[{"day":"24","date_published":"2020-04-24T00:00:00Z","has_accepted_license":"1","degree_awarded":"PhD","file_date_updated":"2021-10-31T23:30:05Z","doi":"10.15479/AT:ISTA:7680","article_processing_charge":"No","oa":1,"citation":{"apa":"Kainrath, S. (2020). Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7680","chicago":"Kainrath, Stephanie. “Synthetic Tools for Optogenetic and Chemogenetic Inhibition of Cellular Signals.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7680.","mla":"Kainrath, Stephanie. Synthetic Tools for Optogenetic and Chemogenetic Inhibition of Cellular Signals. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7680.","ama":"Kainrath S. Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals. 2020. doi:10.15479/AT:ISTA:7680","ieee":"S. Kainrath, “Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals,” Institute of Science and Technology Austria, 2020.","short":"S. Kainrath, Synthetic Tools for Optogenetic and Chemogenetic Inhibition of Cellular Signals, Institute of Science and Technology Austria, 2020.","ista":"Kainrath S. 2020. Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals. Institute of Science and Technology Austria."},"date_created":"2020-04-24T16:00:51Z","page":"98","title":"Synthetic tools for optogenetic and chemogenetic inhibition of cellular signals","language":[{"iso":"eng"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_updated":"2023-09-22T09:20:10Z","abstract":[{"text":"Proteins and their complex dynamic interactions regulate cellular mechanisms from sensing and transducing extracellular signals, to mediating genetic responses, and sustaining or changing cell morphology. To manipulate these protein-protein interactions (PPIs) that govern the behavior and fate of cells, synthetically constructed, genetically encoded tools provide the means to precisely target proteins of interest (POIs), and control their subcellular localization and activity in vitro and in vivo. Ideal synthetic tools react to an orthogonal cue, i.e. a trigger that does not activate any other endogenous process, thereby allowing manipulation of the POI alone.\r\nIn optogenetics, naturally occurring photosensory domain from plants, algae and bacteria are re-purposed and genetically fused to POIs. Illumination with light of a specific wavelength triggers a conformational change that can mediate PPIs, such as dimerization or oligomerization. By using light as a trigger, these tools can be activated with high spatial and temporal precision, on subcellular and millisecond scales. Chemogenetic tools consist of protein domains that recognize and bind small molecules. By genetic fusion to POIs, these domains can mediate PPIs upon addition of their specific ligands, which are often synthetically designed to provide highly specific interactions and exhibit good bioavailability.\r\nMost optogenetic tools to mediate PPIs are based on well-studied photoreceptors responding to red, blue or near-UV light, leaving a striking gap in the green band of the visible light spectrum. Among both optogenetic and chemogenetic tools, there is an abundance of methods to induce PPIs, but tools to disrupt them require UV illumination, rely on covalent linkage and subsequent enzymatic cleavage or initially result in protein clustering of unknown stoichiometry.