[{"title":"Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas","intvolume":"       104","acknowledgement":"This work was supported by a pre-doctoral fellowship awarded by the Autonomous Government of Catalonia to F.P. (2006FIC-00082). Research was funded by projects FBBVA-BIOCON 08-187/09, CGL2006-13423, and CTM2007-66635. The authors are part of the research group 2009SGR-636, 2009SGR-655, and 2009SGR-1364 of the Generalitat de Catalunya. F.P. acknowledges EU-Synthesys grant (GB-TAF-4474).","year":"2011","language":[{"iso":"eng"}],"article_processing_charge":"No","publication":"Biological Journal of the Linnean Society","date_published":"2011-09-14T00:00:00Z","month":"09","scopus_import":"1","type":"journal_article","citation":{"ama":"Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas. <i>Biological Journal of the Linnean Society</i>. 2011;104(2):407-418. doi:<a href=\"https://doi.org/10.1111/j.1095-8312.2011.01728.x\">10.1111/j.1095-8312.2011.01728.x</a>","ieee":"F. Palero, P. Abello, E. Macpherson, M. Beaumont, and M. Pascual, “Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas,” <i>Biological Journal of the Linnean Society</i>, vol. 104, no. 2. Wiley-Blackwell, pp. 407–418, 2011.","mla":"Palero, Ferran, et al. “Effect of Oceanographic Barriers and Overfishing on the Population Genetic Structure of the European Spiny Lobster Palinurus Elephas.” <i>Biological Journal of the Linnean Society</i>, vol. 104, no. 2, Wiley-Blackwell, 2011, pp. 407–18, doi:<a href=\"https://doi.org/10.1111/j.1095-8312.2011.01728.x\">10.1111/j.1095-8312.2011.01728.x</a>.","apa":"Palero, F., Abello, P., Macpherson, E., Beaumont, M., &#38; Pascual, M. (2011). Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas. <i>Biological Journal of the Linnean Society</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/j.1095-8312.2011.01728.x\">https://doi.org/10.1111/j.1095-8312.2011.01728.x</a>","short":"F. Palero, P. Abello, E. Macpherson, M. Beaumont, M. Pascual, Biological Journal of the Linnean Society 104 (2011) 407–418.","ista":"Palero F, Abello P, Macpherson E, Beaumont M, Pascual M. 2011. Effect of oceanographic barriers and overfishing on the population genetic structure of the European spiny lobster Palinurus elephas. Biological Journal of the Linnean Society. 104(2), 407–418.","chicago":"Palero, Ferran, Pere Abello, Enrique Macpherson, Mark Beaumont, and Marta Pascual. “Effect of Oceanographic Barriers and Overfishing on the Population Genetic Structure of the European Spiny Lobster Palinurus Elephas.” <i>Biological Journal of the Linnean Society</i>. Wiley-Blackwell, 2011. <a href=\"https://doi.org/10.1111/j.1095-8312.2011.01728.x\">https://doi.org/10.1111/j.1095-8312.2011.01728.x</a>."},"date_updated":"2023-02-23T14:07:31Z","oa_version":"None","publist_id":"3212","doi":"10.1111/j.1095-8312.2011.01728.x","related_material":{"record":[{"relation":"research_data","id":"9762","status":"public"}]},"quality_controlled":"1","issue":"2","day":"14","department":[{"_id":"NiBa"}],"date_created":"2018-12-11T12:03:06Z","status":"public","page":"407 - 418","publisher":"Wiley-Blackwell","publication_status":"published","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","abstract":[{"text":"Defining population structure and genetic diversity levels is of the utmost importance for developing efficient conservation strategies. Overfishing has caused mean annual catches of the European spiny lobster (Palinurus elephas) to decrease alarmingly along its distribution area. In this context, there is a need for comprehensive studies aiming to evaluate the genetic health of the exploited populations. The present study is based on a set of ten nuclear markers amplified in 331 individuals from ten different localities covering most of P. elephas distribution area. Samples from Atlantic and Mediterranean basins showed small but significant differences, indicating that P. elephas populations do not behave as a single panmictic unit but form two partially-overlapping groups. Despite intense overfishing, our dataset did not recover a recent bottleneck signal, and instead showed a large and stable historical effective size. This result could be accounted for by specific life-history traits (reproduction and longevity) and the limitations of molecular markers in covering recent timescales for nontemporal samples. The findings of the present study emphasize the need to integrate information on effective population sizes and life-history parameters when evaluating population connectivity levels from genetic data.","lang":"eng"}],"_id":"3395","volume":104,"author":[{"first_name":"Ferran","orcid":"0000-0002-0343-8329","last_name":"Palero","id":"3F0E2A22-F248-11E8-B48F-1D18A9856A87","full_name":"Palero, Ferran"},{"last_name":"Abello","first_name":"Pere","full_name":"Abello, Pere"},{"full_name":"Macpherson, Enrique","first_name":"Enrique","last_name":"Macpherson"},{"last_name":"Beaumont","first_name":"Mark","full_name":"Beaumont, Mark"},{"full_name":"Pascual, Marta","last_name":"Pascual","first_name":"Marta"}]},{"volume":138,"author":[{"full_name":"Stockinger, Petra","id":"261CB030-E90D-11E9-B182-F697D44B663C","last_name":"Stockinger","first_name":"Petra"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J"},{"full_name":"Maître, Jean-Léon","id":"48F1E0D8-F248-11E8-B48F-1D18A9856A87","last_name":"Maître","orcid":"0000-0002-3688-1474","first_name":"Jean-Léon"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","abstract":[{"text":"Facial branchiomotor neurons (FBMNs) in zebrafish and mouse embryonic hindbrain undergo a characteristic tangential migration from rhombomere (r) 4, where they are born, to r6/7. Cohesion among neuroepithelial cells (NCs) has been suggested to function in FBMN migration by inhibiting FBMNs positioned in the basal neuroepithelium such that they move apically between NCs towards the midline of the neuroepithelium instead of tangentially along the basal side of the neuroepithelium towards r6/7. However, direct experimental evaluation of this hypothesis is still lacking. Here, we have used a combination of biophysical cell adhesion measurements and high-resolution time-lapse microscopy to determine the role of NC cohesion in FBMN migration. We show that reducing NC cohesion by interfering with Cadherin 2 (Cdh2) activity results in FBMNs positioned at the basal side of the neuroepithelium moving apically towards the neural tube midline instead of tangentially towards r6/7. In embryos with strongly reduced NC cohesion, ectopic apical FBMN movement frequently results in fusion of the bilateral FBMN clusters over the apical midline of the neural tube. By contrast, reducing cohesion among FBMNs by interfering with Contactin 2 (Cntn2) expression in these cells has little effect on apical FBMN movement, but reduces the fusion of the bilateral FBMN clusters in embryos with strongly diminished NC cohesion. These data provide direct experimental evidence that NC cohesion functions in tangential FBMN migration by restricting their apical movement.","lang":"eng"}],"_id":"3396","status":"public","date_created":"2018-12-11T12:03:06Z","publisher":"Company of Biologists","file":[{"access_level":"open_access","file_name":"2011_Development_Stockinger.pdf","date_created":"2019-10-07T14:19:42Z","checksum":"ca12b79e01ef36c1ef1aea31cf7e7139","content_type":"application/pdf","file_size":4672439,"creator":"dernst","date_updated":"2020-07-14T12:46:12Z","file_id":"6930","relation":"main_file"}],"page":"4673 - 4683","quality_controlled":"1","issue":"21","oa":1,"day":"28","department":[{"_id":"CaHe"}],"oa_version":"Published Version","file_date_updated":"2020-07-14T12:46:12Z","article_type":"original","doi":"10.1242/dev.071233","publist_id":"3210","date_published":"2011-09-28T00:00:00Z","month":"09","ddc":["570"],"scopus_import":1,"has_accepted_license":"1","date_updated":"2021-01-12T07:43:11Z","citation":{"ieee":"P. Stockinger, C.-P. J. Heisenberg, and J.-L. Maître, “Defective neuroepithelial cell cohesion affects tangential branchiomotor neuron migration in the zebrafish neural tube,” <i>Development</i>, vol. 138, no. 21. Company of Biologists, pp. 4673–4683, 2011.","mla":"Stockinger, Petra, et al. “Defective Neuroepithelial Cell Cohesion Affects Tangential Branchiomotor Neuron Migration in the Zebrafish Neural Tube.” <i>Development</i>, vol. 138, no. 21, Company of Biologists, 2011, pp. 4673–83, doi:<a href=\"https://doi.org/10.1242/dev.071233\">10.1242/dev.071233</a>.","ama":"Stockinger P, Heisenberg C-PJ, Maître J-L. Defective neuroepithelial cell cohesion affects tangential branchiomotor neuron migration in the zebrafish neural tube. <i>Development</i>. 2011;138(21):4673-4683. doi:<a href=\"https://doi.org/10.1242/dev.071233\">10.1242/dev.071233</a>","ista":"Stockinger P, Heisenberg C-PJ, Maître J-L. 2011. Defective neuroepithelial cell cohesion affects tangential branchiomotor neuron migration in the zebrafish neural tube. Development. 138(21), 4673–4683.","chicago":"Stockinger, Petra, Carl-Philipp J Heisenberg, and Jean-Léon Maître. “Defective Neuroepithelial Cell Cohesion Affects Tangential Branchiomotor Neuron Migration in the Zebrafish Neural Tube.” <i>Development</i>. Company of Biologists, 2011. <a href=\"https://doi.org/10.1242/dev.071233\">https://doi.org/10.1242/dev.071233</a>.","apa":"Stockinger, P., Heisenberg, C.-P. J., &#38; Maître, J.-L. (2011). Defective neuroepithelial cell cohesion affects tangential branchiomotor neuron migration in the zebrafish neural tube. <i>Development</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/dev.071233\">https://doi.org/10.1242/dev.071233</a>","short":"P. Stockinger, C.-P.J. Heisenberg, J.-L. Maître, Development 138 (2011) 4673–4683."},"type":"journal_article","year":"2011","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"publication":"Development","intvolume":"       138","title":"Defective neuroepithelial cell cohesion affects tangential branchiomotor neuron migration in the zebrafish neural tube"},{"date_updated":"2021-01-12T07:43:12Z","citation":{"apa":"Maître, J.