetic framework for small vertical motions of functionally relevant helices. Finally, our results also indicate that transmembrane protein structures can have rough energy surfaces despite their highly restricted conformational spaces in confining lipid bilayer environments. "}],"_id":"3723","date_created":"2018-12-11T12:04:49Z","status":"public","day":"17","quality_controlled":0,"doi":"10.1021/ja065684a","publication_status":"published","publication":"Journal of the American Chemical Society","intvolume":"       129","month":"01","date_published":"2007-01-17T00:00:00Z","publisher":"ACS","date_updated":"2021-01-12T07:51:44Z","issue":"2","title":"Transmembrane helices have rough energy surfaces","author":[{"orcid":"0000-0002-8023-9315","last_name":"Janovjak","first_name":"Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","full_name":"Harald Janovjak"},{"last_name":"Knaus","first_name":"Helene","full_name":"Knaus, Helene"},{"full_name":"Mueller, Daniel J","first_name":"Daniel","last_name":"Mueller"}],"page":"246 - 247","publist_id":"2507","year":"2007"},{"type":"journal_article","abstract":[{"lang":"eng","text":"Since its invention in the 1990s single-molecule force spectroscopy has been increasingly applied to study protein (un-)folding, cell adhesion, and ligand–receptor interactions. In most force spectroscopy studies, the cantilever of an atomic force microscope (AFM) is separated from a surface at a constant velocity, thus applying an increasing force to folded bio-molecules or bio-molecular bonds. Recently, Fernandez and co-workers introduced the so-called force-clamp technique. Single proteins were subjected to a defined constant force allowing their life times and life time distributions to be directly measured. Up to now, the force-clamping was performed by analogue PID controllers, which require complex additional hardware and might make it difficult to combine the force-feedback with other modes such as constant velocity. These points may be limiting the applicability and versatility of this technique. Here we present a simple, fast, and all-digital (software-based) PID controller that yields response times of a few milliseconds in combination with a commercial AFM. We demonstrate the performance of our feedback loop by force-clamp unfolding of single Ig27 domains of titin and the membrane proteins bacteriorhodopsin (BR) and the sodium/proton antiporter NhaA."}],"extern":1,"citation":{"apa":"Bippes, C., Janovjak, H. L., Kedrov, A., &#38; Mueller, D. (2007). Digital force-feedback for protein unfolding experiments using atomic force microscopy. <i>Nanotechnology</i>. IOP Publishing Ltd. <a href=\"https://doi.org/10.1088/0957-4484/18/4/044022\">https://doi.org/10.1088/0957-4484/18/4/044022</a>","mla":"Bippes, Christian, et al. “Digital Force-Feedback for Protein Unfolding Experiments Using Atomic Force Microscopy.” <i>Nanotechnology</i>, vol. 18, no. 4, IOP Publishing Ltd., 2007, doi:<a href=\"https://doi.org/10.1088/0957-4484/18/4/044022\">10.1088/0957-4484/18/4/044022</a>.","ama":"Bippes C, Janovjak HL, Kedrov A, Mueller D. Digital force-feedback for protein unfolding experiments using atomic force microscopy. <i>Nanotechnology</i>. 2007;18(4). doi:<a href=\"https://doi.org/10.1088/0957-4484/18/4/044022\">10.1088/0957-4484/18/4/044022</a>","ista":"Bippes C, Janovjak HL, Kedrov A, Mueller D. 2007. Digital force-feedback for protein unfolding experiments using atomic force microscopy. Nanotechnology. 18(4).","short":"C. Bippes, H.L. Janovjak, A. Kedrov, D. Mueller, Nanotechnology 18 (2007).","ieee":"C. Bippes, H. L. Janovjak, A. Kedrov, and D. Mueller, “Digital force-feedback for protein unfolding experiments using atomic force microscopy,” <i>Nanotechnology</i>, vol. 18, no. 4. IOP Publishing Ltd., 2007.","chicago":"Bippes, Christian, Harald L Janovjak, Alexej Kedrov, and Daniel Mueller. “Digital Force-Feedback for Protein Unfolding Experiments Using Atomic Force Microscopy.” <i>Nanotechnology</i>. IOP Publishing Ltd., 2007. <a href=\"https://doi.org/10.1088/0957-4484/18/4/044022\">https://doi.org/10.1088/0957-4484/18/4/044022</a>."},"volume":18,"day":"31","quality_controlled":0,"status":"public","_id":"3727","date_created":"2018-12-11T12:04:50Z","doi":"10.1088/0957-4484/18/4/044022","publication_status":"published","publication":"Nanotechnology","publisher":"IOP Publishing Ltd.","month":"01","intvolume":"        18","date_published":"2007-01-31T00:00:00Z","issue":"4","title":"Digital force-feedback for protein unfolding experiments using atomic force microscopy","author":[{"first_name":"Christian","last_name":"Bippes","full_name":"Bippes, Christian A"},{"full_name":"Harald Janovjak","last_name":"Janovjak","orcid":"0000-0002-8023-9315","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","first_name":"Harald L"},{"last_name":"Kedrov","first_name":"Alexej","full_name":"Kedrov, Alexej"},{"full_name":"Mueller, Daniel J","last_name":"Mueller","first_name":"Daniel"}],"date_updated":"2021-01-12T07:51:46Z","publist_id":"2501","year":"2007"},{"title":"Precise physical models of protein-DNA interaction from high-throughput data","author":[{"full_name":"Kinney,Justin B","first_name":"Justin","last_name":"Kinney"},{"orcid":"0000-0002-6699-1455","last_name":"Tkacik","first_name":"Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Gasper Tkacik"},{"full_name":"Callan,Curtis G","last_name":"Callan","first_name":"Curtis"}],"issue":"2","date_updated":"2021-01-12T07:51:48Z","publisher":"National Academy of Sciences","date_published":"2007-01-09T00:00:00Z","month":"01","intvolume":"       104","year":"2007","publist_id":"2495","page":"501 - 506","quality_controlled":0,"status":"public","day":"09","date_created":"2018-12-11T12:04:51Z","_id":"3731","abstract":[{"text":"A cell's ability to regulate gene transcription depends in large part on the energy with which transcription factors (TFs) bind their DNA regulatory sites. Obtaining accurate models of this binding energy is therefore an important goal for quantitative biology. In this article, we present a principled likelihood-based approach for inferring physical models of TF-DNA binding energy from the data produced by modern high-throughput binding assays. Central to our analysis is the ability to assess the relative likelihood of different model parameters given experimental observations. We take a unique approach to this problem and show how to compute likelihood without any explicit assumptions about the noise that inevitably corrupts such measurements. Sampling possible choices for model parameters according to this likelihood function, we can then make probabilistic predictions for the identities of binding sites and their physical binding energies. Applying this procedure to previously published data on the Saccharomyces cerevisiae TF Abf1p, we find models of TF binding whose parameters are determined with remarkable precision. Evidence for the accuracy of these models is provided by an astonishing level of phylogenetic conservation in the predicted energies of putative binding sites. Results from in vivo and in vitro experiments also provide highly consistent characterizations of Abf1p, a result that contrasts with a previous analysis of the same data.","lang":"eng"}],"type":"journal_article","volume":104,"citation":{"mla":"Kinney, Justin, et al. “Precise Physical Models of Protein-DNA Interaction from High-Throughput Data.” <i>PNAS</i>, vol. 104, no. 2, National Academy of Sciences, 2007, pp. 501–06, doi:<a href=\"https://doi.org/10.1073/pnas.0609908104\">10.1073/pnas.0609908104</a>.","apa":"Kinney, J., Tkačik, G., &#38; Callan, C. (2007). Precise physical models of protein-DNA interaction from high-throughput data. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.0609908104\">https://doi.org/10.1073/pnas.0609908104</a>","chicago":"Kinney, Justin, Gašper Tkačik, and Curtis Callan. “Precise Physical Models of Protein-DNA Interaction from High-Throughput Data.” <i>PNAS</i>. National Academy of Sciences, 2007. <a href=\"https://doi.org/10.1073/pnas.0609908104\">https://doi.org/10.1073/pnas.0609908104</a>.","ama":"Kinney J, Tkačik G, Callan C. Precise physical models of protein-DNA interaction from high-throughput data. <i>PNAS</i>. 2007;104(2):501-506. doi:<a href=\"https://doi.org/10.1073/pnas.0609908104\">10.1073/pnas.0609908104</a>","ista":"Kinney J, Tkačik G, Callan C. 2007. Precise physical models of protein-DNA interaction from high-throughput data. PNAS. 104(2), 501–506.","short":"J. Kinney, G. Tkačik, C. Callan, PNAS 104 (2007) 501–506.","ieee":"J. Kinney, G. Tkačik, and C. Callan, “Precise physical models of protein-DNA interaction from high-throughput data,” <i>PNAS</i>, vol. 104, no. 2. National Academy of Sciences, pp. 501–506, 2007."},"extern":1,"publication":"PNAS","doi":"10.1073/pnas.0609908104","main_file_link":[{"open_access":"0","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1766414"}],"publication_status":"published"},{"publist_id":"2486","year":"2007","date_published":"2007-01-01T00:00:00Z","month":"01","publisher":"ArXiv","date_updated":"2021-01-12T07:51:52Z","title":"Faster solutions of the inverse pairwise Ising problem","author":[{"full_name":"Broderick,Tamara","first_name":"Tamara","last_name":"Broderick"},{"first_name":"Miroslav","last_name":"Dudik","full_name":"Dudik,Miroslav"},{"full_name":"Gasper Tkacik","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gasper","last_name":"Tkacik","orcid":"0000-0002-6699-1455"},{"full_name":"Schapire,Robert E","first_name":"Robert","last_name":"Schapire"},{"last_name":"Bialek","first_name":"William","full_name":"Bialek, William S"}],"oa":1,"publication":"ArXiv","main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/0712.2437v2"}],"publication_status":"published","volume":"q-bio.QM","citation":{"mla":"Broderick, Tamara, et al. “Faster Solutions of the Inverse Pairwise Ising Problem.” <i>ArXiv</i>, vol. q-QM, ArXiv, 