[{"citation":{"ieee":"V. Ruprecht et al., “Cortical contractility triggers a stochastic switch to fast amoeboid cell motility,” Cell, vol. 160, no. 4. Cell Press, pp. 673–685, 2015.","apa":"Ruprecht, V., Wieser, S., Callan Jones, A., Smutny, M., Morita, H., Sako, K., … Heisenberg, C.-P. J. (2015). Cortical contractility triggers a stochastic switch to fast amoeboid cell motility. Cell. Cell Press. https://doi.org/10.1016/j.cell.2015.01.008","short":"V. Ruprecht, S. Wieser, A. Callan Jones, M. Smutny, H. Morita, K. Sako, V. Barone, M. Ritsch Marte, M.K. Sixt, R. Voituriez, C.-P.J. Heisenberg, Cell 160 (2015) 673–685.","ama":"Ruprecht V, Wieser S, Callan Jones A, et al. Cortical contractility triggers a stochastic switch to fast amoeboid cell motility. Cell. 2015;160(4):673-685. doi:10.1016/j.cell.2015.01.008","ista":"Ruprecht V, Wieser S, Callan Jones A, Smutny M, Morita H, Sako K, Barone V, Ritsch Marte M, Sixt MK, Voituriez R, Heisenberg C-PJ. 2015. Cortical contractility triggers a stochastic switch to fast amoeboid cell motility. Cell. 160(4), 673–685.","chicago":"Ruprecht, Verena, Stefan Wieser, Andrew Callan Jones, Michael Smutny, Hitoshi Morita, Keisuke Sako, Vanessa Barone, et al. “Cortical Contractility Triggers a Stochastic Switch to Fast Amoeboid Cell Motility.” Cell. Cell Press, 2015. https://doi.org/10.1016/j.cell.2015.01.008.","mla":"Ruprecht, Verena, et al. “Cortical Contractility Triggers a Stochastic Switch to Fast Amoeboid Cell Motility.” Cell, vol. 160, no. 4, Cell Press, 2015, pp. 673–85, doi:10.1016/j.cell.2015.01.008."},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publication_status":"published","pubrep_id":"484","type":"journal_article","volume":160,"status":"public","language":[{"iso":"eng"}],"intvolume":" 160","publication":"Cell","acknowledgement":"We would like to thank R. Hausschild and E. Papusheva for technical assistance and the service facilities at the IST Austria for continuous support. The caRhoA plasmid was a kind gift of T. Kudoh and A. Takesono. We thank M. Piel and E. Paluch for exchanging unpublished data. ","doi":"10.1016/j.cell.2015.01.008","file_date_updated":"2020-07-14T12:45:01Z","author":[{"orcid":"0000-0003-4088-8633","full_name":"Ruprecht, Verena","last_name":"Ruprecht","first_name":"Verena","id":"4D71A03A-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-2670-2217","full_name":"Wieser, Stefan","last_name":"Wieser","id":"355AA5A0-F248-11E8-B48F-1D18A9856A87","first_name":"Stefan"},{"full_name":"Callan Jones, Andrew","first_name":"Andrew","last_name":"Callan Jones"},{"orcid":"0000-0002-5920-9090","full_name":"Smutny, Michael","last_name":"Smutny","first_name":"Michael","id":"3FE6E4E8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Morita, Hitoshi","id":"4C6E54C6-F248-11E8-B48F-1D18A9856A87","first_name":"Hitoshi","last_name":"Morita"},{"orcid":"0000-0002-6453-8075","full_name":"Sako, Keisuke","last_name":"Sako","first_name":"Keisuke","id":"3BED66BE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Vanessa","id":"419EECCC-F248-11E8-B48F-1D18A9856A87","last_name":"Barone","full_name":"Barone, Vanessa","orcid":"0000-0003-2676-3367"},{"full_name":"Ritsch Marte, Monika","first_name":"Monika","last_name":"Ritsch Marte"},{"last_name":"Sixt","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K"},{"full_name":"Voituriez, Raphaël","last_name":"Voituriez","first_name":"Raphaël"},{"first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566"}],"publist_id":"5634","date_updated":"2023-09-07T12:05:08Z","year":"2015","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"961"}]},"day":"12","department":[{"_id":"CaHe"},{"_id":"MiSi"}],"_id":"1537","date_published":"2015-02-12T00:00:00Z","month":"02","issue":"4","acknowledged_ssus":[{"_id":"SSU"}],"quality_controlled":"1","oa_version":"Published Version","title":"Cortical contractility triggers a stochastic switch to fast amoeboid cell motility","publisher":"Cell Press","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","ddc":["570"],"oa":1,"date_created":"2018-12-11T11:52:35Z","scopus_import":1,"license":"https://creativecommons.org/licenses/by/4.0/","project":[{"call_identifier":"FWF","name":"Cell- and Tissue Mechanics in Zebrafish Germ Layer Formation","_id":"2529486C-B435-11E9-9278-68D0E5697425","grant_number":"T 560-B17"},{"call_identifier":"FWF","name":"Cell Cortex and Germ Layer Formation in Zebrafish Gastrulation","grant_number":"I 812-B12","_id":"2527D5CC-B435-11E9-9278-68D0E5697425"}],"file":[{"date_updated":"2020-07-14T12:45:01Z","creator":"system","checksum":"228d3edf40627d897b3875088a0ac51f","file_size":4362653,"relation":"main_file","access_level":"open_access","file_id":"5003","content_type":"application/pdf","date_created":"2018-12-12T10:13:21Z","file_name":"IST-2016-484-v1+1_1-s2.0-S0092867415000094-main.pdf"}],"page":"673 - 685","abstract":[{"lang":"eng","text":"3D amoeboid cell migration is central to many developmental and disease-related processes such as cancer metastasis. Here, we identify a unique prototypic amoeboid cell migration mode in early zebrafish embryos, termed stable-bleb migration. Stable-bleb cells display an invariant polarized balloon-like shape with exceptional migration speed and persistence. Progenitor cells can be reversibly transformed into stable-bleb cells irrespective of their primary fate and motile characteristics by increasing myosin II activity through biochemical or mechanical stimuli. Using a combination of theory and experiments, we show that, in stable-bleb cells, cortical contractility fluctuations trigger a stochastic switch into amoeboid motility, and a positive feedback between cortical flows and gradients in contractility maintains stable-bleb cell polarization. We further show that rearward cortical flows drive stable-bleb cell migration in various adhesive and non-adhesive environments, unraveling a highly versatile amoeboid migration phenotype."}],"has_accepted_license":"1"},{"date_created":"2018-12-11T11:52:54Z","oa":1,"oa_version":"Submitted Version","quality_controlled":"1","title":"PIN-dependent auxin transport: Action, regulation, and evolution","publisher":"American Society of Plant Biologists","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"1","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4330589/","open_access":"1"}],"page":"20 - 32","abstract":[{"text":"Auxin participates in a multitude of developmental processes, as well as responses to environmental cues. Compared with other plant hormones, auxin exhibits a unique property, as it undergoes directional, cell-to-cell transport facilitated by plasma membrane-localized transport proteins. Among them, a prominent role has been ascribed to the PIN family of auxin efflux facilitators. PIN proteins direct polar auxin transport on account of their asymmetric subcellular localizations. In this review, we provide an overview of the multiple developmental roles of PIN proteins, including the atypical endoplasmic reticulum-localized members of the family, and look at the family from an evolutionary perspective. Next, we cover the cell biological and molecular aspects of PIN function, in particular the establishment of their polar subcellular localization. Hormonal and environmental inputs into the regulation of PIN action are summarized as well.","lang":"eng"}],"scopus_import":1,"pmid":1,"external_id":{"pmid":["25604445"]},"author":[{"last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","first_name":"Maciek","orcid":"0000-0001-6463-5257","full_name":"Adamowski, Maciek"},{"last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"}],"publist_id":"5580","language":[{"iso":"eng"}],"intvolume":" 27","publication":"Plant Cell","doi":"10.1105/tpc.114.134874","publication_status":"published","volume":27,"type":"journal_article","status":"public","citation":{"short":"M. Adamowski, J. Friml, Plant Cell 27 (2015) 20–32.","apa":"Adamowski, M., & Friml, J. (2015). PIN-dependent auxin transport: Action, regulation, and evolution. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.114.134874","ieee":"M. Adamowski and J. Friml, “PIN-dependent auxin transport: Action, regulation, and evolution,” Plant Cell, vol. 27, no. 1. American Society of Plant Biologists, pp. 20–32, 2015.","chicago":"Adamowski, Maciek, and Jiří Friml. “PIN-Dependent Auxin Transport: Action, Regulation, and Evolution.” Plant Cell. American Society of Plant Biologists, 2015. https://doi.org/10.1105/tpc.114.134874.","mla":"Adamowski, Maciek, and Jiří Friml. “PIN-Dependent Auxin Transport: Action, Regulation, and Evolution.” Plant Cell, vol. 27, no. 1, American Society of Plant Biologists, 2015, pp. 20–32, doi:10.1105/tpc.114.134874.","ista":"Adamowski M, Friml J. 2015. PIN-dependent auxin transport: Action, regulation, and evolution. Plant Cell. 27(1), 20–32.","ama":"Adamowski M, Friml J. PIN-dependent auxin transport: Action, regulation, and evolution. Plant Cell. 2015;27(1):20-32. doi:10.1105/tpc.114.134874"},"date_published":"2015-01-20T00:00:00Z","month":"01","department":[{"_id":"JiFr"}],"_id":"1591","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"938"}]},"day":"20","date_updated":"2023-09-07T12:06:09Z","year":"2015"},{"volume":56,"type":"journal_article","status":"public","publication_status":"published","citation":{"ama":"Alt J. The local semicircle law for random matrices with a fourfold symmetry. Journal of Mathematical Physics. 2015;56(10). doi:10.1063/1.4932606","ista":"Alt J. 2015. The local semicircle law for random matrices with a fourfold symmetry. Journal of Mathematical Physics. 56(10), 103301.","mla":"Alt, Johannes. “The Local Semicircle Law for Random Matrices with a Fourfold Symmetry.” Journal of Mathematical Physics, vol. 56, no. 10, 103301, American Institute of Physics, 2015, doi:10.1063/1.4932606.","chicago":"Alt, Johannes. “The Local Semicircle Law for Random Matrices with a Fourfold Symmetry.” Journal of Mathematical Physics. American Institute of Physics, 2015. https://doi.org/10.1063/1.4932606.","ieee":"J. Alt, “The local semicircle law for random matrices with a fourfold symmetry,” Journal of Mathematical Physics, vol. 56, no. 10. American Institute of Physics, 2015.","short":"J. Alt, Journal of Mathematical Physics 56 (2015).","apa":"Alt, J. (2015). The local semicircle law for random matrices with a fourfold symmetry. Journal of Mathematical Physics. American Institute of Physics. https://doi.org/10.1063/1.4932606"},"publist_id":"5472","author":[{"full_name":"Alt, Johannes","last_name":"Alt","id":"36D3D8B6-F248-11E8-B48F-1D18A9856A87","first_name":"Johannes"}],"publication":"Journal of Mathematical Physics","doi":"10.1063/1.4932606","intvolume":" 56","language":[{"iso":"eng"}],"day":"09","related_material":{"record":[{"id":"149","relation":"dissertation_contains","status":"public"}]},"year":"2015","date_updated":"2023-09-07T12:38:08Z","date_published":"2015-10-09T00:00:00Z","month":"10","article_number":"103301","department":[{"_id":"LaEr"}],"_id":"1677","title":"The local semicircle law for random matrices with a fourfold symmetry","publisher":"American Institute of Physics","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Preprint","quality_controlled":"1","issue":"10","main_file_link":[{"url":"http://arxiv.org/abs/1506.04683","open_access":"1"}],"date_created":"2018-12-11T11:53:25Z","ec_funded":1,"oa":1,"scopus_import":1,"abstract":[{"text":"We consider real symmetric and complex Hermitian random matrices with the additional symmetry hxy = hN-y,N-x. The matrix elements are independent (up to the fourfold symmetry) and not necessarily identically distributed. This ensemble naturally arises as the Fourier transform of a Gaussian orthogonal ensemble. Italso occurs as the flip matrix model - an approximation of the two-dimensional Anderson model at small disorder. We show that the density of states converges to the Wigner semicircle law despite the new symmetry type. We also prove the local version of the semicircle law on the optimal scale.","lang":"eng"}],"project":[{"grant_number":"338804","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7"}]},{"language":[{"iso":"eng"}],"intvolume":" 11","publication":"Nature Chemical Biology","acknowledgement":"This work was supported by grants from the European Union Seventh Framework Programme (CIG-303564 to H.J. and ERC-StG-311166 to S.M.B.N.), the Human Frontier Science Program (RGY0084_2012 to H.J.) and the Herzfelder Foundation (to M.G.). A.I.