[{"isi":1,"oa_version":"Submitted Version","doi":"10.1093/mnras/stw2862","main_file_link":[{"url":"https://arxiv.org/abs/1608.04519","open_access":"1"}],"publication":"Monthly Notices of the Royal Astronomical Society","date_created":"2018-12-11T11:49:44Z","status":"public","day":"01","volume":465,"year":"2017","page":"4281 - 4310","external_id":{"isi":["000395170200039"]},"date_updated":"2023-09-22T09:40:55Z","issue":"4","oa":1,"month":"01","intvolume":" 465","date_published":"2017-01-01T00:00:00Z","acknowledgement":"Part of this work has been supported by the 7th Framework Programme for Research of the European Commission, under FETOpen grant number 255827 (CGL Computational Geometry Learning) and ERC advanced grant, URSAT (Understanding Random Systems via Algebraic Topology) number 320422.","publication_status":"published","_id":"1022","quality_controlled":"1","citation":{"chicago":"Pranav, Pratyush, Herbert Edelsbrunner, Rien Van De Weygaert, Gert Vegter, Michael Kerber, Bernard Jones, and Mathijs Wintraecken. “The Topology of the Cosmic Web in Terms of Persistent Betti Numbers.” Monthly Notices of the Royal Astronomical Society. Oxford University Press, 2017. https://doi.org/10.1093/mnras/stw2862.","ista":"Pranav P, Edelsbrunner H, Van De Weygaert R, Vegter G, Kerber M, Jones B, Wintraecken M. 2017. The topology of the cosmic web in terms of persistent Betti numbers. Monthly Notices of the Royal Astronomical Society. 465(4), 4281–4310.","short":"P. Pranav, H. Edelsbrunner, R. Van De Weygaert, G. Vegter, M. Kerber, B. Jones, M. Wintraecken, Monthly Notices of the Royal Astronomical Society 465 (2017) 4281–4310.","ieee":"P. Pranav et al., “The topology of the cosmic web in terms of persistent Betti numbers,” Monthly Notices of the Royal Astronomical Society, vol. 465, no. 4. Oxford University Press, pp. 4281–4310, 2017.","ama":"Pranav P, Edelsbrunner H, Van De Weygaert R, et al. The topology of the cosmic web in terms of persistent Betti numbers. Monthly Notices of the Royal Astronomical Society. 2017;465(4):4281-4310. doi:10.1093/mnras/stw2862","mla":"Pranav, Pratyush, et al. “The Topology of the Cosmic Web in Terms of Persistent Betti Numbers.” Monthly Notices of the Royal Astronomical Society, vol. 465, no. 4, Oxford University Press, 2017, pp. 4281–310, doi:10.1093/mnras/stw2862.","apa":"Pranav, P., Edelsbrunner, H., Van De Weygaert, R., Vegter, G., Kerber, M., Jones, B., & Wintraecken, M. (2017). The topology of the cosmic web in terms of persistent Betti numbers. Monthly Notices of the Royal Astronomical Society. Oxford University Press. https://doi.org/10.1093/mnras/stw2862"},"publication_identifier":{"issn":["00358711"]},"type":"journal_article","abstract":[{"lang":"eng","text":"We introduce a multiscale topological description of the Megaparsec web-like cosmic matter distribution. Betti numbers and topological persistence offer a powerful means of describing the rich connectivity structure of the cosmic web and of its multiscale arrangement of matter and galaxies. Emanating from algebraic topology and Morse theory, Betti numbers and persistence diagrams represent an extension and deepening of the cosmologically familiar topological genus measure and the related geometric Minkowski functionals. In addition to a description of the mathematical background, this study presents the computational procedure for computing Betti numbers and persistence diagrams for density field filtrations. The field may be computed starting from a discrete spatial distribution of galaxies or simulation particles. The main emphasis of this study concerns an extensive and systematic exploration of the imprint of different web-like morphologies and different levels of multiscale clustering in the corresponding computed Betti numbers and persistence diagrams. To this end, we use Voronoi clustering models as templates for a rich variety of web-like configurations and the fractal-like Soneira-Peebles models exemplify a range of multiscale configurations. We have identified the clear imprint of cluster nodes, filaments, walls, and voids in persistence diagrams, along with that of the nested hierarchy of structures in multiscale point distributions. We conclude by outlining the potential of persistent topology for understanding the connectivity structure of the cosmic web, in large simulations of cosmic structure formation and in the challenging context of the observed galaxy distribution in large galaxy surveys."}],"scopus_import":"1","language":[{"iso":"eng"}],"article_processing_charge":"No","department":[{"_id":"HeEd"}],"publist_id":"6373","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"full_name":"Pranav, Pratyush","first_name":"Pratyush","last_name":"Pranav"},{"orcid":"0000-0002-9823-6833","last_name":"Edelsbrunner","first_name":"Herbert","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","full_name":"Edelsbrunner, Herbert"},{"full_name":"Van De Weygaert, Rien","last_name":"Van De Weygaert","first_name":"Rien"},{"full_name":"Vegter, Gert","first_name":"Gert","last_name":"Vegter"},{"full_name":"Kerber, Michael","first_name":"Michael","last_name":"Kerber"},{"last_name":"Jones","first_name":"Bernard","full_name":"Jones, Bernard"},{"first_name":"Mathijs","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7472-2220","last_name":"Wintraecken","full_name":"Wintraecken, Mathijs"}],"title":"The topology of the cosmic web in terms of persistent Betti numbers","publisher":"Oxford University Press"},{"oa":1,"date_updated":"2023-09-22T09:27:51Z","article_number":"22","date_published":"2017-02-06T00:00:00Z","month":"02","intvolume":" 22","year":"2017","external_id":{"isi":["000396611900022"]},"day":"06","status":"public","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["510"],"date_created":"2018-12-11T11:49:44Z","volume":22,"oa_version":"Published Version","isi":1,"publication":"Electronic Journal of Probability","doi":"10.1214/17-EJP38","title":"Local law for the product of independent non-Hermitian random matrices with independent entries","author":[{"id":"4D902E6A-F248-11E8-B48F-1D18A9856A87","first_name":"Yuriy","orcid":"0000-0002-7327-856X","last_name":"Nemish","full_name":"Nemish, Yuriy"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"creator":"system","file_size":742275,"file_id":"5149","content_type":"application/pdf","relation":"main_file","access_level":"open_access","file_name":"IST-2017-802-v1+1_euclid.ejp.1487991681.pdf","date_created":"2018-12-12T10:15:29Z","date_updated":"2018-12-12T10:15:29Z"}],"publisher":"Institute of Mathematical Statistics","has_accepted_license":"1","pubrep_id":"802","language":[{"iso":"eng"}],"department":[{"_id":"LaEr"}],"publist_id":"6370","article_processing_charge":"No","quality_controlled":"1","_id":"1023","scopus_import":"1","abstract":[{"text":"We consider products of independent square non-Hermitian random matrices. More precisely, let X1,…, Xn be independent N × N random matrices with independent entries (real or complex with independent real and imaginary parts) with zero mean and variance 1/N. Soshnikov-O’Rourke [19] and Götze-Tikhomirov [15] showed that the empirical spectral distribution of the product of n random matrices with iid entries converges to (equation found). We prove that if the entries of the matrices X1,…, Xn are independent (but not necessarily identically distributed) and satisfy uniform subexponential decay condition, then in the bulk the convergence of the ESD of X1,…, Xn to (0.1) holds up to the scale N–1/2+ε.","lang":"eng"}],"file_date_updated":"2018-12-12T10:15:29Z","type":"journal_article","publication_identifier":{"issn":["10836489"]},"citation":{"ista":"Nemish Y. 2017. Local law for the product of independent non-Hermitian random matrices with independent entries. Electronic Journal of Probability. 22, 22.","short":"Y. Nemish, Electronic Journal of Probability 22 (2017).","ieee":"Y. Nemish, “Local law for the product of independent non-Hermitian random matrices with independent entries,” Electronic Journal of Probability, vol. 22. Institute of Mathematical Statistics, 2017.","ama":"Nemish Y. Local law for the product of independent non-Hermitian random matrices with independent entries. Electronic Journal of Probability. 2017;22. doi:10.1214/17-EJP38","chicago":"Nemish, Yuriy. “Local Law for the Product of Independent Non-Hermitian Random Matrices with Independent Entries.” Electronic Journal of Probability. Institute of Mathematical Statistics, 2017. https://doi.org/10.1214/17-EJP38.","apa":"Nemish, Y. (2017). Local law for the product of independent non-Hermitian random matrices with independent entries. Electronic Journal of Probability. Institute of Mathematical Statistics. https://doi.org/10.1214/17-EJP38","mla":"Nemish, Yuriy. “Local Law for the Product of Independent Non-Hermitian Random Matrices with Independent Entries.” Electronic Journal of Probability, vol. 22, 22, Institute of Mathematical Statistics, 2017, doi:10.1214/17-EJP38."},"publication_status":"published"},{"publisher":"Springer","has_accepted_license":"1","file":[{"file_name":"IST-2018-1019-v1+1_Hurny_MethodsMolBiol_2017.pdf","date_updated":"2019-10-15T07:47:05Z","date_created":"2018-12-12T10:14:18Z","content_type":"application/pdf","file_id":"5068","file_size":840646,"creator":"system","relation":"main_file","access_level":"open_access"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Hurny, Andrej","last_name":"Hurny","orcid":"0000-0003-3638-1426","id":"4DC4AF46-F248-11E8-B48F-1D18A9856A87","first_name":"Andrej"},{"full_name":"Benková, Eva","last_name":"Benková","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva"}],"title":"Methodological advances in auxin and cytokinin biology","department":[{"_id":"EvBe"}],"publist_id":"6369","pubrep_id":"1019","language":[{"iso":"eng"}],"type":"journal_article","file_date_updated":"2019-10-15T07:47:05Z","scopus_import":1,"abstract":[{"lang":"eng","text":"The history of auxin and cytokinin biology including the initial discoveries by father–son duo Charles Darwin and Francis Darwin (1880), and Gottlieb Haberlandt (1919) is a beautiful demonstration of unceasing continuity of research. Novel findings are integrated into existing hypotheses and models and deepen our understanding of biological principles. At the same time new questions are triggered and hand to hand with this new methodologies are developed to address these new challenges."}],"publication_identifier":{"issn":["10643745"]},"citation":{"short":"A. Hurny, E. Benková, Auxins and Cytokinins in Plant Biology 1569 (2017) 1–29.","ieee":"A. Hurny and E. Benková, “Methodological advances in auxin and cytokinin biology,” Auxins and Cytokinins in Plant Biology, vol. 1569. Springer, pp. 1–29, 2017.","ista":"Hurny A, Benková E. 2017. Methodological advances in auxin and cytokinin biology. Auxins and Cytokinins in Plant Biology. 1569, 1–29.","ama":"Hurny A, Benková E. Methodological advances in auxin and cytokinin biology. Auxins and Cytokinins in Plant Biology. 2017;1569:1-29. doi:10.1007/978-1-4939-6831-2_1","chicago":"Hurny, Andrej, and Eva Benková. “Methodological Advances in Auxin and Cytokinin Biology.” Auxins and Cytokinins in Plant Biology. Springer, 2017. https://doi.org/10.1007/978-1-4939-6831-2_1.","apa":"Hurny, A., & Benková, E. (2017). Methodological advances in auxin and cytokinin biology. Auxins and Cytokinins in Plant Biology. Springer. https://doi.org/10.1007/978-1-4939-6831-2_1","mla":"Hurny, Andrej, and Eva Benková. “Methodological Advances in Auxin and Cytokinin Biology.” Auxins and Cytokinins in Plant Biology, vol. 1569, Springer, 2017, pp. 1–29, doi:10.1007/978-1-4939-6831-2_1."