-L., &#38; Heisenberg, C.-P. J. (2011). The role of adhesion energy in controlling cell-cell contacts. <i>Current Opinion in Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ceb.2011.07.004\">https://doi.org/10.1016/j.ceb.2011.07.004</a>","short":"J.-L. Maître, C.-P.J. Heisenberg, Current Opinion in Cell Biology 23 (2011) 508–514.","ista":"Maître J-L, Heisenberg C-PJ. 2011. The role of adhesion energy in controlling cell-cell contacts. Current Opinion in Cell Biology. 23(5), 508–514.","chicago":"Maître, Jean-Léon, and Carl-Philipp J Heisenberg. “The Role of Adhesion Energy in Controlling Cell-Cell Contacts.” <i>Current Opinion in Cell Biology</i>. Elsevier, 2011. <a href=\"https://doi.org/10.1016/j.ceb.2011.07.004\">https://doi.org/10.1016/j.ceb.2011.07.004</a>.","ama":"Maître J-L, Heisenberg C-PJ. The role of adhesion energy in controlling cell-cell contacts. <i>Current Opinion in Cell Biology</i>. 2011;23(5):508-514. doi:<a href=\"https://doi.org/10.1016/j.ceb.2011.07.004\">10.1016/j.ceb.2011.07.004</a>","ieee":"J.-L. Maître and C.-P. J. Heisenberg, “The role of adhesion energy in controlling cell-cell contacts,” <i>Current Opinion in Cell Biology</i>, vol. 23, no. 5. Elsevier, pp. 508–514, 2011.","mla":"Maître, Jean-Léon, and Carl-Philipp J. Heisenberg. “The Role of Adhesion Energy in Controlling Cell-Cell Contacts.” <i>Current Opinion in Cell Biology</i>, vol. 23, no. 5, Elsevier, 2011, pp. 508–14, doi:<a href=\"https://doi.org/10.1016/j.ceb.2011.07.004\">10.1016/j.ceb.2011.07.004</a>."},"abstract":[{"lang":"eng","text":"Recent advances in microscopy techniques and biophysical measurements have provided novel insight into the molecular, cellular and biophysical basis of cell adhesion. However, comparably little is known about a core element of cell–cell adhesion—the energy of adhesion at the cell–cell contact. In this review, we discuss approaches to understand the nature and regulation of adhesion energy, and propose strategies to determine adhesion energy between cells in vitro and in vivo."}],"type":"journal_article","_id":"3397","date_published":"2011-10-01T00:00:00Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","month":"10","publication_status":"published","scopus_import":1,"author":[{"first_name":"Jean-Léon","last_name":"Maître","orcid":"0000-0002-3688-1474","id":"48F1E0D8-F248-11E8-B48F-1D18A9856A87","full_name":"Maître, Jean-Léon"},{"full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566","last_name":"Heisenberg","first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"publist_id":"3211","doi":"10.1016/j.ceb.2011.07.004","oa_version":"Submitted Version","volume":23,"day":"01","department":[{"_id":"CaHe"}],"intvolume":"        23","title":"The role of adhesion energy in controlling cell-cell contacts","quality_controlled":"1","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3188705/","open_access":"1"}],"oa":1,"issue":"5","page":"508 - 514","publisher":"Elsevier","publication":"Current Opinion in Cell Biology","status":"public","date_created":"2018-12-11T12:03:06Z","year":"2011","language":[{"iso":"eng"}]},{"month":"03","date_published":"2011-03-29T00:00:00Z","ddc":["576"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":1,"has_accepted_license":"1","date_updated":"2021-01-12T07:43:12Z","citation":{"apa":"Cremer, S., Schrempf, A., &#38; Heinze, J. (2011). Competition and opportunity shape the reproductive tactics of males in the ant Cardiocondyla obscurior. <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0017323\">https://doi.org/10.1371/journal.pone.0017323</a>","short":"S. Cremer, A. Schrempf, J. Heinze, PLoS One 6 (2011).","ista":"Cremer S, Schrempf A, Heinze J. 2011. Competition and opportunity shape the reproductive tactics of males in the ant Cardiocondyla obscurior. PLoS One. 6(3), e17323.","chicago":"Cremer, Sylvia, Alexandra Schrempf, and Jürgen Heinze. “Competition and Opportunity Shape the Reproductive Tactics of Males in the Ant Cardiocondyla Obscurior.” <i>PLoS One</i>. Public Library of Science, 2011. <a href=\"https://doi.org/10.1371/journal.pone.0017323\">https://doi.org/10.1371/journal.pone.0017323</a>.","ama":"Cremer S, Schrempf A, Heinze J. Competition and opportunity shape the reproductive tactics of males in the ant Cardiocondyla obscurior. <i>PLoS One</i>. 2011;6(3). doi:<a href=\"https://doi.org/10.1371/journal.pone.0017323\">10.1371/journal.pone.0017323</a>","ieee":"S. Cremer, A. Schrempf, and J. Heinze, “Competition and opportunity shape the reproductive tactics of males in the ant Cardiocondyla obscurior,” <i>PLoS One</i>, vol. 6, no. 3. Public Library of Science, 2011.","mla":"Cremer, Sylvia, et al. “Competition and Opportunity Shape the Reproductive Tactics of Males in the Ant Cardiocondyla Obscurior.” <i>PLoS One</i>, vol. 6, no. 3, e17323, Public Library of Science, 2011, doi:<a href=\"https://doi.org/10.1371/journal.pone.0017323\">10.1371/journal.pone.0017323</a>."},"type":"journal_article","article_number":"e17323","license":"https://creativecommons.org/licenses/by/4.0/","oa_version":"Published Version","file_date_updated":"2020-07-14T12:46:12Z","publist_id":"3059","doi":"10.1371/journal.pone.0017323","intvolume":"         6","title":"Competition and opportunity shape the reproductive tactics of males in the ant Cardiocondyla obscurior","pubrep_id":"377","acknowledgement":"This work was supported by the German Science Foundation (www.dfg.de, He 1623/23).","year":"2011","language":[{"iso":"eng"}],"publication":"PLoS One","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","abstract":[{"lang":"eng","text":"Context-dependent adjustment of mating tactics can drastically increase the mating success of behaviourally flexible animals. We used the ant Cardiocondyla obscurior as a model system to study adaptive adjustment of male mating tactics. This species shows a male diphenism of wingless fighter males and peaceful winged males. Whereas the wingless males stay and exclusively mate in the maternal colony, the mating behaviour of winged males is plastic. They copulate with female sexuals in their natal nests early in life but later disperse in search for sexuals outside. In this study, we observed the nest-leaving behaviour of winged males under different conditions and found that they adaptively adjust the timing of their dispersal to the availability of mating partners, as well as the presence, and even the type of competitors in their natal nests. In colonies with virgin female queens winged males stayed longest when they were the only male in the nest. They left earlier when mating partners were not available or when other males were present. In the presence of wingless, locally mating fighter males, winged males dispersed earlier than in the presence of docile, winged competitors. This suggests that C. obscurior males are capable of estimating their local breeding chances and adaptively adjust their dispersal behaviour in both an opportunistic and a risk-sensitive way, thus showing hitherto unknown behavioural plasticity in social insect males."}],"_id":"3399","volume":6,"author":[{"first_name":"Sylvia","orcid":"0000-0002-2193-3868","last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","full_name":"Cremer, Sylvia"},{"first_name":"Alexandra","last_name":"Schrempf","full_name":"Schrempf, Alexandra"},{"last_name":"Heinze","first_name":"Jürgen","full_name":"Heinze, Jürgen"}],"quality_controlled":"1","issue":"3","oa":1,"day":"29","department":[{"_id":"SyCr"}],"status":"public","date_created":"2018-12-11T12:03:07Z","file":[{"access_level":"open_access","file_name":"IST-2015-377-v1+1_journal.pone.0017323.pdf","date_created":"2018-12-12T10:15:40Z","checksum":"46f8cbde61f06fcacf8fa297cacfa0e5","content_type":"application/pdf","file_size":147367,"creator":"system","date_updated":"2020-07-14T12:46:12Z","file_id":"5162","relation":"main_file"}],"publisher":"Public Library of Science"},{"author":[{"full_name":"Janovjak, Harald L","first_name":"Harald L","orcid":"0000-0002-8023-9315","last_name":"Janovjak","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Guillaume","last_name":"Sandoz","full_name":"Sandoz, Guillaume"},{"full_name":"Isacoff, Ehud","first_name":"Ehud","last_name":"Isacoff"}],"volume":2,"_id":"3405","abstract":[{"lang":"eng","text":"Glutamate is the major excitatory neurotransmitter in the mammalian central nervous system and gates non-selective cation channels. The origins of glutamate receptors are not well understood as they differ structurally and functionally from simple bacterial ligand-gated ion channels. Here we report the discovery of an ionotropic glutamate receptor that combines the typical eukaryotic domain architecture with the 'TXVGYG' signature sequence of the selectivity filter found in K+ channels. This receptor exhibits functional properties intermediate between bacterial and eukaryotic glutamate-gated ion channels, suggesting a link in the evolution of ionotropic glutamate receptors."}],"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","file":[{"file_name":"IST-2017-832-v1+1_janovjak.pdf","access_level":"open_access","checksum":"6b68d65aadd97c18d663eb117a0a9d35","date_created":"2018-12-12T10:11:36Z","date_updated":"2020-07-14T12:46:12Z","creator":"system","file_size":387654,"content_type":"application/pdf","relation":"main_file","file_id":"4891"}],"publisher":"Nature Publishing Group","page":"1 - 6","status":"public","date_created":"2018-12-11T12:03:09Z","department":[{"_id":"HaJa"}],"day":"08","issue":"232","oa":1,"quality_controlled":"1","publist_id":"2997","doi":"10.1038/ncomms1231","file_date_updated":"2020-07-14T12:46:12Z","oa_version":"Submitted Version","citation":{"short":"H.L. Janovjak, G. Sandoz, E. Isacoff, Nature Communications 2 (2011) 1–6.","apa":"Janovjak, H. L., Sandoz, G., &#38; Isacoff, E. (2011). Modern ionotropic glutamate receptor with a K+ selectivity signature sequence. <i>Nature Communications</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncomms1231\">https://doi.org/10.1038/ncomms1231</a>","chicago":"Janovjak, Harald L, Guillaume Sandoz, and Ehud Isacoff. “Modern Ionotropic Glutamate Receptor with a K+ Selectivity Signature Sequence.” <i>Nature Communications</i>. Nature Publishing Group, 2011. <a href=\"https://doi.org/10.1038/ncomms1231\">https://doi.org/10.1038/ncomms1231</a>.","ista":"Janovjak HL, Sandoz G, Isacoff E. 2011. Modern ionotropic glutamate receptor with a K+ selectivity signature sequence. Nature Communications. 