2007.","apa":"Broderick, T., Dudik, M., Tkačik, G., Schapire, R., &#38; Bialek, W. (2007). Faster solutions of the inverse pairwise Ising problem. <i>ArXiv</i>. ArXiv.","chicago":"Broderick, Tamara, Miroslav Dudik, Gašper Tkačik, Robert Schapire, and William Bialek. “Faster Solutions of the Inverse Pairwise Ising Problem.” <i>ArXiv</i>. ArXiv, 2007.","ieee":"T. Broderick, M. Dudik, G. Tkačik, R. Schapire, and W. Bialek, “Faster solutions of the inverse pairwise Ising problem,” <i>ArXiv</i>, vol. q-QM. ArXiv, 2007.","ista":"Broderick T, Dudik M, Tkačik G, Schapire R, Bialek W. 2007. Faster solutions of the inverse pairwise Ising problem. ArXiv, q-QM, .","short":"T. Broderick, M. Dudik, G. Tkačik, R. Schapire, W. Bialek, ArXiv q-QM (2007).","ama":"Broderick T, Dudik M, Tkačik G, Schapire R, Bialek W. Faster solutions of the inverse pairwise Ising problem. <i>ArXiv</i>. 2007;q-QM."},"extern":1,"abstract":[{"lang":"eng","text":"Recent work has shown that probabilistic models based on pairwise interactions-in the simplest case, the Ising model-provide surprisingly accurate descriptions of experiments on real biological networks ranging from neurons to genes. Finding these models requires us to solve an inverse problem: given experimentally measured expectation values, what are the parameters of the underlying Hamiltonian? This problem sits at the intersection of statistical physics and machine learning, and we suggest that more efficient solutions are possible by merging ideas from the two fields. We use a combination of recent coordinate descent algorithms with an adaptation of the histogram Monte Carlo method, and implement these techniques to take advantage of the sparseness found in data on real neurons. The resulting algorithm learns the parameters of an Ising model describing a network of forty neurons within a few minutes. This opens the possibility of analyzing much larger data sets now emerging, and thus testing hypotheses about the collective behaviors of these networks."}],"type":"preprint","_id":"3742","date_created":"2018-12-11T12:04:55Z","quality_controlled":0,"status":"public","day":"01"},{"title":"Animating corrosion and erosion","author":[{"last_name":"Wojtan","orcid":"0000-0001-6646-5546","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher J","full_name":"Wojtan, Christopher J"},{"full_name":"Carlson, Mark","last_name":"Carlson","first_name":"Mark"},{"last_name":"Mucha","first_name":"Peter","full_name":"Mucha, Peter"},{"last_name":"Turk","first_name":"Greg","full_name":"Turk, Greg"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-02-23T11:41:34Z","publisher":"Eurographics Association","date_published":"2007-09-01T00:00:00Z","month":"09","year":"2007","language":[{"iso":"eng"}],"publist_id":"2464","conference":{"name":"EGWNP: Eurographics Workshop on Natural Phenomena"},"page":"15 - 22","article_processing_charge":"No","status":"public","day":"01","date_created":"2018-12-11T12:05:02Z","_id":"3762","abstract":[{"lang":"eng","text":"In this paper, we present a simple method for animating natural phenomena such as erosion, sedimentation, and acidic corrosion. We discretize the appropriate physical or chemical equations using finite differences, and we use the results to modify the shape of a solid body. We remove mass from an object by treating its surface as a level set and advecting it inward, and we deposit the chemical and physical byproducts into simulated fluid. Similarly, our technique deposits sediment onto a surface by advecting the level set outward. Our idea can be used for off-line high quality animations as well as interactive applications such as games, and we demonstrate both in this paper."}],"type":"conference","citation":{"ista":"Wojtan C, Carlson M, Mucha P, Turk G. 2007. Animating corrosion and erosion. EGWNP: Eurographics Workshop on Natural Phenomena, 15–22.","ieee":"C. Wojtan, M. Carlson, P. Mucha, and G. Turk, “Animating corrosion and erosion,” presented at the EGWNP: Eurographics Workshop on Natural Phenomena, 2007, pp. 15–22.","short":"C. Wojtan, M. Carlson, P. Mucha, G. Turk, in:, Eurographics Association, 2007, pp. 15–22.","ama":"Wojtan C, Carlson M, Mucha P, Turk G. Animating corrosion and erosion. In: Eurographics Association; 2007:15-22. doi:<a href=\"https://doi.org/10.2312/NPH/NPH07/015-022\">10.2312/NPH/NPH07/015-022</a>","chicago":"Wojtan, Chris, Mark Carlson, Peter Mucha, and Greg Turk. “Animating Corrosion and Erosion,” 15–22. Eurographics Association, 2007. <a href=\"https://doi.org/10.2312/NPH/NPH07/015-022\">https://doi.org/10.2312/NPH/NPH07/015-022</a>.","apa":"Wojtan, C., Carlson, M., Mucha, P., &#38; Turk, G. (2007). Animating corrosion and erosion (pp. 15–22). Presented at the EGWNP: Eurographics Workshop on Natural Phenomena, Eurographics Association. <a href=\"https://doi.org/10.2312/NPH/NPH07/015-022\">https://doi.org/10.2312/NPH/NPH07/015-022</a>","mla":"Wojtan, Chris, et al. <i>Animating Corrosion and Erosion</i>. Eurographics Association, 2007, pp. 15–22, doi:<a href=\"https://doi.org/10.2312/NPH/NPH07/015-022\">10.2312/NPH/NPH07/015-022</a>."