},"quality_controlled":"1","_id":"1024","publication_status":"published","project":[{"grant_number":"I 1774-B16","call_identifier":"FWF","name":"Hormone cross-talk drives nutrient dependent plant development","_id":"2542D156-B435-11E9-9278-68D0E5697425"}],"month":"03","intvolume":" 1569","date_published":"2017-03-17T00:00:00Z","alternative_title":["Methods in Molecular Biology"],"oa":1,"date_updated":"2024-03-25T23:30:09Z","page":"1 - 29","year":"2017","volume":1569,"day":"17","status":"public","ddc":["575"],"date_created":"2018-12-11T11:49:45Z","doi":"10.1007/978-1-4939-6831-2_1","publication":"Auxins and Cytokinins in Plant Biology","oa_version":"Submitted Version","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"539"}]}},{"date_created":"2018-12-11T11:49:45Z","day":"02","status":"public","volume":543,"isi":1,"oa_version":"None","doi":"10.1038/nature21502","publication":"Nature","date_updated":"2023-09-22T09:26:59Z","issue":"7643","intvolume":" 543","month":"03","date_published":"2017-03-02T00:00:00Z","year":"2017","external_id":{"isi":["000395671500025"]},"page":"43 - 44","_id":"1025","quality_controlled":"1","citation":{"chicago":"Heisenberg, Carl-Philipp J. “Cell Biology: Stretched Divisions.” Nature. Nature Publishing Group, 2017. https://doi.org/10.1038/nature21502.","short":"C.-P.J. Heisenberg, Nature 543 (2017) 43–44.","ieee":"C.-P. J. Heisenberg, “Cell biology: Stretched divisions,” Nature, vol. 543, no. 7643. Nature Publishing Group, pp. 43–44, 2017.","ista":"Heisenberg C-PJ. 2017. Cell biology: Stretched divisions. Nature. 543(7643), 43–44.","ama":"Heisenberg C-PJ. Cell biology: Stretched divisions. Nature. 2017;543(7643):43-44. doi:10.1038/nature21502","mla":"Heisenberg, Carl-Philipp J. “Cell Biology: Stretched Divisions.” Nature, vol. 543, no. 7643, Nature Publishing Group, 2017, pp. 43–44, doi:10.1038/nature21502.","apa":"Heisenberg, C.-P. J. (2017). Cell biology: Stretched divisions. Nature. Nature Publishing Group. https://doi.org/10.1038/nature21502"},"publication_identifier":{"issn":["00280836"]},"type":"journal_article","scopus_import":"1","abstract":[{"lang":"eng","text":"Many organ surfaces are covered by a protective epithelial-cell layer. It emerges that such layers are maintained by cell stretching that triggers cell division mediated by the force-sensitive ion-channel protein Piezo1. See Letter p.118"}],"publication_status":"published","author":[{"full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566","last_name":"Heisenberg"}],"title":"Cell biology: Stretched divisions","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publisher":"Nature Publishing Group","language":[{"iso":"eng"}],"article_processing_charge":"No","department":[{"_id":"CaHe"}],"publist_id":"6367"},{"publication_status":"published","project":[{"grant_number":"RGY0084/2012","name":"In situ real-time imaging of neurotransmitter signaling using designer optical sensors (HFSP Young Investigator)","_id":"255BFFFA-B435-11E9-9278-68D0E5697425"},{"_id":"25548C20-B435-11E9-9278-68D0E5697425","name":"Microbial Ion Channels for Synthetic Neurobiology","call_identifier":"FP7","grant_number":"303564"},{"call_identifier":"FWF","grant_number":"W1232-B24","name":"Molecular Drug Targets","_id":"255A6082-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","_id":"1026","scopus_import":"1","abstract":[{"text":"The optogenetic revolution enabled spatially-precise and temporally-precise control over protein function, signaling pathway activation, and animal behavior with tremendous success in the dissection of signaling networks and neural circuits. Very recently, optogenetic methods have been paired with optical reporters in novel drug screening platforms. In these all-optical platforms, light remotely activated ion channels and kinases thereby obviating the use of electrophysiology or reagents. Consequences were remarkable operational simplicity, throughput, and cost-effectiveness that culminated in the identification of new drug candidates. These blueprints for all-optical assays also revealed potential pitfalls and inspire all-optical variants of other screens, such as those that aim at better understanding dynamic drug action or orphan protein function.","lang":"eng"}],"type":"journal_article","publication_identifier":{"issn":["09581669"]},"citation":{"chicago":"Agus, Viviana, and Harald L Janovjak. “Optogenetic Methods in Drug Screening: Technologies and Applications.” Current Opinion in Biotechnology. Elsevier, 2017. https://doi.org/10.1016/j.copbio.2017.02.006.","ama":"Agus V, Janovjak HL. Optogenetic methods in drug screening: Technologies and applications. Current Opinion in Biotechnology. 2017;48:8-14. doi:10.1016/j.copbio.2017.02.006","short":"V. Agus, H.L. Janovjak, Current Opinion in Biotechnology 48 (2017) 8–14.","ista":"Agus V, Janovjak HL. 2017. Optogenetic methods in drug screening: Technologies and applications. Current Opinion in Biotechnology. 48, 8–14.","ieee":"V. Agus and H. L. Janovjak, “Optogenetic methods in drug screening: Technologies and applications,” Current Opinion in Biotechnology, vol. 48. Elsevier, pp. 8–14, 2017.","mla":"Agus, Viviana, and Harald L. Janovjak. “Optogenetic Methods in Drug Screening: Technologies and Applications.” Current Opinion in Biotechnology, vol. 48, Elsevier, 2017, pp. 8–14, doi:10.1016/j.copbio.2017.02.006.","apa":"Agus, V., & Janovjak, H. L. (2017). Optogenetic methods in drug screening: Technologies and applications. Current Opinion in Biotechnology. Elsevier. https://doi.org/10.1016/j.copbio.2017.02.006"},"article_type":"original","language":[{"iso":"eng"}],"department":[{"_id":"HaJa"}],"publist_id":"6365","article_processing_charge":"No","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"last_name":"Agus","first_name":"Viviana","full_name":"Agus, Viviana"},{"full_name":"Janovjak, Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","first_name":"Harald L","orcid":"0000-0002-8023-9315","last_name":"Janovjak"}],"title":"Optogenetic methods in drug screening: Technologies and applications","publisher":"Elsevier","oa_version":"None","ec_funded":1,"isi":1,"publication":"Current Opinion in Biotechnology","doi":"10.1016/j.copbio.2017.02.006","status":"public","day":"01","date_created":"2018-12-11T11:49:45Z","volume":48,"year":"2017","external_id":{"isi":["000418313200003"]},"page":"8 - 14","date_updated":"2023-09-22T09:26:06Z","acknowledgement":"This work was supported by grants of the European Union Seventh Framework Programme (CIG-303564), the Human Frontier Science Program (RGY0084_2012), and the Austrian Science Fund FWF (W1232 MolecularDrugTargets).","date_published":"2017-12-01T00:00:00Z","intvolume":" 48","month":"12"},{"citation":{"apa":"Lukacisinova, M., & Bollenbach, M. T. (2017). Toward a quantitative understanding of antibiotic resistance evolution. Current Opinion in Biotechnology. Elsevier. https://doi.org/10.1016/j.copbio.2017.02.013","mla":"Lukacisinova, Marta, and Mark Tobias Bollenbach. “Toward a Quantitative Understanding of Antibiotic Resistance Evolution.” Current Opinion in Biotechnology, vol. 46, Elsevier, 2017, pp. 90–97, doi:10.1016/j.copbio.2017.02.013.","ama":"Lukacisinova M, Bollenbach MT. Toward a quantitative understanding of antibiotic resistance evolution. Current Opinion in Biotechnology. 2017;46:90-97. doi:10.1016/j.copbio.2017.02.013","ista":"Lukacisinova M, Bollenbach MT. 2017. Toward a quantitative understanding of antibiotic resistance evolution. Current Opinion in Biotechnology. 46, 90–97.","short":"M. Lukacisinova, M.T. Bollenbach, Current Opinion in Biotechnology 46 (2017) 90–97.","ieee":"M. Lukacisinova and M. T. Bollenbach, “Toward a quantitative understanding of antibiotic resistance evolution,” Current Opinion in Biotechnology, vol. 46. Elsevier, pp. 90–97, 2017.","chicago":"Lukacisinova, Marta, and Mark Tobias Bollenbach. “Toward a Quantitative Understanding of Antibiotic Resistance Evolution.” Current Opinion in Biotechnology. Elsevier, 2017. https://doi.org/10.1016/j.copbio.2017.02.013."},"type":"journal_article","file_date_updated":"2019-01-18T09:57:57Z","abstract":[{"text":"The rising prevalence of antibiotic resistant bacteria is an increasingly serious public health challenge. To address this problem, recent work ranging from clinical studies to theoretical modeling has provided valuable insights into the mechanisms of resistance, its emergence and spread, and ways to counteract it. A deeper understanding of the underlying dynamics of resistance evolution will require a combination of experimental and theoretical expertise from different disciplines and new technology for studying evolution in the laboratory. Here, we review recent advances in the quantitative understanding of the mechanisms and evolution of antibiotic resistance. We focus on key theoretical concepts and new technology that enables well-controlled experiments. We further highlight key challenges that can be met in the near future to ultimately develop effective strategies for combating resistance.","lang":"eng"}],"scopus_import":"1","_id":"1027","quality_controlled":"1","project":[{"grant_number":"P27201-B22","call_identifier":"FWF","name":"Revealing the mechanisms underlying drug interactions","_id":"25E9AF9E-B435-11E9-9278-68D0E5697425"},{"grant_number":"303507","call_identifier":"FP7","_id":"25E83C2C-B435-11E9-9278-68D0E5697425","name":"Optimality principles in responses to antibiotics"},{"name":"Revealing the fundamental limits of cell growth","_id":"25EB3A80-B435-11E9-9278-68D0E5697425","grant_number":"RGP0042/2013"}],"publication_status":"published","has_accepted_license":"1","publisher":"Elsevier","file":[{"access_level":"open_access","relation":"main_file","creator":"dernst","file_size":858338,"file_id":"5846","content_type":"application/pdf","date_updated":"2019-01-18T09:57:57Z","date_created":"2019-01-18T09:57:57Z","file_name":"2017_CurrentOpinion_Lukaciinova.pdf","success":1}],"title":"Toward a quantitative understanding of antibiotic resistance evolution","author":[{"full_name":"Lukacisinova, Marta","id":"4342E402-F248-11E8-B48F-1D18A9856A87","first_name":"Marta","last_name":"Lukacisinova","orcid":"0000-0002-2519-8004"},{"full_name":"Bollenbach, Mark Tobias","first_name":"Mark Tobias","id":"3E6DB97A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4398-476X","last_name":"Bollenbach"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"Yes (in subscription journal)","department":[{"_id":"ToBo"}],"publist_id":"6364","language":[{"iso":"eng"}],"pubrep_id":"801","article_type":"original","volume":46,"tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"date_created":"2018-12-11T11:49:45Z","ddc":["570"],"day":"01","status":"public","doi":"10.1016/j.copbio.2017.02.013","publication":"Current Opinion in Biotechnology","related_material":{"record":[{"id":"6263","status":"public","relation":"dissertation_contains"}]},"isi":1,"oa_version":"Published Version","ec_funded":1,"intvolume":" 46","month":"08","date_published":"2017-08-01T00:00:00Z","date_updated":"2024-03-25T23:30:15Z","oa":1,"page":"90 - 97","external_id":{"isi":["000408077400015"]},"year":"2017"},{"publication_status":"published","project":[{"grant_number":"303564","call_identifier":"FP7","_id":"25548C20-B435-11E9-9278-68D0E5697425","name":"Microbial Ion Channels for Synthetic Neurobiology"},{"_id":"26AA4EF2-B435-11E9-9278-68D0E5697425","name":"Molecular Drug Targets [do not use to be deleted]","call_identifier":"FWF","grant_number":"W1232-B24"}],"type":"journal_article","file_date_updated":"2019-01-18T09:39:55Z","scopus_import":"1","abstract":[{"lang":"eng","text":"Optogenetics and photopharmacology provide spatiotemporally precise control over protein interactions and protein function in cells and animals. Optogenetic methods that are sensitive to green light and can be used to break protein complexes are not broadly available but would enable multichromatic experiments with previously inaccessible biological targets. Herein, we repurposed cobalamin (vitamin B12) binding domains of bacterial CarH transcription factors for green-light-induced receptor dissociation. In cultured cells, we observed oligomerization-induced cell signaling for the fibroblast growth factor receptor 1 fused to cobalamin-binding domains in the dark that was rapidly eliminated upon illumination. In zebrafish embryos expressing fusion receptors, green light endowed control over aberrant fibroblast growth factor signaling during development. Green-light-induced domain dissociation and light-inactivated receptors will critically expand the optogenetic toolbox for control of biological processes."