2(232), 1–6.","ama":"Janovjak HL, Sandoz G, Isacoff E. Modern ionotropic glutamate receptor with a K+ selectivity signature sequence. <i>Nature Communications</i>. 2011;2(232):1-6. doi:<a href=\"https://doi.org/10.1038/ncomms1231\">10.1038/ncomms1231</a>","mla":"Janovjak, Harald L., et al. “Modern Ionotropic Glutamate Receptor with a K+ Selectivity Signature Sequence.” <i>Nature Communications</i>, vol. 2, no. 232, Nature Publishing Group, 2011, pp. 1–6, doi:<a href=\"https://doi.org/10.1038/ncomms1231\">10.1038/ncomms1231</a>.","ieee":"H. L. Janovjak, G. Sandoz, and E. Isacoff, “Modern ionotropic glutamate receptor with a K+ selectivity signature sequence,” <i>Nature Communications</i>, vol. 2, no. 232. Nature Publishing Group, pp. 1–6, 2011."},"has_accepted_license":"1","date_updated":"2021-01-12T07:43:15Z","type":"journal_article","scopus_import":1,"date_published":"2011-03-08T00:00:00Z","month":"03","ddc":["570","571"],"publication":"Nature Communications","year":"2011","language":[{"iso":"eng"}],"pubrep_id":"832","intvolume":"         2","title":"Modern ionotropic glutamate receptor with a K+ selectivity signature sequence"},{"type":"journal_article","abstract":[{"text":"Transcription factors are central to sustaining pluripotency, yet little is known about transcription factor dynamics in defining pluripotency in the early mammalian embryo. Here, we establish a fluorescence decay after photoactivation (FDAP) assay to quantitatively study the kinetic behaviour of Oct4, a key transcription factor controlling pre-implantation development in the mouse embryo. FDAP measurements reveal that each cell in a developing embryo shows one of two distinct Oct4 kinetics, before there are any morphologically distinguishable differences or outward signs of lineage patterning. The differences revealed by FDAP are due to differences in the accessibility of Oct4 to its DNA binding sites in the nucleus. Lineage tracing of the cells in the two distinct sub-populations demonstrates that the Oct4 kinetics predict lineages of the early embryo. Cells with slower Oct4 kinetics are more likely to give rise to the pluripotent cell lineage that contributes to the inner cell mass. Those with faster Oct4 kinetics contribute mostly to the extra-embryonic lineage. Our findings identify Oct4 kinetics, rather than differences in total transcription factor expression levels, as a predictive measure of developmental cell lineage patterning in the early mouse embryo.","lang":"eng"}],"citation":{"chicago":"Plachta, Nicolas, Mark Tobias Bollenbach, Shirley Pease, Scott Fraser, and Periklis Pantazis. “Oct4 Kinetics Predict Cell Lineage Patterning in the Early Mammalian Embryo.” <i>Nature Cell Biology</i>. Nature Publishing Group, 2011. <a href=\"https://doi.org/10.1038/ncb2154\">https://doi.org/10.1038/ncb2154</a>.","ista":"Plachta N, Bollenbach MT, Pease S, Fraser S, Pantazis P. 2011. Oct4 kinetics predict cell lineage patterning in the early mammalian embryo. Nature Cell Biology. 13(2), 117–123.","short":"N. Plachta, M.T. Bollenbach, S. Pease, S. Fraser, P. Pantazis, Nature Cell Biology 13 (2011) 117–123.","apa":"Plachta, N., Bollenbach, M. T., Pease, S., Fraser, S., &#38; Pantazis, P. (2011). Oct4 kinetics predict cell lineage patterning in the early mammalian embryo. <i>Nature Cell Biology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncb2154\">https://doi.org/10.1038/ncb2154</a>","mla":"Plachta, Nicolas, et al. “Oct4 Kinetics Predict Cell Lineage Patterning in the Early Mammalian Embryo.” <i>Nature Cell Biology</i>, vol. 13, no. 2, Nature Publishing Group, 2011, pp. 117–23, doi:<a href=\"https://doi.org/10.1038/ncb2154\">10.1038/ncb2154</a>.","ieee":"N. Plachta, M. T. Bollenbach, S. Pease, S. Fraser, and P. Pantazis, “Oct4 kinetics predict cell lineage patterning in the early mammalian embryo,” <i>Nature Cell Biology</i>, vol. 13, no. 2. Nature Publishing Group, pp. 117–123, 2011.","ama":"Plachta N, Bollenbach MT, Pease S, Fraser S, Pantazis P. Oct4 kinetics predict cell lineage patterning in the early mammalian embryo. <i>Nature Cell Biology</i>. 2011;13(2):117-123. doi:<a href=\"https://doi.org/10.1038/ncb2154\">10.1038/ncb2154</a>"},"date_updated":"2021-01-12T07:43:24Z","_id":"3429","publication_status":"published","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","date_published":"2011-01-23T00:00:00Z","month":"01","scopus_import":1,"publist_id":"2971","doi":"10.1038/ncb2154","author":[{"last_name":"Plachta","first_name":"Nicolas","full_name":"Plachta, Nicolas"},{"id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","last_name":"Bollenbach","orcid":"0000-0003-4398-476X","first_name":"Mark Tobias","full_name":"Bollenbach, Mark Tobias"},{"full_name":"Pease, Shirley","last_name":"Pease","first_name":"Shirley"},{"last_name":"Fraser","first_name":"Scott","full_name":"Fraser, Scott"},{"full_name":"Pantazis, Periklis","last_name":"Pantazis","first_name":"Periklis"}],"oa_version":"None","volume":13,"day":"23","department":[{"_id":"ToBo"}],"acknowledgement":"This work was supported by the Beckman Institute and Biological Imaging Center at the California Institute of Technology and by the NHGRI Center of Excellence in Genomic Science grant P50HG004071.","title":"Oct4 kinetics predict cell lineage patterning in the early mammalian embryo","intvolume":"        13","issue":"2","publication":"Nature Cell Biology","page":"117 - 123","publisher":"Nature Publishing Group","date_created":"2018-12-11T12:03:17Z","status":"public","language":[{"iso":"eng"}],"year":"2011"},{"intvolume":"       769","main_file_link":[{"url":"https://pure.mpg.de/pubman/item/item_3219628_1/component/file_3219630/Sixt%20et%20al..pdf","open_access":"1"}],"title":"In vitro analysis of chemotactic leukocyte migration in 3D environments","article_processing_charge":"No","publication":"Cell Migration","language":[{"iso":"eng"}],"year":"2011","citation":{"ama":"Sixt MK, Lämmermann T. In vitro analysis of chemotactic leukocyte migration in 3D environments. <i>Cell Migration</i>. 2011;769:149-165. doi:<a href=\"https://doi.org/10.1007/978-1-61779-207-6_11\">10.1007/978-1-61779-207-6_11</a>","mla":"Sixt, Michael K., and Tim Lämmermann. “In Vitro Analysis of Chemotactic Leukocyte Migration in 3D Environments.” <i>Cell Migration</i>, vol. 769, Springer, 2011, pp. 149–65, doi:<a href=\"https://doi.org/10.1007/978-1-61779-207-6_11\">10.1007/978-1-61779-207-6_11</a>.","ieee":"M. K. Sixt and T. Lämmermann, “In vitro analysis of chemotactic leukocyte migration in 3D environments,” <i>Cell Migration</i>, vol. 769. Springer, pp. 149–165, 2011.","short":"M.K. Sixt, T. Lämmermann, Cell Migration 769 (2011) 149–165.","apa":"Sixt, M. K., &#38; Lämmermann, T. (2011). In vitro analysis of chemotactic leukocyte migration in 3D environments. <i>Cell Migration</i>. Springer. <a href=\"https://doi.org/10.1007/978-1-61779-207-6_11\">https://doi.org/10.1007/978-1-61779-207-6_11</a>","chicago":"Sixt, Michael K, and Tim Lämmermann. “In Vitro Analysis of Chemotactic Leukocyte Migration in 3D Environments.” <i>Cell Migration</i>. Springer, 2011. <a href=\"https://doi.org/10.1007/978-1-61779-207-6_11\">https://doi.org/10.1007/978-1-61779-207-6_11</a>.","ista":"Sixt MK, Lämmermann T. 2011. In vitro analysis of chemotactic leukocyte migration in 3D environments. Cell Migration. 769, 149–165."},"date_updated":"2021-01-12T07:43:55Z","type":"journal_article","month":"05","date_published":"2011-05-17T00:00:00Z","alternative_title":["Methods in Molecular Biology"],"article_type":"original","publist_id":"2882","doi":"10.1007/978-1-61779-207-6_11","oa_version":"Published Version","department":[{"_id":"MiSi"}],"day":"17","oa":1,"quality_controlled":"1","publisher":"Springer","page":"149 - 165","status":"public","date_created":"2018-12-11T12:03:41Z","_id":"3505","abstract":[{"text":"Cell migration on two-dimensional (2D) substrates follows entirely different rules than cell migration in three-dimensional (3D) environments. This is especially relevant for leukocytes that are able to migrate in the absence of adhesion receptors within the confined geometry of artificial 3D extracellular matrix scaffolds and within the interstitial space in vivo. Here, we describe in detail a simple and economical protocol to visualize dendritic cell migration in 3D collagen scaffolds along chemotactic gradients. This method can be adapted to other cell types and may serve as a physiologically relevant paradigm for the directed locomotion of most amoeboid cells.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","author":[{"id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","orcid":"0000-0002-6620-9179","first_name":"Michael K","full_name":"Sixt, Michael K"},{"full_name":"Lämmermann, Tim","first_name":"Tim","last_name":"Lämmermann"}],"volume":769},{"oa_version":"None","volume":102,"author":[{"full_name":"Pavan, Ana","last_name":"Pavan","first_name":"Ana"},{"last_name":"Martins","first_name":"Felipe","full_name":"Martins, Felipe"},{"full_name":"Santos, Fabrício","last_name":"Santos","first_name":"Fabrício"},{"full_name":"Ditchfield, Albert","first_name":"Albert","last_name":"Ditchfield"},{"full_name":"Fernandes Redondo, Rodrigo A","orcid":"0000-0002-5837-2793","last_name":"Fernandes Redondo","first_name":"Rodrigo A","id":"409D5C96-F248-11E8-B48F-1D18A9856A87"}],"doi":"10.1111/j.1095-8312.2010.01601.x","publist_id":"2456","month":"02","date_published":"2011-02-10T00:00:00Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","scopus_import":1,"citation":{"ama":"Pavan A, Martins F, Santos F, Ditchfield A, Fernandes Redondo RA. Patterns of diversification in two species of short-tailed bats (Carollia Gray, 1838): the effects of historical fragmentation of Brazilian rainforests. <i>Biological Journal of the Linnean Society</i>. 