},"extern":"1","oa_version":"None","doi":"10.2312/NPH/NPH07/015-022","publication_status":"published","main_file_link":[{"url":"http://www.amath.unc.edu/Faculty/mucha/Reprints/EGNPerosion.pdf"}]},{"oa_version":"None","publication":"ACM Transactions on Graphics","publication_status":"published","doi":"10.1145/1276377.1276397","day":"29","status":"public","_id":"3765","date_created":"2018-12-11T12:05:03Z","abstract":[{"text":"We present an extension to Lagrangian finite element methods to allow for large plastic deformations of solid materials. These behaviors are seen in such everyday materials as shampoo, dough, and clay as well as in fantastic gooey and blobby creatures in special effects scenes. To account for plastic deformation, we explicitly update the linear basis functions defined over the finite elements during each simulation step. When these updates cause the basis functions to become ill-conditioned, we remesh the simulation domain to produce a new high-quality finite-element mesh, taking care to preserve the original boundary. We also introduce an enhanced plasticity model that preserves volume and includes creep and work hardening/softening. We demonstrate our approach with simulations of synthetic objects that squish, dent, and flow. To validate our methods, we compare simulation results to videos of real materials.","lang":"eng"}],"type":"journal_article","volume":26,"citation":{"short":"A. Bargteil, C. Wojtan, J. Hodgins, G. Turk, ACM Transactions on Graphics 26 (2007).","ieee":"A. Bargteil, C. Wojtan, J. Hodgins, and G. Turk, “A finite element method for animating large viscoplastic flow,” <i>ACM Transactions on Graphics</i>, vol. 26, no. 3. ACM, 2007.","ista":"Bargteil A, Wojtan C, Hodgins J, Turk G. 2007. A finite element method for animating large viscoplastic flow. ACM Transactions on Graphics. 26(3).","ama":"Bargteil A, Wojtan C, Hodgins J, Turk G. A finite element method for animating large viscoplastic flow. <i>ACM Transactions on Graphics</i>. 2007;26(3). doi:<a href=\"https://doi.org/10.1145/1276377.1276397\">10.1145/1276377.1276397</a>","chicago":"Bargteil, Adam, Chris Wojtan, Jessica Hodgins, and Greg Turk. “A Finite Element Method for Animating Large Viscoplastic Flow.” <i>ACM Transactions on Graphics</i>. ACM, 2007. <a href=\"https://doi.org/10.1145/1276377.1276397\">https://doi.org/10.1145/1276377.1276397</a>.","apa":"Bargteil, A., Wojtan, C., Hodgins, J., &#38; Turk, G. (2007). A finite element method for animating large viscoplastic flow. <i>ACM Transactions on Graphics</i>. ACM. <a href=\"https://doi.org/10.1145/1276377.1276397\">https://doi.org/10.1145/1276377.1276397</a>","mla":"Bargteil, Adam, et al. “A Finite Element Method for Animating Large Viscoplastic Flow.” <i>ACM Transactions on Graphics</i>, vol. 26, no. 3, ACM, 2007, doi:<a href=\"https://doi.org/10.1145/1276377.1276397\">10.1145/1276377.1276397</a>."},"extern":"1","year":"2007","language":[{"iso":"eng"}],"publist_id":"2462","article_processing_charge":"No","author":[{"last_name":"Bargteil","first_name":"Adam","full_name":"Bargteil, Adam"},{"first_name":"Christopher J","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","last_name":"Wojtan","orcid":"0000-0001-6646-5546","full_name":"Wojtan, Christopher J"},{"full_name":"Hodgins, Jessica","last_name":"Hodgins","first_name":"Jessica"},{"full_name":"Turk, Greg","first_name":"Greg","last_name":"Turk"}],"title":"A finite element method for animating large viscoplastic flow","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"3","date_updated":"2023-02-23T11:41:41Z","publisher":"ACM","date_published":"2007-07-29T00:00:00Z","month":"07","intvolume":"        26"},{"publication":"Nature Reviews Neuroscience","publication_status":"published","doi":"10.1038/nrn2044 ","_id":"3816","date_created":"2018-12-11T12:05:20Z","status":"public","quality_controlled":0,"day":"21","volume":8,"extern":1,"citation":{"chicago":"Bartos, Marlene, Imre Vida, and Peter M Jonas. “Synaptic Mechanisms of Synchronized Gamma Oscillations in Inhibitory Interneuron Networks (Review).” <i>Nature Reviews Neuroscience</i>. Nature Publishing Group, 2007. <a href=\"https://doi.org/10.1038/nrn2044 \">https://doi.org/10.1038/nrn2044 </a>.","ista":"Bartos M, Vida I, Jonas PM. 2007. Synaptic mechanisms of synchronized gamma oscillations in inhibitory interneuron networks (Review). Nature Reviews Neuroscience. 8(1), 45–56.","short":"M. Bartos, I. Vida, P.M. Jonas, Nature Reviews Neuroscience 8 (2007) 45–56.","ieee":"M. Bartos, I. Vida, and P. M. Jonas, “Synaptic mechanisms of synchronized gamma oscillations in inhibitory interneuron networks (Review),” <i>Nature Reviews Neuroscience</i>, vol. 8, no. 1. Nature Publishing Group, pp. 45–56, 2007.","ama":"Bartos M, Vida I, Jonas PM. Synaptic mechanisms of synchronized gamma oscillations in inhibitory interneuron networks (Review). <i>Nature Reviews Neuroscience</i>. 