\r\nThis work describes how the recently structurally and photochemically characterized green-light responsive cobalamin-binding domains (CBDs) from bacterial transcription factors were re-purposed to function as a green-light responsive optogenetic tool. In contrast to previously engineered optogenetic tools, CBDs do not induce PPI, but rather confer a PPI already upon expression, which can be rapidly disrupted by illumination. This was employed to mimic inhibition of constitutive activity of a growth factor receptor, and successfully implement for cell signalling in mammalian cells and in vivo to rescue development in zebrafish. This work further describes the development and application of a chemically induced de-dimerizer (CDD) based on a recently identified and structurally described bacterial oxyreductase. CDD forms a dimer upon expression in absence of its cofactor, the flavin derivative F420. Safety and of domain expression and ligand exposure are demonstrated in vitro and in vivo in zebrafish. The system is further applied to inhibit cell signalling output from a chimeric receptor upon F420 treatment.\r\nCBDs and CDD expand the repertoire of synthetic tools by providing novel mechanisms of mediating PPIs, and by recognizing previously not utilized cues. In the future, they can readily be combined with existing synthetic tools to functionally manipulate PPIs in vitro and in vivo.","lang":"eng"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"1028"}]},"author":[{"last_name":"Kainrath","full_name":"Kainrath, Stephanie","first_name":"Stephanie","id":"32CFBA64-F248-11E8-B48F-1D18A9856A87"}],"status":"public","supervisor":[{"first_name":"Harald L","id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","full_name":"Janovjak, Harald L","last_name":"Janovjak","orcid":"0000-0002-8023-9315"}],"publisher":"Institute of Science and Technology Austria","_id":"7680","alternative_title":["ISTA Thesis"],"publication_status":"published","type":"dissertation","oa_version":"None","ddc":["570"],"file":[{"file_name":"Thesis_without-signatures_PDFA.pdf","relation":"main_file","file_id":"7692","creator":"stgingl","date_updated":"2021-10-31T23:30:05Z","access_level":"open_access","embargo":"2021-10-30","content_type":"application/pdf","date_created":"2020-04-28T11:19:21Z","checksum":"fb9a4468eb27be92690728e35c823796","file_size":3268017},{"access_level":"closed","content_type":"application/octet-stream","date_updated":"2021-10-31T23:30:05Z","file_size":5167703,"checksum":"f6c80ca97104a631a328cb79a2c53493","embargo_to":"open_access","date_created":"2020-04-28T11:19:24Z","file_name":"Thesis_without signatures.docx","file_id":"7693","creator":"stgingl","relation":"source_file"}],"month":"04","year":"2020","publication_identifier":{"eissn":["2663-337X"]},"department":[{"_id":"CaGu"}]},{"title":"Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces","arxiv":1,"quality_controlled":"1","citation":{"ieee":"S. Minets, “Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces,” Selecta Mathematica, New Series, vol. 26, no. 2. Springer Nature, 2020.","short":"S. Minets, Selecta Mathematica, New Series 26 (2020).","ista":"Minets S. 2020. Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces. Selecta Mathematica, New Series. 26(2), 30.","ama":"Minets S. Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces. Selecta Mathematica, New Series. 2020;26(2). doi:10.1007/s00029-020-00553-x","chicago":"Minets, Sasha. “Cohomological Hall Algebras for Higgs Torsion Sheaves, Moduli of Triples and Sheaves on Surfaces.” Selecta Mathematica, New Series. Springer Nature, 2020. https://doi.org/10.1007/s00029-020-00553-x.","apa":"Minets, S. (2020). Cohomological Hall algebras for Higgs torsion sheaves, moduli of triples and sheaves on surfaces. Selecta Mathematica, New Series. Springer Nature. https://doi.org/10.1007/s00029-020-00553-x","mla":"Minets, Sasha. “Cohomological Hall Algebras for Higgs Torsion Sheaves, Moduli of Triples and Sheaves on Surfaces.” Selecta Mathematica, New Series, vol. 26, no. 2, 30, Springer Nature, 2020, doi:10.1007/s00029-020-00553-x."