2011;102(3):527-539. doi:<a href=\"https://doi.org/10.1111/j.1095-8312.2010.01601.x\">10.1111/j.1095-8312.2010.01601.x</a>","ieee":"A. Pavan, F. Martins, F. Santos, A. Ditchfield, and R. A. Fernandes Redondo, “Patterns of diversification in two species of short-tailed bats (Carollia Gray, 1838): the effects of historical fragmentation of Brazilian rainforests.,” <i>Biological Journal of the Linnean Society</i>, vol. 102, no. 3. Wiley-Blackwell, pp. 527–539, 2011.","mla":"Pavan, Ana, et al. “Patterns of Diversification in Two Species of Short-Tailed Bats (Carollia Gray, 1838): The Effects of Historical Fragmentation of Brazilian Rainforests.” <i>Biological Journal of the Linnean Society</i>, vol. 102, no. 3, Wiley-Blackwell, 2011, pp. 527–39, doi:<a href=\"https://doi.org/10.1111/j.1095-8312.2010.01601.x\">10.1111/j.1095-8312.2010.01601.x</a>.","apa":"Pavan, A., Martins, F., Santos, F., Ditchfield, A., &#38; Fernandes Redondo, R. A. (2011). Patterns of diversification in two species of short-tailed bats (Carollia Gray, 1838): the effects of historical fragmentation of Brazilian rainforests. <i>Biological Journal of the Linnean Society</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/j.1095-8312.2010.01601.x\">https://doi.org/10.1111/j.1095-8312.2010.01601.x</a>","short":"A. Pavan, F. Martins, F. Santos, A. Ditchfield, R.A. Fernandes Redondo, Biological Journal of the Linnean Society 102 (2011) 527–539.","ista":"Pavan A, Martins F, Santos F, Ditchfield A, Fernandes Redondo RA. 2011. Patterns of diversification in two species of short-tailed bats (Carollia Gray, 1838): the effects of historical fragmentation of Brazilian rainforests. Biological Journal of the Linnean Society. 102(3), 527–539.","chicago":"Pavan, Ana, Felipe Martins, Fabrício Santos, Albert Ditchfield, and Rodrigo A Fernandes Redondo. “Patterns of Diversification in Two Species of Short-Tailed Bats (Carollia Gray, 1838): The Effects of Historical Fragmentation of Brazilian Rainforests.” <i>Biological Journal of the Linnean Society</i>. Wiley-Blackwell, 2011. <a href=\"https://doi.org/10.1111/j.1095-8312.2010.01601.x\">https://doi.org/10.1111/j.1095-8312.2010.01601.x</a>."},"abstract":[{"lang":"eng","text":"The small-sized frugivorous bat Carollia perspicillata is an understory specialist and occurs in a wide range of lowland habitats, tending to be more common in tropical dry or moist forests of South and Central America. Its sister species, Carollia brevicauda, occurs almost exclusively in the Amazon rainforest. A recent phylogeographic study proposed a hypothesis of origin and subsequent diversification for C. perspicillata along the Atlantic coastal forest of Brazil. Additionally, it also found two allopatric clades for C. brevicauda separated by the Amazon Basin. We used cytochrome b gene sequences and a more extensive sampling to test hypotheses related to the origin and diversification of C. perspicillata plus C. brevicauda clade in South America. The results obtained indicate that there are two sympatric evolutionary lineages within each species. In C. perspicillata, one lineage is limited to the Southern Atlantic Forest, whereas the other is widely distributed. Coalescent analysis points to a simultaneous origin for C. perspicillata and C. brevicauda, although no place for the diversification of each species can be firmly suggested. The phylogeographic pattern shown by C. perspicillata is also congruent with the Pleistocene refugia hypothesis as a likely vicariant phenomenon shaping the present distribution of its intraspecific lineages."}],"date_updated":"2021-01-12T07:52:05Z","type":"journal_article","_id":"3771","status":"public","date_created":"2018-12-11T12:05:05Z","year":"2011","language":[{"iso":"eng"}],"publisher":"Wiley-Blackwell","page":"527 - 539","publication":"Biological Journal of the Linnean Society","intvolume":"       102","quality_controlled":"1","title":"Patterns of diversification in two species of short-tailed bats (Carollia Gray, 1838): the effects of historical fragmentation of Brazilian rainforests.","issue":"3","day":"10","department":[{"_id":"FyKo"}]},{"language":[{"iso":"eng"}],"year":"2011","status":"public","date_created":"2018-12-11T12:05:07Z","publisher":"Nature Publishing Group","page":"205 - 206","publication":"Heredity","oa":1,"issue":"2","intvolume":"       106","main_file_link":[{"open_access":"1","url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3183869/"}],"title":"Estimating linkage disequilibria","department":[{"_id":"NiBa"}],"day":"01","volume":106,"oa_version":"Submitted Version","external_id":{"pmid":["20502479"]},"author":[{"full_name":"Barton, Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"publist_id":"2449","doi":"10.1038/hdy.2010.67","scopus_import":1,"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","date_published":"2011-02-01T00:00:00Z","month":"02","publication_status":"published","_id":"3778","citation":{"chicago":"Barton, Nicholas H. “Estimating Linkage Disequilibria.” <i>Heredity</i>. Nature Publishing Group, 2011. <a href=\"https://doi.org/10.1038/hdy.2010.67\">https://doi.org/10.1038/hdy.2010.67</a>.","ista":"Barton NH. 2011. Estimating linkage disequilibria. Heredity. 106(2), 205–206.","short":"N.H. Barton, Heredity 106 (2011) 205–206.","apa":"Barton, N. H. (2011). Estimating linkage disequilibria. <i>Heredity</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/hdy.2010.67\">https://doi.org/10.1038/hdy.2010.67</a>","mla":"Barton, Nicholas H. “Estimating Linkage Disequilibria.” <i>Heredity</i>, vol. 106, no. 2, Nature Publishing Group, 2011, pp. 205–06, doi:<a href=\"https://doi.org/10.1038/hdy.2010.67\">10.1038/hdy.2010.67</a>.","ieee":"N. H. Barton, “Estimating linkage disequilibria,” <i>Heredity</i>, vol. 106, no. 2. Nature Publishing Group, pp. 205–206, 2011.","ama":"Barton NH. Estimating linkage disequilibria. <i>Heredity</i>. 2011;106(2):205-206. doi:<a href=\"https://doi.org/10.1038/hdy.2010.67\">10.1038/hdy.2010.67</a>"},"date_updated":"2021-01-12T07:52:08Z","type":"journal_article","pmid":1},{"date_created":"2018-12-11T12:05:08Z","status":"public","year":"2011","language":[{"iso":"eng"}],"publication":"Acta Sci. Math. (Szeged)","page":"359 - 367","publisher":"Szegedi Tudományegyetem","title":"The difference in length of curves in R^n","quality_controlled":"1","intvolume":"        77","issue":"1-2","day":"01","department":[{"_id":"HeEd"}],"acknowledgement":"Funded by Graduate Aid in Areas of National Need (GAANN) Fellowship.","oa_version":"None","volume":77,"publist_id":"2446","author":[{"id":"F65D502E-E68D-11E9-9252-C644099818F6","first_name":"Brittany Terese","last_name":"Fasy","full_name":"Fasy, Brittany Terese"}],"publication_status":"published","month":"01","date_published":"2011-01-01T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","abstract":[{"text":"We bound the difference in length of two curves in terms of their total curvatures and the Fréchet distance. The bound is independent of the dimension of the ambient Euclidean space, it improves upon a bound by Cohen-Steiner and Edelsbrunner, and it generalizes a result by Fáry and Chakerian.","lang":"eng"}],"date_updated":"2021-01-12T07:52:09Z","citation":{"ama":"Fasy BT. The difference in length of curves in R^n. <i>Acta Sci Math (Szeged)</i>. 2011;77(1-2):359-367.","mla":"Fasy, Brittany Terese. “The Difference in Length of Curves in R^n.” <i>Acta Sci. Math. (Szeged)</i>, vol. 77, no. 1–2, Szegedi Tudományegyetem, 2011, pp. 359–67.","ieee":"B. T. Fasy, “The difference in length of curves in R^n,” <i>Acta Sci. Math. (Szeged)</i>, vol. 77, no. 1–2. Szegedi Tudományegyetem, pp. 359–367, 2011.","short":"B.T. Fasy, Acta Sci. Math. (Szeged) 77 (2011) 359–367.","apa":"Fasy, B. T. (2011). The difference in length of curves in R^n. <i>Acta Sci. Math. (Szeged)</i>. Szegedi Tudományegyetem.","chicago":"Fasy, Brittany Terese. “The Difference in Length of Curves in R^n.” <i>Acta Sci. Math. (Szeged)</i>. Szegedi Tudományegyetem, 2011.","ista":"Fasy BT. 2011. The difference in length of curves in R^n. Acta Sci. Math. (Szeged). 77(1–2), 359–367."},"_id":"3781"},{"date_published":"2011-03-01T00:00:00Z","month":"03","scopus_import":1,"type":"journal_article","date_updated":"2021-01-12T07:52:10Z","citation":{"ieee":"F. Palero, G. Guerao, P. Clark, and P. Abello, “Scyllarus arctus (Crustacea: Decapoda: Scyllaridae) final stage phyllosoma identified by DNA analysis, with morphological description,” <i>Journal of the Marine Biological Association of the United Kingdom</i>, vol. 91, no. 2. Cambridge University Press, pp. 485–492, 2011.","mla":"Palero, Ferran, et al. “Scyllarus Arctus (Crustacea: Decapoda: Scyllaridae) Final Stage Phyllosoma Identified by DNA Analysis, with Morphological Description.” <i>Journal of the Marine Biological Association of the United Kingdom</i>, vol. 91, no. 2, Cambridge University Press, 2011, pp. 485–92, doi:<a href=\"https://doi.org/10.1017/S0025315410000287\">10.1017/S0025315410000287</a>.","ama":"Palero F, Guerao G, Clark P, Abello P. Scyllarus arctus (Crustacea: Decapoda: Scyllaridae) final stage phyllosoma identified by DNA analysis, with morphological description. <i>Journal of the Marine Biological Association of the United Kingdom</i>. 2011;91(2):485-492. doi:<a href=\"https://doi.org/10.1017/S0025315410000287\">10.1017/S0025315410000287</a>","ista":"Palero F, Guerao G, Clark P, Abello P. 2011. Scyllarus arctus (Crustacea: Decapoda: Scyllaridae) final stage phyllosoma identified by DNA analysis, with morphological description. Journal of the Marine Biological Association of the United Kingdom. 