2007;8(1):45-56. doi:<a href=\"https://doi.org/10.1038/nrn2044 \">10.1038/nrn2044 </a>","mla":"Bartos, Marlene, et al. “Synaptic Mechanisms of Synchronized Gamma Oscillations in Inhibitory Interneuron Networks (Review).” <i>Nature Reviews Neuroscience</i>, vol. 8, no. 1, Nature Publishing Group, 2007, pp. 45–56, doi:<a href=\"https://doi.org/10.1038/nrn2044 \">10.1038/nrn2044 </a>.","apa":"Bartos, M., Vida, I., &#38; Jonas, P. M. (2007). Synaptic mechanisms of synchronized gamma oscillations in inhibitory interneuron networks (Review). <i>Nature Reviews Neuroscience</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nrn2044 \">https://doi.org/10.1038/nrn2044 </a>"},"abstract":[{"text":"Gamma frequency oscillations are thought to provide a temporal structure for information processing in the brain. They contribute to cognitive functions, such as memory formation and sensory processing, and are disturbed in some psychiatric disorders. Fast-spiking, parvalbumin-expressing, soma-inhibiting interneurons have a key role in the generation of these oscillations. Experimental analysis in the hippocampus and the neocortex reveals that synapses among these interneurons are highly specialized. Computational analysis further suggests that synaptic specialization turns interneuron networks into robust gamma frequency oscillators.","lang":"eng"}],"type":"journal_article","year":"2007","page":"45 - 56","publist_id":"2393","date_updated":"2021-01-12T07:52:24Z","title":"Synaptic mechanisms of synchronized gamma oscillations in inhibitory interneuron networks (Review)","author":[{"last_name":"Bartos","first_name":"Marlene","full_name":"Bartos, Marlene"},{"last_name":"Vida","first_name":"Imre","full_name":"Vida, Imre"},{"full_name":"Peter Jonas","first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas","orcid":"0000-0001-5001-4804"}],"issue":"1","date_published":"2007-01-21T00:00:00Z","intvolume":"         8","month":"01","publisher":"Nature Publishing Group"},{"publisher":"Society for Neuroscience","date_published":"2007-01-01T00:00:00Z","intvolume":"        27","month":"01","title":"Differential gating and recruitment of P/Q-, N-, and R-type Ca(2+) channels in hippocampal mossy fiber boutons","author":[{"full_name":"Li, Liyi","first_name":"Liyi","last_name":"Li"},{"full_name":"Bischofberger, Josef","first_name":"Josef","last_name":"Bischofberger"},{"first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","last_name":"Jonas","full_name":"Peter Jonas"}],"issue":"49","date_updated":"2021-01-12T07:52:25Z","publist_id":"2389","page":"13420 - 9","year":"2007","abstract":[{"lang":"eng","text":"Voltage-gated Ca2+ channels in presynaptic terminals initiate the Ca2+ inflow necessary for transmitter release. At a variety of synapses, multiple Ca2+ channel subtypes are involved in synaptic transmission and plasticity. However, it is unknown whether presynaptic Ca2+ channels differ in gating properties and whether they are differentially activated by action potentials or subthreshold voltage signals. We examined Ca2+ channels in hippocampal mossy fiber boutons (MFBs) by presynaptic recording, using the selective blockers omega-agatoxin IVa, omega-conotoxin GVIa, and SNX-482 to separate P/Q-, N-, and R-type components. Nonstationary fluctuation analysis combined with blocker application revealed a single MFB contained on average approximately 2000 channels, with 66% P/Q-, 26% N-, and 8% R-type channels. Whereas both P/Q-type and N-type Ca2+ channels showed high activation threshold and rapid activation and deactivation, R-type Ca2+ channels had a lower activation threshold and slower gating kinetics. To determine the efficacy of activation of different Ca2+ channel subtypes by physiologically relevant voltage waveforms, a six-state gating model reproducing the experimental observations was developed. Action potentials activated P/Q-type Ca2+ channels with high efficacy, whereas N- and R-type channels were activated less efficiently. Action potential broadening selectively recruited N- and R-type channels, leading to an equalization of the efficacy of channel activation. In contrast, subthreshold presynaptic events activated R-type channels more efficiently than P/Q- or N-type channels. In conclusion, single MFBs coexpress multiple types of Ca2+ channels, which are activated differentially by subthreshold and suprathreshold presynaptic voltage signals."}],"type":"journal_article","volume":27,"citation":{"short":"L. Li, J. Bischofberger, P.M. Jonas, Journal of Neuroscience 27 (2007) 13420–9.","ista":"Li L, Bischofberger J, Jonas PM. 2007. Differential gating and recruitment of P/Q-, N-, and R-type Ca(2+) channels in hippocampal mossy fiber boutons. Journal of Neuroscience. 