},"date_created":"2020-04-26T22:00:44Z","article_number":"30","oa":1,"article_processing_charge":"Yes (via OA deal)","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2020-07-14T12:48:02Z","doi":"10.1007/s00029-020-00553-x","date_published":"2020-04-15T00:00:00Z","has_accepted_license":"1","intvolume":" 26","volume":26,"day":"15","publication":"Selecta Mathematica, New Series","article_type":"original","department":[{"_id":"TaHa"}],"month":"04","year":"2020","project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"isi":1,"publication_identifier":{"issn":["10221824"],"eissn":["14209020"]},"_id":"7683","issue":"2","publication_status":"published","external_id":{"arxiv":["1801.01429"],"isi":["000526036400001"]},"file":[{"creator":"dernst","file_id":"7690","relation":"main_file","file_name":"2020_SelectaMathematica_Minets.pdf","checksum":"2368c4662629b4759295eb365323b2ad","file_size":792469,"date_created":"2020-04-28T10:57:58Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-07-14T12:48:02Z"}],"type":"journal_article","ddc":["510"],"oa_version":"Published Version","publisher":"Springer Nature","author":[{"first_name":"Sasha","id":"3E7C5304-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3883-1806","full_name":"Minets, Sasha","last_name":"Minets"}],"status":"public","scopus_import":"1","abstract":[{"text":"For any free oriented Borel–Moore homology theory A, we construct an associative product on the A-theory of the stack of Higgs torsion sheaves over a projective curve C. We show that the resulting algebra AHa0C admits a natural shuffle presentation, and prove it is faithful when A is replaced with usual Borel–Moore homology groups. We also introduce moduli spaces of stable triples, heavily inspired by Nakajima quiver varieties, whose A-theory admits an AHa0C-action. These triples can be interpreted as certain sheaves on PC(ωC⊕OC). In particular, we obtain an action of AHa0C on the cohomology of Hilbert schemes of points on T∗C.","lang":"eng"}],"language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-21T06:14:58Z"},{"citation":{"apa":"Gridchyn, I., Schönenberger, P., O’Neill, J., & Csicsvari, J. L. (2020). Assembly-specific disruption of hippocampal replay leads to selective memory deficit. Neuron. Elsevier. https://doi.org/10.1016/j.neuron.2020.01.021","chicago":"Gridchyn, Igor, Philipp Schönenberger, Joseph O’Neill, and Jozsef L Csicsvari. “Assembly-Specific Disruption of Hippocampal Replay Leads to Selective Memory Deficit.” Neuron. Elsevier, 2020. https://doi.org/10.1016/j.neuron.2020.01.021.","mla":"Gridchyn, Igor, et al. “Assembly-Specific Disruption of Hippocampal Replay Leads to Selective Memory Deficit.” Neuron, vol. 106, no. 2, Elsevier, 2020, p. 291–300.e6, doi:10.1016/j.neuron.2020.01.021.","ama":"Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. Assembly-specific disruption of hippocampal replay leads to selective memory deficit. Neuron. 2020;106(2):291-300.e6. doi:10.1016/j.neuron.2020.01.021","short":"I. Gridchyn, P. Schönenberger, J. O’Neill, J.L. Csicsvari, Neuron 106 (2020) 291–300.e6.","ieee":"I. Gridchyn, P. Schönenberger, J. O’Neill, and J. L. Csicsvari, “Assembly-specific disruption of hippocampal replay leads to selective memory deficit,” Neuron, vol. 106, no. 2. Elsevier, p. 291–300.e6, 2020.","ista":"Gridchyn I, Schönenberger P, O’Neill J, Csicsvari JL. 2020. Assembly-specific disruption of hippocampal replay leads to selective memory deficit. Neuron. 106(2), 291–300.e6."},"date_created":"2020-04-26T22:00:45Z","quality_controlled":"1","oa":1,"title":"Assembly-specific disruption of hippocampal replay leads to selective memory deficit","page":"291-300.e6","intvolume":" 106","date_published":"2020-04-22T00:00:00Z","day":"22","publication":"Neuron","volume":106,"pmid":1,"article_processing_charge":"No","ec_funded":1,"doi":"10.1016/j.neuron.2020.01.021","oa_version":"Published