[{"isi":1,"day":"01","year":"2018","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","author":[{"full_name":"Dodier, Philippe","first_name":"Philippe","last_name":"Dodier"},{"full_name":"Frischer, Josa","first_name":"Josa","last_name":"Frischer"},{"last_name":"Wang","first_name":"Wei","full_name":"Wang, Wei"},{"orcid":"0000-0002-1546-3265","full_name":"Auzinger, Thomas","first_name":"Thomas","id":"4718F954-F248-11E8-B48F-1D18A9856A87","last_name":"Auzinger"},{"first_name":"Ammar","last_name":"Mallouhi","full_name":"Mallouhi, Ammar"},{"full_name":"Serles, Wolfgang","first_name":"Wolfgang","last_name":"Serles"},{"last_name":"Gruber","first_name":"Andreas","full_name":"Gruber, Andreas"},{"full_name":"Knosp, Engelbert","first_name":"Engelbert","last_name":"Knosp"},{"full_name":"Bavinzski, Gerhard","first_name":"Gerhard","last_name":"Bavinzski"}],"publication":"World Neurosurgery","title":"Immediate flow disruption as a prognostic factor after flow diverter treatment long term experience with the pipeline embolization device","publisher":"Elsevier","month":"05","oa_version":"None","date_updated":"2023-09-11T14:12:33Z","publist_id":"7431","department":[{"_id":"BeBi"}],"date_created":"2018-12-11T11:46:15Z","doi":"10.1016/j.wneu.2018.02.096","citation":{"ista":"Dodier P, Frischer J, Wang W, Auzinger T, Mallouhi A, Serles W, Gruber A, Knosp E, Bavinzski G. 2018. Immediate flow disruption as a prognostic factor after flow diverter treatment long term experience with the pipeline embolization device. World Neurosurgery. 13, e568–e578.","short":"P. Dodier, J. Frischer, W. Wang, T. Auzinger, A. Mallouhi, W. Serles, A. Gruber, E. Knosp, G. Bavinzski, World Neurosurgery 13 (2018) e568–e578.","chicago":"Dodier, Philippe, Josa Frischer, Wei Wang, Thomas Auzinger, Ammar Mallouhi, Wolfgang Serles, Andreas Gruber, Engelbert Knosp, and Gerhard Bavinzski. “Immediate Flow Disruption as a Prognostic Factor after Flow Diverter Treatment Long Term Experience with the Pipeline Embolization Device.” World Neurosurgery. Elsevier, 2018. https://doi.org/10.1016/j.wneu.2018.02.096.","apa":"Dodier, P., Frischer, J., Wang, W., Auzinger, T., Mallouhi, A., Serles, W., … Bavinzski, G. (2018). Immediate flow disruption as a prognostic factor after flow diverter treatment long term experience with the pipeline embolization device. World Neurosurgery. Elsevier. https://doi.org/10.1016/j.wneu.2018.02.096","mla":"Dodier, Philippe, et al. “Immediate Flow Disruption as a Prognostic Factor after Flow Diverter Treatment Long Term Experience with the Pipeline Embolization Device.” World Neurosurgery, vol. 13, Elsevier, 2018, pp. e568–78, doi:10.1016/j.wneu.2018.02.096.","ieee":"P. Dodier et al., “Immediate flow disruption as a prognostic factor after flow diverter treatment long term experience with the pipeline embolization device,” World Neurosurgery, vol. 13. Elsevier, pp. e568–e578, 2018.","ama":"Dodier P, Frischer J, Wang W, et al. Immediate flow disruption as a prognostic factor after flow diverter treatment long term experience with the pipeline embolization device. World Neurosurgery. 2018;13:e568-e578. doi:10.1016/j.wneu.2018.02.096"},"article_processing_charge":"No","_id":"398","date_published":"2018-05-01T00:00:00Z","quality_controlled":"1","type":"journal_article","scopus_import":"1","page":"e568-e578","volume":13,"intvolume":" 13","external_id":{"isi":["000432942700070"]},"abstract":[{"text":"Objective: To report long-term results after Pipeline Embolization Device (PED) implantation, characterize complex and standard aneurysms comprehensively, and introduce a modified flow disruption scale. Methods: We retrospectively reviewed a consecutive series of 40 patients harboring 59 aneurysms treated with 54 PEDs. Aneurysm complexity was assessed using our proposed classification. Immediate angiographic results were analyzed using previously published grading scales and our novel flow disruption scale. Results: According to our new definition, 46 (78%) aneurysms were classified as complex. Most PED interventions were performed in the paraophthalmic and cavernous internal carotid artery segments. Excellent neurologic outcome (modified Rankin Scale 0 and 1) was observed in 94% of patients. Our data showed low permanent procedure-related mortality (0%) and morbidity (3%) rates. Long-term angiographic follow-up showed complete occlusion in 81% and near-total obliteration in a further 14%. Complete obliteration after deployment of a single PED was achieved in all standard aneurysms with 1-year follow-up. Our new scale was an independent predictor of aneurysm occlusion in a multivariable analysis. All aneurysms with a high flow disruption grade showed complete occlusion at follow-up regardless of PED number or aneurysm complexity. Conclusions: Treatment with the PED should be recognized as a primary management strategy for a highly selected cohort with predominantly complex intracranial aneurysms. We further show that a priori assessment of aneurysm complexity and our new postinterventional angiographic flow disruption scale predict occlusion probability and may help to determine the adequate number of per-aneurysm devices.","lang":"eng"}],"language":[{"iso":"eng"}],"status":"public"},{"article_type":"original","year":"2018","isi":1,"month":"01","oa_version":"Preprint","publisher":"IOP Publishing","author":[{"full_name":"Napiórkowski, Marcin M","id":"4197AD04-F248-11E8-B48F-1D18A9856A87","first_name":"Marcin M","last_name":"Napiórkowski"},{"first_name":"Robin","last_name":"Reuvers","full_name":"Reuvers, Robin"},{"full_name":"Solovej, Jan","last_name":"Solovej","first_name":"Jan"}],"oa":1,"date_created":"2018-12-11T11:46:15Z","date_updated":"2025-04-15T08:26:14Z","publist_id":"7432","_id":"399","date_published":"2018-01-01T00:00:00Z","article_processing_charge":"No","citation":{"apa":"Napiórkowski, M. M., Reuvers, R., & Solovej, J. (2018). Calculation of the critical temperature of a dilute Bose gas in the Bogoliubov approximation. EPL. IOP Publishing. https://doi.org/10.1209/0295-5075/121/10007","chicago":"Napiórkowski, Marcin M, Robin Reuvers, and Jan Solovej. “Calculation of the Critical Temperature of a Dilute Bose Gas in the Bogoliubov Approximation.” EPL. IOP Publishing, 2018. https://doi.org/10.1209/0295-5075/121/10007.","ama":"Napiórkowski MM, Reuvers R, Solovej J. Calculation of the critical temperature of a dilute Bose gas in the Bogoliubov approximation. EPL. 2018;121(1). doi:10.1209/0295-5075/121/10007","ieee":"M. M. Napiórkowski, R. Reuvers, and J. Solovej, “Calculation of the critical temperature of a dilute Bose gas in the Bogoliubov approximation,” EPL, vol. 121, no. 1. IOP Publishing, 2018.","mla":"Napiórkowski, Marcin M., et al. “Calculation of the Critical Temperature of a Dilute Bose Gas in the Bogoliubov Approximation.” EPL, vol. 121, no. 1, 10007, IOP Publishing, 2018, doi:10.1209/0295-5075/121/10007.","ista":"Napiórkowski MM, Reuvers R, Solovej J. 2018. Calculation of the critical temperature of a dilute Bose gas in the Bogoliubov approximation. EPL. 121(1), 10007.","short":"M.M. Napiórkowski, R. Reuvers, J. Solovej, EPL 121 (2018)."},"project":[{"grant_number":"P27533_N27","_id":"25C878CE-B435-11E9-9278-68D0E5697425","name":"Structure of the Excitation Spectrum for Many-Body Quantum Systems","call_identifier":"FWF"}],"article_number":"10007","arxiv":1,"intvolume":" 121","external_id":{"isi":["000460003000003"],"arxiv":["1706.01822"]},"issue":"1","language":[{"iso":"eng"}],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","day":"01","acknowledgement":"We thank Robert Seiringer and Daniel Ueltschi for bringing the issue of the change in critical temperature to our attention. We also thank the Erwin Schrödinger Institute (all authors) and the Department of Mathematics, University of Copenhagen (MN) for the hospitality during the period this work was carried out. We gratefully acknowledge the financial support by the European Unions Seventh Framework Programme under the ERC Grant Agreement Nos. 321029 (JPS and RR) and 337603 (RR) as well as support by the VIL-LUM FONDEN via the QMATH Centre of Excellence (Grant No. 10059) (JPS and RR), by the National Science Center (NCN) under grant No. 2016/21/D/ST1/02430 and the Austrian Science Fund (FWF) through project No. P 27533-N27 (MN).","title":"Calculation of the critical temperature of a dilute Bose gas in the Bogoliubov approximation","publication":"EPL","department":[{"_id":"RoSe"}],"doi":"10.1209/0295-5075/121/10007","volume":121,"quality_controlled":"1","type":"journal_article","scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1706.01822"}],"abstract":[{"text":"Following an earlier calculation in 3D, we calculate the 2D critical temperature of a dilute, translation-invariant Bose gas using a variational formulation of the Bogoliubov approximation introduced by Critchley and Solomon in 1976. This provides the first analytical calculation of the Kosterlitz-Thouless transition temperature that includes the constant in the logarithm.","lang":"eng"}]},{"article_number":"89","intvolume":" 37","project":[{"name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767","call_identifier":"H2020"}],"related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/new-interactive-machine-learning-tool-makes-car-designs-more-aerodynamic/","relation":"press_release"}]},"status":"public","language":[{"iso":"eng"}],"issue":"4","external_id":{"isi":["000448185000050"]},"month":"08","publisher":"ACM","oa_version":"Submitted Version","author":[{"last_name":"Umetani","first_name":"Nobuyuki","full_name":"Umetani, Nobuyuki"},{"orcid":"0000-0001-6511-9385","full_name":"Bickel, Bernd","last_name":"Bickel","first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87"}],"isi":1,"year":"2018","date_published":"2018-08-04T00:00:00Z","_id":"4","article_processing_charge":"No","citation":{"ieee":"N. Umetani and B. Bickel, “Learning three-dimensional flow for interactive aerodynamic design,” ACM Trans. Graph., vol. 37, no. 4. ACM, 2018.","mla":"Umetani, Nobuyuki, and Bernd Bickel. “Learning Three-Dimensional Flow for Interactive Aerodynamic Design.” ACM Trans. Graph., vol. 37, no. 4, 89, ACM, 2018, doi:10.1145/3197517.3201325.","ama":"Umetani N, Bickel B. Learning three-dimensional flow for interactive aerodynamic design. ACM Trans Graph. 2018;37(4). doi:10.1145/3197517.3201325","chicago":"Umetani, Nobuyuki, and Bernd Bickel. “Learning Three-Dimensional Flow for Interactive Aerodynamic Design.” ACM Trans. Graph. ACM, 2018. https://doi.org/10.1145/3197517.3201325.","apa":"Umetani, N., & Bickel, B. (2018). Learning three-dimensional flow for interactive aerodynamic design. ACM Trans. Graph. ACM. https://doi.org/10.1145/3197517.3201325","short":"N. Umetani, B. Bickel, ACM Trans. Graph. 