27(49), 13420–9.","ieee":"L. Li, J. Bischofberger, and P. M. Jonas, “Differential gating and recruitment of P/Q-, N-, and R-type Ca(2+) channels in hippocampal mossy fiber boutons,” <i>Journal of Neuroscience</i>, vol. 27, no. 49. Society for Neuroscience, pp. 13420–9, 2007.","ama":"Li L, Bischofberger J, Jonas PM. Differential gating and recruitment of P/Q-, N-, and R-type Ca(2+) channels in hippocampal mossy fiber boutons. <i>Journal of Neuroscience</i>. 2007;27(49):13420-13429. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1709-07.2007\">10.1523/JNEUROSCI.1709-07.2007</a>","chicago":"Li, Liyi, Josef Bischofberger, and Peter M Jonas. “Differential Gating and Recruitment of P/Q-, N-, and R-Type Ca(2+) Channels in Hippocampal Mossy Fiber Boutons.” <i>Journal of Neuroscience</i>. Society for Neuroscience, 2007. <a href=\"https://doi.org/10.1523/JNEUROSCI.1709-07.2007\">https://doi.org/10.1523/JNEUROSCI.1709-07.2007</a>.","apa":"Li, L., Bischofberger, J., &#38; Jonas, P. M. (2007). Differential gating and recruitment of P/Q-, N-, and R-type Ca(2+) channels in hippocampal mossy fiber boutons. <i>Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1709-07.2007\">https://doi.org/10.1523/JNEUROSCI.1709-07.2007</a>","mla":"Li, Liyi, et al. “Differential Gating and Recruitment of P/Q-, N-, and R-Type Ca(2+) Channels in Hippocampal Mossy Fiber Boutons.” <i>Journal of Neuroscience</i>, vol. 27, no. 49, Society for Neuroscience, 2007, pp. 13420–29, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1709-07.2007\">10.1523/JNEUROSCI.1709-07.2007</a>."},"extern":1,"status":"public","quality_controlled":0,"day":"01","date_created":"2018-12-11T12:05:20Z","_id":"3819","publication":"Journal of Neuroscience","publication_status":"published","doi":"10.1523/JNEUROSCI.1709-07.2007"},{"doi":"10.1523/JNEUROSCI.1946-07.2007","publication_status":"published","publication":"Journal of Neuroscience","type":"journal_article","abstract":[{"lang":"eng","text":"Synapses are the key elements for signal processing and plasticity in the brain. To determine the structural factors underlying the unique functional properties of the hippocampal mossy fiber synapse, the complete quantitative geometry was investigated, using electron microscopy of serial ultrathin sections followed by computer-assisted three-dimensional reconstruction. In particular, parameters relevant for transmitter release and synaptic plasticity were examined. Two membrane specializations were found: active zones (AZs), transmitter release sites, and puncta adherentia, putative adhesion complexes. Individual boutons had, on average, 25 AZs (range, 7-45) that varied in shape and size (mean, 0.1 microm2; range, 0.07-0.17 microm2). The mean distance between individual AZs was 0.45 microm. Mossy fiber boutons and their target structures were mostly ensheathed by astrocytes, but fine glial processes never reached the active zones. Two structural factors are likely to promote synaptic cross talk: the short distance between AZs and the absence of fine glial processes at AZs. Thus, synaptic cross talk may contribute to the efficacy of hippocampal mossy fiber synapses. On average, a bouton contained 20,400 synaptic vesicles; approximately 900 vesicles were located within 60 nm from the active zone, approximately 4400 between 60 and 200 nm, and the remaining beyond 200 nm, suggesting large readily releasable, recycling, and reserve pools. The organization of the different pools may be a key structural correlate of presynaptic plasticity at this synapse. Thus, the mossy fiber bouton differs fundamentally in structure and function from the calyx of Held and other central synapses."}],"citation":{"chicago":"Rollenhagen, Astrid, Kurt Satzler, E Patricia Rodriguez, Peter M Jonas, Michael Frotscher, and Joachim Lubke. “Structural Determinants of Transmission at Large Hippocampal Mossy Fiber Synapses.” <i>Journal of Neuroscience</i>. Society for Neuroscience, 2007. <a href=\"https://doi.org/10.1523/JNEUROSCI.1946-07.2007\">https://doi.org/10.1523/JNEUROSCI.1946-07.2007</a>.","ama":"Rollenhagen A, Satzler K, Rodriguez EP, Jonas PM, Frotscher M, Lubke J. Structural determinants of transmission at large hippocampal mossy fiber synapses. <i>Journal of Neuroscience</i>. 2007;27(39):10434-10444. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1946-07.2007\">10.1523/JNEUROSCI.1946-07.2007</a>","short":"A. Rollenhagen, K. Satzler, E.P. Rodriguez, P.M. Jonas, M. Frotscher, J. Lubke, Journal of Neuroscience 27 (2007) 10434–44.","ieee":"A. Rollenhagen, K. Satzler, E. P. Rodriguez, P. M. Jonas, M. Frotscher, and J. Lubke, “Structural determinants of transmission at large hippocampal mossy fiber synapses,” <i>Journal of Neuroscience</i>, vol. 27, no. 39. Society for Neuroscience, pp. 10434–44, 2007.","ista":"Rollenhagen A, Satzler K, Rodriguez EP, Jonas PM, Frotscher M, Lubke J. 2007. Structural determinants of transmission at large hippocampal mossy fiber synapses. Journal of Neuroscience. 