-P. was supported by a Ramon Areces fellowship, and E.R. by the graduate program MolecularDrugTargets (Austrian Science Fund (FWF): W 1232) and a FemTech fellowship (3580812 Austrian Research Promotion Agency).","doi":"10.1038/nchembio.1933","file_date_updated":"2020-07-14T12:45:12Z","author":[{"full_name":"Inglés Prieto, Álvaro","orcid":"0000-0002-5409-8571","id":"2A9DB292-F248-11E8-B48F-1D18A9856A87","first_name":"Álvaro","last_name":"Inglés Prieto"},{"id":"3FEE232A-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","last_name":"Gschaider-Reichhart","full_name":"Gschaider-Reichhart, Eva","orcid":"0000-0002-7218-7738"},{"full_name":"Muellner, Markus","last_name":"Muellner","first_name":"Markus"},{"last_name":"Nowak","first_name":"Matthias","id":"30845DAA-F248-11E8-B48F-1D18A9856A87","full_name":"Nowak, Matthias"},{"full_name":"Nijman, Sebastian","last_name":"Nijman","first_name":"Sebastian"},{"first_name":"Michael","last_name":"Grusch","full_name":"Grusch, Michael"},{"last_name":"Janovjak","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","first_name":"Harald L","orcid":"0000-0002-8023-9315","full_name":"Janovjak, Harald L"}],"publist_id":"5471","citation":{"ama":"Inglés Prieto Á, Gschaider-Reichhart E, Muellner M, et al. Light-assisted small-molecule screening against protein kinases. Nature Chemical Biology. 2015;11(12):952-954. doi:10.1038/nchembio.1933","ista":"Inglés Prieto Á, Gschaider-Reichhart E, Muellner M, Nowak M, Nijman S, Grusch M, Janovjak HL. 2015. Light-assisted small-molecule screening against protein kinases. Nature Chemical Biology. 11(12), 952–954.","mla":"Inglés Prieto, Álvaro, et al. “Light-Assisted Small-Molecule Screening against Protein Kinases.” Nature Chemical Biology, vol. 11, no. 12, Nature Publishing Group, 2015, pp. 952–54, doi:10.1038/nchembio.1933.","chicago":"Inglés Prieto, Álvaro, Eva Gschaider-Reichhart, Markus Muellner, Matthias Nowak, Sebastian Nijman, Michael Grusch, and Harald L Janovjak. “Light-Assisted Small-Molecule Screening against Protein Kinases.” Nature Chemical Biology. Nature Publishing Group, 2015. https://doi.org/10.1038/nchembio.1933.","ieee":"Á. Inglés Prieto et al., “Light-assisted small-molecule screening against protein kinases,” Nature Chemical Biology, vol. 11, no. 12. Nature Publishing Group, pp. 952–954, 2015.","apa":"Inglés Prieto, Á., Gschaider-Reichhart, E., Muellner, M., Nowak, M., Nijman, S., Grusch, M., & Janovjak, H. L. (2015). Light-assisted small-molecule screening against protein kinases. Nature Chemical Biology. Nature Publishing Group. https://doi.org/10.1038/nchembio.1933","short":"Á. Inglés Prieto, E. Gschaider-Reichhart, M. Muellner, M. Nowak, S. Nijman, M. Grusch, H.L. Janovjak, Nature Chemical Biology 11 (2015) 952–954."},"pubrep_id":"837","publication_status":"published","volume":11,"type":"journal_article","status":"public","department":[{"_id":"HaJa"},{"_id":"LifeSc"}],"_id":"1678","date_published":"2015-10-12T00:00:00Z","month":"10","date_updated":"2023-09-07T12:49:09Z","year":"2015","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"418"}]},"day":"12","ddc":["571"],"oa":1,"date_created":"2018-12-11T11:53:25Z","ec_funded":1,"issue":"12","oa_version":"Submitted Version","quality_controlled":"1","title":"Light-assisted small-molecule screening against protein kinases","publisher":"Nature Publishing Group","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"name":"Microbial Ion Channels for Synthetic Neurobiology","call_identifier":"FP7","_id":"25548C20-B435-11E9-9278-68D0E5697425","grant_number":"303564"},{"_id":"255BFFFA-B435-11E9-9278-68D0E5697425","grant_number":"RGY0084/2012","name":"In situ real-time imaging of neurotransmitter signaling using designer optical sensors (HFSP Young Investigator)"},{"call_identifier":"FWF","name":"Molecular Drug Targets","_id":"255A6082-B435-11E9-9278-68D0E5697425","grant_number":"W1232-B24"}],"abstract":[{"lang":"eng","text":"High-throughput live-cell screens are intricate elements of systems biology studies and drug discovery pipelines. Here, we demonstrate an optogenetics-assisted method that avoids the need for chemical activators and reporters, reduces the number of operational steps and increases information content in a cell-based small-molecule screen against human protein kinases, including an orphan receptor tyrosine kinase. This blueprint for all-optical screening can be adapted to many drug targets and cellular processes."