37 (2018).","ista":"Umetani N, Bickel B. 2018. Learning three-dimensional flow for interactive aerodynamic design. ACM Trans. Graph. 37(4), 89."},"date_updated":"2025-04-14T07:28:55Z","date_created":"2018-12-11T11:44:06Z","publist_id":"8053","oa":1,"volume":37,"scopus_import":"1","type":"journal_article","quality_controlled":"1","has_accepted_license":"1","abstract":[{"text":"We present a data-driven technique to instantly predict how fluid flows around various three-dimensional objects. Such simulation is useful for computational fabrication and engineering, but is usually computationally expensive since it requires solving the Navier-Stokes equation for many time steps. To accelerate the process, we propose a machine learning framework which predicts aerodynamic forces and velocity and pressure fields given a threedimensional shape input. Handling detailed free-form three-dimensional shapes in a data-driven framework is challenging because machine learning approaches usually require a consistent parametrization of input and output. We present a novel PolyCube maps-based parametrization that can be computed for three-dimensional shapes at interactive rates. This allows us to efficiently learn the nonlinear response of the flow using a Gaussian process regression. We demonstrate the effectiveness of our approach for the interactive design and optimization of a car body.","lang":"eng"}],"ddc":["003","004"],"title":"Learning three-dimensional flow for interactive aerodynamic design","publication":"ACM Trans. Graph.","publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","day":"04","file_date_updated":"2020-07-14T12:46:22Z","pubrep_id":"1049","doi":"10.1145/3197517.3201325","ec_funded":1,"file":[{"file_id":"5216","relation":"main_file","file_size":22803163,"content_type":"application/pdf","date_updated":"2020-07-14T12:46:22Z","date_created":"2018-12-12T10:16:28Z","checksum":"7a2243668f215821bc6aecad0320079a","file_name":"IST-2018-1049-v1+1_2018_sigg_Learning3DAerodynamics.pdf","access_level":"open_access","creator":"system"}],"department":[{"_id":"BeBi"}]},{"status":"public","publication_identifier":{"issn":["1365-294X"]},"language":[{"iso":"eng"}],"issue":"24","external_id":{"isi":["000454600500001"],"pmid":["30599087"]},"intvolume":" 27","page":"4973-4975","related_material":{"record":[{"status":"public","relation":"research_data","id":"9805"}]},"date_published":"2018-12-31T00:00:00Z","_id":"40","article_processing_charge":"Yes (via OA deal)","citation":{"ista":"Barton NH. 2018. The consequences of an introgression event. Molecular Ecology. 27(24), 4973–4975.","short":"N.H. Barton, Molecular Ecology 27 (2018) 4973–4975.","apa":"Barton, N. H. (2018). The consequences of an introgression event. Molecular Ecology. Wiley. https://doi.org/10.1111/mec.14950","chicago":"Barton, Nicholas H. “The Consequences of an Introgression Event.” Molecular Ecology. Wiley, 2018. https://doi.org/10.1111/mec.14950.","ama":"Barton NH. The consequences of an introgression event. Molecular Ecology. 2018;27(24):4973-4975. doi:10.1111/mec.14950","mla":"Barton, Nicholas H. “The Consequences of an Introgression Event.” Molecular Ecology, vol. 27, no. 24, Wiley, 2018, pp. 4973–75, doi:10.1111/mec.14950.","ieee":"N. H. Barton, “The consequences of an introgression event,” Molecular Ecology, vol. 27, no. 24. Wiley, pp. 4973–4975, 2018."},"date_created":"2018-12-11T11:44:18Z","date_updated":"2025-07-10T11:52:34Z","publist_id":"8014","oa":1,"oa_version":"Published Version","month":"12","publisher":"Wiley","author":[{"last_name":"Barton","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H"}],"article_type":"letter_note","isi":1,"year":"2018","corr_author":"1","has_accepted_license":"1","abstract":[{"text":"Hanemaaijer et al. (Molecular Ecology, 27, 2018) describe the genetic consequences of the introgression of an insecticide resistance allele into a mosquito population. Linked alleles initially increased, but many of these later declined. It is hard to determine whether this decline was due to counter‐selection, rather than simply to chance.","lang":"eng"}],"volume":27,"scopus_import":"1","quality_controlled":"1","type":"journal_article","pmid":1,"file_date_updated":"2020-07-14T12:46:22Z","doi":"10.1111/mec.14950","file":[{"file_id":"6652","relation":"main_file","file_size":295452,"date_created":"2019-07-19T06:54:46Z","date_updated":"2020-07-14T12:46:22Z","file_name":"2018_MolecularEcology_BartonNick.pdf","content_type":"application/pdf","access_level":"open_access","creator":"apreinsp"}],"license":"https://creativecommons.org/licenses/by/4.0/","department":[{"_id":"NiBa"}],"ddc":["576"],"publication":"Molecular Ecology","title":"The consequences of an introgression event","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"31"},{"ec_funded":1,"file":[{"access_level":"open_access","date_updated":"2020-07-14T12:46:22Z","file_name":"IST-2018-1011-v1+1_2018_Deuchert_Persistence.pdf","checksum":"04d2c9bd7cbf3ca1d7acaaf4e7dca3e5","content_type":"application/pdf","date_created":"2018-12-12T10:12:47Z","creator":"system","relation":"main_file","file_id":"4966","file_size":582680}],"department":[{"_id":"RoSe"}],"file_date_updated":"2020-07-14T12:46:22Z","doi":"10.1007/s00023-018-0665-7","pubrep_id":"1011","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","day":"01","title":"Persistence of translational symmetry in the BCS model with radial pair interaction","ddc":["510"],"publication":"Annales Henri Poincare","abstract":[{"text":"We consider the two-dimensional BCS functional with a radial pair interaction. We show that the translational symmetry is not broken in a certain temperature interval below the critical temperature. In the case of vanishing angular momentum, our results carry over to the three-dimensional case.","lang":"eng"}],"has_accepted_license":"1","corr_author":"1","volume":19,"quality_controlled":"1","type":"journal_article","scopus_import":"1","oa":1,"publist_id":"7429","date_created":"2018-12-11T11:46:15Z","date_updated":"2025-04-14T07:26:53Z","_id":"400","date_published":"2018-05-01T00:00:00Z","citation":{"short":"A. Deuchert, A. Geisinge, C. Hainzl, M. Loss, Annales Henri Poincare 19 (2018) 1507–1527.","ista":"Deuchert A, Geisinge A, Hainzl C, Loss M. 2018. Persistence of translational symmetry in the BCS model with radial pair interaction. Annales Henri Poincare. 19(5), 1507–1527.","ieee":"A. Deuchert, A. Geisinge, C. Hainzl, and M. Loss, “Persistence of translational symmetry in the BCS model with radial pair interaction,” Annales Henri Poincare, vol. 19, no. 5. Springer, pp. 1507–1527, 2018.","mla":"Deuchert, Andreas, et al. “Persistence of Translational Symmetry in the BCS Model with Radial Pair Interaction.” Annales Henri Poincare, vol. 19, no. 5, Springer, 2018, pp. 1507–27, doi:10.1007/s00023-018-0665-7.","ama":"Deuchert A, Geisinge A, Hainzl C, Loss M. Persistence of translational symmetry in the BCS model with radial pair interaction. Annales Henri Poincare. 2018;19(5):1507-1527. doi:10.1007/s00023-018-0665-7","chicago":"Deuchert, Andreas, Alissa Geisinge, Christian Hainzl, and Michael Loss. “Persistence of Translational Symmetry in the BCS Model with Radial Pair Interaction.” Annales Henri Poincare. Springer, 2018. https://doi.org/10.1007/s00023-018-0665-7.","apa":"Deuchert, A., Geisinge, A., Hainzl, C., & Loss, M. (2018). Persistence of translational symmetry in the BCS model with radial pair interaction. Annales Henri Poincare. Springer. https://doi.org/10.1007/s00023-018-0665-7"},"article_processing_charge":"Yes (via OA deal)","isi":1,"year":"2018","publisher":"Springer","oa_version":"Published Version","month":"05","author":[{"full_name":"Deuchert, Andreas","orcid":"0000-0003-3146-6746","last_name":"Deuchert","id":"4DA65CD0-F248-11E8-B48F-1D18A9856A87","first_name":"Andreas"},{"first_name":"Alissa","last_name":"Geisinge","full_name":"Geisinge, Alissa"},{"full_name":"Hainzl, Christian","first_name":"Christian","last_name":"Hainzl"},{"first_name":"Michael","last_name":"Loss","full_name":"Loss, Michael"}],"external_id":{"isi":["000429799900008"]},"issue":"5","language":[{"iso":"eng"}],"status":"public","page":"1507 - 1527","project":[{"name":"Analysis of quantum many-body systems","_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","call_identifier":"H2020"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"intvolume":" 19"},{"day":"23","publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"title":"A biochemical network controlling basal myosin oscillation","publication":"Nature Communications","ddc":["539","570"],"department":[{"_id":"EdHa"}],"file":[{"access_level":"open_access","content_type":"application/pdf","date_updated":"2020-07-14T12:46:22Z","file_name":"IST-2018-996-v1+1_2018_Hannezo_A-biochemical.pdf","date_created":"2018-12-12T10:11:45Z","checksum":"87a427bc2e8724be3dd22a4efdd21a33","creator":"system","relation":"main_file","file_id":"4902","file_size":3780491}],"pubrep_id":"996","doi":"10.1038/s41467-018-03574-5","file_date_updated":"2020-07-14T12:46:22Z","scopus_import":"1","type":"journal_article","quality_controlled":"1","volume":9,"has_accepted_license":"1","abstract":[{"lang":"eng","text":"The actomyosin cytoskeleton, a key stress-producing unit in epithelial cells, oscillates spontaneously in a wide variety of systems. Although much of the signal cascade regulating myosin activity has been characterized, the origin of such oscillatory behavior is still unclear. Here, we show that basal myosin II oscillation in Drosophila ovarian epithelium is not controlled by actomyosin cortical tension, but instead relies on a biochemical oscillator involving ROCK and myosin phosphatase. Key to this oscillation is a diffusive ROCK flow, linking junctional Rho1 to medial actomyosin cortex, and dynamically maintained by a self-activation loop reliant on ROCK kinase activity. In response to the resulting myosin II recruitment, myosin phosphatase is locally enriched and shuts off ROCK and myosin II signals. Coupling Drosophila genetics, live imaging, modeling, and optogenetics, we uncover an intrinsic biochemical oscillator at the core of myosin II regulatory network, shedding light on the spatio-temporal dynamics of force generation."}],"isi":1,"year":"2018","author":[{"first_name":"Xiang","last_name":"Qin","full_name":"Qin, Xiang"},{"orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B","first_name":"Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo"},{"last_name":"Mangeat","first_name":"Thomas","full_name":"Mangeat, Thomas"},{"last_name":"Liu","first_name":"Chang","full_name":"Liu, Chang"},{"full_name":"Majumder, Pralay","first_name":"Pralay","last_name":"Majumder"},{"full_name":"Liu, Jjiaying","last_name":"Liu","first_name":"Jjiaying"},{"first_name":"Valerie","last_name":"Choesmel Cadamuro","full_name":"Choesmel Cadamuro, Valerie"},{"first_name":"Jocelyn","last_name":"Mcdonald","full_name":"Mcdonald, Jocelyn"},{"first_name":"Yinyao","last_name":"Liu","full_name":"Liu, Yinyao"},{"full_name":"Yi, Bin","last_name":"Yi","first_name":"Bin"},{"full_name":"Wang, Xiaobo","first_name":"Xiaobo","last_name":"Wang"}],"publisher":"Nature Publishing Group","oa_version":"Published Version","month":"03","date_updated":"2023-09-08T11:41:45Z","date_created":"2018-12-11T11:46:16Z","publist_id":"7427","oa":1,"citation":{"apa":"Qin, X., Hannezo, E. B., Mangeat, T., Liu, C., Majumder, P., Liu, J., … Wang, X. (2018). A biochemical network controlling basal myosin oscillation. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/s41467-018-03574-5","chicago":"Qin, Xiang, Edouard B Hannezo, Thomas Mangeat, Chang Liu, Pralay Majumder, Jjiaying Liu, Valerie Choesmel Cadamuro, et al. “A Biochemical Network Controlling Basal Myosin Oscillation.” Nature Communications. Nature Publishing Group, 2018. https://doi.org/10.1038/s41467-018-03574-5.","ama":"Qin X, Hannezo EB, Mangeat T, et al. A biochemical network controlling basal myosin oscillation. Nature Communications. 2018;9(1). doi:10.1038/s41467-018-03574-5","mla":"Qin, Xiang, et al. “A Biochemical Network Controlling Basal Myosin Oscillation.” Nature Communications, vol. 9, no. 1, 1210, Nature Publishing Group, 2018, doi:10.1038/s41467-018-03574-5.","ieee":"X. Qin et al., “A biochemical network controlling basal myosin oscillation,” Nature Communications, vol. 9, no. 1. Nature Publishing Group, 2018.","ista":"Qin X, Hannezo EB, Mangeat T, Liu C, Majumder P, Liu J, Choesmel Cadamuro V, Mcdonald J, Liu Y, Yi B, Wang X. 2018. A biochemical network controlling basal myosin oscillation. Nature Communications. 9(1), 1210.","short":"X. Qin, E.B. Hannezo, T. Mangeat, C. Liu, P. Majumder, J. Liu, V. Choesmel Cadamuro, J. Mcdonald, Y. Liu, B. Yi, X. Wang, Nature Communications 9 (2018)."},"article_processing_charge":"No","date_published":"2018-03-23T00:00:00Z","_id":"401","intvolume":" 9","article_number":"1210","issue":"1","external_id":{"isi":["000428165400009"]},"status":"public","language":[{"iso":"eng"}]},{"month":"06","oa_version":"Published Version","publisher":"Wiley","author":[{"last_name":"Cavallari","id":"457160E6-F248-11E8-B48F-1D18A9856A87","first_name":"Nicola","full_name":"Cavallari, Nicola"},{"full_name":"Nibau, Candida","first_name":"Candida","last_name":"Nibau"},{"full_name":"Fuchs, Armin","last_name":"Fuchs","first_name":"Armin"},{"last_name":"Dadarou","first_name":"Despoina","full_name":"Dadarou, Despoina"},{"full_name":"Barta, Andrea","first_name":"Andrea","last_name":"Barta"},{"full_name":"Doonan, John","first_name":"John","last_name":"Doonan"}],"isi":1,"year":"2018","date_published":"2018-06-01T00:00:00Z","_id":"403","article_processing_charge":"No","citation":{"apa":"Cavallari, N., Nibau, C., Fuchs, A., Dadarou, D., Barta, A., & Doonan, J. (2018). The cyclin‐dependent kinase G group defines a thermo‐sensitive alternative splicing circuit modulating the expression of Arabidopsis ATU 2AF 65A. The Plant Journal. Wiley. https://doi.org/10.1111/tpj.13914","chicago":"Cavallari, Nicola, Candida Nibau, Armin Fuchs, Despoina Dadarou, Andrea Barta, and John Doonan. “The Cyclin‐dependent Kinase G Group Defines a Thermo‐sensitive Alternative Splicing Circuit Modulating the Expression of Arabidopsis ATU 2AF 65A.” The Plant Journal. Wiley, 2018. https://doi.org/10.1111/tpj.13914.","ama":"Cavallari N, Nibau C, Fuchs A, Dadarou D, Barta A, Doonan J. The cyclin‐dependent kinase G group defines a thermo‐sensitive alternative splicing circuit modulating the expression of Arabidopsis ATU 2AF 65A. The Plant Journal. 2018;94(6):1010-1022. doi:10.1111/tpj.13914","mla":"Cavallari, Nicola, et al. “The Cyclin‐dependent Kinase G Group Defines a Thermo‐sensitive Alternative Splicing Circuit Modulating the Expression of Arabidopsis ATU 2AF 65A.” The Plant Journal, vol. 94, no. 6, Wiley, 2018, pp. 1010–22, doi:10.1111/tpj.13914.","ieee":"N. Cavallari, C. Nibau, A. Fuchs, D. Dadarou, A. Barta, and J. Doonan, “The cyclin‐dependent kinase G group defines a thermo‐sensitive alternative splicing circuit modulating the expression of Arabidopsis ATU 2AF 65A,” The Plant Journal, vol. 94, no. 6. Wiley, pp. 1010–1022, 2018.","ista":"Cavallari N, Nibau C, Fuchs A, Dadarou D, Barta A, Doonan J. 2018. The cyclin‐dependent kinase G group defines a thermo‐sensitive alternative splicing circuit modulating the expression of Arabidopsis ATU 2AF 65A. The Plant Journal. 94(6), 1010–1022.","short":"N. Cavallari, C. Nibau, A. Fuchs, D. Dadarou, A. Barta, J. Doonan, The Plant Journal 94 (2018) 1010–1022."},"date_created":"2018-12-11T11:46:17Z","publist_id":"7426","date_updated":"2024-10-09T20:58:42Z","oa":1,"intvolume":" 94","page":"1010 - 1022","status":"public","language":[{"iso":"eng"}],"issue":"6","external_id":{"isi":["000434365500008"]},"title":"The cyclin‐dependent kinase G group defines a thermo‐sensitive alternative splicing circuit modulating the expression of Arabidopsis ATU 2AF 65A","ddc":["580"],"publication":"The Plant Journal","publication_status":"published","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","day":"01","acknowledgement":"CN, DD and JHD were funded by the BBSRC (grant number BB/M009459/1). NC was funded by the VIPS Program of the Austrian Federal Ministry of Science and Research and the City of Vienna. AB and AF were supported by the Austrian Science Fund (FWF) [DK W1207; SFB RNAreg F43-P10]","file_date_updated":"2020-07-14T12:46:22Z","doi":"10.1111/tpj.13914","file":[{"file_id":"5934","relation":"main_file","file_size":1543354,"date_updated":"2020-07-14T12:46:22Z","content_type":"application/pdf","date_created":"2019-02-06T11:40:54Z","checksum":"d9d3ad3215ac0e581731443fca312266","file_name":"2018_PlantJourn_Cavallari.pdf","access_level":"open_access","creator":"dernst"}],"department":[{"_id":"EvBe"}],"volume":94,"scopus_import":"1","quality_controlled":"1","type":"journal_article","has_accepted_license":"1","corr_author":"1","abstract":[{"text":"The ability to adapt growth and development to temperature variations is crucial to generate plant varieties resilient to predicted temperature changes. However, the mechanisms underlying plant response to progressive increases in temperature have just started to be elucidated. Here, we report that the Cyclin-dependent Kinase G1 (CDKG1) is a central element in a thermo-sensitive mRNA splicing cascade that transduces changes in ambient temperature into differential expression of the fundamental spliceosome component, ATU2AF65A. CDKG1 is alternatively spliced in a temperature-dependent manner. We found that this process is partly dependent on both the Cyclin-dependent Kinase G2 (CDKG2) and the interacting co-factor CYCLIN L1 resulting in two distinct messenger RNAs. Relative abundance of both CDKG1 transcripts correlates with ambient temperature and possibly with different expression levels of the associated protein isoforms. Both CDKG1 alternative transcripts are necessary to fully complement the expression of ATU2AF65A across the temperature range. Our data support a previously unidentified temperature-dependent mechanism based on the alternative splicing of CDKG1 and regulated by CDKG2 and CYCLIN L1. We propose that changes in ambient temperature affect the relative abundance of CDKG1 transcripts and this in turn translates into differential CDKG1 protein expression coordinating the alternative splicing of ATU2AF65A. This article is protected by copyright. All rights reserved.","lang":"eng"}]},{"quality_controlled":"1","type":"journal_article","scopus_import":"1","volume":50,"abstract":[{"text":"We construct martingale solutions to stochastic thin-film equations by introducing a (spatial) semidiscretization and establishing convergence. The discrete scheme allows for variants of the energy and entropy estimates in the continuous setting as long as the discrete energy does not exceed certain threshold values depending on the spatial grid size $h$. Using a stopping time argument to prolongate high-energy paths constant in time, arbitrary moments of coupled energy/entropy functionals can be controlled. Having established Hölder regularity of approximate solutions, the convergence proof is then based on compactness arguments---in particular on Jakubowski's generalization of Skorokhod's theorem---weak convergence methods, and recent tools on martingale convergence.\r\n\r\n","lang":"eng"}],"has_accepted_license":"1","corr_author":"1","day":"30","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","ddc":["510"],"publication":"SIAM Journal on Mathematical Analysis","title":"Existence of positive solutions to stochastic thin-film equations","department":[{"_id":"JuFi"}],"file":[{"relation":"main_file","file_id":"6992","file_size":557338,"access_level":"open_access","date_created":"2019-11-07T12:20:25Z","content_type":"application/pdf","file_name":"2018_SIAM_Fischer.pdf","date_updated":"2020-07-14T12:46:22Z","checksum":"89a8eae7c52bb356c04f52b44bff4b5a","creator":"dernst"}],"doi":"10.1137/16M1098796","file_date_updated":"2020-07-14T12:46:22Z","page":"411 - 455","intvolume":" 50","external_id":{"isi":["000426630900015"]},"issue":"1","language":[{"iso":"eng"}],"status":"public","year":"2018","isi":1,"article_type":"original","author":[{"first_name":"Julian L","id":"2C12A0B0-F248-11E8-B48F-1D18A9856A87","last_name":"Fischer","orcid":"0000-0002-0479-558X","full_name":"Fischer, Julian L"},{"first_name":"Günther","last_name":"Grün","full_name":"Grün, Günther"}],"month":"01","oa_version":"Published Version","publisher":"Society for Industrial and Applied Mathematics ","oa":1,"date_updated":"2024-10-09T20:58:25Z","date_created":"2018-12-11T11:46:17Z","publist_id":"7425","citation":{"ista":"Fischer JL, Grün G. 2018. Existence of positive solutions to stochastic thin-film equations. SIAM Journal on Mathematical Analysis. 50(1), 411–455.","short":"J.L. Fischer, G. Grün, SIAM Journal on Mathematical Analysis 50 (2018) 411–455.","chicago":"Fischer, Julian L, and Günther Grün. “Existence of Positive Solutions to Stochastic Thin-Film Equations.” SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics , 2018. https://doi.org/10.1137/16M1098796.","apa":"Fischer, J. L., & Grün, G. (2018). Existence of positive solutions to stochastic thin-film equations. SIAM Journal on Mathematical Analysis. Society for Industrial and Applied Mathematics . https://doi.org/10.1137/16M1098796","ieee":"J. L. Fischer and G. Grün, “Existence of positive solutions to stochastic thin-film equations,” SIAM Journal on Mathematical Analysis, vol. 50, no. 1. Society for Industrial and Applied Mathematics , pp. 411–455, 2018.","mla":"Fischer, Julian L., and Günther Grün. “Existence of Positive Solutions to Stochastic Thin-Film Equations.” SIAM Journal on Mathematical Analysis, vol. 50, no. 1, Society for Industrial and Applied Mathematics , 2018, pp. 411–55, doi:10.1137/16M1098796.","ama":"Fischer JL, Grün G. Existence of positive solutions to stochastic thin-film equations. SIAM Journal on Mathematical Analysis. 