91(2), 485–492.","chicago":"Palero, Ferran, Guillermo Guerao, Paul Clark, and Pere Abello. “Scyllarus Arctus (Crustacea: Decapoda: Scyllaridae) Final Stage Phyllosoma Identified by DNA Analysis, with Morphological Description.” <i>Journal of the Marine Biological Association of the United Kingdom</i>. Cambridge University Press, 2011. <a href=\"https://doi.org/10.1017/S0025315410000287\">https://doi.org/10.1017/S0025315410000287</a>.","apa":"Palero, F., Guerao, G., Clark, P., &#38; Abello, P. (2011). Scyllarus arctus (Crustacea: Decapoda: Scyllaridae) final stage phyllosoma identified by DNA analysis, with morphological description. <i>Journal of the Marine Biological Association of the United Kingdom</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/S0025315410000287\">https://doi.org/10.1017/S0025315410000287</a>","short":"F. Palero, G. Guerao, P. Clark, P. Abello, Journal of the Marine Biological Association of the United Kingdom 91 (2011) 485–492."},"oa_version":"Published Version","doi":"10.1017/S0025315410000287","publist_id":"2443","article_type":"original","main_file_link":[{"url":"https://digital.csic.es/bitstream/10261/32783/3/Palero_et_al_2011.pdf","open_access":"1"}],"title":"Scyllarus arctus (Crustacea: Decapoda: Scyllaridae) final stage phyllosoma identified by DNA analysis, with morphological description","intvolume":"        91","year":"2011","language":[{"iso":"eng"}],"article_processing_charge":"No","publication":"Journal of the Marine Biological Association of the United Kingdom","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Advanced stages of Scyllarus phyllosoma larvae were collected by demersal trawling during fishery research surveys in the western Mediterranean Sea in 2003–2005. Nucleotide sequence analysis of the mitochondrial 16S rDNA gene allowed the final-stage phyllosoma of Scyllarus arctus to be identified among these larvae. Its morphology is described and illustrated. This constitutes the second complete description of a Scyllaridae phyllosoma with its specific identity being validated by molecular techniques (the first was S. pygmaeus). These results also solved a long lasting taxonomic anomaly of several species assigned to the ancient genus Phyllosoma Leach, 1814. Detailed examination indicated that the final-stage phyllosoma of S. arctus shows closer affinities with the American scyllarid Scyllarus depressus or with the Australian Scyllarus sp. b (sensu Phillips et al., 1981) than to its sympatric species S. pygmaeus."}],"_id":"3784","volume":91,"author":[{"id":"3F0E2A22-F248-11E8-B48F-1D18A9856A87","first_name":"Ferran","orcid":"0000-0002-0343-8329","last_name":"Palero","full_name":"Palero, Ferran"},{"first_name":"Guillermo","last_name":"Guerao","full_name":"Guerao, Guillermo"},{"full_name":"Clark, Paul","first_name":"Paul","last_name":"Clark"},{"full_name":"Abello, Pere","first_name":"Pere","last_name":"Abello"}],"quality_controlled":"1","oa":1,"issue":"2","day":"01","department":[{"_id":"NiBa"}],"date_created":"2018-12-11T12:05:09Z","status":"public","page":"485 - 492","publisher":"Cambridge University Press"},{"day":"01","department":[{"_id":"CaHe"}],"intvolume":"        95","quality_controlled":"1","title":"Cell sorting in development","publisher":"Elsevier","page":"189 - 213","publication":"Forces and Tension in Development","article_processing_charge":"No","status":"public","date_created":"2018-12-11T12:05:11Z","year":"2011","language":[{"iso":"eng"}],"abstract":[{"text":"During the development of multicellular organisms, cell fate specification is followed by the sorting of different cell types into distinct domains from where the different tissues and organs are formed. Cell sorting involves both the segregation of a mixed population of cells with different fates and properties into distinct domains, and the active maintenance of their segregated state. Because of its biological importance and apparent resemblance to fluid segregation in physics, cell sorting was extensively studied by both biologists and physicists over the last decades. Different theories were developed that try to explain cell sorting on the basis of the physical properties of the constituent cells. However, only recently the molecular and cellular mechanisms that control the physical properties driving cell sorting, have begun to be unraveled. In this review, we will provide an overview of different cell-sorting processes in development and discuss how these processes can be explained by the different sorting theories, and how these theories in turn can be connected to the molecular and cellular mechanisms driving these processes.","lang":"eng"}],"citation":{"chicago":"Krens, Gabriel, and Carl-Philipp J Heisenberg. “Cell Sorting in Development.” In <i>Forces and Tension in Development</i>, edited by Michel Labouesse, 95:189–213. Elsevier, 2011. <a href=\"https://doi.org/10.1016/B978-0-12-385065-2.00006-2\">https://doi.org/10.1016/B978-0-12-385065-2.00006-2</a>.","ista":"Krens G, Heisenberg C-PJ. 2011.Cell sorting in development. In: Forces and Tension in Development. Current Topics in Developmental Biology, vol. 95, 189–213.","short":"G. Krens, C.-P.J. Heisenberg, in:, M. Labouesse (Ed.), Forces and Tension in Development, Elsevier, 2011, pp. 189–213.","apa":"Krens, G., &#38; Heisenberg, C.-P. J. (2011). Cell sorting in development. In M. Labouesse (Ed.), <i>Forces and Tension in Development</i> (Vol. 95, pp. 189–213). Elsevier. <a href=\"https://doi.org/10.1016/B978-0-12-385065-2.00006-2\">https://doi.org/10.1016/B978-0-12-385065-2.00006-2</a>","mla":"Krens, Gabriel, and Carl-Philipp J. Heisenberg. “Cell Sorting in Development.” <i>Forces and Tension in Development</i>, edited by Michel Labouesse, vol. 95, Elsevier, 2011, pp. 189–213, doi:<a href=\"https://doi.org/10.1016/B978-0-12-385065-2.00006-2\">10.1016/B978-0-12-385065-2.00006-2</a>.","ieee":"G. Krens and C.-P. J. Heisenberg, “Cell sorting in development,” in <i>Forces and Tension in Development</i>, vol. 95, M. Labouesse, Ed. Elsevier, 2011, pp. 189–213.","ama":"Krens G, Heisenberg C-PJ. Cell sorting in development. In: Labouesse M, ed. <i>Forces and Tension in Development</i>. Vol 95. Elsevier; 2011:189-213. doi:<a href=\"https://doi.org/10.1016/B978-0-12-385065-2.00006-2\">10.1016/B978-0-12-385065-2.00006-2</a>"},"date_updated":"2021-01-12T07:52:13Z","type":"book_chapter","_id":"3791","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2011-01-01T00:00:00Z","month":"01","publication_status":"published","scopus_import":"1","author":[{"full_name":"Krens, Gabriel","id":"2B819732-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4761-5996","last_name":"Krens","first_name":"Gabriel"},{"first_name":"Carl-Philipp J","last_name":"Heisenberg","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","full_name":"Heisenberg, Carl-Philipp J"}],"alternative_title":["Current Topics in Developmental Biology"],"publist_id":"2436","doi":"10.1016/B978-0-12-385065-2.00006-2","editor":[{"full_name":"Labouesse, Michel","first_name":"Michel","last_name":"Labouesse"}],"oa_version":"None","volume":95},{"date_published":"2011-05-03T00:00:00Z","month":"05","ddc":["000"],"has_accepted_license":"1","citation":{"ieee":"H. Edelsbrunner and M. Kerber, “Covering and packing with spheres by diagonal distortion in R^n,” in <i>Rainbow of Computer Science</i>, vol. 6570, C. Calude, G. Rozenberg, and A. Salomaa, Eds. Springer, 2011, pp. 20–35.","mla":"Edelsbrunner, Herbert, and Michael Kerber. “Covering and Packing with Spheres by Diagonal Distortion in R^n.” <i>Rainbow of Computer Science</i>, edited by Cristian Calude et al., vol. 6570, Springer, 2011, pp. 20–35, doi:<a href=\"https://doi.org/10.1007/978-3-642-19391-0_2\">10.1007/978-3-642-19391-0_2</a>.","ama":"Edelsbrunner H, Kerber M. Covering and packing with spheres by diagonal distortion in R^n. In: Calude C, Rozenberg G, Salomaa A, eds. <i>Rainbow of Computer Science</i>. Vol 6570. Dedicated to Hermann Maurer on the Occasion of His 70th Birthday. Springer; 2011:20-35. doi:<a href=\"https://doi.org/10.1007/978-3-642-19391-0_2\">10.1007/978-3-642-19391-0_2</a>","ista":"Edelsbrunner H, Kerber M. 2011.Covering and packing with spheres by diagonal distortion in R^n. In: Rainbow of Computer Science. LNCS, vol. 6570, 20–35.","chicago":"Edelsbrunner, Herbert, and Michael Kerber. “Covering and Packing with Spheres by Diagonal Distortion in R^n.” In <i>Rainbow of Computer Science</i>, edited by Cristian Calude, Grzegorz Rozenberg, and Arto Salomaa, 6570:20–35. Dedicated to Hermann Maurer on the Occasion of His 70th Birthday. Springer, 2011. <a href=\"https://doi.org/10.1007/978-3-642-19391-0_2\">https://doi.org/10.1007/978-3-642-19391-0_2</a>.","apa":"Edelsbrunner, H., &#38; Kerber, M. (2011). Covering and packing with spheres by diagonal distortion in R^n. In C. Calude, G. Rozenberg, &#38; A. Salomaa (Eds.), <i>Rainbow of Computer Science</i> (Vol. 6570, pp. 20–35). Springer. <a href=\"https://doi.org/10.1007/978-3-642-19391-0_2\">https://doi.org/10.1007/978-3-642-19391-0_2</a>","short":"H. Edelsbrunner, M. Kerber, in:, C. Calude, G. Rozenberg, A. Salomaa (Eds.), Rainbow of Computer Science, Springer, 2011, pp. 20–35."},"date_updated":"2021-01-12T07:52:15Z","type":"book_chapter","file_date_updated":"2020-07-14T12:46:16Z","oa_version":"Submitted Version","alternative_title":["LNCS"],"publist_id":"2427","doi":"10.1007/978-3-642-19391-0_2","editor":[{"first_name":"Cristian","last_name":"Calude","full_name":"Calude, Cristian"},{"last_name":"Rozenberg","first_name":"Grzegorz","full_name":"Rozenberg, Grzegorz"},{"first_name":"Arto","last_name":"Salomaa","full_name":"Salomaa, Arto"}],"intvolume":"      6570","title":"Covering and packing with spheres by diagonal distortion in R^n","pubrep_id":"539","language":[{"iso":"eng"}],"year":"2011","publication":"Rainbow of Computer Science","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","_id":"3796","abstract":[{"lang":"eng","text":"We address the problem of covering ℝ n with congruent balls, while minimizing the number of balls that contain an average point. Considering the 1-parameter family of lattices defined by stretching or compressing the integer grid in diagonal direction, we give a closed formula for the covering density that depends on the distortion parameter. We observe that our family contains the thinnest lattice coverings in dimensions 2 to 5. We also consider the problem of packing congruent balls in ℝ n , for which we give a closed formula for the packing density as well. Again we observe that our family contains optimal configurations, this time densest packings in dimensions 2 and 3."