Version","type":"journal_article","external_id":{"isi":["000528268200013"],"pmid":["32070475"]},"publication_status":"published","issue":"2","_id":"7684","publisher":"Elsevier","department":[{"_id":"JoCs"}],"article_type":"original","publication_identifier":{"issn":["08966273"],"eissn":["10974199"]},"isi":1,"project":[{"_id":"257A4776-B435-11E9-9278-68D0E5697425","name":"Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex","call_identifier":"FP7","grant_number":"281511"}],"month":"04","year":"2020","related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/librarian-of-memory/","relation":"press_release"}]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.neuron.2020.01.021"}],"scopus_import":"1","date_updated":"2023-08-21T06:15:31Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","author":[{"orcid":"0000-0002-1807-1929","full_name":"Gridchyn, Igor","last_name":"Gridchyn","id":"4B60654C-F248-11E8-B48F-1D18A9856A87","first_name":"Igor"},{"last_name":"Schönenberger","full_name":"Schönenberger, Philipp","first_name":"Philipp","id":"3B9D816C-F248-11E8-B48F-1D18A9856A87"},{"id":"426376DC-F248-11E8-B48F-1D18A9856A87","first_name":"Joseph","full_name":"O'Neill, Joseph","last_name":"O'Neill"},{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","first_name":"Jozsef L","orcid":"0000-0002-5193-4036","full_name":"Csicsvari, Jozsef L","last_name":"Csicsvari"}]},{"publisher":"Elsevier","type":"journal_article","oa_version":"None","_id":"7686","issue":"6","publication_status":"published","external_id":{"pmid":["32407691"],"isi":["000533518400003"]},"isi":1,"publication_identifier":{"issn":["1360-1385"]},"year":"2020","month":"06","department":[{"_id":"JiFr"}],"article_type":"original","date_updated":"2023-08-21T06:16:01Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"text":"The agricultural green revolution spectacularly enhanced crop yield and lodging resistance with modified DELLA-mediated gibberellin signaling. However, this was achieved at the expense of reduced nitrogen-use efficiency (NUE). Recently, Wu et al. revealed novel gibberellin signaling that provides a blueprint for improving tillering and NUE in Green Revolution varieties (GRVs). ","lang":"eng"}],"scopus_import":"1","author":[{"first_name":"Huidan","last_name":"Xue","full_name":"Xue, Huidan"},{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","first_name":"Yuzhou","last_name":"Zhang","full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956"},{"first_name":"Guanghui","full_name":"Xiao, Guanghui","last_name":"Xiao"}],"status":"public","citation":{"mla":"Xue, Huidan, et al. “Neo-Gibberellin Signaling: Guiding the next Generation of the Green Revolution.” Trends in Plant Science, vol. 25, no. 6, Elsevier, 2020, pp. 520–22, doi:10.1016/j.tplants.2020.04.001.","chicago":"Xue, Huidan, Yuzhou Zhang, and Guanghui Xiao. “Neo-Gibberellin Signaling: Guiding the next Generation of the Green Revolution.” Trends in Plant Science. Elsevier, 2020. https://doi.org/10.1016/j.tplants.2020.04.001.","apa":"Xue, H., Zhang, Y., & Xiao, G. (2020). Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. Elsevier. https://doi.org/10.1016/j.tplants.2020.04.001","short":"H. Xue, Y. Zhang, G. Xiao, Trends in Plant Science 25 (2020) 520–522.","ieee":"H. Xue, Y. Zhang, and G. Xiao, “Neo-gibberellin signaling: Guiding the next generation of the green revolution,” Trends in Plant Science, vol. 25, no. 6. Elsevier, pp. 520–522, 2020.","ista":"Xue H, Zhang Y, Xiao G. 2020. Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. 25(6), 520–522.","ama":"Xue H, Zhang Y, Xiao G. Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. 