2018;50(1):411-455. doi:10.1137/16M1098796"},"article_processing_charge":"No","_id":"404","date_published":"2018-01-30T00:00:00Z"},{"external_id":{"isi":["000426896800032"]},"issue":"3","language":[{"iso":"eng"}],"status":"public","related_material":{"record":[{"id":"9831","relation":"research_data","status":"public"}]},"project":[{"_id":"255008E4-B435-11E9-9278-68D0E5697425","grant_number":"RGP0065/2012","name":"Information processing and computation in fish groups"}],"intvolume":" 13","oa":1,"date_created":"2018-12-11T11:46:18Z","publist_id":"7423","date_updated":"2025-04-15T06:44:30Z","_id":"406","date_published":"2018-03-07T00:00:00Z","article_processing_charge":"Yes","citation":{"ista":"Bod’Ová K, Mitchell G, Harpaz R, Schneidman E, Tkačik G. 2018. Probabilistic models of individual and collective animal behavior. PLoS One. 13(3).","short":"K. Bod’Ová, G. Mitchell, R. Harpaz, E. Schneidman, G. Tkačik, PLoS One 13 (2018).","apa":"Bod’Ová, K., Mitchell, G., Harpaz, R., Schneidman, E., & Tkačik, G. (2018). Probabilistic models of individual and collective animal behavior. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0193049","chicago":"Bod’Ová, Katarína, Gabriel Mitchell, Roy Harpaz, Elad Schneidman, and Gašper Tkačik. “Probabilistic Models of Individual and Collective Animal Behavior.” PLoS One. Public Library of Science, 2018. https://doi.org/10.1371/journal.pone.0193049.","ama":"Bod’Ová K, Mitchell G, Harpaz R, Schneidman E, Tkačik G. Probabilistic models of individual and collective animal behavior. PLoS One. 2018;13(3). doi:10.1371/journal.pone.0193049","mla":"Bod’Ová, Katarína, et al. “Probabilistic Models of Individual and Collective Animal Behavior.” PLoS One, vol. 13, no. 3, Public Library of Science, 2018, doi:10.1371/journal.pone.0193049.","ieee":"K. Bod’Ová, G. Mitchell, R. Harpaz, E. Schneidman, and G. Tkačik, “Probabilistic models of individual and collective animal behavior,” PLoS One, vol. 13, no. 3. Public Library of Science, 2018."},"year":"2018","isi":1,"month":"03","publisher":"Public Library of Science","oa_version":"Submitted Version","author":[{"full_name":"Bod’Ová, Katarína","last_name":"Bod’Ová","first_name":"Katarína"},{"id":"315BCD80-F248-11E8-B48F-1D18A9856A87","first_name":"Gabriel","last_name":"Mitchell","full_name":"Mitchell, Gabriel"},{"full_name":"Harpaz, Roy","first_name":"Roy","last_name":"Harpaz"},{"full_name":"Schneidman, Elad","last_name":"Schneidman","first_name":"Elad"},{"full_name":"Tkacik, Gasper","orcid":"0000-0002-6699-1455","id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gasper","last_name":"Tkacik"}],"abstract":[{"text":"Recent developments in automated tracking allow uninterrupted, high-resolution recording of animal trajectories, sometimes coupled with the identification of stereotyped changes of body pose or other behaviors of interest. Analysis and interpretation of such data represents a challenge: the timing of animal behaviors may be stochastic and modulated by kinematic variables, by the interaction with the environment or with the conspecifics within the animal group, and dependent on internal cognitive or behavioral state of the individual. Existing models for collective motion typically fail to incorporate the discrete, stochastic, and internal-state-dependent aspects of behavior, while models focusing on individual animal behavior typically ignore the spatial aspects of the problem. Here we propose a probabilistic modeling framework to address this gap. Each animal can switch stochastically between different behavioral states, with each state resulting in a possibly different law of motion through space. Switching rates for behavioral transitions can depend in a very general way, which we seek to identify from data, on the effects of the environment as well as the interaction between the animals. We represent the switching dynamics as a Generalized Linear Model and show that: (i) forward simulation of multiple interacting animals is possible using a variant of the Gillespie’s Stochastic Simulation Algorithm; (ii) formulated properly, the maximum likelihood inference of switching rate functions is tractably solvable by gradient descent; (iii) model selection can be used to identify factors that modulate behavioral state switching and to appropriately adjust model complexity to data. To illustrate our framework, we apply it to two synthetic models of animal motion and to real zebrafish tracking data. ","lang":"eng"}],"has_accepted_license":"1","corr_author":"1","volume":13,"type":"journal_article","quality_controlled":"1","scopus_import":"1","file":[{"creator":"system","file_name":"IST-2018-995-v1+1_2018_Bodova_Probabilistic.pdf","date_created":"2018-12-12T10:15:43Z","checksum":"684229493db75b43e98a46cd922da497","content_type":"application/pdf","date_updated":"2020-07-14T12:46:22Z","access_level":"open_access","file_size":6887358,"file_id":"5165","relation":"main_file"}],"department":[{"_id":"GaTk"}],"file_date_updated":"2020-07-14T12:46:22Z","doi":"10.1371/journal.pone.0193049","pubrep_id":"995","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","day":"07","acknowledgement":"This work was supported by the Human Frontier Science Program RGP0065/2012 (GT, ES).","title":"Probabilistic models of individual and collective animal behavior","ddc":["530","571"],"publication":"PLoS One"},{"publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","acknowledgement":"This work was supported by the Ministry of Education Youth and Sports, Czech Republic (grant LO1204 from the National Program of Sustainability I and Agricultural Research ) and by Czech Science Foundation grants 16-04184S , 501/10/1450 and 13-39982S and by IGA projects IGA_PrF_2018_033 and IGA_PrF_2018_023 . We would like to thank Jarmila Balonová, Olga Hustáková and Miroslava Šubová for their skillful technical assistance and Mgr. Tomáš Pospíšil, Ph.D. for his measurement of 1 H NMR and analysis of some 2D NMR spectral data. \r\n","day":"01","publication":"Phytochemistry","title":"Design, synthesis and perception of fluorescently labeled isoprenoid cytokinins","department":[{"_id":"EvBe"}],"doi":"10.1016/j.phytochem.2018.02.015","volume":150,"scopus_import":"1","quality_controlled":"1","type":"journal_article","abstract":[{"text":"Isoprenoid cytokinins play a number of crucial roles in the regulation of plant growth and development. To study cytokinin receptor properties in plants, we designed and prepared fluorescent derivatives of 6-[(3-methylbut-2-en-1-yl)amino]purine (N6-isopentenyladenine, iP) with several fluorescent labels attached to the C2 or N9 atom of the purine moiety via a 2- or 6-carbon linker. The fluorescent labels included dansyl (DS), fluorescein (FC), 7-nitrobenzofurazan (NBD), rhodamine B (RhoB), coumarin (Cou), 7-(diethylamino)coumarin (DEAC) and cyanine 5 dye (Cy5). All prepared compounds were screened for affinity for the Arabidopsis thaliana cytokinin receptor (CRE1/AHK4). Although the attachment of the fluorescent labels to iP via the linkers mostly disrupted binding to the receptor, several fluorescent derivatives interacted well. For this reason, three derivatives, two rhodamine B and one 4-chloro-7-nitrobenzofurazan labeled iP were tested for their interaction with CRE1/AHK4 and Zea mays cytokinin receptors in detail. We further showed that the three derivatives were able to activate transcription of cytokinin response regulator ARR5 in Arabidopsis seedlings. The activity of fluorescently labeled cytokinins was compared with corresponding 6-dimethylaminopurine fluorescently labeled negative controls. Selected rhodamine B C2-labeled compounds 17, 18 and 4-chloro-7-nitrobenzofurazan N9-labeled compound 28 and their respective negative controls (19, 20 and 29, respectively) were used for in planta staining experiments in Arabidopsis thaliana cell suspension culture using live cell confocal microscopy.","lang":"eng"}],"year":"2018","isi":1,"oa_version":"None","publisher":"Elsevier","month":"06","author":[{"full_name":"Kubiasová, Karolina","first_name":"Karolina","last_name":"Kubiasová"},{"full_name":"Mik, Václav","last_name":"Mik","first_name":"Václav"},{"full_name":"Nisler, Jaroslav","first_name":"Jaroslav","last_name":"Nisler"},{"full_name":"Hönig, Martin","last_name":"Hönig","first_name":"Martin"},{"full_name":"Husičková, Alexandra","first_name":"Alexandra","last_name":"Husičková"},{"first_name":"Lukáš","last_name":"Spíchal","full_name":"Spíchal, Lukáš"},{"first_name":"Zuzana","last_name":"Pěkná","full_name":"Pěkná, Zuzana"},{"first_name":"Olga","last_name":"Šamajová","full_name":"Šamajová, Olga"},{"first_name":"Karel","last_name":"Doležal","full_name":"Doležal, Karel"},{"full_name":"Plíhal, Ondřej","last_name":"Plíhal","first_name":"Ondřej"},{"full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","last_name":"Benková","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva"},{"full_name":"Strnad, Miroslav","first_name":"Miroslav","last_name":"Strnad"},{"last_name":"Plíhalová","first_name":"Lucie","full_name":"Plíhalová, Lucie"}],"date_updated":"2023-09-11T12:53:11Z","date_created":"2018-12-11T11:46:18Z","publist_id":"7422","date_published":"2018-06-01T00:00:00Z","_id":"407","citation":{"ista":"Kubiasová K, Mik V, Nisler J, Hönig M, Husičková A, Spíchal L, Pěkná Z, Šamajová O, Doležal K, Plíhal O, Benková E, Strnad M, Plíhalová L. 2018. Design, synthesis and perception of fluorescently labeled isoprenoid cytokinins. Phytochemistry. 150, 1–11.","short":"K. Kubiasová, V. Mik, J. Nisler, M. Hönig, A. Husičková, L. Spíchal, Z. Pěkná, O. Šamajová, K. Doležal, O. Plíhal, E. Benková, M. Strnad, L. Plíhalová, Phytochemistry 150 (2018) 1–11.","apa":"Kubiasová, K., Mik, V., Nisler, J., Hönig, M., Husičková, A., Spíchal, L., … Plíhalová, L. (2018). Design, synthesis and perception of fluorescently labeled isoprenoid cytokinins. Phytochemistry. Elsevier. https://doi.org/10.1016/j.phytochem.2018.02.015","chicago":"Kubiasová, Karolina, Václav Mik, Jaroslav Nisler, Martin Hönig, Alexandra Husičková, Lukáš Spíchal, Zuzana Pěkná, et al. “Design, Synthesis and Perception of Fluorescently Labeled Isoprenoid Cytokinins.” Phytochemistry. Elsevier, 2018. https://doi.org/10.1016/j.phytochem.2018.02.015.","ama":"Kubiasová K, Mik V, Nisler J, et al. Design, synthesis and perception of fluorescently labeled isoprenoid cytokinins. Phytochemistry. 2018;150:1-11. doi:10.1016/j.phytochem.2018.02.015","ieee":"K. Kubiasová et al., “Design, synthesis and perception of fluorescently labeled isoprenoid cytokinins,” Phytochemistry, vol. 150. Elsevier, pp. 1–11, 2018.","mla":"Kubiasová, Karolina, et al. “Design, Synthesis and Perception of Fluorescently Labeled Isoprenoid Cytokinins.” Phytochemistry, vol. 150, Elsevier, 2018, pp. 1–11, doi:10.1016/j.phytochem.2018.02.015."