}],"volume":6570,"author":[{"full_name":"Edelsbrunner, Herbert","first_name":"Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Michael","last_name":"Kerber","orcid":"0000-0002-8030-9299","id":"36E4574A-F248-11E8-B48F-1D18A9856A87","full_name":"Kerber, Michael"}],"oa":1,"quality_controlled":"1","department":[{"_id":"HeEd"}],"series_title":"Dedicated to Hermann Maurer on the Occasion of His 70th Birthday","day":"03","status":"public","date_created":"2018-12-11T12:05:13Z","publisher":"Springer","page":"20 - 35","file":[{"relation":"main_file","file_id":"4640","date_updated":"2020-07-14T12:46:16Z","creator":"system","file_size":436875,"content_type":"application/pdf","checksum":"aaf22b4d7bd4277ffe8db532119cf474","date_created":"2018-12-12T10:07:42Z","file_name":"IST-2016-539-v1+1_2011-B-01-CoveringPacking.pdf","access_level":"open_access"}]},{"abstract":[{"text":"The elevation function on a smoothly embedded 2-manifold in R-3 reflects the multiscale topography of cavities and protrusions as local maxima. The function has been useful in identifying coarse docking configurations for protein pairs. Transporting the concept from the smooth to the piecewise linear category, this paper describes an algorithm for finding all local maxima. While its worst-case running time is the same as of the algorithm used in prior work, its performance in practice is orders of magnitudes superior. We cast light on this improvement by relating the running time to the total absolute Gaussian curvature of the 2-manifold.","lang":"eng"}],"date_updated":"2021-01-12T07:53:31Z","citation":{"mla":"Wang, Bei, et al. “Computing Elevation Maxima by Searching the Gauss Sphere.” <i>Journal of Experimental Algorithmics</i>, vol. 16, no. 2.2, ACM, 2011, pp. 1–13, doi:<a href=\"https://doi.org/10.1145/1963190.1970375\">10.1145/1963190.1970375</a>.","ieee":"B. Wang, H. Edelsbrunner, and D. Morozov, “Computing elevation maxima by searching the Gauss sphere,” <i>Journal of Experimental Algorithmics</i>, vol. 16, no. 2.2. ACM, pp. 1–13, 2011.","ama":"Wang B, Edelsbrunner H, Morozov D. Computing elevation maxima by searching the Gauss sphere. <i>Journal of Experimental Algorithmics</i>. 2011;16(2.2):1-13. doi:<a href=\"https://doi.org/10.1145/1963190.1970375\">10.1145/1963190.1970375</a>","chicago":"Wang, Bei, Herbert Edelsbrunner, and Dmitriy Morozov. “Computing Elevation Maxima by Searching the Gauss Sphere.” <i>Journal of Experimental Algorithmics</i>. ACM, 2011. <a href=\"https://doi.org/10.1145/1963190.1970375\">https://doi.org/10.1145/1963190.1970375</a>.","ista":"Wang B, Edelsbrunner H, Morozov D. 2011. Computing elevation maxima by searching the Gauss sphere. Journal of Experimental Algorithmics. 16(2.2), 1–13.","short":"B. Wang, H. Edelsbrunner, D. Morozov, Journal of Experimental Algorithmics 16 (2011) 1–13.","apa":"Wang, B., Edelsbrunner, H., &#38; Morozov, D. (2011). Computing elevation maxima by searching the Gauss sphere. <i>Journal of Experimental Algorithmics</i>. ACM. <a href=\"https://doi.org/10.1145/1963190.1970375\">https://doi.org/10.1145/1963190.1970375</a>"},"type":"journal_article","_id":"3965","month":"05","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","date_published":"2011-05-01T00:00:00Z","publication_status":"published","scopus_import":1,"author":[{"full_name":"Wang, Bei","last_name":"Wang","first_name":"Bei"},{"full_name":"Edelsbrunner, Herbert","orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Dmitriy","last_name":"Morozov","full_name":"Morozov, Dmitriy"}],"doi":"10.1145/1963190.1970375","publist_id":"2161","oa_version":"None","volume":16,"day":"01","department":[{"_id":"HeEd"}],"intvolume":"        16","quality_controlled":"1","title":"Computing elevation maxima by searching the Gauss sphere","issue":"2.2","page":"1 - 13","publisher":"ACM","publication":"Journal of Experimental Algorithmics","status":"public","date_created":"2018-12-11T12:06:09Z","year":"2011","language":[{"iso":"eng"}]},{"publication_status":"published","month":"03","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","date_published":"2011-03-23T00:00:00Z","scopus_import":1,"type":"journal_article","abstract":[{"text":"Spontaneous release of glutamate is important for maintaining synaptic strength and controlling spike timing in the brain. Mechanisms regulating spontaneous exocytosis remain poorly understood. Extracellular calcium concentration ([Ca2+]o) regulates Ca2+ entry through voltage-activated calcium channels (VACCs) and consequently is a pivotal determinant of action potential-evoked vesicle fusion. Extracellular Ca 2+ also enhances spontaneous release, but via unknown mechanisms. Here we report that external Ca2+ triggers spontaneous glutamate release more weakly than evoked release in mouse neocortical neurons. Blockade of VACCs has no effect on the spontaneous release rate or its dependence on [Ca2+]o. Intracellular [Ca2+] slowly increases in a minority of neurons following increases in [Ca2+]o. Furthermore, the enhancement of spontaneous release by extracellular calcium is insensitive to chelation of intracellular calcium by BAPTA. Activation of the calcium-sensing receptor (CaSR), a G-protein-coupled receptor present in nerve terminals, by several specific agonists increased spontaneous glutamate release. The frequency of spontaneous synaptic transmission was decreased in CaSR mutant neurons. The concentration-effect relationship for extracellular calcium regulation of spontaneous release was well described by a combination of CaSR-dependent and CaSR-independent mechanisms. Overall these results indicate that extracellular Ca2+ does not trigger spontaneous glutamate release by simply increasing calcium influx but stimulates CaSR and thereby promotes resting spontaneous glutamate release. ","lang":"eng"}],"date_updated":"2021-01-12T08:00:49Z","citation":{"ama":"Vyleta N, Smith S. Spontaneous glutamate release is independent of calcium influx and tonically activated by the calcium-sensing receptor. <i>European Journal of Neuroscience</i>. 2011;31(12):4593-4606. doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.6398-10.2011\">10.1523/JNEUROSCI.6398-10.2011</a>","ieee":"N. Vyleta and S. Smith, “Spontaneous glutamate release is independent of calcium influx and tonically activated by the calcium-sensing receptor,” <i>European Journal of Neuroscience</i>, vol. 31, no. 12. Wiley-Blackwell, pp. 4593–4606, 2011.","mla":"Vyleta, Nicholas, and Stephen Smith. “Spontaneous Glutamate Release Is Independent of Calcium Influx and Tonically Activated by the Calcium-Sensing Receptor.” <i>European Journal of Neuroscience</i>, vol. 31, no. 12, Wiley-Blackwell, 2011, pp. 4593–606, doi:<a href=\"https://doi.org/10.1523/JNEUROSCI.6398-10.2011\">10.1523/JNEUROSCI.6398-10.2011</a>.","apa":"Vyleta, N., &#38; Smith, S. (2011). Spontaneous glutamate release is independent of calcium influx and tonically activated by the calcium-sensing receptor. <i>European Journal of Neuroscience</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1523/JNEUROSCI.6398-10.2011\">https://doi.org/10.1523/JNEUROSCI.6398-10.2011</a>","short":"N. Vyleta, S. Smith, European Journal of Neuroscience 31 (2011) 4593–4606.","ista":"Vyleta N, Smith S. 2011. Spontaneous glutamate release is independent of calcium influx and tonically activated by the calcium-sensing receptor. European Journal of Neuroscience. 31(12), 4593–4606.","chicago":"Vyleta, Nicholas, and Stephen Smith. “Spontaneous Glutamate Release Is Independent of Calcium Influx and Tonically Activated by the Calcium-Sensing Receptor.” <i>European Journal of Neuroscience</i>. Wiley-Blackwell, 2011. <a href=\"https://doi.org/10.1523/JNEUROSCI.6398-10.2011\">https://doi.org/10.1523/JNEUROSCI.6398-10.2011</a>."},"_id":"469","oa_version":"Submitted Version","volume":31,"publist_id":"7353","doi":"10.1523/JNEUROSCI.6398-10.2011","author":[{"full_name":"Vyleta, Nicholas","id":"36C4978E-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas","last_name":"Vyleta"},{"first_name":"Stephen","last_name":"Smith","full_name":"Smith, Stephen"}],"quality_controlled":"1","title":"Spontaneous glutamate release is independent of calcium influx and tonically activated by the calcium-sensing receptor","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3097128/","open_access":"1"}],"intvolume":"        31","issue":"12","oa":1,"day":"23","department":[{"_id":"PeJo"}],"date_created":"2018-12-11T11:46:39Z","status":"public","language":[{"iso":"eng"}],"year":"2011","publication":"European Journal of Neuroscience","publisher":"Wiley-Blackwell","page":"4593 - 4606"},{"user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","abstract":[{"text":"BioSig is an open source software library for biomedical signal processing. The aim of the BioSig project is to foster research in biomedical signal processing by providing free and open source software tools for many different application areas. Some of the areas where BioSig can be employed are neuroinformatics, brain-computer interfaces, neurophysiology, psychology, cardiovascular systems, and sleep research. Moreover, the analysis of biosignals such as the electroencephalogram (EEG), electrocorticogram (ECoG), electrocardiogram (ECG), electrooculogram (EOG), electromyogram (EMG), or respiration signals is a very relevant element of the BioSig project. Specifically, BioSig provides solutions for data acquisition, artifact processing, quality control, feature extraction, classification, modeling, and data visualization, to name a few. In this paper, we highlight several methods to help students and researchers to work more efficiently with biomedical signals. ","lang":"eng"}],"_id":"490","volume":2011,"author":[{"full_name":"Schlögl, Alois","first_name":"Alois","last_name":"Schlögl","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Vidaurre, Carmen","last_name":"Vidaurre","first_name":"Carmen"},{"full_name":"Sander, Tilmann","last_name":"Sander","first_name":"Tilmann"}],"quality_controlled":"1","oa":1,"day":"01","department":[{"_id":"ScienComp"},{"_id":"PeJo"}],"status":"public","date_created":"2018-12-11T11:46:45Z","publisher":"Hindawi Publishing Corporation","file":[{"file_size":2863551,"content_type":"application/pdf","creator":"system","date_updated":"2020-07-14T12:46:35Z","relation":"main_file","file_id":"4642","file_name":"IST-2018-947-v1+1_2011_Schloegl_BioSig.pdf","access_level":"open_access","checksum":"8263bbf255171f2054f43f3db5f53b6e","date_created":"2018-12-12T10:07:44Z"}],"month":"01","date_published":"2011-01-01T00:00:00Z","ddc":["005"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"scopus_import":1,"date_updated":"2021-01-12T08:01:02Z","has_accepted_license":"1","citation":{"ama":"Schlögl A, Vidaurre C, Sander T. BioSig: The free and open source software library for biomedical signal processing. <i>Computational Intelligence and Neuroscience</i>. 