}],"publication_identifier":{"issn":["14337851"]},"citation":{"ama":"Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. Green-light-induced inactivation of receptor signaling using cobalamin-binding domains. Angewandte Chemie - International Edition. 2017;56(16):4608-4611. doi:10.1002/anie.201611998","short":"S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, H.L. Janovjak, Angewandte Chemie - International Edition 56 (2017) 4608–4611.","ieee":"S. Kainrath, M. Stadler, E. Gschaider-Reichhart, M. Distel, and H. L. Janovjak, “Green-light-induced inactivation of receptor signaling using cobalamin-binding domains,” Angewandte Chemie - International Edition, vol. 56, no. 16. Wiley-Blackwell, pp. 4608–4611, 2017.","ista":"Kainrath S, Stadler M, Gschaider-Reichhart E, Distel M, Janovjak HL. 2017. Green-light-induced inactivation of receptor signaling using cobalamin-binding domains. Angewandte Chemie - International Edition. 56(16), 4608–4611.","chicago":"Kainrath, Stephanie, Manuela Stadler, Eva Gschaider-Reichhart, Martin Distel, and Harald L Janovjak. “Green-Light-Induced Inactivation of Receptor Signaling Using Cobalamin-Binding Domains.” Angewandte Chemie - International Edition. Wiley-Blackwell, 2017. https://doi.org/10.1002/anie.201611998.","apa":"Kainrath, S., Stadler, M., Gschaider-Reichhart, E., Distel, M., & Janovjak, H. L. (2017). Green-light-induced inactivation of receptor signaling using cobalamin-binding domains. Angewandte Chemie - International Edition. Wiley-Blackwell. https://doi.org/10.1002/anie.201611998","mla":"Kainrath, Stephanie, et al. “Green-Light-Induced Inactivation of Receptor Signaling Using Cobalamin-Binding Domains.” Angewandte Chemie - International Edition, vol. 56, no. 16, Wiley-Blackwell, 2017, pp. 4608–11, doi:10.1002/anie.201611998."},"quality_controlled":"1","_id":"1028","department":[{"_id":"CaGu"},{"_id":"HaJa"}],"publist_id":"6362","article_processing_charge":"No","language":[{"iso":"eng"}],"publisher":"Wiley-Blackwell","has_accepted_license":"1","file":[{"file_id":"5845","content_type":"application/pdf","file_size":2614942,"creator":"dernst","access_level":"open_access","relation":"main_file","success":1,"file_name":"2017_communications_Kainrath.pdf","date_updated":"2019-01-18T09:39:55Z","date_created":"2019-01-18T09:39:55Z"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Green-light-induced inactivation of receptor signaling using cobalamin-binding domains","author":[{"last_name":"Kainrath","first_name":"Stephanie","id":"32CFBA64-F248-11E8-B48F-1D18A9856A87","full_name":"Kainrath, Stephanie"},{"full_name":"Stadler, Manuela","last_name":"Stadler","first_name":"Manuela"},{"id":"3FEE232A-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","last_name":"Gschaider-Reichhart","orcid":"0000-0002-7218-7738","full_name":"Gschaider-Reichhart, Eva"},{"full_name":"Distel, Martin","last_name":"Distel","first_name":"Martin"},{"full_name":"Janovjak, Harald L","orcid":"0000-0002-8023-9315","last_name":"Janovjak","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","first_name":"Harald L"}],"doi":"10.1002/anie.201611998","publication":"Angewandte Chemie - International Edition","isi":1,"ec_funded":1,"oa_version":"Published Version","related_material":{"record":[{"id":"418","status":"public","relation":"dissertation_contains"},{"status":"public","relation":"part_of_dissertation","id":"7680"}]},"volume":56,"status":"public","day":"20","ddc":["540"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2018-12-11T11:49:46Z","page":"4608-4611","external_id":{"isi":["000398154000038"]},"year":"2017","acknowledgement":"This work was supported by a grant from the European Unions Seventh Framework Programme (CIG-303564). E.R. was supported by the graduate program MolecularDrugTargets (Austrian Science Fund (FWF), W1232) and a FemTech fellowship (Austrian Research Promotion Agency, 3580812)","month":"03","intvolume":" 56","date_published":"2017-03-20T00:00:00Z","issue":"16","oa":1,"date_updated":"2024-03-25T23:30:08Z"},{"publication":"PLoS One","doi":"10.1371/journal.pone.0174066","related_material":{"record":[{"relation":"popular_science","status":"public","id":"5556"},{"id":"6392","status":"public","relation":"dissertation_contains"}]},"oa_version":"Published Version","isi":1,"volume":12,"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2018-12-11T11:49:46Z","ddc":["570"],"status":"public","day":"16","external_id":{"isi":["000396318300121"]},"year":"2017","date_published":"2017-03-16T00:00:00Z","month":"03","intvolume":" 12","article_number":"e0174066","date_updated":"2024-03-25T23:30:03Z","oa":1,"issue":"3","publication_status":"published","citation":{"apa":"Lukacisin, M., Landon, M., & Jajoo, R. (2017). Sequence-specific thermodynamic properties of nucleic acids influence both transcriptional pausing and backtracking in yeast. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0174066","mla":"Lukacisin, Martin, et al. “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” PLoS One, vol. 12, no. 3, e0174066, Public Library of Science, 2017, doi:10.1371/journal.pone.0174066.","ama":"Lukacisin M, Landon M, Jajoo R. Sequence-specific thermodynamic properties of nucleic acids influence both transcriptional pausing and backtracking in yeast. PLoS One. 2017;12(3). doi:10.1371/journal.pone.0174066","ieee":"M. Lukacisin, M. Landon, and R. Jajoo, “Sequence-specific thermodynamic properties of nucleic acids influence both transcriptional pausing and backtracking in yeast,” PLoS One, vol. 12, no. 3. Public Library of Science, 2017.","short":"M. Lukacisin, M. Landon, R. Jajoo, PLoS One 12 (2017).","ista":"Lukacisin M, Landon M, Jajoo R. 2017. Sequence-specific thermodynamic properties of nucleic acids influence both transcriptional pausing and backtracking in yeast. PLoS One. 12(3), e0174066.","chicago":"Lukacisin, Martin, Matthieu Landon, and Rishi Jajoo. “Sequence-Specific Thermodynamic Properties of Nucleic Acids Influence Both Transcriptional Pausing and Backtracking in Yeast.” PLoS One. Public Library of Science, 2017. https://doi.org/10.1371/journal.pone.0174066."},"publication_identifier":{"issn":["19326203"]},"abstract":[{"lang":"eng","text":"RNA Polymerase II pauses and backtracks during transcription, with many consequences for gene expression and cellular physiology. Here, we show that the energy required to melt double-stranded nucleic acids in the transcription bubble predicts pausing in Saccharomyces cerevisiae far more accurately than nucleosome roadblocks do. In addition, the same energy difference also determines when the RNA polymerase backtracks instead of continuing to move forward. This data-driven model corroborates—in a genome wide and quantitative manner—previous evidence that sequence-dependent thermodynamic features of nucleic acids influence both transcriptional pausing and backtracking."}],"scopus_import":"1","type":"journal_article","file_date_updated":"2018-12-12T10:09:47Z","_id":"1029","quality_controlled":"1","article_processing_charge":"Yes","department":[{"_id":"ToBo"}],"publist_id":"6361","language":[{"iso":"eng"}],"pubrep_id":"800","has_accepted_license":"1","publisher":"Public Library of Science","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Sequence-specific thermodynamic properties of nucleic acids influence both transcriptional pausing and backtracking in yeast","author":[{"full_name":"Lukacisin, Martin","orcid":"0000-0001-6549-4177","last_name":"Lukacisin","id":"298FFE8C-F248-11E8-B48F-1D18A9856A87","first_name":"Martin"},{"full_name":"Landon, Matthieu","last_name":"Landon","first_name":"Matthieu"},{"last_name":"Jajoo","first_name":"Rishi","full_name":"Jajoo, Rishi"}],"file":[{"access_level":"open_access","relation":"main_file","file_id":"4772","content_type":"application/pdf","creator":"system","file_size":3429381,"date_created":"2018-12-12T10:09:47Z","date_updated":"2018-12-12T10:09:47Z","file_name":"IST-2017-800-v1+1_journal.pone.0174066.pdf"}]},{"doi":"10.1103/PhysRevLett.118.137701","main_file_link":[{"url":"https://arxiv.org/abs/1612.05748","open_access":"1"}],"publication":"APS Physics, Physical Review Letters","oa_version":"Preprint","volume":118,"date_created":"2018-12-11T11:44:39Z","status":"public","day":"31","external_id":{"arxiv":["1612.05748"]},"year":"2017","intvolume":" 118","month":"03","date_published":"2017-03-31T00:00:00Z","article_number":"137701","acknowledgement":"Research supported by Microsoft, the Danish National Research Foundation, the Lundbeck Foundation, Carlsberg Foundation, Villum Foundation, and the European Commission.","date_updated":"2021-01-12T06:47:47Z","issue":"13","oa":1,"publication_status":"published","extern":"1","citation":{"chicago":"Albrecht, S M, Esben Hansen, Andrew P Higginbotham, Ferdinand Kuemmeth, Thomas Jespersen, Jesper Nygård, Peter Krogstrup, Jeroen Danon, Karsten Flensberg, and Charles Marcus. “Transport Signatures of Quasiparticle Poisoning in a Majorana Island.” APS Physics, Physical Review Letters. American Physical Society, 2017. https://doi.org/10.1103/PhysRevLett.118.137701.","ama":"Albrecht SM, Hansen E, Higginbotham AP, et al. Transport signatures of quasiparticle poisoning in a majorana island. APS Physics, Physical Review Letters. 2017;118(13). doi:10.1103/PhysRevLett.118.137701","ieee":"S. M. Albrecht et al., “Transport signatures of quasiparticle poisoning in a majorana island,” APS Physics, Physical Review Letters, vol. 118, no. 13. American Physical Society, 2017.","short":"S.M. Albrecht, E. Hansen, A.P. Higginbotham, F. Kuemmeth, T. Jespersen, J. Nygård, P. Krogstrup, J. Danon, K. Flensberg, C. Marcus, APS Physics, Physical Review Letters 118 (2017).","ista":"Albrecht SM, Hansen E, Higginbotham AP, Kuemmeth F, Jespersen T, Nygård J, Krogstrup P, Danon J, Flensberg K, Marcus C. 2017. Transport signatures of quasiparticle poisoning in a majorana island. APS Physics, Physical Review Letters. 