},"article_processing_charge":"No","page":"1-11","intvolume":" 150","external_id":{"isi":["000435623400001"]},"status":"public","language":[{"iso":"eng"}]},{"quality_controlled":"1","type":"book_chapter","scopus_import":"1","volume":1761,"abstract":[{"lang":"eng","text":"Adventitious roots (AR) are de novo formed roots that emerge from any part of the plant or from callus in tissue culture, except root tissue. The plant tissue origin and the method by which they are induced determine the physiological properties of emerged ARs. Hence, a standard method encompassing all types of AR does not exist. Here we describe a method for the induction and analysis of AR that emerge from the etiolated hypocotyl of dicot plants. The hypocotyl is formed during embryogenesis and shows a determined developmental pattern which usually does not involve AR formation. However, the hypocotyl shows propensity to form de novo roots under specific circumstances such as removal of the root system, high humidity or flooding, or during de-etiolation. The hypocotyl AR emerge from a pericycle-like cell layer surrounding the vascular tissue of the central cylinder, which is reminiscent to the developmental program of lateral roots. Here we propose an easy protocol for in vitro hypocotyl AR induction from etiolated Arabidopsis seedlings."}],"day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","title":"In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls","publication":"Root Development ","department":[{"_id":"JiFr"}],"doi":"10.1007/978-1-4939-7747-5_7","pmid":1,"alternative_title":["MIMB"],"page":"95 - 102","intvolume":" 1761","external_id":{"pmid":["29525951"]},"language":[{"iso":"eng"}],"publication_identifier":{"issn":["1064-3745"]},"status":"public","year":"2018","author":[{"first_name":"Hoang","last_name":"Trinh","full_name":"Trinh, Hoang"},{"full_name":"Verstraeten, Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","first_name":"Inge","last_name":"Verstraeten"},{"full_name":"Geelen, Danny","last_name":"Geelen","first_name":"Danny"}],"month":"03","publisher":"Springer Nature","oa_version":"None","date_created":"2018-12-11T11:46:18Z","date_updated":"2021-01-12T07:54:21Z","publist_id":"7421","citation":{"short":"H. Trinh, I. Verstraeten, D. Geelen, in:, Root Development , Springer Nature, 2018, pp. 95–102.","ista":"Trinh H, Verstraeten I, Geelen D. 2018.In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls. In: Root Development . MIMB, vol. 1761, 95–102.","ama":"Trinh H, Verstraeten I, Geelen D. In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls. In: Root Development . Vol 1761. Springer Nature; 2018:95-102. doi:10.1007/978-1-4939-7747-5_7","ieee":"H. Trinh, I. Verstraeten, and D. Geelen, “In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls,” in Root Development , vol. 1761, Springer Nature, 2018, pp. 95–102.","mla":"Trinh, Hoang, et al. “In Vitro Assay for Induction of Adventitious Rooting on Intact Arabidopsis Hypocotyls.” Root Development , vol. 1761, Springer Nature, 2018, pp. 95–102, doi:10.1007/978-1-4939-7747-5_7.","apa":"Trinh, H., Verstraeten, I., & Geelen, D. (2018). In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls. In Root Development (Vol. 1761, pp. 95–102). Springer Nature. https://doi.org/10.1007/978-1-4939-7747-5_7","chicago":"Trinh, Hoang, Inge Verstraeten, and Danny Geelen. “In Vitro Assay for Induction of Adventitious Rooting on Intact Arabidopsis Hypocotyls.” In Root Development , 1761:95–102. Springer Nature, 2018. https://doi.org/10.1007/978-1-4939-7747-5_7."},"article_processing_charge":"No","_id":"408","date_published":"2018-03-01T00:00:00Z"},{"corr_author":"1","abstract":[{"lang":"eng","text":"We give a simple proof of T. Stehling's result [4], whereby in any normal tiling of the plane with convex polygons with number of sides not less than six, all tiles except a finite number are hexagons."}],"main_file_link":[{"url":"https://arxiv.org/abs/1805.01652","open_access":"1"}],"scopus_import":"1","quality_controlled":"1","type":"journal_article","volume":356,"doi":"10.1016/j.crma.2018.03.005","department":[{"_id":"HeEd"}],"title":"On the number of non-hexagons in a planar tiling","publication":"Comptes Rendus Mathematique","day":"01","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["1631-073X"]},"status":"public","language":[{"iso":"eng"}],"issue":"4","external_id":{"arxiv":["1805.01652"],"isi":["000430402700009"]},"intvolume":" 356","arxiv":1,"page":"412-414","citation":{"ama":"Akopyan A. On the number of non-hexagons in a planar tiling. Comptes Rendus Mathematique. 2018;356(4):412-414. doi:10.1016/j.crma.2018.03.005","mla":"Akopyan, Arseniy. “On the Number of Non-Hexagons in a Planar Tiling.” Comptes Rendus Mathematique, vol. 356, no. 4, Elsevier, 2018, pp. 412–14, doi:10.1016/j.crma.2018.03.005.","ieee":"A. Akopyan, “On the number of non-hexagons in a planar tiling,” Comptes Rendus Mathematique, vol. 356, no. 4. Elsevier, pp. 412–414, 2018.","apa":"Akopyan, A. (2018). On the number of non-hexagons in a planar tiling. Comptes Rendus Mathematique. Elsevier. https://doi.org/10.1016/j.crma.2018.03.005","chicago":"Akopyan, Arseniy. “On the Number of Non-Hexagons in a Planar Tiling.” Comptes Rendus Mathematique. Elsevier, 2018. https://doi.org/10.1016/j.crma.2018.03.005.","short":"A. Akopyan, Comptes Rendus Mathematique 356 (2018) 412–414.","ista":"Akopyan A. 2018. On the number of non-hexagons in a planar tiling. Comptes Rendus Mathematique. 356(4), 412–414."},"article_processing_charge":"No","date_published":"2018-04-01T00:00:00Z","_id":"409","date_updated":"2025-07-10T11:52:35Z","publist_id":"7420","date_created":"2018-12-11T11:46:19Z","oa":1,"author":[{"orcid":"0000-0002-2548-617X","full_name":"Akopyan, Arseniy","first_name":"Arseniy","id":"430D2C90-F248-11E8-B48F-1D18A9856A87","last_name":"Akopyan"}],"publisher":"Elsevier","oa_version":"Preprint","month":"04","year":"2018","isi":1,"article_type":"original"},{"language":[{"iso":"eng"}],"status":"public","publication_identifier":{"issn":["1662-5102"]},"external_id":{"isi":["000445090100002"]},"article_number":"311","intvolume":" 12","project":[{"name":"Human Brain Project Specific Grant Agreement 1","grant_number":"720270","_id":"25CBA828-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"_id":"41","date_published":"2018-09-19T00:00:00Z","article_processing_charge":"No","citation":{"mla":"Luján, Rafæl, et al. “Sk2 Channels Associate with MGlu1α Receptors and CaV2.1 Channels in Purkinje Cells.” Frontiers in Cellular Neuroscience, vol. 12, 311, Frontiers Media, 2018, doi:10.3389/fncel.2018.00311.","ieee":"R. Luján et al., “Sk2 channels associate with mGlu1α receptors and CaV2.1 channels in Purkinje cells,” Frontiers in Cellular Neuroscience, vol. 12. Frontiers Media, 2018.","ama":"Luján R, Aguado C, Ciruela F, et al. Sk2 channels associate with mGlu1α receptors and CaV2.1 channels in Purkinje cells. Frontiers in Cellular Neuroscience. 2018;12. doi:10.3389/fncel.2018.00311","chicago":"Luján, Rafæl, Carolina Aguado, Francisco Ciruela, Xavier Arus, Alejandro Martín Belmonte, Rocío Alfaro Ruiz, Jesus Martinez Gomez, et al. “Sk2 Channels Associate with MGlu1α Receptors and CaV2.1 Channels in Purkinje Cells.” Frontiers in Cellular Neuroscience. Frontiers Media, 2018. https://doi.org/10.3389/fncel.2018.00311.","apa":"Luján, R., Aguado, C., Ciruela, F., Arus, X., Martín Belmonte, A., Alfaro Ruiz, R., … Fukazawa, Y. (2018). Sk2 channels associate with mGlu1α receptors and CaV2.1 channels in Purkinje cells. Frontiers in Cellular Neuroscience. Frontiers Media. https://doi.org/10.3389/fncel.2018.00311","short":"R. Luján, C. Aguado, F. Ciruela, X. Arus, A. Martín Belmonte, R. Alfaro Ruiz, J. Martinez Gomez, L. De La Ossa, M. Watanabe, J. Adelman, R. Shigemoto, Y. Fukazawa, Frontiers in Cellular Neuroscience 12 (2018).","ista":"Luján R, Aguado C, Ciruela F, Arus X, Martín Belmonte A, Alfaro Ruiz R, Martinez Gomez J, De La Ossa L, Watanabe M, Adelman J, Shigemoto R, Fukazawa Y. 2018. Sk2 channels associate with mGlu1α receptors and CaV2.1 channels in Purkinje cells. Frontiers in Cellular Neuroscience. 12, 311."},"oa":1,"date_created":"2018-12-11T11:44:19Z","publist_id":"8013","date_updated":"2025-07-10T11:52:35Z","publisher":"Frontiers Media","oa_version":"Published Version","month":"09","author":[{"last_name":"Luján","first_name":"Rafæl","full_name":"Luján, Rafæl"},{"full_name":"Aguado, Carolina","first_name":"Carolina","last_name":"Aguado"},{"full_name":"Ciruela, Francisco","first_name":"Francisco","last_name":"Ciruela"},{"last_name":"Arus","first_name":"Xavier","full_name":"Arus, Xavier"},{"first_name":"Alejandro","last_name":"Martín Belmonte","full_name":"Martín Belmonte, Alejandro"},{"full_name":"Alfaro Ruiz, Rocío","first_name":"Rocío","last_name":"Alfaro Ruiz"},{"full_name":"Martinez Gomez, Jesus","last_name":"Martinez Gomez","first_name":"Jesus"},{"full_name":"De La Ossa, Luis","last_name":"De La Ossa","first_name":"Luis"},{"first_name":"Masahiko","last_name":"Watanabe","full_name":"Watanabe, Masahiko"},{"last_name":"Adelman","first_name":"John","full_name":"Adelman, John"},{"orcid":"0000-0001-8761-9444","full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","last_name":"Shigemoto"},{"first_name":"Yugo","last_name":"Fukazawa","full_name":"Fukazawa, Yugo"}],"article_type":"original","isi":1,"year":"2018","abstract":[{"text":"The small-conductance, Ca2+-activated K+ (SK) channel subtype SK2 regulates the spike rate and firing frequency, as well as Ca2+ transients in Purkinje cells (PCs). To understand the molecular basis by which SK2 channels mediate these functions, we analyzed the exact location and densities of SK2 channels along the neuronal surface of the mouse cerebellar PCs using SDS-digested freeze-fracture replica labeling (SDS-FRL) of high sensitivity combined with quantitative analyses. Immunogold particles for SK2 were observed on post- and pre-synaptic compartments showing both scattered and clustered distribution patterns. We found an axo-somato-dendritic gradient of the SK2 particle density increasing 12-fold from soma to dendritic spines. Using two different immunogold approaches, we also found that SK2 immunoparticles were frequently adjacent to, but never overlap with, the postsynaptic density of excitatory synapses in PC spines. Co-immunoprecipitation analysis demonstrated that SK2 channels form macromolecular complexes with two types of proteins that mobilize Ca2+: CaV2.1 channels and mGlu1α receptors in the cerebellum. Freeze-fracture replica double-labeling showed significant co-clustering of particles for SK2 with those for CaV2.1 channels and mGlu1α