}],"has_accepted_license":"1","file":[{"file_name":"IST-2017-837-v1+1_ingles-prieto.pdf","date_created":"2018-12-12T10:10:51Z","content_type":"application/pdf","file_id":"4842","creator":"system","checksum":"e9fb251dfcb7cd209b83f17867e61321","date_updated":"2020-07-14T12:45:12Z","access_level":"open_access","relation":"main_file","file_size":1308364}],"page":"952 - 954","scopus_import":1},{"ec_funded":1,"date_created":"2018-12-11T11:52:49Z","oa":1,"oa_version":"Preprint","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"American Physical Society","title":"Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation","main_file_link":[{"url":"http://arxiv.org/abs/1504.05716","open_access":"1"}],"issue":"24","project":[{"call_identifier":"FP7","name":"Limits to selection in biology and in evolutionary computation","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"}],"abstract":[{"lang":"eng","text":"Gene expression is controlled primarily by interactions between transcription factor proteins (TFs) and the regulatory DNA sequence, a process that can be captured well by thermodynamic models of regulation. These models, however, neglect regulatory crosstalk: the possibility that noncognate TFs could initiate transcription, with potentially disastrous effects for the cell. Here, we estimate the importance of crosstalk, suggest that its avoidance strongly constrains equilibrium models of TF binding, and propose an alternative nonequilibrium scheme that implements kinetic proofreading to suppress erroneous initiation. This proposal is consistent with the observed covalent modifications of the transcriptional apparatus and predicts increased noise in gene expression as a trade-off for improved specificity. Using information theory, we quantify this trade-off to find when optimal proofreading architectures are favored over their equilibrium counterparts. Such architectures exhibit significant super-Poisson noise at low expression in steady state."}],"scopus_import":1,"author":[{"id":"3DEE19A4-F248-11E8-B48F-1D18A9856A87","first_name":"Sarah A","last_name":"Cepeda Humerez","full_name":"Cepeda Humerez, Sarah A"},{"full_name":"Rieckh, Georg","first_name":"Georg","id":"34DA8BD6-F248-11E8-B48F-1D18A9856A87","last_name":"Rieckh"},{"last_name":"Tkacik","first_name":"Gasper","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6699-1455","full_name":"Tkacik, Gasper"}],"publist_id":"5595","language":[{"iso":"eng"}],"intvolume":" 115","doi":"10.1103/PhysRevLett.115.248101","publication":"Physical Review Letters","publication_status":"published","status":"public","volume":115,"type":"journal_article","citation":{"mla":"Cepeda Humerez, Sarah A., et al. “Stochastic Proofreading Mechanism Alleviates Crosstalk in Transcriptional Regulation.” Physical Review Letters, vol. 115, no. 24, 248101, American Physical Society, 2015, doi:10.1103/PhysRevLett.115.248101.","chicago":"Cepeda Humerez, Sarah A, Georg Rieckh, and Gašper Tkačik. “Stochastic Proofreading Mechanism Alleviates Crosstalk in Transcriptional Regulation.” Physical Review Letters. American Physical Society, 2015. https://doi.org/10.1103/PhysRevLett.115.248101.","ama":"Cepeda Humerez SA, Rieckh G, Tkačik G. Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. Physical Review Letters. 2015;115(24). doi:10.1103/PhysRevLett.115.248101","ista":"Cepeda Humerez SA, Rieckh G, Tkačik G. 2015. Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. Physical Review Letters. 115(24), 248101.","apa":"Cepeda Humerez, S. A., Rieckh, G., & Tkačik, G. (2015). Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.115.248101","short":"S.A. Cepeda Humerez, G. Rieckh, G. Tkačik, Physical Review Letters 115 (2015).","ieee":"S. A. Cepeda Humerez, G. Rieckh, and G. Tkačik, “Stochastic proofreading mechanism alleviates crosstalk in transcriptional regulation,” Physical Review Letters, vol. 115, no. 24. American Physical Society, 2015."},"article_number":"248101","month":"12","date_published":"2015-12-08T00:00:00Z","_id":"1576","department":[{"_id":"GaTk"}],"related_material":{"record":[{"id":"6473","relation":"part_of_dissertation","status":"public"}]},"day":"08","date_updated":"2023-09-07T12:55:21Z","year":"2015"}]