118(13), 137701.","mla":"Albrecht, S. M., et al. “Transport Signatures of Quasiparticle Poisoning in a Majorana Island.” APS Physics, Physical Review Letters, vol. 118, no. 13, 137701, American Physical Society, 2017, doi:10.1103/PhysRevLett.118.137701.","apa":"Albrecht, S. M., Hansen, E., Higginbotham, A. P., Kuemmeth, F., Jespersen, T., Nygård, J., … Marcus, C. (2017). Transport signatures of quasiparticle poisoning in a majorana island. APS Physics, Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.118.137701"},"type":"journal_article","abstract":[{"lang":"eng","text":"We investigate effects of quasiparticle poisoning in a Majorana island with strong tunnel coupling to normal-metal leads. In addition to the main Coulomb blockade diamonds, "shadow" diamonds appear, shifted by 1e in gate voltage, consistent with transport through an excited (poisoned) state of the island. Comparison to a simple model yields an estimate of parity lifetime for the strongly coupled island (∼1 μs) and sets a bound for a weakly coupled island (>10 μs). Fluctuations in the gate-voltage spacing of Coulomb peaks at high field, reflecting Majorana hybridization, are enhanced by the reduced lever arm at strong coupling. When converted from gate voltage to energy units, fluctuations are consistent with previous measurements."}],"arxiv":1,"_id":"103","quality_controlled":"1","publist_id":"7951","language":[{"iso":"eng"}],"publisher":"American Physical Society","title":"Transport signatures of quasiparticle poisoning in a majorana island","author":[{"first_name":"S M","last_name":"Albrecht","full_name":"Albrecht, S M"},{"full_name":"Hansen, Esben","first_name":"Esben","last_name":"Hansen"},{"full_name":"Higginbotham, Andrew P","orcid":"0000-0003-2607-2363","last_name":"Higginbotham","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","first_name":"Andrew P"},{"full_name":"Kuemmeth, Ferdinand","last_name":"Kuemmeth","first_name":"Ferdinand"},{"full_name":"Jespersen, Thomas","last_name":"Jespersen","first_name":"Thomas"},{"first_name":"Jesper","last_name":"Nygård","full_name":"Nygård, Jesper"},{"full_name":"Krogstrup, Peter","last_name":"Krogstrup","first_name":"Peter"},{"last_name":"Danon","first_name":"Jeroen","full_name":"Danon, Jeroen"},{"first_name":"Karsten","last_name":"Flensberg","full_name":"Flensberg, Karsten"},{"last_name":"Marcus","first_name":"Charles","full_name":"Marcus, Charles"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87"},{"article_type":"original","pubrep_id":"799","language":[{"iso":"eng"}],"department":[{"_id":"E-Lib"}],"publist_id":"6360","article_processing_charge":"No","title":"Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library","author":[{"last_name":"Villányi","orcid":"0000-0001-8126-0426","first_name":"Márton","id":"3FFCCD3A-F248-11E8-B48F-1D18A9856A87","full_name":"Villányi, Márton"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"date_created":"2018-12-12T10:08:20Z","date_updated":"2018-12-12T10:08:20Z","file_name":"IST-2017-799-v1+1_35227-112025-1-PB.pdf","relation":"main_file","access_level":"open_access","creator":"system","file_size":201163,"file_id":"4680","content_type":"application/pdf"}],"publisher":"Verein Informationspraxis ","has_accepted_license":"1","publication_status":"published","_id":"1030","abstract":[{"text":"Auf der Suche nach einem Bibliothekssystem entschied sich die Forschungseinrichtung IST Austria im Jahr 2014 für das Open-Source-Produkt Koha. In einem ersten Schritt wurden zunächst Grundfunktionen aktiviert um im Anschluss diverse zusätzliche Tools zum Einsatz zu bringen. Die große Flexibilität des Systems erlaubt maßgeschneiderte Lösungen für unterschiedlichste Institutionen. Trotz Herausforderungen kann die Bibliothek auf eine erfolgreiche Implementierung zurückblicken.","lang":"ger"},{"lang":"eng","text":"IST Austria was looking for a new library system until 2014 when the research institute decided\r\nto implement Koha. The library first activated basic functions of the open-source product and\r\nthen brought additional tools into operation. The high flexibility of the system allows customized\r\nsolutions for different institutions. Although the library faced some challenges, it can now look\r\nback on a successful implementation."}],"type":"journal_article","file_date_updated":"2018-12-12T10:08:20Z","citation":{"chicago":"Villányi, Márton. “Ein Freies Bibliothekssystem Für Wissenschaftliche Bibliotheken – Werkstattbericht Der IST Austria Library.” Informationspraxis. Verein Informationspraxis , 2017. https://doi.org/10.11588/ip.2017.1.35227.","ista":"Villányi M. 2017. Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library. Informationspraxis. 3(1).","short":"M. Villányi, Informationspraxis 3 (2017).","ieee":"M. Villányi, “Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library,” Informationspraxis, vol. 3, no. 1. Verein Informationspraxis , 2017.","ama":"Villányi M. Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library. Informationspraxis. 2017;3(1). doi:10.11588/ip.2017.1.35227","mla":"Villányi, Márton. “Ein Freies Bibliothekssystem Für Wissenschaftliche Bibliotheken – Werkstattbericht Der IST Austria Library.” Informationspraxis, vol. 3, no. 1, Verein Informationspraxis , 2017, doi:10.11588/ip.2017.1.35227.","apa":"Villányi, M. (2017). Ein freies Bibliothekssystem für wissenschaftliche Bibliotheken – Werkstattbericht der IST Austria Library. Informationspraxis. Verein Informationspraxis . https://doi.org/10.11588/ip.2017.1.35227"},"publication_identifier":{"issn":["2297-3249"]},"year":"2017","oa":1,"issue":"1","date_updated":"2023-10-18T07:49:29Z","popular_science":"1","date_published":"2017-01-01T00:00:00Z","intvolume":" 3","month":"01","oa_version":"Published Version","publication":"Informationspraxis","doi":"10.11588/ip.2017.1.35227","day":"01","status":"public","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2018-12-11T11:49:46Z","ddc":["020"],"volume":3},{"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2021-11-29T08:49:50Z","ddc":["540"],"status":"public","day":"21","volume":3,"pmid":1,"oa_version":"Published Version","publication":"ACS Central Science","main_file_link":[{"open_access":"1","url":"https://pubs.acs.org/doi/10.1021/acscentsci.7b00392"}],"doi":"10.1021/acscentsci.7b00392","keyword":["general chemical engineering","general chemistry"],"date_updated":"2021-11-29T09:28:06Z","oa":1,"issue":"12","date_published":"2017-11-21T00:00:00Z","month":"11","intvolume":" 3","acknowledgement":"M.S. and G.A.V. acknowledge their research reported in this publication as being supported by the National Institute of General Medical Sciences of the National Institutes of Health under Award Number R01-GM063796. Computational resources were provided to M.S. and G.A.V. by the National Science Foundation through XSEDE (Grant TG-MCA94P017, supercomputers Stampede and Gordon), and also by the Blue Waters computing project at the National Center for Supercomputing Applications (University of Illinois at Urbana–Champaign, NSF Awards OCI-0725070 and ACI-1238993). A.Š. acknowledges support from the Human Frontier Science Program and Royal Society. J.M.H. and K.Y.C.L. acknowledge the support from the National Science Foundation (Grant MCB-1413613) and the NSF-supported MRSEC program at the University of Chicago (Grant DMR-1420709). We are grateful to Carsten Mim and Vinzenz Unger of Northwestern University for generously providing us with the protein. We thank all the members of the Voth group for fruitful discussions, especially John M. A. Grime.","year":"2017","external_id":{"pmid":["29296664"]},"page":"1246-1253","_id":"10369","quality_controlled":"1","publication_identifier":{"eissn":["2374-7951"],"issn":["2374-7943"]},"citation":{"ieee":"M. Simunovic, A. Šarić, J. M. Henderson, K. Y. C. Lee, and G. A. Voth, “Long-range organization of membrane-curving proteins,” ACS Central Science, vol. 3, no. 12. American Chemical Society, pp. 1246–1253, 2017.","ista":"Simunovic M, Šarić A, Henderson JM, Lee KYC, Voth GA. 2017. Long-range organization of membrane-curving proteins. ACS Central Science. 3(12), 1246–1253.","short":"M. Simunovic, A. Šarić, J.M. Henderson, K.Y.C. Lee, G.A. Voth, ACS Central Science 3 (2017) 1246–1253.","ama":"Simunovic M, Šarić A, Henderson JM, Lee KYC, Voth GA. Long-range organization of membrane-curving proteins. ACS Central Science. 2017;3(12):1246-1253. doi:10.1021/acscentsci.7b00392","chicago":"Simunovic, Mijo, Anđela Šarić, J. Michael Henderson, Ka Yee C. Lee, and Gregory A. Voth. “Long-Range Organization of Membrane-Curving Proteins.” ACS Central Science. American Chemical Society, 2017. https://doi.org/10.1021/acscentsci.7b00392.","apa":"Simunovic, M., Šarić, A., Henderson, J. M., Lee, K. Y. C., & Voth, G. A. (2017). Long-range organization of membrane-curving proteins. ACS Central Science. American Chemical Society. https://doi.org/10.1021/acscentsci.7b00392","mla":"Simunovic, Mijo, et al. “Long-Range Organization of Membrane-Curving Proteins.” ACS Central Science, vol. 3, no. 12, American Chemical Society, 2017, pp. 1246–53, doi:10.1021/acscentsci.7b00392."},"extern":"1","scopus_import":"1","abstract":[{"text":"Biological membranes have a central role in mediating the organization of membrane-curving proteins, a dynamic process that has proven to be challenging to probe experimentally. Using atomic force microscopy, we capture the hierarchically organized assemblies of Bin/amphiphysin/Rvs (BAR) proteins on supported lipid membranes. Their structure reveals distinct long linear aggregates of proteins, regularly spaced by up to 300 nm. Employing accurate free-energy calculations from large-scale coarse-grained computer simulations, we found that the membrane mediates the interaction among protein filaments as a combination of short- and long-ranged interactions. The long-ranged component acts at strikingly long distances, giving rise to a variety of micron-sized ordered patterns. This mechanism may contribute to the long-ranged spatiotemporal control of membrane remodeling by proteins in the cell.","lang":"eng"}],"type":"journal_article","file_date_updated":"2021-11-29T09:00:40Z","publication_status":"published","author":[{"full_name":"Simunovic, Mijo","first_name":"Mijo","last_name":"Simunovic"},{"full_name":"Šarić, Anđela","first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","last_name":"Šarić"},{"first_name":"J. Michael","last_name":"Henderson","full_name":"Henderson, J. Michael"},{"last_name":"Lee","first_name":"Ka Yee C.","full_name":"Lee, Ka Yee C."},{"first_name":"Gregory A.","last_name":"Voth","full_name":"Voth, Gregory A."