receptors. SK2 channels were also detected at presynaptic sites, mostly at the presynaptic active zone (AZ), where they are close to CaV2.1 channels, though they are not significantly co-clustered. These data demonstrate that SK2 channels located in different neuronal compartments can associate with distinct proteins mobilizing Ca2+, and suggest that the ultrastructural association of SK2 with CaV2.1 and mGlu1α provides the mechanism that ensures voltage (excitability) regulation by distinct intracellular Ca2+ transients in PCs.","lang":"eng"}],"has_accepted_license":"1","volume":12,"quality_controlled":"1","type":"journal_article","scopus_import":"1","file_date_updated":"2020-07-14T12:46:23Z","doi":"10.3389/fncel.2018.00311","file":[{"creator":"dernst","access_level":"open_access","content_type":"application/pdf","date_updated":"2020-07-14T12:46:23Z","file_name":"fncel-12-00311.pdf","date_created":"2018-12-17T08:49:03Z","checksum":"0bcaec8d596162af0b7fe3f31325d480","file_size":6834251,"relation":"main_file","file_id":"5684"}],"ec_funded":1,"department":[{"_id":"RySh"}],"title":"Sk2 channels associate with mGlu1α receptors and CaV2.1 channels in Purkinje cells","publication":"Frontiers in Cellular Neuroscience","ddc":["570"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_status":"published","day":"19"},{"isi":1,"year":"2018","month":"03","oa_version":"Published Version","publisher":"Nature Publishing Group","author":[{"full_name":"Masís, Javier","first_name":"Javier","last_name":"Masís"},{"full_name":"Mankus, David","first_name":"David","last_name":"Mankus"},{"full_name":"Wolff, Steffen","first_name":"Steffen","last_name":"Wolff"},{"full_name":"Guitchounts, Grigori","first_name":"Grigori","last_name":"Guitchounts"},{"full_name":"Jösch, Maximilian A","orcid":"0000-0002-3937-1330","last_name":"Jösch","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","first_name":"Maximilian A"},{"last_name":"Cox","first_name":"David","full_name":"Cox, David"}],"oa":1,"date_created":"2018-12-11T11:46:19Z","date_updated":"2023-09-08T11:48:39Z","publist_id":"7419","_id":"410","date_published":"2018-03-26T00:00:00Z","article_processing_charge":"No","citation":{"short":"J. Masís, D. Mankus, S. Wolff, G. Guitchounts, M.A. Jösch, D. Cox, Scientific Reports 8 (2018).","ista":"Masís J, Mankus D, Wolff S, Guitchounts G, Jösch MA, Cox D. 2018. A micro-CT-based method for quantitative brain lesion characterization and electrode localization. Scientific Reports. 8(1), 5184.","ama":"Masís J, Mankus D, Wolff S, Guitchounts G, Jösch MA, Cox D. A micro-CT-based method for quantitative brain lesion characterization and electrode localization. Scientific Reports. 2018;8(1). doi:10.1038/s41598-018-23247-z","mla":"Masís, Javier, et al. “A Micro-CT-Based Method for Quantitative Brain Lesion Characterization and Electrode Localization.” Scientific Reports, vol. 8, no. 1, 5184, Nature Publishing Group, 2018, doi:10.1038/s41598-018-23247-z.","ieee":"J. Masís, D. Mankus, S. Wolff, G. Guitchounts, M. A. Jösch, and D. Cox, “A micro-CT-based method for quantitative brain lesion characterization and electrode localization,” Scientific Reports, vol. 8, no. 1. Nature Publishing Group, 2018.","apa":"Masís, J., Mankus, D., Wolff, S., Guitchounts, G., Jösch, M. A., & Cox, D. (2018). A micro-CT-based method for quantitative brain lesion characterization and electrode localization. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/s41598-018-23247-z","chicago":"Masís, Javier, David Mankus, Steffen Wolff, Grigori Guitchounts, Maximilian A Jösch, and David Cox. “A Micro-CT-Based Method for Quantitative Brain Lesion Characterization and Electrode Localization.” Scientific Reports. Nature Publishing Group, 2018. https://doi.org/10.1038/s41598-018-23247-z."},"article_number":"5184","intvolume":" 8","external_id":{"isi":["000428234100005"]},"issue":"1","language":[{"iso":"eng"}],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","day":"26","ddc":["571","572"],"publication":"Scientific Reports","title":"A micro-CT-based method for quantitative brain lesion characterization and electrode localization","file":[{"creator":"system","content_type":"application/pdf","file_name":"IST-2018-994-v1+1_2018_Joesch_A-micro-CT-based.pdf","date_created":"2018-12-12T10:10:42Z","date_updated":"2020-07-14T12:46:23Z","checksum":"653fcb852f899c75b00ceee2a670d738","access_level":"open_access","file_size":2359430,"file_id":"4831","relation":"main_file"}],"department":[{"_id":"MaJö"}],"file_date_updated":"2020-07-14T12:46:23Z","doi":"10.1038/s41598-018-23247-z","pubrep_id":"994","volume":8,"quality_controlled":"1","type":"journal_article","scopus_import":"1","abstract":[{"text":"Lesion verification and quantification is traditionally done via histological examination of sectioned brains, a time-consuming process that relies heavily on manual estimation. Such methods are particularly problematic in posterior cortical regions (e.g. visual cortex), where sectioning leads to significant damage and distortion of tissue. Even more challenging is the post hoc localization of micro-electrodes, which relies on the same techniques, suffers from similar drawbacks and requires even higher precision. Here, we propose a new, simple method for quantitative lesion characterization and electrode localization that is less labor-intensive and yields more detailed results than conventional methods. We leverage staining techniques standard in electron microscopy with the use of commodity micro-CT imaging. We stain whole rat and zebra finch brains in osmium tetroxide, embed these in resin and scan entire brains in a micro-CT machine. The scans result in 3D reconstructions of the brains with section thickness dependent on sample size (12–15 and 5–6 microns for rat and zebra finch respectively) that can be segmented manually or automatically. Because the method captures the entire intact brain volume, comparisons within and across studies are more tractable, and the extent of lesions and electrodes may be studied with higher accuracy than with current methods.","lang":"eng"}],"has_accepted_license":"1"},{"type":"book_chapter","quality_controlled":"1","alternative_title":["Methods in Molecular Biology"],"series_title":"MIMB","scopus_import":1,"page":"131 - 143","volume":1761,"editor":[{"full_name":"Ristova, Daniela","first_name":"Daniela","last_name":"Ristova"},{"full_name":"Barbez, Elke","last_name":"Barbez","first_name":"Elke"}],"intvolume":" 1761","abstract":[{"text":"Immunolocalization is a valuable tool for cell biology research that allows to rapidly determine the localization and expression levels of endogenous proteins. In plants, whole-mount in situ immunolocalization remains a challenging method, especially in tissues protected by waxy layers and complex cell wall carbohydrates. Here, we present a robust method for whole-mount in situ immunolocalization in primary root meristems and lateral root primordia in Arabidopsis thaliana. For good epitope preservation, fixation is done in an alkaline paraformaldehyde/glutaraldehyde mixture. This fixative is suitable for detecting a wide range of proteins, including integral transmembrane proteins and proteins peripherally attached to the plasma membrane. From initiation until emergence from the primary root, lateral root primordia are surrounded by several layers of differentiated tissues with a complex cell wall composition that interferes with the efficient penetration of all buffers. Therefore, immunolocalization in early lateral root primordia requires a modified method, including a strong solvent treatment for removal of hydrophobic barriers and a specific cocktail of cell wall-degrading enzymes. The presented method allows for easy, reliable, and high-quality in situ detection of the subcellular localization of endogenous proteins in primary and lateral root meristems without the need of time-consuming crosses or making translational fusions to fluorescent proteins.","lang":"eng"}],"language":[{"iso":"eng"}],"status":"public","day":"11","year":"2018","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","publication_status":"published","author":[{"first_name":"Michael","last_name":"Karampelias","full_name":"Karampelias, Michael"},{"full_name":"Tejos, Ricardo","first_name":"Ricardo","last_name":"Tejos"},{"full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml"},{"last_name":"Vanneste","first_name":"Steffen","full_name":"Vanneste, Steffen"}],"title":"Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia","publication":"Root Development. Methods and Protocols","publisher":"Springer","oa_version":"None","month":"03","publist_id":"7418","department":[{"_id":"JiFr"}],"date_updated":"2021-01-12T07:54:34Z","date_created":"2018-12-11T11:46:20Z","citation":{"chicago":"Karampelias, Michael, Ricardo Tejos, Jiří Friml, and Steffen Vanneste. “Optimized Whole Mount in Situ Immunolocalization for Arabidopsis Thaliana Root Meristems and Lateral Root Primordia.” In Root Development. Methods and Protocols, edited by Daniela Ristova and Elke Barbez, 1761:131–43. MIMB. Springer, 2018. https://doi.org/10.1007/978-1-4939-7747-5_10.","apa":"Karampelias, M., Tejos, R., Friml, J., & Vanneste, S. (2018). Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia. In D. Ristova & E. Barbez (Eds.), Root Development. Methods and Protocols (Vol. 1761, pp. 131–143). Springer. https://doi.org/10.1007/978-1-4939-7747-5_10","ieee":"M. Karampelias, R. Tejos, J. Friml, and S. Vanneste, “Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia,” in Root Development. Methods and Protocols, vol. 1761, D. Ristova and E. Barbez, Eds. Springer, 2018, pp. 131–143.","mla":"Karampelias, Michael, et al. “Optimized Whole Mount in Situ Immunolocalization for Arabidopsis Thaliana Root Meristems and Lateral Root Primordia.” Root Development. Methods and Protocols, edited by Daniela Ristova and Elke Barbez, vol. 1761, Springer, 2018, pp. 131–43, doi:10.1007/978-1-4939-7747-5_10.","ama":"Karampelias M, Tejos R, Friml J, Vanneste S. Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia. In: Ristova D, Barbez E, eds. Root Development. Methods and Protocols. Vol 1761. MIMB. Springer; 2018:131-143. doi:10.1007/978-1-4939-7747-5_10","ista":"Karampelias M, Tejos R, Friml J, Vanneste S. 2018.Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia. In: Root Development. Methods and Protocols. Methods in Molecular Biology, vol. 1761, 131–143.","short":"M. Karampelias, R. Tejos, J. Friml, S. Vanneste, in:, D. Ristova, E. Barbez (Eds.), Root Development. Methods and Protocols, Springer, 2018, pp. 131–143."