27(39), 10434–44.","mla":"Rollenhagen, Astrid, et al. “Structural Determinants of Transmission at Large Hippocampal Mossy Fiber Synapses.” <i>Journal of Neuroscience</i>, vol. 27, no. 39, Society for Neuroscience, 2007, pp. 10434–44, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1946-07.2007\">10.1523/JNEUROSCI.1946-07.2007</a>.","apa":"Rollenhagen, A., Satzler, K., Rodriguez, E. P., Jonas, P. M., Frotscher, M., &#38; Lubke, J. (2007). Structural determinants of transmission at large hippocampal mossy fiber synapses. <i>Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1946-07.2007\">https://doi.org/10.1523/JNEUROSCI.1946-07.2007</a>"},"extern":1,"volume":27,"day":"01","status":"public","quality_controlled":0,"date_created":"2018-12-11T12:05:21Z","_id":"3820","publist_id":"2390","page":"10434 - 44","year":"2007","publisher":"Society for Neuroscience","intvolume":"        27","month":"01","date_published":"2007-01-01T00:00:00Z","issue":"39","author":[{"full_name":"Rollenhagen, Astrid","first_name":"Astrid","last_name":"Rollenhagen"},{"last_name":"Satzler","first_name":"Kurt","full_name":"Satzler, Kurt"},{"full_name":"Rodriguez, E Patricia","last_name":"Rodriguez","first_name":"E Patricia"},{"first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas","orcid":"0000-0001-5001-4804","full_name":"Peter Jonas"},{"full_name":"Frotscher, Michael","last_name":"Frotscher","first_name":"Michael"},{"full_name":"Lubke, Joachim H","last_name":"Lubke","first_name":"Joachim"}],"title":"Structural determinants of transmission at large hippocampal mossy fiber synapses","date_updated":"2021-01-12T07:52:26Z"},{"volume":27,"extern":1,"citation":{"apa":"Schmidt Hieber, C., Jonas, P. M., &#38; Bischofberger, J. (2007). Subthreshold dendritic signal processing and coincidence detection in dentate gyrus granule cells. <i>Journal of Neuroscience</i>. Society for Neuroscience. <a href=\"https://doi.org/10.1523/JNEUROSCI.1787-07.2007\">https://doi.org/10.1523/JNEUROSCI.1787-07.2007</a>","mla":"Schmidt Hieber, Christoph, et al. “Subthreshold Dendritic Signal Processing and Coincidence Detection in Dentate Gyrus Granule Cells.” <i>Journal of Neuroscience</i>, vol. 27, no. 31, Society for Neuroscience, 2007, pp. 8430–41, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1787-07.2007\">10.1523/JNEUROSCI.1787-07.2007</a>.","short":"C. Schmidt Hieber, P.M. Jonas, J. Bischofberger, Journal of Neuroscience 27 (2007) 8430–8441.","ista":"Schmidt Hieber C, Jonas PM, Bischofberger J. 2007. Subthreshold dendritic signal processing and coincidence detection in dentate gyrus granule cells. Journal of Neuroscience. 27(31), 8430–8441.","ieee":"C. Schmidt Hieber, P. M. Jonas, and J. Bischofberger, “Subthreshold dendritic signal processing and coincidence detection in dentate gyrus granule cells,” <i>Journal of Neuroscience</i>, vol. 27, no. 31. Society for Neuroscience, pp. 8430–8441, 2007.","ama":"Schmidt Hieber C, Jonas PM, Bischofberger J. Subthreshold dendritic signal processing and coincidence detection in dentate gyrus granule cells. <i>Journal of Neuroscience</i>. 2007;27(31):8430-8441. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.1787-07.2007\">10.1523/JNEUROSCI.1787-07.2007</a>","chicago":"Schmidt Hieber, Christoph, Peter M Jonas, and Josef Bischofberger. “Subthreshold Dendritic Signal Processing and Coincidence Detection in Dentate Gyrus Granule Cells.” <i>Journal of Neuroscience</i>. Society for Neuroscience, 2007. <a href=\"https://doi.org/10.1523/JNEUROSCI.1787-07.2007\">https://doi.org/10.1523/JNEUROSCI.1787-07.2007</a>."},"abstract":[{"lang":"eng","text":"Although dendritic signal processing has been extensively investigated in hippocampal pyramidal cells, only little is known about dendritic integration of synaptic potentials in dentate gyrus granule cells, the first stage in the hippocampal trisynaptic circuit. Here we combined dual whole-cell patch-clamp recordings with high-resolution two-photon microscopy to obtain detailed passive cable models of hippocampal granule cells from adult mice. Passive cable properties were determined by direct fitting of the compartmental model to the experimentally measured voltage responses to short and long current pulses. The data are best fit by a cable model with homogenously distributed parameters, including an average specific membrane resistance (R(m)) of 38.0 kohms cm2, a membrane capacitance (C(m)) of 1.0 microF cm(-2), and an intracellular resistivity (R(i)) of 194 ohms cm. Computational analysis shows that signal propagation from somata into dendrites is more efficient in granule cells compared with CA1 pyramidal cells for both steady-state and sinusoidal voltage waveforms up to the gamma frequency range (f50% of 74 Hz). Similarly, distal synaptic inputs from entorhinal fibers can efficiently depolarize the somatic membrane of granule cells. Furthermore, the time course of distal dendritic synaptic potentials is remarkably fast, and temporal summation is restricted to a narrow time window in the range of approximately 10 ms attributable to the rapid dendritic charge redistribution during transient voltage signals. Therefore, the structure of the granule cell dendritic tree may be critically important for precise dendritic signal processing and coincidence detection during hippocampus-dependent memory formation and retrieval."