2011;2011. doi:<a href=\"https://doi.org/10.1155/2011/935364\">10.1155/2011/935364</a>","ieee":"A. Schlögl, C. Vidaurre, and T. Sander, “BioSig: The free and open source software library for biomedical signal processing,” <i>Computational Intelligence and Neuroscience</i>, vol. 2011. Hindawi Publishing Corporation, 2011.","mla":"Schlögl, Alois, et al. “BioSig: The Free and Open Source Software Library for Biomedical Signal Processing.” <i>Computational Intelligence and Neuroscience</i>, vol. 2011, 935364, Hindawi Publishing Corporation, 2011, doi:<a href=\"https://doi.org/10.1155/2011/935364\">10.1155/2011/935364</a>.","apa":"Schlögl, A., Vidaurre, C., &#38; Sander, T. (2011). BioSig: The free and open source software library for biomedical signal processing. <i>Computational Intelligence and Neuroscience</i>. Hindawi Publishing Corporation. <a href=\"https://doi.org/10.1155/2011/935364\">https://doi.org/10.1155/2011/935364</a>","short":"A. Schlögl, C. Vidaurre, T. Sander, Computational Intelligence and Neuroscience 2011 (2011).","ista":"Schlögl A, Vidaurre C, Sander T. 2011. BioSig: The free and open source software library for biomedical signal processing. Computational Intelligence and Neuroscience. 2011, 935364.","chicago":"Schlögl, Alois, Carmen Vidaurre, and Tilmann Sander. “BioSig: The Free and Open Source Software Library for Biomedical Signal Processing.” <i>Computational Intelligence and Neuroscience</i>. Hindawi Publishing Corporation, 2011. <a href=\"https://doi.org/10.1155/2011/935364\">https://doi.org/10.1155/2011/935364</a>."},"type":"journal_article","article_number":"935364","oa_version":"Published Version","file_date_updated":"2020-07-14T12:46:35Z","publist_id":"7330","doi":"10.1155/2011/935364","intvolume":"      2011","title":"BioSig: The free and open source software library for biomedical signal processing","pubrep_id":"947","language":[{"iso":"eng"}],"year":"2011","publication":"Computational Intelligence and Neuroscience"},{"language":[{"iso":"eng"}],"year":"2011","date_created":"2018-12-11T11:46:46Z","status":"public","publication":"Science Signaling","publisher":"American Association for the Advancement of Science","issue":"198","title":"Setting the clock for recirculating lymphocytes","quality_controlled":"1","intvolume":"         4","department":[{"_id":"MiSi"}],"day":"08","volume":4,"oa_version":"None","publist_id":"7329","doi":"10.1126/scisignal.2002617","author":[{"id":"4DFA52AE-F248-11E8-B48F-1D18A9856A87","last_name":"Eichner","first_name":"Alexander","full_name":"Eichner, Alexander"},{"full_name":"Sixt, Michael K","first_name":"Michael K","orcid":"0000-0002-6620-9179","last_name":"Sixt","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":1,"publication_status":"published","month":"11","date_published":"2011-11-08T00:00:00Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"491","article_number":"pe43","type":"journal_article","abstract":[{"lang":"eng","text":"In their search for antigens, lymphocytes continuously shuttle among blood vessels, lymph vessels, and lymphatic tissues. Chemokines mediate entry of lymphocytes into lymphatic tissues, and sphingosine 1-phosphate (S1P) promotes localization of lymphocytes to the vasculature. Both signals are sensed through G protein-coupled receptors (GPCRs). Most GPCRs undergo ligand-dependent homologous receptor desensitization, a process that decreases their signaling output after previous exposure to high ligand concentration. Such desensitization can explain why lymphocytes do not take an intermediate position between two signals but rather oscillate between them. The desensitization of S1P receptor 1 (S1PR1) is mediated by GPCR kinase 2 (GRK2). Deletion of GRK2 in lymphocytes compromises desensitization by high vascular S1P concentrations, thereby reducing responsiveness to the chemokine signal and trapping the cells in the vascular compartment. The desensitization kinetics of S1PR1 allows lymphocytes to dynamically shuttle between vasculature and lymphatic tissue, although the positional information in both compartments is static."}],"date_updated":"2021-01-12T08:01:02Z","citation":{"ista":"Eichner A, Sixt MK. 2011. Setting the clock for recirculating lymphocytes. Science Signaling. 4(198), pe43.","chicago":"Eichner, Alexander, and Michael K Sixt. “Setting the Clock for Recirculating Lymphocytes.” <i>Science Signaling</i>. American Association for the Advancement of Science, 2011. <a href=\"https://doi.org/10.1126/scisignal.2002617\">https://doi.org/10.1126/scisignal.2002617</a>.","apa":"Eichner, A., &#38; Sixt, M. K. (2011). Setting the clock for recirculating lymphocytes. <i>Science Signaling</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/scisignal.2002617\">https://doi.org/10.1126/scisignal.2002617</a>","short":"A. Eichner, M.K. Sixt, Science Signaling 4 (2011).","ieee":"A. Eichner and M. K. Sixt, “Setting the clock for recirculating lymphocytes,” <i>Science Signaling</i>, vol. 4, no. 198. American Association for the Advancement of Science, 2011.","mla":"Eichner, Alexander, and Michael K. Sixt. “Setting the Clock for Recirculating Lymphocytes.” <i>Science Signaling</i>, vol. 4, no. 198, pe43, American Association for the Advancement of Science, 2011, doi:<a href=\"https://doi.org/10.1126/scisignal.2002617\">10.1126/scisignal.2002617</a>.","ama":"Eichner A, Sixt MK. Setting the clock for recirculating lymphocytes. <i>Science Signaling</i>. 2011;4(198). doi:<a href=\"https://doi.org/10.1126/scisignal.2002617\">10.1126/scisignal.2002617</a>"}},{"department":[{"_id":"MiSi"}],"day":"19","oa":1,"issue":"20","quality_controlled":"1","page":"4309 - 4322","publisher":"Wiley-Blackwell","status":"public","date_created":"2018-12-11T11:46:55Z","_id":"518","abstract":[{"text":"Cancer stem cells or cancer initiating cells are believed to contribute to cancer recurrence after therapy. MicroRNAs (miRNAs) are short RNA molecules with fundamental roles in gene regulation. The role of miRNAs in cancer stem cells is only poorly understood. Here, we report miRNA expression profiles of glioblastoma stem cell-containing CD133 + cell populations. We find that miR-9, miR-9 * (referred to as miR-9/9 *), miR-17 and miR-106b are highly abundant in CD133 + cells. Furthermore, inhibition of miR-9/9 * or miR-17 leads to reduced neurosphere formation and stimulates cell differentiation. Calmodulin-binding transcription activator 1 (CAMTA1) is a putative transcription factor, which induces the expression of the anti-proliferative cardiac hormone natriuretic peptide A (NPPA). We identify CAMTA1 as an miR-9/9 * and miR-17 target. CAMTA1 expression leads to reduced neurosphere formation and tumour growth in nude mice, suggesting that CAMTA1 can function as tumour suppressor. Consistently, CAMTA1 and NPPA expression correlate with patient survival. Our findings could provide a basis for novel strategies of glioblastoma therapy.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","external_id":{"pmid":["21857646"]},"author":[{"full_name":"Schraivogel, Daniel","last_name":"Schraivogel","first_name":"Daniel"},{"first_name":"Lasse","last_name":"Weinmann","full_name":"Weinmann, Lasse"},{"last_name":"Beier","first_name":"Dagmar","full_name":"Beier, Dagmar"},{"full_name":"Tabatabai, Ghazaleh","first_name":"Ghazaleh","last_name":"Tabatabai"},{"last_name":"Eichner","first_name":"Alexander","id":"4DFA52AE-F248-11E8-B48F-1D18A9856A87","full_name":"Eichner, Alexander"},{"full_name":"Zhu, Jia","first_name":"Jia","last_name":"Zhu"},{"full_name":"Anton, Martina","last_name":"Anton","first_name":"Martina"},{"id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179","last_name":"Sixt","first_name":"Michael K","full_name":"Sixt, Michael K"},{"full_name":"Weller, Michael","first_name":"Michael","last_name":"Weller"},{"full_name":"Beier, Christoph","first_name":"Christoph","last_name":"Beier"},{"first_name":"Gunter","last_name":"Meister","full_name":"Meister, Gunter"}],"volume":30,"intvolume":"        30","title":"CAMTA1 is a novel tumour suppressor regulated by miR-9/9 * in glioblastoma stem cells","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3199389/","open_access":"1"}],"publication":"EMBO Journal","article_processing_charge":"No","language":[{"iso":"eng"}],"year":"2011","citation":{"ama":"Schraivogel D, Weinmann L, Beier D, et al. CAMTA1 is a novel tumour suppressor regulated by miR-9/9 * in glioblastoma stem cells. <i>EMBO Journal</i>. 2011;30(20):4309-4322. doi:<a href=\"https://doi.org/10.1038/emboj.2011.301\">10.1038/emboj.2011.301</a>","mla":"Schraivogel, Daniel, et al. “CAMTA1 Is a Novel Tumour Suppressor Regulated by MiR-9/9 * in Glioblastoma Stem Cells.” <i>EMBO Journal</i>, vol. 30, no. 20, Wiley-Blackwell, 2011, pp. 4309–22, doi:<a href=\"https://doi.org/10.1038/emboj.2011.301\">10.1038/emboj.2011.301</a>.","ieee":"D. Schraivogel <i>et al.