}],"title":"Long-range organization of membrane-curving proteins","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","file":[{"success":1,"file_name":"2017_ACSCentSci_Simunovic.pdf","date_created":"2021-11-29T09:00:40Z","date_updated":"2021-11-29T09:00:40Z","file_id":"10371","content_type":"application/pdf","file_size":2635263,"creator":"cchlebak","relation":"main_file","access_level":"open_access","checksum":"1cf3e5e5342f2d728f47560acc3ec560"}],"has_accepted_license":"1","publisher":"American Chemical Society","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No"},{"day":"09","status":"public","date_created":"2021-11-29T08:51:38Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["572"],"volume":6,"pmid":1,"oa_version":"Published Version","publication":"eLife","doi":"10.7554/elife.30292","main_file_link":[{"open_access":"1","url":"https://elifesciences.org/articles/30292"}],"oa":1,"keyword":["general immunology and microbiology","general biochemistry","genetics and molecular biology","general medicine","general neuroscience"],"date_updated":"2021-11-29T09:28:14Z","article_number":"e30292","date_published":"2017-11-09T00:00:00Z","intvolume":" 6","month":"11","year":"2017","external_id":{"pmid":["29119945"]},"quality_controlled":"1","_id":"10370","scopus_import":"1","abstract":[{"lang":"eng","text":"Eukaryotic cells are densely packed with macromolecular complexes and intertwining organelles, continually transported and reshaped. Intriguingly, organelles avoid clashing and entangling with each other in such limited space. Mitochondria form extensive networks constantly remodeled by fission and fusion. Here, we show that mitochondrial fission is triggered by mechanical forces. Mechano-stimulation of mitochondria – via encounter with motile intracellular pathogens, via external pressure applied by an atomic force microscope, or via cell migration across uneven microsurfaces – results in the recruitment of the mitochondrial fission machinery, and subsequent division. We propose that MFF, owing to affinity for narrow mitochondria, acts as a membrane-bound force sensor to recruit the fission machinery to mechanically strained sites. Thus, mitochondria adapt to the environment by sensing and responding to biomechanical cues. Our findings that mechanical triggers can be coupled to biochemical responses in membrane dynamics may explain how organelles orderly cohabit in the crowded cytoplasm."}],"type":"journal_article","file_date_updated":"2021-11-29T09:07:41Z","citation":{"apa":"Helle, S. C. J., Feng, Q., Aebersold, M. J., Hirt, L., Grüter, R. R., Vahid, A., … Kornmann, B. (2017). Mechanical force induces mitochondrial fission. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.30292","mla":"Helle, Sebastian Carsten Johannes, et al. “Mechanical Force Induces Mitochondrial Fission.” ELife, vol. 6, e30292, eLife Sciences Publications, 2017, doi:10.7554/elife.30292.","ama":"Helle SCJ, Feng Q, Aebersold MJ, et al. Mechanical force induces mitochondrial fission. eLife. 2017;6. doi:10.7554/elife.30292","ista":"Helle SCJ, Feng Q, Aebersold MJ, Hirt L, Grüter RR, Vahid A, Sirianni A, Mostowy S, Snedeker JG, Šarić A, Idema T, Zambelli T, Kornmann B. 2017. Mechanical force induces mitochondrial fission. eLife. 6, e30292.","short":"S.C.J. Helle, Q. Feng, M.J. Aebersold, L. Hirt, R.R. Grüter, A. Vahid, A. Sirianni, S. Mostowy, J.G. Snedeker, A. Šarić, T. Idema, T. Zambelli, B. Kornmann, ELife 6 (2017).","ieee":"S. C. J. Helle et al., “Mechanical force induces mitochondrial fission,” eLife, vol. 6. eLife Sciences Publications, 2017.","chicago":"Helle, Sebastian Carsten Johannes, Qian Feng, Mathias J Aebersold, Luca Hirt, Raphael R Grüter, Afshin Vahid, Andrea Sirianni, et al. “Mechanical Force Induces Mitochondrial Fission.” ELife. eLife Sciences Publications, 2017. https://doi.org/10.7554/elife.30292."},"extern":"1","publication_identifier":{"issn":["2050-084X"]},"publication_status":"published","author":[{"full_name":"Helle, Sebastian Carsten Johannes","last_name":"Helle","first_name":"Sebastian Carsten Johannes"},{"full_name":"Feng, Qian","last_name":"Feng","first_name":"Qian"},{"full_name":"Aebersold, Mathias J","last_name":"Aebersold","first_name":"Mathias J"},{"full_name":"Hirt, Luca","first_name":"Luca","last_name":"Hirt"},{"full_name":"Grüter, Raphael R","first_name":"Raphael R","last_name":"Grüter"},{"full_name":"Vahid, Afshin","last_name":"Vahid","first_name":"Afshin"},{"last_name":"Sirianni","first_name":"Andrea","full_name":"Sirianni, Andrea"},{"full_name":"Mostowy, Serge","first_name":"Serge","last_name":"Mostowy"},{"last_name":"Snedeker","first_name":"Jess G","full_name":"Snedeker, Jess G"},{"orcid":"0000-0002-7854-2139","last_name":"Šarić","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","full_name":"Šarić, Anđela"},{"full_name":"Idema, Timon","last_name":"Idema","first_name":"Timon"},{"first_name":"Tomaso","last_name":"Zambelli","full_name":"Zambelli, Tomaso"},{"first_name":"Benoît","last_name":"Kornmann","full_name":"Kornmann, Benoît"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","title":"Mechanical force induces mitochondrial fission","file":[{"checksum":"c35f42dcfb007f6d6c761a27e24c26d3","access_level":"open_access","relation":"main_file","content_type":"application/pdf","file_id":"10372","creator":"cchlebak","file_size":6120157,"date_created":"2021-11-29T09:07:41Z","date_updated":"2021-11-29T09:07:41Z","success":1,"file_name":"2017_eLife_Helle.pdf"}],"publisher":"eLife Sciences Publications","has_accepted_license":"1","article_type":"original","language":[{"iso":"eng"}],"article_processing_charge":"No"},{"publication":"Proceedings of the National Academy of Sciences","doi":"10.1073/pnas.1621494114","main_file_link":[{"url":"https://www.pnas.org/content/114/19/4911","open_access":"1"}],"oa_version":"Published Version","volume":114,"pmid":1,"date_created":"2021-11-29T09:28:24Z","status":"public","day":"24","external_id":{"pmid":["28439003"],"arxiv":["1610.06840"]},"page":"4911-4914","year":"2017","date_published":"2017-04-24T00:00:00Z","intvolume":" 114","month":"04","acknowledgement":"P.W. acknowledges many invaluable discussions with Martin Neumann, Chao Zhang, Michiel Sprik, Aleks Reinhardt, Carl Pölking, and Tine Curk. We acknowledge financial support from the Austrian Academy of Sciences through a doctoral (DOC) fellowship (to P.W.), the Austrian Science Fund (FWF) within the Spezialforschungsbereich Vienna Computational Materials Laboratory (Project F41) (C.D.), and the European Union Early Training Network NANOTRANS (Grant 674979 to D. Frenkel). The results presented here have been achieved in part using the Vienna Scientific Cluster.","keyword":["multidisciplinary"],"date_updated":"2021-11-29T09:59:12Z","oa":1,"issue":"19","publication_status":"published","extern":"1","citation":{"mla":"Wirnsberger, Peter, et al. “Numerical Evidence for Thermally Induced Monopoles.” Proceedings of the National Academy of Sciences, vol. 114, no. 19, National Academy of Sciences, 2017, pp. 4911–14, doi:10.1073/pnas.1621494114.","apa":"Wirnsberger, P., Fijan, D., Lightwood, R. A., Šarić, A., Dellago, C., & Frenkel, D. (2017). Numerical evidence for thermally induced monopoles. Proceedings of the National Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.1621494114","chicago":"Wirnsberger, Peter, Domagoj Fijan, Roger A. Lightwood, Anđela Šarić, Christoph Dellago, and Daan Frenkel. “Numerical Evidence for Thermally Induced Monopoles.” Proceedings of the National Academy of Sciences. National Academy of Sciences, 2017. https://doi.org/10.1073/pnas.1621494114.","ama":"Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. Numerical evidence for thermally induced monopoles. Proceedings of the National Academy of Sciences. 2017;114(19):4911-4914. doi:10.1073/pnas.1621494114","ista":"Wirnsberger P, Fijan D, Lightwood RA, Šarić A, Dellago C, Frenkel D. 2017. Numerical evidence for thermally induced monopoles. Proceedings of the National Academy of Sciences. 114(19), 4911–4914.","short":"P. Wirnsberger, D. Fijan, R.A. Lightwood, A. Šarić, C. Dellago, D. Frenkel, Proceedings of the National Academy of Sciences 114 (2017) 4911–4914.","ieee":"P. Wirnsberger, D. Fijan, R. A. Lightwood, A. Šarić, C. Dellago, and D. Frenkel, “Numerical evidence for thermally induced monopoles,” Proceedings of the National Academy of Sciences, vol. 114, no. 19. National Academy of Sciences, pp. 4911–4914, 2017."},"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"abstract":[{"text":"Electric charges are conserved. The same would be expected to hold for magnetic charges, yet magnetic monopoles have never been observed. It is therefore surprising that the laws of nonequilibrium thermodynamics, combined with Maxwell’s equations, suggest that colloidal particles heated or cooled in certain polar or paramagnetic solvents may behave as if they carry an electric/magnetic charge. Here, we present numerical simulations that show that the field distribution around a pair of such heated/cooled colloidal particles agrees quantitatively with the theoretical predictions for a pair of oppositely charged electric or magnetic monopoles. However, in other respects, the nonequilibrium colloidal particles do not behave as monopoles: They cannot be moved by a homogeneous applied field. The numerical evidence for the monopole-like fields around heated/cooled colloidal particles is crucial because the experimental and numerical determination of forces between such colloidal particles would be complicated by the presence of other effects, such as thermophoresis.","lang":"eng"}],"scopus_import":"1","arxiv":1,"type":"journal_article","_id":"10373","quality_controlled":"1","article_processing_charge":"No","language":[{"iso":"eng"}],"article_type":"original","publisher":"National Academy of Sciences","author":[{"full_name":"Wirnsberger, Peter","first_name":"Peter","last_name":"Wirnsberger"},{"full_name":"Fijan, Domagoj","last_name":"Fijan","first_name":"Domagoj"},{"last_name":"Lightwood","first_name":"Roger A.","full_name":"Lightwood, Roger A."},{"full_name":"Šarić, Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","orcid":"0000-0002-7854-2139","last_name":"Šarić"},{"full_name":"Dellago, Christoph","last_name":"Dellago","first_name":"Christoph"},{"full_name":"Frenkel, Daan","last_name":"Frenkel","first_name":"Daan"}],"title":"Numerical evidence for thermally induced monopoles","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9"},{"publication_identifier":{"issn":["2041-6520"],"eissn":["2041-6539"]},"extern":"1","citation":{"mla":"Meisl, Georg, et al. “Scaling Behaviour and Rate-Determining Steps in Filamentous Self-Assembly.” Chemical Science, vol. 8, no. 10, Royal Society of Chemistry, 2017, pp. 7087–97, doi:10.1039/c7sc01965c.","apa":"Meisl, G., Rajah, L., Cohen, S. A. I., Pfammatter, M., Šarić, A., Hellstrand, E., … Knowles, T. P. J. (2017). Scaling behaviour and rate-determining steps in filamentous self-assembly. Chemical Science. Royal Society of Chemistry. https://doi.org/10.1039/c7sc01965c","chicago":"Meisl, Georg, Luke Rajah, Samuel A. I. Cohen, Manuela Pfammatter, Anđela Šarić, Erik Hellstrand, Alexander K. Buell, et al. “Scaling Behaviour and Rate-Determining Steps in Filamentous Self-Assembly.” Chemical Science. Royal Society of Chemistry, 2017. https://doi.org/10.1039/c7sc01965c.","ama":"Meisl G, Rajah L, Cohen SAI, et al. Scaling behaviour and rate-determining steps in filamentous self-assembly. Chemical Science. 2017;8(10):7087-7097. doi:10.1039/c7sc01965c","short":"G. Meisl, L. Rajah, S.A.I. Cohen, M. Pfammatter, A. Šarić, E. Hellstrand, A.K. Buell, A. Aguzzi, S. Linse, M. Vendruscolo, C.M. Dobson, T.P.J. Knowles, Chemical Science 8 (2017) 7087–7097.","ieee":"G. Meisl et al., “Scaling behaviour and rate-determining steps in filamentous self-assembly,” Chemical Science, vol. 8, no. 10. Royal Society of Chemistry, pp. 7087–7097, 2017.","ista":"Meisl G, Rajah L, Cohen SAI, Pfammatter M, Šarić A, Hellstrand E, Buell AK, Aguzzi A, Linse S, Vendruscolo M, Dobson CM, Knowles TPJ. 2017. Scaling behaviour and rate-determining steps in filamentous self-assembly. Chemical Science. 