}],"type":"journal_article","date_created":"2018-12-11T12:05:21Z","_id":"3821","quality_controlled":0,"status":"public","day":"01","publication":"Journal of Neuroscience","publication_status":"published","doi":"10.1523/JNEUROSCI.1787-07.2007","date_published":"2007-01-01T00:00:00Z","intvolume":"        27","month":"01","publisher":"Society for Neuroscience","date_updated":"2021-01-12T07:52:26Z","author":[{"full_name":"Schmidt-Hieber, Christoph","first_name":"Christoph","last_name":"Schmidt Hieber"},{"first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas","orcid":"0000-0001-5001-4804","full_name":"Peter Jonas"},{"last_name":"Bischofberger","first_name":"Josef","full_name":"Bischofberger, Josef"}],"title":"Subthreshold dendritic signal processing and coincidence detection in dentate gyrus granule cells","issue":"31","page":"8430 - 8441","publist_id":"2391","year":"2007"},{"status":"public","quality_controlled":0,"day":"08","date_created":"2018-12-11T12:05:40Z","_id":"3881","abstract":[{"text":"We present Qualitative Randomized CTL (QRCTL), a qualitative version of pCTL, for specifying properties of Markov Decision Processes (MDPs). QRCTL formulas can express the fact that certain temporal properties hold with probability 0 or 1, but they do not distinguish other probabilities values. We present a symbolic, polynomial time model-checking algorithm for QRCTL on MDPs. Then, we study the equivalence relation induced by QRCTL, called qualitative equivalence. We show that for finite alternating MDPs, where nondeterministic and probabilistic choice occur in different states, qualitative equivalence coincides with alternating bisimulation, and can thus be computed via efficient partition-refinement algorithms. Surprisingly, the result does not hold for non-alternating MDPs. Indeed, we show that no local partition refinement algorithm can compute qualitative equivalence on non-alternating MDPs. Finally, we consider QRCTL*, that is the “star extension” of QRCTL. We show that QRCTL and QRCTL* induce the same qualitative equivalence on alternating MDPs, while on non-alternating MDPs, the equivalence, arising from QRCTL* can be strictly finer We also provide a full characterization of the relation between qualitative equivalence, bisimulation, and alternating bisimulation, according to whether the MDPs are finite, and to whether their transition relations are finite-branching.","lang":"eng"}],"type":"conference","citation":{"apa":"De Alfaro, L., Chatterjee, K., Faella, M., &#38; Legay, A. (2007). Qualitative logics and equivalences for probabilistic systems (pp. 237–248). Presented at the QEST: Quantitative Evaluation of Systems, IEEE. <a href=\"https://doi.org/10.1109/QEST.2007.15\">https://doi.org/10.1109/QEST.2007.15</a>","mla":"De Alfaro, Luca, et al. <i>Qualitative Logics and Equivalences for Probabilistic Systems</i>. IEEE, 2007, pp. 237–48, doi:<a href=\"https://doi.org/10.1109/QEST.2007.15\">10.1109/QEST.2007.15</a>.","ama":"De Alfaro L, Chatterjee K, Faella M, Legay A. Qualitative logics and equivalences for probabilistic systems. In: IEEE; 2007:237-248. doi:<a href=\"https://doi.org/10.1109/QEST.2007.15\">10.1109/QEST.2007.15</a>","ieee":"L. De Alfaro, K. Chatterjee, M. Faella, and A. Legay, “Qualitative logics and equivalences for probabilistic systems,” presented at the QEST: Quantitative Evaluation of Systems, 2007, pp. 237–248.","ista":"De Alfaro L, Chatterjee K, Faella M, Legay A. 2007. Qualitative logics and equivalences for probabilistic systems. QEST: Quantitative Evaluation of Systems, 237–248.","short":"L. De Alfaro, K. Chatterjee, M. Faella, A. Legay, in:, IEEE, 2007, pp. 237–248.","chicago":"De Alfaro, Luca, Krishnendu Chatterjee, Marco Faella, and Axel Legay. “Qualitative Logics and Equivalences for Probabilistic Systems,” 237–48. IEEE, 2007. <a href=\"https://doi.org/10.1109/QEST.2007.15\">https://doi.org/10.1109/QEST.2007.15</a>."},"extern":1,"publication_status":"published","doi":"10.1109/QEST.2007.15","author":[{"full_name":"de Alfaro, Luca","first_name":"Luca","last_name":"De Alfaro"},{"last_name":"Chatterjee","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Krishnendu Chatterjee"},{"full_name":"Faella, Marco","last_name":"Faella","first_name":"Marco"},{"last_name":"Legay","first_name":"Axel","full_name":"Legay, Axel"}],"title":"Qualitative logics and equivalences for probabilistic systems","date_updated":"2021-01-12T07:52:55Z","publisher":"IEEE","date_published":"2007-10-08T00:00:00Z","month":"10","year":"2007","publist_id":"2289","conference":{"name":"QEST: Quantitative Evaluation of Systems"},"page":"237 - 248"}]