},"doi":"10.1007/978-1-4939-7747-5_10","_id":"411","date_published":"2018-03-11T00:00:00Z"},{"department":[{"_id":"SyCr"}],"ec_funded":1,"doi":"10.1073/pnas.1713501115","pmid":1,"day":"13","publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Ants avoid superinfections by performing risk-adjusted sanitary care","publication":"PNAS","corr_author":"1","abstract":[{"text":"Being cared for when sick is a benefit of sociality that can reduce disease and improve survival of group members. However, individuals providing care risk contracting infectious diseases themselves. If they contract a low pathogen dose, they may develop low-level infections that do not cause disease but still affect host immunity by either decreasing or increasing the host’s vulnerability to subsequent infections. Caring for contagious individuals can thus significantly alter the future disease susceptibility of caregivers. Using ants and their fungal pathogens as a model system, we tested if the altered disease susceptibility of experienced caregivers, in turn, affects their expression of sanitary care behavior. We found that low-level infections contracted during sanitary care had protective or neutral effects on secondary exposure to the same (homologous) pathogen but consistently caused high mortality on superinfection with a different (heterologous) pathogen. In response to this risk, the ants selectively adjusted the expression of their sanitary care. Specifically, the ants performed less grooming and more antimicrobial disinfection when caring for nestmates contaminated with heterologous pathogens compared with homologous ones. By modulating the components of sanitary care in this way the ants acquired less infectious particles of the heterologous pathogens, resulting in reduced superinfection. The performance of risk-adjusted sanitary care reveals the remarkable capacity of ants to react to changes in their disease susceptibility, according to their own infection history and to flexibly adjust collective care to individual risk.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pubmed/29463746"}],"scopus_import":"1","type":"journal_article","quality_controlled":"1","volume":115,"date_created":"2018-12-11T11:46:20Z","date_updated":"2025-04-15T08:20:50Z","publist_id":"7416","oa":1,"citation":{"apa":"Konrad, M., Pull, C., Metzler, S., Seif, K., Naderlinger, E., Grasse, A. V., & Cremer, S. (2018). Ants avoid superinfections by performing risk-adjusted sanitary care. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1713501115","chicago":"Konrad, Matthias, Christopher Pull, Sina Metzler, Katharina Seif, Elisabeth Naderlinger, Anna V Grasse, and Sylvia Cremer. “Ants Avoid Superinfections by Performing Risk-Adjusted Sanitary Care.” PNAS. National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1713501115.","ama":"Konrad M, Pull C, Metzler S, et al. Ants avoid superinfections by performing risk-adjusted sanitary care. PNAS. 2018;115(11):2782-2787. doi:10.1073/pnas.1713501115","ieee":"M. Konrad et al., “Ants avoid superinfections by performing risk-adjusted sanitary care,” PNAS, vol. 115, no. 11. National Academy of Sciences, pp. 2782–2787, 2018.","mla":"Konrad, Matthias, et al. “Ants Avoid Superinfections by Performing Risk-Adjusted Sanitary Care.” PNAS, vol. 115, no. 11, National Academy of Sciences, 2018, pp. 2782–87, doi:10.1073/pnas.1713501115.","ista":"Konrad M, Pull C, Metzler S, Seif K, Naderlinger E, Grasse AV, Cremer S. 2018. Ants avoid superinfections by performing risk-adjusted sanitary care. PNAS. 115(11), 2782–2787.","short":"M. Konrad, C. Pull, S. Metzler, K. Seif, E. Naderlinger, A.V. Grasse, S. Cremer, PNAS 115 (2018) 2782–2787."},"article_processing_charge":"No","date_published":"2018-03-13T00:00:00Z","_id":"413","isi":1,"year":"2018","author":[{"full_name":"Konrad, Matthias","id":"46528076-F248-11E8-B48F-1D18A9856A87","first_name":"Matthias","last_name":"Konrad"},{"id":"3C7F4840-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher","last_name":"Pull","full_name":"Pull, Christopher","orcid":"0000-0003-1122-3982"},{"last_name":"Metzler","id":"48204546-F248-11E8-B48F-1D18A9856A87","first_name":"Sina","full_name":"Metzler, Sina","orcid":"0000-0002-9547-2494"},{"full_name":"Seif, Katharina","id":"90F7894A-02CF-11E9-976E-E38CFE5CBC1D","first_name":"Katharina","last_name":"Seif"},{"full_name":"Naderlinger, Elisabeth","id":"31757262-F248-11E8-B48F-1D18A9856A87","first_name":"Elisabeth","last_name":"Naderlinger"},{"last_name":"Grasse","first_name":"Anna V","id":"406F989C-F248-11E8-B48F-1D18A9856A87","full_name":"Grasse, Anna V"},{"full_name":"Cremer, Sylvia","orcid":"0000-0002-2193-3868","last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","first_name":"Sylvia"}],"month":"03","oa_version":"Published Version","publisher":"National Academy of Sciences","issue":"11","external_id":{"isi":["000427245400069"],"pmid":["29463746"]},"status":"public","language":[{"iso":"eng"}],"project":[{"call_identifier":"FP7","name":"Social Vaccination in Ant Colonies: from Individual Mechanisms to Society Effects","grant_number":"243071","_id":"25DC711C-B435-11E9-9278-68D0E5697425"}],"related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/helping-in-spite-of-risk-ants-perform-risk-averse-sanitary-care-of-infectious-nest-mates/","relation":"press_release"}]},"page":"2782 - 2787","intvolume":" 115"},{"external_id":{"arxiv":["1803.07990"]},"issue":"16","language":[{"iso":"eng"}],"status":"public","project":[{"call_identifier":"FWF","name":"Quantum rotations in the presence of a many-body environment","_id":"26031614-B435-11E9-9278-68D0E5697425","grant_number":"P29902"}],"intvolume":" 121","article_number":"165301","arxiv":1,"oa":1,"date_created":"2018-12-11T11:46:22Z","date_updated":"2025-04-15T07:59:27Z","publist_id":"8025","citation":{"short":"G. Bighin, T. Tscherbul, M. Lemeshko, Physical Review Letters 121 (2018).","ista":"Bighin G, Tscherbul T, Lemeshko M. 2018. Diagrammatic Monte Carlo approach to rotating molecular impurities. Physical Review Letters. 121(16), 165301.","mla":"Bighin, Giacomo, et al. “Diagrammatic Monte Carlo Approach to Rotating Molecular Impurities.” Physical Review Letters, vol. 121, no. 16, 165301, American Physical Society, 2018, doi:10.1103/PhysRevLett.121.165301.","ieee":"G. Bighin, T. Tscherbul, and M. Lemeshko, “Diagrammatic Monte Carlo approach to rotating molecular impurities,” Physical Review Letters, vol. 121, no. 16. American Physical Society, 2018.","ama":"Bighin G, Tscherbul T, Lemeshko M. Diagrammatic Monte Carlo approach to rotating molecular impurities. Physical Review Letters. 2018;121(16). doi:10.1103/PhysRevLett.121.165301","chicago":"Bighin, Giacomo, Timur Tscherbul, and Mikhail Lemeshko. “Diagrammatic Monte Carlo Approach to Rotating Molecular Impurities.” Physical Review Letters. American Physical Society, 2018. https://doi.org/10.1103/PhysRevLett.121.165301.","apa":"Bighin, G., Tscherbul, T., & Lemeshko, M. (2018). Diagrammatic Monte Carlo approach to rotating molecular impurities. Physical Review Letters. American Physical Society. https://doi.org/10.1103/PhysRevLett.121.165301"},"article_processing_charge":"No","_id":"417","date_published":"2018-10-16T00:00:00Z","year":"2018","author":[{"orcid":"0000-0001-8823-9777","full_name":"Bighin, Giacomo","last_name":"Bighin","first_name":"Giacomo","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Tscherbul, Timur","last_name":"Tscherbul","first_name":"Timur"},{"orcid":"0000-0002-6990-7802","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko","first_name":"Mikhail","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87"}],"month":"10","oa_version":"Preprint","publisher":"American Physical Society","abstract":[{"text":"We introduce a Diagrammatic Monte Carlo (DiagMC) approach to complex molecular impurities with rotational degrees of freedom interacting with a many-particle environment. The treatment is based on the diagrammatic expansion that merges the usual Feynman diagrams with the angular momentum diagrams known from atomic and nuclear structure theory, thereby incorporating the non-Abelian algebra inherent to quantum rotations. Our approach works at arbitrary coupling, is free of systematic errors and of finite size effects, and naturally provides access to the impurity Green function. We exemplify the technique by obtaining an all-coupling solution of the angulon model, however, the method is quite general and can be applied to a broad variety of quantum impurities possessing angular momentum degrees of freedom. ","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1803.07990"}],"quality_controlled":"1","type":"journal_article","scopus_import":"1","volume":121,"department":[{"_id":"MiLe"}],"doi":"10.1103/PhysRevLett.121.165301","day":"16","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","title":"Diagrammatic Monte Carlo approach to rotating molecular impurities","publication":"Physical Review Letters"},{"language":[{"iso":"eng"}],"status":"public","external_id":{"isi":["000446612000016"]},"intvolume":" 2","related_material":{"link":[{"url":"http://doi.org/10.1038/s41562-018-0342-3","relation":"erratum"}]},"page":"469–477","project":[{"call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425","grant_number":"279307"},{"name":"Modern Graph Algorithmic Techniques in Formal Verification","_id":"2584A770-B435-11E9-9278-68D0E5697425","grant_number":"P 23499-N23","call_identifier":"FWF"},{"name":"Rigorous Systems Engineering","grant_number":"S 11407_N23","_id":"25832EC2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7"}],"citation":{"apa":"Hilbe, C., Chatterjee, K., & Nowak, M. (2018). Partners and rivals in direct reciprocity. Nature Human Behaviour. Nature Publishing Group. https://doi.org/10.1038/s41562-018-0320-9","chicago":"Hilbe, Christian, Krishnendu Chatterjee, and Martin Nowak. “Partners and Rivals in Direct Reciprocity.” Nature Human Behaviour. Nature Publishing Group, 2018. https://doi.org/10.1038/s41562-018-0320-9.","ama":"Hilbe C, Chatterjee K, Nowak M. Partners and rivals in direct reciprocity. Nature Human Behaviour. 2018;2:469–477. doi:10.1038/s41562-018-0320-9","ieee":"C. Hilbe, K. Chatterjee, and M. Nowak, “Partners and rivals in direct reciprocity,” Nature Human Behaviour, vol. 2. Nature Publishing Group, pp. 469–477, 2018.","mla":"Hilbe, Christian, et al. “Partners and Rivals in Direct Reciprocity.” Nature Human Behaviour, vol. 2, Nature Publishing Group, 2018, pp. 469–477, doi:10.1038/s41562-018-0320-9.","ista":"Hilbe C, Chatterjee K, Nowak M. 2018. Partners and rivals in direct reciprocity. Nature Human Behaviour. 2, 469–477.","short":"C. Hilbe, K. Chatterjee, M. Nowak, Nature Human Behaviour 2 (2018) 469–477."