8(10), 7087–7097."},"scopus_import":"1","abstract":[{"lang":"eng","text":"The formation of filaments from naturally occurring protein molecules is a process at the core of a range of functional and aberrant biological phenomena, such as the assembly of the cytoskeleton or the appearance of aggregates in Alzheimer's disease. The macroscopic behaviour associated with such processes is remarkably diverse, ranging from simple nucleated growth to highly cooperative processes with a well-defined lagtime. Thus, conventionally, different molecular mechanisms have been used to explain the self-assembly of different proteins. Here we show that this range of behaviour can be quantitatively captured by a single unifying Petri net that describes filamentous growth in terms of aggregate number and aggregate mass concentrations. By considering general features associated with a particular network connectivity, we are able to establish directly the rate-determining steps of the overall aggregation reaction from the system's scaling behaviour. We illustrate the power of this framework on a range of different experimental and simulated aggregating systems. The approach is general and will be applicable to any future extensions of the reaction network of filamentous self-assembly."}],"type":"journal_article","_id":"10374","quality_controlled":"1","publication_status":"published","publisher":"Royal Society of Chemistry","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","title":"Scaling behaviour and rate-determining steps in filamentous self-assembly","author":[{"last_name":"Meisl","first_name":"Georg","full_name":"Meisl, Georg"},{"full_name":"Rajah, Luke","first_name":"Luke","last_name":"Rajah"},{"full_name":"Cohen, Samuel A. I.","first_name":"Samuel A. I.","last_name":"Cohen"},{"last_name":"Pfammatter","first_name":"Manuela","full_name":"Pfammatter, Manuela"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","last_name":"Šarić","orcid":"0000-0002-7854-2139","full_name":"Šarić, Anđela"},{"full_name":"Hellstrand, Erik","first_name":"Erik","last_name":"Hellstrand"},{"full_name":"Buell, Alexander K.","first_name":"Alexander K.","last_name":"Buell"},{"full_name":"Aguzzi, Adriano","first_name":"Adriano","last_name":"Aguzzi"},{"full_name":"Linse, Sara","last_name":"Linse","first_name":"Sara"},{"full_name":"Vendruscolo, Michele","last_name":"Vendruscolo","first_name":"Michele"},{"last_name":"Dobson","first_name":"Christopher M.","full_name":"Dobson, Christopher M."},{"first_name":"Tuomas P. J.","last_name":"Knowles","full_name":"Knowles, Tuomas P. J."}],"article_processing_charge":"No","language":[{"iso":"eng"}],"article_type":"original","volume":8,"pmid":1,"tmp":{"short":"CC BY-NC (3.0)","name":"Creative Commons Attribution-NonCommercial 3.0 Unported (CC BY-NC 3.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/3.0/legalcode","image":"/images/cc_by_nc.png"},"ddc":["540"],"date_created":"2021-11-29T09:29:31Z","day":"31","status":"public","publication":"Chemical Science","main_file_link":[{"url":"https://pubs.rsc.org/en/content/articlelanding/2017/SC/C7SC01965C","open_access":"1"}],"doi":"10.1039/c7sc01965c","oa_version":"Published Version","date_published":"2017-08-31T00:00:00Z","month":"08","intvolume":" 8","acknowledgement":"The research leading to these results has received funding from the European Research Council under the European Union's Seventh Framework Programme (FP7/2007-2013) through the ERC grant PhysProt (agreement no. 337969) (SL, TPJK), Sidney Sussex College Cambridge (GM), the Frances and Augusta Newman Foundation (TPJK), the Biotechnology and Biological Science Research Council (TPJK), the Swedish Research Council (SL), the Academy of Medical Sciences (AŠ), Wellcome Trust (AŠ), and the Cambridge Centre for Misfolding Diseases (CMD, TPJK, MV).","keyword":["general chemistry"],"date_updated":"2021-11-29T10:00:00Z","oa":1,"issue":"10","external_id":{"pmid":["29147538"]},"page":"7087-7097","year":"2017"},{"tmp":{"short":"CC BY (3.0)","name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","image":"/images/cc_by.png"},"date_created":"2021-11-29T10:00:39Z","day":"15","status":"public","pmid":1,"volume":13,"oa_version":"Published Version","main_file_link":[{"url":"https://pubs.rsc.org/en/content/articlelanding/2017/SM/C7SM00433H","open_access":"1"}],"doi":"10.1039/c7sm00433h","publication":"Soft Matter","date_updated":"2021-11-29T10:33:36Z","keyword":["condensed matter physics","general chemistry"],"issue":"28","oa":1,"month":"06","intvolume":" 13","date_published":"2017-06-15T00:00:00Z","acknowledgement":"This work was supported by the Netherlands Organisation for Scientific Research (NWO/OCW), as part of the Frontiers of Nanoscience program.","year":"2017","page":"4924-4930","external_id":{"arxiv":["1703.00776"],"pmid":["28677712"]},"_id":"10375","quality_controlled":"1","publication_identifier":{"issn":["1744-683X"],"eissn":["1744-6848"]},"extern":"1","citation":{"ama":"Vahid A, Šarić A, Idema T. Curvature variation controls particle aggregation on fluid vesicles. Soft Matter. 2017;13(28):4924-4930. doi:10.1039/c7sm00433h","short":"A. Vahid, A. Šarić, T. Idema, Soft Matter 13 (2017) 4924–4930.","ieee":"A. Vahid, A. Šarić, and T. Idema, “Curvature variation controls particle aggregation on fluid vesicles,” Soft Matter, vol. 13, no. 28. Royal Society of Chemistry, pp. 4924–4930, 2017.","ista":"Vahid A, Šarić A, Idema T. 2017. Curvature variation controls particle aggregation on fluid vesicles. Soft Matter. 13(28), 4924–4930.","chicago":"Vahid, Afshin, Anđela Šarić, and Timon Idema. “Curvature Variation Controls Particle Aggregation on Fluid Vesicles.” Soft Matter. Royal Society of Chemistry, 2017. https://doi.org/10.1039/c7sm00433h.","apa":"Vahid, A., Šarić, A., & Idema, T. (2017). Curvature variation controls particle aggregation on fluid vesicles. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/c7sm00433h","mla":"Vahid, Afshin, et al. “Curvature Variation Controls Particle Aggregation on Fluid Vesicles.” Soft Matter, vol. 13, no. 28, Royal Society of Chemistry, 2017, pp. 4924–30, doi:10.1039/c7sm00433h."},"type":"journal_article","abstract":[{"lang":"eng","text":"Cellular membranes exhibit a large variety of shapes, strongly coupled to their function. Many biological processes involve dynamic reshaping of membranes, usually mediated by proteins. This interaction works both ways: while proteins influence the membrane shape, the membrane shape affects the interactions between the proteins. To study these membrane-mediated interactions on closed and anisotropically curved membranes, we use colloids adhered to ellipsoidal membrane vesicles as a model system. We find that two particles on a closed system always attract each other, and tend to align with the direction of largest curvature. Multiple particles form arcs, or, at large enough numbers, a complete ring surrounding the vesicle in its equatorial plane. The resulting vesicle shape resembles a snowman. Our results indicate that these physical interactions on membranes with anisotropic shapes can be exploited by cells to drive macromolecules to preferred regions of cellular or intracellular membranes, and utilized to initiate dynamic processes such as cell division. The same principle could be used to find the midplane of an artificial vesicle, as a first step towards dividing it into two equal parts."}],"scopus_import":"1","arxiv":1,"publication_status":"published","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","title":"Curvature variation controls particle aggregation on fluid vesicles","author":[{"full_name":"Vahid, Afshin","last_name":"Vahid","first_name":"Afshin"},{"last_name":"Šarić","orcid":"0000-0002-7854-2139","first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","full_name":"Šarić, Anđela"},{"first_name":"Timon","last_name":"Idema","full_name":"Idema, Timon"}],"publisher":"Royal Society of Chemistry","language":[{"iso":"eng"}],"article_type":"original","article_processing_charge":"No"},{"month":"12","intvolume":" 2","date_published":"2017-12-27T00:00:00Z","acknowledgement":"The research was partly supported by Austrian Science Fund (FWF) Grant No P23499-N23, FWF NFN Grant No S11407-N23 (RiSE/SHiNE), and ERC Start grant (279307: Graph Games).\r\n","article_number":"30","date_updated":"2023-02-23T12:27:13Z","issue":"POPL","oa":1,"external_id":{"arxiv":["1910.00241"]},"conference":{"location":"Los Angeles, CA, United States","name":"POPL: Programming Languages","end_date":"2018-01-13","start_date":"2018-01-07"},"year":"2017","volume":2,"date_created":"2021-12-05T23:01:48Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"ddc":["000"],"status":"public","day":"27","doi":"10.1145/3158118","publication":"Proceedings of the ACM on Programming Languages","related_material":{"record":[{"id":"5455","relation":"earlier_version","status":"public"}]},"oa_version":"Published Version","ec_funded":1,"has_accepted_license":"1","publisher":"Association for Computing Machinery","file":[{"relation":"main_file","checksum":"faa3f7b3fe8aab84b50ed805c26a0ee5","access_level":"open_access","file_id":"10421","content_type":"application/pdf","creator":"cchlebak","file_size":460188,"date_created":"2021-12-07T08:06:28Z","date_updated":"2021-12-07T08:06:28Z","success":1,"file_name":"2017_ACMProgLang_Chatterjee.pdf"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","author":[{"full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"},{"full_name":"Choudhary, Bhavya","last_name":"Choudhary","first_name":"Bhavya"},{"full_name":"Pavlogiannis, Andreas","orcid":"0000-0002-8943-0722","last_name":"Pavlogiannis","id":"49704004-F248-11E8-B48F-1D18A9856A87","first_name":"Andreas"}],"title":"Optimal Dyck reachability for data-dependence and Alias analysis","article_processing_charge":"No","department":[{"_id":"KrCh"}],"language":[{"iso":"eng"}],"article_type":"original","citation":{"mla":"Chatterjee, Krishnendu, et al. “Optimal Dyck Reachability for Data-Dependence and Alias Analysis.” Proceedings of the ACM on Programming Languages, vol. 2, no. POPL, 30, Association for Computing Machinery, 2017, doi:10.1145/3158118.","apa":"Chatterjee, K., Choudhary, B., & Pavlogiannis, A. (2017). Optimal Dyck reachability for data-dependence and Alias analysis. Proceedings of the ACM on Programming Languages. Los Angeles, CA, United States: Association for Computing Machinery. https://doi.org/10.1145/3158118","chicago":"Chatterjee, Krishnendu, Bhavya Choudhary, and Andreas Pavlogiannis. “Optimal Dyck Reachability for Data-Dependence and Alias Analysis.” Proceedings of the ACM on Programming Languages. Association for Computing Machinery, 2017. https://doi.org/10.1145/3158118.","ama":"Chatterjee K, Choudhary B, Pavlogiannis A. Optimal Dyck reachability for data-dependence and Alias analysis. Proceedings of the ACM on Programming Languages. 