</i>, “CAMTA1 is a novel tumour suppressor regulated by miR-9/9 * in glioblastoma stem cells,” <i>EMBO Journal</i>, vol. 30, no. 20. Wiley-Blackwell, pp. 4309–4322, 2011.","short":"D. Schraivogel, L. Weinmann, D. Beier, G. Tabatabai, A. Eichner, J. Zhu, M. Anton, M.K. Sixt, M. Weller, C. Beier, G. Meister, EMBO Journal 30 (2011) 4309–4322.","apa":"Schraivogel, D., Weinmann, L., Beier, D., Tabatabai, G., Eichner, A., Zhu, J., … Meister, G. (2011). CAMTA1 is a novel tumour suppressor regulated by miR-9/9 * in glioblastoma stem cells. <i>EMBO Journal</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1038/emboj.2011.301\">https://doi.org/10.1038/emboj.2011.301</a>","chicago":"Schraivogel, Daniel, Lasse Weinmann, Dagmar Beier, Ghazaleh Tabatabai, Alexander Eichner, Jia Zhu, Martina Anton, et al. “CAMTA1 Is a Novel Tumour Suppressor Regulated by MiR-9/9 * in Glioblastoma Stem Cells.” <i>EMBO Journal</i>. Wiley-Blackwell, 2011. <a href=\"https://doi.org/10.1038/emboj.2011.301\">https://doi.org/10.1038/emboj.2011.301</a>.","ista":"Schraivogel D, Weinmann L, Beier D, Tabatabai G, Eichner A, Zhu J, Anton M, Sixt MK, Weller M, Beier C, Meister G. 2011. CAMTA1 is a novel tumour suppressor regulated by miR-9/9 * in glioblastoma stem cells. EMBO Journal. 30(20), 4309–4322."},"date_updated":"2021-01-12T08:01:19Z","pmid":1,"type":"journal_article","scopus_import":1,"date_published":"2011-10-19T00:00:00Z","month":"10","publist_id":"7301","doi":"10.1038/emboj.2011.301","article_type":"original","oa_version":"Submitted Version"},{"doi":"10.1007/s10703-011-0131-3","publist_id":"7288","article_type":"original","oa_version":"Published Version","citation":{"ama":"Guerraoui R, Henzinger TA, Singh V. Verification of STM on relaxed memory models. <i>Formal Methods in System Design</i>. 2011;39(3):297-331. doi:<a href=\"https://doi.org/10.1007/s10703-011-0131-3\">10.1007/s10703-011-0131-3</a>","mla":"Guerraoui, Rachid, et al. “Verification of STM on Relaxed Memory Models.” <i>Formal Methods in System Design</i>, vol. 39, no. 3, Springer, 2011, pp. 297–331, doi:<a href=\"https://doi.org/10.1007/s10703-011-0131-3\">10.1007/s10703-011-0131-3</a>.","ieee":"R. Guerraoui, T. A. Henzinger, and V. Singh, “Verification of STM on relaxed memory models,” <i>Formal Methods in System Design</i>, vol. 39, no. 3. Springer, pp. 297–331, 2011.","short":"R. Guerraoui, T.A. Henzinger, V. Singh, Formal Methods in System Design 39 (2011) 297–331.","apa":"Guerraoui, R., Henzinger, T. A., &#38; Singh, V. (2011). Verification of STM on relaxed memory models. <i>Formal Methods in System Design</i>. Springer. <a href=\"https://doi.org/10.1007/s10703-011-0131-3\">https://doi.org/10.1007/s10703-011-0131-3</a>","chicago":"Guerraoui, Rachid, Thomas A Henzinger, and Vasu Singh. “Verification of STM on Relaxed Memory Models.” <i>Formal Methods in System Design</i>. Springer, 2011. <a href=\"https://doi.org/10.1007/s10703-011-0131-3\">https://doi.org/10.1007/s10703-011-0131-3</a>.","ista":"Guerraoui R, Henzinger TA, Singh V. 2011. Verification of STM on relaxed memory models. Formal Methods in System Design. 39(3), 297–331."},"date_updated":"2021-01-12T08:01:27Z","type":"journal_article","month":"12","date_published":"2011-12-01T00:00:00Z","ddc":["000"],"scopus_import":1,"article_processing_charge":"No","publication":"Formal Methods in System Design","language":[{"iso":"eng"}],"year":"2011","intvolume":"        39","title":"Verification of STM on relaxed memory models","main_file_link":[{"open_access":"1","url":"https://infoscience.epfl.ch/record/178042/files/art3A10.10072Fs10703-011-0131-3.pdf"}],"author":[{"full_name":"Guerraoui, Rachid","first_name":"Rachid","last_name":"Guerraoui"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","last_name":"Henzinger","orcid":"0000−0002−2985−7724","first_name":"Thomas A","full_name":"Henzinger, Thomas A"},{"full_name":"Singh, Vasu","id":"4DAE2708-F248-11E8-B48F-1D18A9856A87","first_name":"Vasu","last_name":"Singh"}],"volume":39,"abstract":[{"lang":"eng","text":"Software transactional memories (STM) are described in the literature with assumptions of sequentially consistent program execution and atomicity of high level operations like read, write, and abort. However, in a realistic setting, processors use relaxed memory models to optimize hardware performance. Moreover, the atomicity of operations depends on the underlying hardware. This paper presents the first approach to verify STMs under relaxed memory models with atomicity of 32 bit loads and stores, and read-modify-write operations. We describe RML, a simple language for expressing concurrent programs. We develop a semantics of RML parametrized by a relaxed memory model. We then present our tool, FOIL, which takes as input the RML description of an STM algorithm restricted to two threads and two variables, and the description of a memory model, and automatically determines the locations of fences, which if inserted, ensure the correctness of the restricted STM algorithm under the given memory model. We use FOIL to verify DSTM, TL2, and McRT STM under the memory models of sequential consistency, total store order, partial store order, and relaxed memory order for two threads and two variables. Finally, we extend the verification results for DSTM and TL2 to an arbitrary number of threads and variables by manually proving that the structural properties of STMs are satisfied at the hardware level of atomicity under the considered relaxed memory models."}],"_id":"531","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","publisher":"Springer","page":"297 - 331","status":"public","date_created":"2018-12-11T11:47:00Z","day":"01","department":[{"_id":"ToHe"}],"quality_controlled":"1","oa":1,"issue":"3"},{"pubrep_id":"15","title":"An O(n2) time algorithm for alternating Büchi games","article_processing_charge":"No","language":[{"iso":"eng"}],"year":"2011","type":"technical_report","has_accepted_license":"1","date_updated":"2023-02-23T11:15:12Z","citation":{"ieee":"K. Chatterjee and M. H. Henzinger, <i>An O(n2) time algorithm for alternating Büchi games</i>. IST Austria, 2011.","mla":"Chatterjee, Krishnendu, and Monika H. Henzinger. <i>An O(N2) Time Algorithm for Alternating Büchi Games</i>. IST Austria, 2011, doi:<a href=\"https://doi.org/10.15479/AT:IST-2011-0009\">10.15479/AT:IST-2011-0009</a>.","ama":"Chatterjee K, Henzinger MH. <i>An O(N2) Time Algorithm for Alternating Büchi Games</i>. IST Austria; 2011. doi:<a href=\"https://doi.org/10.15479/AT:IST-2011-0009\">10.15479/AT:IST-2011-0009</a>","ista":"Chatterjee K, Henzinger MH. 2011. An O(n2) time algorithm for alternating Büchi games, IST Austria, 20p.","chicago":"Chatterjee, Krishnendu, and Monika H Henzinger. <i>An O(N2) Time Algorithm for Alternating Büchi Games</i>. IST Austria, 2011. <a href=\"https://doi.org/10.15479/AT:IST-2011-0009\">https://doi.org/10.15479/AT:IST-2011-0009</a>.","apa":"Chatterjee, K., &#38; Henzinger, M. H. (2011). <i>An O(n2) time algorithm for alternating Büchi games</i>. IST Austria. <a href=\"https://doi.org/10.15479/AT:IST-2011-0009\">https://doi.org/10.15479/AT:IST-2011-0009</a>","short":"K. Chatterjee, M.H. Henzinger, An O(N2) Time Algorithm for Alternating Büchi Games, IST Austria, 2011."},"ddc":["000","004"],"month":"07","date_published":"2011-07-11T00:00:00Z","doi":"10.15479/AT:IST-2011-0009","alternative_title":["IST Austria Technical Report"],"related_material":{"record":[{"id":"3165","relation":"later_version","status":"public"}]},"file_date_updated":"2020-07-14T12:46:39Z","oa_version":"Published Version","department":[{"_id":"KrCh"}],"day":"11","oa":1,"page":"20","publisher":"IST Austria","file":[{"access_level":"open_access","file_name":"IST-2011-0009_IST-2011-0009.pdf","date_created":"2018-12-12T11:53:43Z","checksum":"0b354264229045d982332fd2cb5b9a26","content_type":"application/pdf","file_size":388665,"creator":"system","date_updated":"2020-07-14T12:46:39Z","file_id":"5504","relation":"main_file"}],"date_created":"2018-12-12T11:38:59Z","status":"public","_id":"5379","abstract":[{"text":"Computing the winning set for Büchi objectives in alternating games on graphs is a central problem in computer aided verification with a large number of applications. The long standing best known upper bound for solving the problem is ̃O(n·m), where n is the number of vertices and m is the number of edges in the graph. We are the first to break the ̃O(n·m) boundary by presenting a new technique that reduces the running time to O(n2). This bound also leads to O(n2) time algorithms for computing the set of almost-sure winning vertices for Büchi objectives (1) in alternating games with probabilistic transitions (improving an earlier bound of O(n·m)), (2) in concurrent graph games with constant actions (improving an earlier bound of O(n3)), and (3) in Markov decision processes (improving for m > n4/3 an earlier bound of O(min(m1.5, m·n2/3)). We also show that the same technique can be used to compute the maximal end-component decomposition of a graph in time O(n2), which is an improvement over earlier bounds for m > n4/3. Finally, we show how to maintain the winning set for Büchi objectives in alternating games under a sequence of edge insertions or a sequence of edge deletions in O(n) amortized time per operation. This is the first dynamic algorithm for this problem.","lang":"eng"}],"publication_status":"published","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","author":[{"orcid":"0000-0002-4561-241X","last_name":"Chatterjee","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","full_name":"Chatterjee, Krishnendu"},{"last_name":"Henzinger","orcid":"0000-0002-5008-6530","first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","full_name":"Henzinger, Monika H"}],"publication_identifier":{"issn":["2664-1690"]}}]