},"article_processing_charge":"No","_id":"419","date_published":"2018-03-19T00:00:00Z","oa":1,"date_updated":"2025-04-15T06:50:00Z","publist_id":"7404","date_created":"2018-12-11T11:46:22Z","author":[{"last_name":"Hilbe","id":"2FDF8F3C-F248-11E8-B48F-1D18A9856A87","first_name":"Christian","full_name":"Hilbe, Christian","orcid":"0000-0001-5116-955X"},{"last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Nowak, Martin","first_name":"Martin","last_name":"Nowak"}],"oa_version":"Submitted Version","publisher":"Nature Publishing Group","month":"03","isi":1,"year":"2018","article_type":"review","abstract":[{"text":"Reciprocity is a major factor in human social life and accounts for a large part of cooperation in our communities. Direct reciprocity arises when repeated interactions occur between the same individuals. The framework of iterated games formalizes this phenomenon. Despite being introduced more than five decades ago, the concept keeps offering beautiful surprises. Recent theoretical research driven by new mathematical tools has proposed a remarkable dichotomy among the crucial strategies: successful individuals either act as partners or as rivals. Rivals strive for unilateral advantages by applying selfish or extortionate strategies. Partners aim to share the payoff for mutual cooperation, but are ready to fight back when being exploited. Which of these behaviours evolves depends on the environment. Whereas small population sizes and a limited number of rounds favour rivalry, partner strategies are selected when populations are large and relationships stable. Only partners allow for evolution of cooperation, while the rivals’ attempt to put themselves first leads to defection. Hilbe et al. synthesize recent theoretical work on zero-determinant and ‘rival’ versus ‘partner’ strategies in social dilemmas. They describe the environments under which these contrasting selfish or cooperative strategies emerge in evolution.","lang":"eng"}],"has_accepted_license":"1","corr_author":"1","quality_controlled":"1","type":"journal_article","scopus_import":"1","volume":2,"doi":"10.1038/s41562-018-0320-9","file_date_updated":"2020-07-14T12:46:25Z","department":[{"_id":"KrCh"}],"ec_funded":1,"file":[{"creator":"dernst","access_level":"open_access","file_name":"2018_NatureHumanBeh_Hilbe.pdf","date_updated":"2020-07-14T12:46:25Z","checksum":"571b8cc0ba14e8d5d8b18e439a9835eb","content_type":"application/pdf","date_created":"2019-11-19T08:19:51Z","file_size":598033,"relation":"main_file","file_id":"7052"}],"ddc":["000"],"publication":"Nature Human Behaviour","title":"Partners and rivals in direct reciprocity","day":"19","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published"},{"language":[{"iso":"eng"}],"status":"public","external_id":{"isi":["000448163900015"]},"issue":"21","intvolume":" 69","page":"5169 - 5176","_id":"42","date_published":"2018-07-26T00:00:00Z","citation":{"ieee":"M. Cucinotta, S. Manrique, C. Cuesta, E. Benková, O. Novák, and L. Colombo, “Cup-shaped Cotyledon1 (CUC1) and CU2 regulate cytokinin homeostasis to determine ovule number in arabidopsis,” Journal of Experimental Botany, vol. 69, no. 21. Oxford University Press, pp. 5169–5176, 2018.","mla":"Cucinotta, Mara, et al. “Cup-Shaped Cotyledon1 (CUC1) and CU2 Regulate Cytokinin Homeostasis to Determine Ovule Number in Arabidopsis.” Journal of Experimental Botany, vol. 69, no. 21, Oxford University Press, 2018, pp. 5169–76, doi:10.1093/jxb/ery281.","ama":"Cucinotta M, Manrique S, Cuesta C, Benková E, Novák O, Colombo L. Cup-shaped Cotyledon1 (CUC1) and CU2 regulate cytokinin homeostasis to determine ovule number in arabidopsis. Journal of Experimental Botany. 2018;69(21):5169-5176. doi:10.1093/jxb/ery281","chicago":"Cucinotta, Mara, Silvia Manrique, Candela Cuesta, Eva Benková, Ondřej Novák, and Lucia Colombo. “Cup-Shaped Cotyledon1 (CUC1) and CU2 Regulate Cytokinin Homeostasis to Determine Ovule Number in Arabidopsis.” Journal of Experimental Botany. Oxford University Press, 2018. https://doi.org/10.1093/jxb/ery281.","apa":"Cucinotta, M., Manrique, S., Cuesta, C., Benková, E., Novák, O., & Colombo, L. (2018). Cup-shaped Cotyledon1 (CUC1) and CU2 regulate cytokinin homeostasis to determine ovule number in arabidopsis. Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/ery281","short":"M. Cucinotta, S. Manrique, C. Cuesta, E. Benková, O. Novák, L. Colombo, Journal of Experimental Botany 69 (2018) 5169–5176.","ista":"Cucinotta M, Manrique S, Cuesta C, Benková E, Novák O, Colombo L. 2018. Cup-shaped Cotyledon1 (CUC1) and CU2 regulate cytokinin homeostasis to determine ovule number in arabidopsis. Journal of Experimental Botany. 69(21), 5169–5176."},"article_processing_charge":"No","oa":1,"publist_id":"8012","date_created":"2018-12-11T11:44:19Z","date_updated":"2023-09-11T12:52:03Z","oa_version":"Published Version","month":"07","publisher":"Oxford University Press","author":[{"full_name":"Cucinotta, Mara","first_name":"Mara","last_name":"Cucinotta"},{"full_name":"Manrique, Silvia","first_name":"Silvia","last_name":"Manrique"},{"id":"33A3C818-F248-11E8-B48F-1D18A9856A87","first_name":"Candela","last_name":"Cuesta","full_name":"Cuesta, Candela","orcid":"0000-0003-1923-2410"},{"orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Novák, Ondřej","first_name":"Ondřej","last_name":"Novák"},{"last_name":"Colombo","first_name":"Lucia","full_name":"Colombo, Lucia"}],"year":"2018","isi":1,"abstract":[{"text":"Seeds derive from ovules upon fertilization and therefore the total number of ovules determines the final seed yield, a fundamental trait in crop plants. Among the factors that co-ordinate the process of ovule formation, the transcription factors CUP-SHAPED COTYLEDON 1 (CUC1) and CUC2 and the hormone cytokinin (CK) have a particularly prominent role. Indeed, the absence of both CUC1 and CUC2 causes a severe reduction in ovule number, a phenotype that can be rescued by CK treatment. In this study, we combined CK quantification with an integrative genome-wide target identification approach to select Arabidopsis genes regulated by CUCs that are also involved in CK metabolism. We focused our attention on the functional characterization of UDP-GLUCOSYL TRANSFERASE 85A3 (UGT85A3) and UGT73C1, which are up-regulated in the absence of CUC1 and CUC2 and encode enzymes able to catalyse CK inactivation by O-glucosylation. Our results demonstrate a role for these UGTs as a link between CUCs and CK homeostasis, and highlight the importance of CUCs and CKs in the determination of seed yield.","lang":"eng"}],"has_accepted_license":"1","volume":69,"type":"journal_article","quality_controlled":"1","scopus_import":"1","file_date_updated":"2020-07-14T12:46:25Z","doi":"10.1093/jxb/ery281","file":[{"file_size":1292128,"file_id":"5691","relation":"main_file","creator":"dernst","content_type":"application/pdf","date_created":"2018-12-17T10:44:16Z","date_updated":"2020-07-14T12:46:25Z","checksum":"ca3b6711040b1662488aeb3d1f961f13","file_name":"2018_JournalExperimBotany_Cucinotta.pdf","access_level":"open_access"}],"department":[{"_id":"EvBe"}],"title":"Cup-shaped Cotyledon1 (CUC1) and CU2 regulate cytokinin homeostasis to determine ovule number in arabidopsis","publication":"Journal of Experimental Botany","ddc":["575"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_status":"published","acknowledgement":"This work was funded by the Ministry of Education, Youth and Sports of the Czech Republic through the National Program of Sustainability (grant no. LO1204).","day":"26"},{"volume":32,"scopus_import":"1","quality_controlled":"1","type":"journal_article","main_file_link":[{"url":"https://arxiv.org/abs/1710.11171","open_access":"1"}],"abstract":[{"lang":"eng","text":"We analyze the theoretical derivation of the beyond-mean-field equation of state for two-dimensional gas of dilute, ultracold alkali-metal atoms in the Bardeen–Cooper–Schrieffer (BCS) to Bose–Einstein condensate (BEC) crossover. We show that at zero temperature our theory — considering Gaussian fluctuations on top of the mean-field equation of state — is in very good agreement with experimental data. Subsequently, we investigate the superfluid density at finite temperature and its renormalization due to the proliferation of vortex–antivortex pairs. By doing so, we determine the Berezinskii–Kosterlitz–Thouless (BKT) critical temperature — at which the renormalized superfluid density jumps to zero — as a function of the inter-atomic potential strength. We find that the Nelson–Kosterlitz criterion overestimates the BKT temperature with respect to the renormalization group equations, this effect being particularly relevant in the intermediate regime of the crossover."}],"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"10","publication":"International Journal of Modern Physics B","title":"Renormalization of the superfluid density in the two-dimensional BCS-BEC crossover","department":[{"_id":"MiLe"}],"doi":"10.1142/S0217979218400222","page":"1840022","arxiv":1,"intvolume":" 32","issue":"17","external_id":{"isi":["000438217300007"],"arxiv":["1710.11171"]},"status":"public","language":[{"iso":"eng"}],"year":"2018","isi":1,"month":"07","publisher":"World Scientific Publishing","oa_version":"Preprint","author":[{"orcid":"0000-0001-8823-9777","full_name":"Bighin, Giacomo","last_name":"Bighin","first_name":"Giacomo","id":"4CA96FD4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Salasnich, Luca","last_name":"Salasnich","first_name":"Luca"}],"publist_id":"7402","date_created":"2018-12-11T11:46:22Z","date_updated":"2025-06-04T07:52:34Z","oa":1,"date_published":"2018-07-10T00:00:00Z","_id":"420","citation":{"ieee":"G. Bighin and L. Salasnich, “Renormalization of the superfluid density in the two-dimensional BCS-BEC crossover,” International Journal of Modern Physics B, vol. 32, no. 17. World Scientific Publishing, p. 1840022, 2018.","mla":"Bighin, Giacomo, and Luca Salasnich. “Renormalization of the Superfluid Density in the Two-Dimensional BCS-BEC Crossover.” International Journal of Modern Physics B, vol. 32, no. 17, World Scientific Publishing, 2018, p. 1840022, doi:10.1142/S0217979218400222.","ama":"Bighin G, Salasnich L. Renormalization of the superfluid density in the two-dimensional BCS-BEC crossover. International Journal of Modern Physics B. 2018;32(17):1840022. doi:10.1142/S0217979218400222","chicago":"Bighin, Giacomo, and Luca Salasnich. “Renormalization of the Superfluid Density in the Two-Dimensional BCS-BEC Crossover.” International Journal of Modern Physics B. World Scientific Publishing, 2018. https://doi.org/10.1142/S0217979218400222.","apa":"Bighin, G., & Salasnich, L. (2018). Renormalization of the superfluid density in the two-dimensional BCS-BEC crossover. International Journal of Modern Physics B. World Scientific Publishing. https://doi.org/10.1142/S0217979218400222","short":"G. Bighin, L. Salasnich, International Journal of Modern Physics B 32 (2018) 1840022.","ista":"Bighin G, Salasnich L. 2018. Renormalization of the superfluid density in the two-dimensional BCS-BEC crossover. International Journal of Modern Physics B. 32(17), 1840022."},"article_processing_charge":"No"}]