2017;2(POPL). doi:10.1145/3158118","short":"K. Chatterjee, B. Choudhary, A. Pavlogiannis, Proceedings of the ACM on Programming Languages 2 (2017).","ieee":"K. Chatterjee, B. Choudhary, and A. Pavlogiannis, “Optimal Dyck reachability for data-dependence and Alias analysis,” Proceedings of the ACM on Programming Languages, vol. 2, no. POPL. Association for Computing Machinery, 2017.","ista":"Chatterjee K, Choudhary B, Pavlogiannis A. 2017. Optimal Dyck reachability for data-dependence and Alias analysis. Proceedings of the ACM on Programming Languages. 2(POPL), 30."},"publication_identifier":{"eissn":["2475-1421"]},"type":"journal_article","file_date_updated":"2021-12-07T08:06:28Z","arxiv":1,"scopus_import":"1","abstract":[{"lang":"eng","text":"A fundamental algorithmic problem at the heart of static analysis is Dyck reachability. The input is a graph where the edges are labeled with different types of opening and closing parentheses, and the reachability information is computed via paths whose parentheses are properly matched. We present new results for Dyck reachability problems with applications to alias analysis and data-dependence analysis. Our main contributions, that include improved upper bounds as well as lower bounds that establish optimality guarantees, are as follows: First, we consider Dyck reachability on bidirected graphs, which is the standard way of performing field-sensitive points-to analysis. Given a bidirected graph with n nodes and m edges, we present: (i) an algorithm with worst-case running time O(m + n · α(n)), where α(n) is the inverse Ackermann function, improving the previously known O(n2) time bound; (ii) a matching lower bound that shows that our algorithm is optimal wrt to worst-case complexity; and (iii) an optimal average-case upper bound of O(m) time, improving the previously known O(m · logn) bound. Second, we consider the problem of context-sensitive data-dependence analysis, where the task is to obtain analysis summaries of library code in the presence of callbacks. Our algorithm preprocesses libraries in almost linear time, after which the contribution of the library in the complexity of the client analysis is only linear, and only wrt the number of call sites. Third, we prove that combinatorial algorithms for Dyck reachability on general graphs with truly sub-cubic bounds cannot be obtained without obtaining sub-cubic combinatorial algorithms for Boolean Matrix Multiplication, which is a long-standing open problem. Thus we establish that the existing combinatorial algorithms for Dyck reachability are (conditionally) optimal for general graphs. We also show that the same hardness holds for graphs of constant treewidth. Finally, we provide a prototype implementation of our algorithms for both alias analysis and data-dependence analysis. Our experimental evaluation demonstrates that the new algorithms significantly outperform all existing methods on the two problems, over real-world benchmarks."}],"_id":"10416","quality_controlled":"1","project":[{"grant_number":"279307","call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","grant_number":"P 23499-N23","name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering"}],"publication_status":"published"},{"publication_status":"published","project":[{"grant_number":"P 23499-N23","call_identifier":"FWF","name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","grant_number":"S 11407_N23","name":"Rigorous Systems Engineering","_id":"25832EC2-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FP7","grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications"}],"arxiv":1,"abstract":[{"text":"We present a new dynamic partial-order reduction method for stateless model checking of concurrent programs. A common approach for exploring program behaviors relies on enumerating the traces of the program, without storing the visited states (aka stateless exploration). As the number of distinct traces grows exponentially, dynamic partial-order reduction (DPOR) techniques have been successfully used to partition the space of traces into equivalence classes (Mazurkiewicz partitioning), with the goal of exploring only few representative traces from each class.\r\n\r\nWe introduce a new equivalence on traces under sequential consistency semantics, which we call the observation equivalence. Two traces are observationally equivalent if every read event observes the same write event in both traces. While the traditional Mazurkiewicz equivalence is control-centric, our new definition is data-centric. We show that our observation equivalence is coarser than the Mazurkiewicz equivalence, and in many cases even exponentially coarser. We devise a DPOR exploration of the trace space, called data-centric DPOR, based on the observation equivalence.","lang":"eng"}],"scopus_import":"1","type":"journal_article","citation":{"mla":"Chalupa, Marek, et al. “Data-Centric Dynamic Partial Order Reduction.” Proceedings of the ACM on Programming Languages, vol. 2, no. POPL, 31, Association for Computing Machinery, 2017, doi:10.1145/3158119.","apa":"Chalupa, M., Chatterjee, K., Pavlogiannis, A., Sinha, N., & Vaidya, K. (2017). Data-centric dynamic partial order reduction. Proceedings of the ACM on Programming Languages. Los Angeles, CA, United States: Association for Computing Machinery. https://doi.org/10.1145/3158119","chicago":"Chalupa, Marek, Krishnendu Chatterjee, Andreas Pavlogiannis, Nishant Sinha, and Kapil Vaidya. “Data-Centric Dynamic Partial Order Reduction.” Proceedings of the ACM on Programming Languages. Association for Computing Machinery, 2017. https://doi.org/10.1145/3158119.","short":"M. Chalupa, K. Chatterjee, A. Pavlogiannis, N. Sinha, K. Vaidya, Proceedings of the ACM on Programming Languages 2 (2017).","ista":"Chalupa M, Chatterjee K, Pavlogiannis A, Sinha N, Vaidya K. 2017. Data-centric dynamic partial order reduction. Proceedings of the ACM on Programming Languages. 2(POPL), 31.","ieee":"M. Chalupa, K. Chatterjee, A. Pavlogiannis, N. Sinha, and K. Vaidya, “Data-centric dynamic partial order reduction,” Proceedings of the ACM on Programming Languages, vol. 2, no. POPL. Association for Computing Machinery, 2017.","ama":"Chalupa M, Chatterjee K, Pavlogiannis A, Sinha N, Vaidya K. Data-centric dynamic partial order reduction. Proceedings of the ACM on Programming Languages. 2017;2(POPL). doi:10.1145/3158119"},"publication_identifier":{"eissn":["2475-1421"]},"quality_controlled":"1","_id":"10417","department":[{"_id":"KrCh"}],"article_processing_charge":"No","article_type":"original","language":[{"iso":"eng"}],"publisher":"Association for Computing Machinery","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","title":"Data-centric dynamic partial order reduction","author":[{"last_name":"Chalupa","first_name":"Marek","full_name":"Chalupa, Marek"},{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"},{"full_name":"Pavlogiannis, Andreas","id":"49704004-F248-11E8-B48F-1D18A9856A87","first_name":"Andreas","last_name":"Pavlogiannis","orcid":"0000-0002-8943-0722"},{"full_name":"Sinha, Nishant","last_name":"Sinha","first_name":"Nishant"},{"full_name":"Vaidya, Kapil","last_name":"Vaidya","first_name":"Kapil"}],"publication":"Proceedings of the ACM on Programming Languages","main_file_link":[{"url":"https://dl.acm.org/doi/10.1145/3158119","open_access":"1"}],"doi":"10.1145/3158119","ec_funded":1,"oa_version":"Published Version","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"5448"},{"status":"public","relation":"earlier_version","id":"5456"}]},"volume":2,"day":"27","status":"public","date_created":"2021-12-05T23:01:49Z","conference":{"name":"POPL: Programming Languages","start_date":"2018-01-07","end_date":"2018-01-13","location":"Los Angeles, CA, United States"},"external_id":{"arxiv":["1610.01188"]},"year":"2017","acknowledgement":"The research was partly supported by Austrian Science Fund (FWF) Grant No P23499- N23, FWF\r\nNFN Grant No S11407-N23 (RiSE/SHiNE), ERC Start grant (279307: Graph Games), and Czech\r\nScience Foundation grant GBP202/12/G061.","article_number":"31","date_published":"2017-12-27T00:00:00Z","intvolume":" 2","month":"12","oa":1,"issue":"POPL","date_updated":"2023-02-23T12:27:16Z"},{"volume":2,"date_created":"2021-12-05T23:01:49Z","day":"07","status":"public","publication":"Proceedings of the ACM on Programming Languages","doi":"10.1145/3158121","main_file_link":[{"url":"https://dl.acm.org/doi/10.1145/3158121","open_access":"1"}],"oa_version":"Published Version","date_published":"2017-12-07T00:00:00Z","month":"12","intvolume":" 2","article_number":"33","acknowledgement":"McIver and Morgan are grateful to David Basin and the Information Security Group at ETH Zürich for hosting a six-month stay in Switzerland, during part of which this work began. And thanks particularly to Andreas Lochbihler, who shared with us the probabilistic termination problem that led to it. They acknowledge the support of ARC grant DP140101119. Part of this work was carried out during the Workshop on Probabilistic Programming Semantics\r\nat McGill University’s Bellairs Research Institute on Barbados organised by Alexandra Silva and\r\nPrakash Panangaden. Kaminski and Katoen are grateful to Sebastian Junges for spotting a flaw in §5.4.","date_updated":"2021-12-07T08:04:14Z","oa":1,"issue":"POPL","external_id":{"arxiv":["1711.03588"]},"conference":{"start_date":"2018-01-07","end_date":"2018-01-13","name":"POPL: Programming Languages","location":"Los Angeles, CA, United States"},"year":"2017","publication_identifier":{"eissn":["2475-1421"]},"citation":{"chicago":"Mciver, Annabelle, Carroll Morgan, Benjamin Lucien Kaminski, and Joost P Katoen. “A New Proof Rule for Almost-Sure Termination.” Proceedings of the ACM on Programming Languages. Association for Computing Machinery, 2017. https://doi.org/10.1145/3158121.","ama":"Mciver A, Morgan C, Kaminski BL, Katoen JP. A new proof rule for almost-sure termination. Proceedings of the ACM on Programming Languages. 2017;2(POPL). doi:10.1145/3158121","ista":"Mciver A, Morgan C, Kaminski BL, Katoen JP. 2017. A new proof rule for almost-sure termination. Proceedings of the ACM on Programming Languages. 2(POPL), 33.","short":"A. Mciver, C. Morgan, B.L. Kaminski, J.P. Katoen, Proceedings of the ACM on Programming Languages 2 (2017).","ieee":"A. Mciver, C. Morgan, B. L. Kaminski, and J. P. Katoen, “A new proof rule for almost-sure termination,” Proceedings of the ACM on Programming Languages, vol. 2, no. POPL. Association for Computing Machinery, 2017.","mla":"Mciver, Annabelle, et al. “A New Proof Rule for Almost-Sure Termination.” Proceedings of the ACM on Programming Languages, vol. 2, no. POPL, 33, Association for Computing Machinery, 2017, doi:10.1145/3158121.","apa":"Mciver, A., Morgan, C., Kaminski, B. L., & Katoen, J. P. (2017). A new proof rule for almost-sure termination. Proceedings of the ACM on Programming Languages. Los Angeles, CA, United States: Association for Computing Machinery. https://doi.org/10.1145/3158121"},"abstract":[{"lang":"eng","text":"We present a new proof rule for proving almost-sure termination of probabilistic programs, including those that contain demonic non-determinism. An important question for a probabilistic program is whether the probability mass of all its diverging runs is zero, that is that it terminates \"almost surely\". Proving that can be hard, and this paper presents a new method for doing so. It applies directly to the program's source code, even if the program contains demonic choice. Like others, we use variant functions (a.k.a. \"super-martingales\") that are real-valued and decrease randomly on each loop iteration; but our key innovation is that the amount as well as the probability of the decrease are parametric. We prove the soundness of the new rule, indicate where its applicability goes beyond existing rules, and explain its connection to classical results on denumerable (non-demonic) Markov chains."}],"scopus_import":"1","arxiv":1,"type":"journal_article","_id":"10418","quality_controlled":"1","publication_status":"published","publisher":"Association for Computing Machinery","author":[{"full_name":"Mciver, Annabelle","first_name":"Annabelle","last_name":"Mciver"},{"full_name":"Morgan, Carroll","first_name":"Carroll","last_name":"Morgan"},{"first_name":"Benjamin Lucien","last_name":"Kaminski","full_name":"Kaminski, Benjamin Lucien"},{"id":"4524F760-F248-11E8-B48F-1D18A9856A87","first_name":"Joost P","last_name":"Katoen","full_name":"Katoen, Joost P"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","title":"A new proof rule for almost-sure termination","article_processing_charge":"No","department":[{"_id":"KrCh"},{"_id":"ToHe"}],"language":[{"iso":"eng"}],"article_type":"original"},{"external_id":{"pmid":["28231787"],"isi":["000397733000001"]},"year":"2017","month":"02","intvolume":" 16","date_published":"2017-02-23T00:00:00Z","article_number":"34","date_updated":"2023-09-20T12:09:21Z","issue":"1","oa":1,"doi":"10.1186/s12934-017-0645-5","publication":"Microbial Cell Factories","isi":1,"oa_version":"Published Version","pmid":1,"volume":16,"ddc":["579"],"tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"date_created":"2018-12-11T11:49:56Z","status":"public","day":"23","article_processing_charge":"No","publist_id":"6325","language":[{"iso":"eng"}],"pubrep_id":"792","has_accepted_license":"1","publisher":"BioMed Central","file":[{"creator":"system","file_size":1361313,"content_type":"application/pdf","file_id":"5240","access_level":"open_access","relation":"main_file","file_name":"IST-2017-792-v1+1_s12934-017-0645-5.pdf","date_created":"2018-12-12T10:16:50Z","date_updated":"2018-12-12T10:16:50Z"}],"title":"Ethylene production with engineered Synechocystis sp PCC 6803 strains","author":[{"first_name":"Vinod","last_name":"Veetil","full_name":"Veetil, Vinod"},{"orcid":"0000-0001-8619-2223","last_name":"Angermayr","id":"4677C796-F248-11E8-B48F-1D18A9856A87","first_name":"Andreas","full_name":"Angermayr, Andreas"},{"first_name":"Klaas","last_name":"Hellingwerf","full_name":"Hellingwerf, Klaas"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","citation":{"ama":"Veetil V, Angermayr A, Hellingwerf K. Ethylene production with engineered Synechocystis sp PCC 6803 strains. Microbial Cell Factories. 2017;16(1). doi:10.1186/s12934-017-0645-5","short":"V. Veetil, A. Angermayr, K. Hellingwerf, Microbial Cell Factories 16 (2017).","ista":"Veetil V, Angermayr A, Hellingwerf K. 2017. Ethylene production with engineered Synechocystis sp PCC 6803 strains. Microbial Cell Factories. 16(1), 34.","ieee":"V. Veetil, A. Angermayr, and K. Hellingwerf, “Ethylene production with engineered Synechocystis sp PCC 6803 strains,” Microbial Cell Factories, vol. 16, no. 1. BioMed Central, 2017.","chicago":"Veetil, Vinod, Andreas Angermayr, and Klaas Hellingwerf. “Ethylene Production with Engineered Synechocystis Sp PCC 6803 Strains.” Microbial Cell Factories. BioMed Central, 2017. https://doi.org/10.1186/s12934-017-0645-5.","apa":"Veetil, V., Angermayr, A., & Hellingwerf, K. (2017). Ethylene production with engineered Synechocystis sp PCC 6803 strains. Microbial Cell Factories. BioMed Central. https://doi.org/10.1186/s12934-017-0645-5","mla":"Veetil, Vinod, et al. “Ethylene Production with Engineered Synechocystis Sp PCC 6803 Strains.” Microbial Cell Factories, vol. 16, no. 1, 34, BioMed Central, 2017, doi:10.1186/s12934-017-0645-5."},"publication_identifier":{"issn":["14752859"]},"extern":"1","type":"journal_article","file_date_updated":"2018-12-12T10:16:50Z","scopus_import":"1","abstract":[{"lang":"eng","text":"Background: Metabolic engineering and synthetic biology of cyanobacteria offer a promising sustainable alternative approach for fossil-based ethylene production, by using sunlight via oxygenic photosynthesis, to convert carbon dioxide directly into ethylene. Towards this, both well-studied cyanobacteria, i.e., Synechocystis sp PCC 6803 and Synechococcus elongatus PCC 7942, have been engineered to produce ethylene by introducing the ethylene-forming enzyme (Efe) from Pseudomonas syringae pv. phaseolicola PK2 (the Kudzu strain), which catalyzes the conversion of the ubiquitous tricarboxylic acid cycle intermediate 2-oxoglutarate into ethylene. Results: This study focuses on Synechocystis sp PCC 6803 and shows stable ethylene production through the integration of a codon-optimized version of the efe gene under control of the Ptrc promoter and the core Shine-Dalgarno sequence (5\\'-AGGAGG-3\\') as the ribosome-binding site (RBS), at the slr0168 neutral site. We have increased ethylene production twofold by RBS screening and further investigated improving ethylene production from a single gene copy of efe, using multiple tandem promoters and by putting our best construct on an RSF1010-based broad-host-self-replicating plasmid, which has a higher copy number than the genome. Moreover, to raise the intracellular amounts of the key Efe substrate, 2-oxoglutarate, from which ethylene is formed, we constructed a glycogen-synthesis knockout mutant (glgC) and introduced the ethylene biosynthetic pathway in it. Under nitrogen limiting conditions, the glycogen knockout strain has increased intracellular 2-oxoglutarate levels; however, surprisingly, ethylene production was lower in this strain than in the wild-type background. Conclusion: Making use of different RBS sequences, production of ethylene ranging over a 20-fold difference has been achieved. However, a further increase of production through multiple tandem promoters and a broad-host plasmid was not achieved speculating that the transcription strength and the gene copy number are not the limiting factors in our system."}],"_id":"1061","quality_controlled":"1"},{"oa_version":"None","isi":1,"publication":"Journal of Physiology","doi":"10.1113/JP273735","publication_status":"published","quality_controlled":"1","day":"15","status":"public","_id":"1062","date_created":"2018-12-11T11:49:56Z","abstract":[{"lang":"eng","text":"Mouse chromaffin cells (MCCs) generate action potential (AP) firing that regulates the Ca2+‐dependent release of catecholamines (CAs). Recent findings indicate that MCCs possess a variety of spontaneous firing modes that span from the common ‘tonic‐irregular’ to the less frequent ‘burst’ firing. This latter is evident in a small fraction of MCCs but occurs regularly when Nav1.3/1.7 channels are made less available or when the Slo1β2‐subunit responsible for BK channel inactivation is deleted. Burst firing causes large increases of Ca2+‐entry and potentiates CA release by ∼3.5‐fold and thus may be a key mechanism for regulating MCC function. With the aim to uncover a physiological role for burst‐firing we investigated the effects of acidosis on MCC activity. Lowering the extracellular pH (pHo) from 7.4 to 7.0 and 6.6 induces cell depolarizations of 10–15 mV that generate repeated bursts. Bursts at pHo 6.6 lasted ∼330 ms, occurred at 1–2 Hz and caused an ∼7‐fold increase of CA cumulative release. Burst firing originates from the inhibition of the pH‐sensitive TASK‐1/TASK‐3 channels and from a 40% BK channel conductance reduction at pHo 7.0. The same pHo had little or no effect on Nav, Cav, Kv and SK channels that support AP firing in MCCs. Burst firing of pHo 6.6 could be mimicked by mixtures of the TASK‐1 blocker A1899 (300 nm) and BK blocker paxilline (300 nm) and could be prevented by blocking L‐type channels by adding 3 μm nifedipine. Mixtures of the two blockers raised cumulative CA‐secretion even more than low pHo (∼12‐fold), showing that the action of protons on vesicle release is mainly a result of the ionic conductance changes that increase Ca2+‐entry during bursts. Our data provide direct evidence suggesting that MCCs respond to low pHo with sustained depolarization, burst firing and enhanced CA‐secretion, thus mimicking the physiological response of CCs to acute acidosis and hyperkalaemia generated during heavy exercise and muscle fatigue."}],"type":"journal_article","volume":595,"citation":{"short":"L. Guarina, D.H. Vandael, V. Carabelli, E. Carbone, Journal of Physiology 595 (2017) 2587–2609.","ieee":"L. Guarina, D. H. Vandael, V. Carabelli, and E. Carbone, “Low pH inf o boosts burst firing and catecholamine release by blocking TASK-1 and BK channels while preserving Cav1 channels in mouse chromaffin cells,” Journal of Physiology, vol. 595, no. 8. Wiley-Blackwell, pp. 2587–2609, 2017.","ista":"Guarina L, Vandael DH, Carabelli V, Carbone E. 2017. Low pH inf o boosts burst firing and catecholamine release by blocking TASK-1 and BK channels while preserving Cav1 channels in mouse chromaffin cells. Journal of Physiology. 595(8), 2587–2609.","ama":"Guarina L, Vandael DH, Carabelli V, Carbone E. Low pH inf o boosts burst firing and catecholamine release by blocking TASK-1 and BK channels while preserving Cav1 channels in mouse chromaffin cells. Journal of Physiology. 2017;595(8):2587-2609. doi:10.1113/JP273735","chicago":"Guarina, Laura, David H Vandael, Valentina Carabelli, and Emilio Carbone. “Low PH Inf o Boosts Burst Firing and Catecholamine Release by Blocking TASK-1 and BK Channels While Preserving Cav1 Channels in Mouse Chromaffin Cells.” Journal of Physiology. Wiley-Blackwell, 2017. https://doi.org/10.1113/JP273735.","apa":"Guarina, L., Vandael, D. H., Carabelli, V., & Carbone, E. (2017). Low pH inf o boosts burst firing and catecholamine release by blocking TASK-1 and BK channels while preserving Cav1 channels in mouse chromaffin cells. Journal of Physiology. Wiley-Blackwell. https://doi.org/10.1113/JP273735","mla":"Guarina, Laura, et al. “Low PH Inf o Boosts Burst Firing and Catecholamine Release by Blocking TASK-1 and BK Channels While Preserving Cav1 Channels in Mouse Chromaffin Cells.” Journal of Physiology, vol. 595, no. 8, Wiley-Blackwell, 2017, pp. 2587–609, doi:10.1113/JP273735."},"extern":"1","year":"2017","language":[{"iso":"eng"}],"publist_id":"6326","external_id":{"isi":["000399430300022"]},"page":"2587 - 2609 ","article_processing_charge":"No","author":[{"last_name":"Guarina","first_name":"Laura","full_name":"Guarina, Laura"},{"full_name":"Vandael, David H","last_name":"Vandael","orcid":"0000-0001-7577-1676","id":"3AE48E0A-F248-11E8-B48F-1D18A9856A87","first_name":"David H"},{"full_name":"Carabelli, Valentina","last_name":"Carabelli","first_name":"Valentina"},{"first_name":"Emilio","last_name":"Carbone","full_name":"Carbone, Emilio"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Low pH inf o boosts burst firing and catecholamine release by blocking TASK-1 and BK channels while preserving Cav1 channels in mouse chromaffin cells","issue":"8","date_updated":"2023-09-20T12:09:47Z","publisher":"Wiley-Blackwell","date_published":"2017-04-15T00:00:00Z","month":"04","intvolume":" 595"}]