2020;25(6):520-522. doi:10.1016/j.tplants.2020.04.001"},"date_created":"2020-04-26T22:00:46Z","quality_controlled":"1","page":"520-522","title":"Neo-gibberellin signaling: Guiding the next generation of the green revolution","volume":25,"publication":"Trends in Plant Science","day":"01","pmid":1,"intvolume":" 25","date_published":"2020-06-01T00:00:00Z","doi":"10.1016/j.tplants.2020.04.001","article_processing_charge":"No"},{"contributor":[{"first_name":"Georgios","contributor_type":"contact_person","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","last_name":"Katsaros"}],"project":[{"grant_number":"862046","_id":"237E5020-32DE-11EA-91FC-C7463DDC885E","name":"TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS","call_identifier":"H2020"},{"grant_number":"P32235","_id":"237B3DA4-32DE-11EA-91FC-C7463DDC885E","name":"Towards scalable hut wire quantum devices","call_identifier":"FWF"}],"month":"05","year":"2020","department":[{"_id":"GeKa"}],"title":"Supplementary data for \"Zero field splitting of heavy-hole states in quantum dots\"","publisher":"Institute of Science and Technology Austria","oa":1,"ddc":["530"],"type":"research_data","oa_version":"Published Version","file":[{"date_created":"2020-05-01T15:13:28Z","file_size":5514403,"checksum":"d23c0cb9e2d19e14e2f902b88b97c05d","date_updated":"2020-07-14T12:48:02Z","content_type":"application/x-zip-compressed","access_level":"open_access","relation":"main_file","creator":"gkatsaro","file_id":"7786","file_name":"DOI_ZeroFieldSplitting.zip"}],"date_created":"2020-05-01T15:14:46Z","citation":{"mla":"Katsaros, Georgios. Supplementary Data for “Zero Field Splitting of Heavy-Hole States in Quantum Dots.” Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:7689.","chicago":"Katsaros, Georgios. “Supplementary Data for ‘Zero Field Splitting of Heavy-Hole States in Quantum Dots.’” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:7689.","apa":"Katsaros, G. (2020). Supplementary data for “Zero field splitting of heavy-hole states in quantum dots.” Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7689","short":"G. Katsaros, (2020).","ista":"Katsaros G. 2020. Supplementary data for ‘Zero field splitting of heavy-hole states in quantum dots’, Institute of Science and Technology Austria, 10.15479/AT:ISTA:7689.","ieee":"G. Katsaros, “Supplementary data for ‘Zero field splitting of heavy-hole states in quantum dots.’” Institute of Science and Technology Austria, 2020.","ama":"Katsaros G. Supplementary data for “Zero field splitting of heavy-hole states in quantum dots.” 2020. doi:10.15479/AT:ISTA:7689"},"_id":"7689","license":"https://creativecommons.org/publicdomain/zero/1.0/","doi":"10.15479/AT:ISTA:7689","file_date_updated":"2020-07-14T12:48:02Z","tmp":{"short":"CC0 (1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","name":"Creative Commons Public Domain Dedication (CC0 1.0)","image":"/images/cc_0.png"},"status":"public","article_processing_charge":"No","author":[{"full_name":"Katsaros, Georgios","last_name":"Katsaros","orcid":"0000-0001-8342-202X","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","first_name":"Georgios"}],"ec_funded":1,"day":"01","date_updated":"2024-02-21T12:44:02Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"8203"}]},"has_accepted_license":"1","abstract":[{"lang":"eng","text":"These are the supplementary research data to the publication \"Zero field splitting of heavy-hole states in quantum dots\". All matrix files have the same format. Within each column the bias voltage is changed. Each column corresponds to either a different gate voltage or magnetic field. The voltage values are given in mV, the current values in pA. Find a specific description in the included Readme file.\r\n"}],"date_published":"2020-05-01T00:00:00Z"},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","language":[{"iso":"eng"}],"date_updated":"2023-09-05T12:20:02Z","scopus_import":"1","abstract":[{"text":"The TPLATE complex (TPC) is a key endocytic adaptor protein complex in plants. TPC in Arabidopsis (Arabidopsis thaliana) contains six evolutionarily conserved subunits and two plant-specific subunits, AtEH1/Pan1 and AtEH2/Pan1, although cytoplasmic proteins are not associated with the hexameric subcomplex in the cytoplasm. To investigate the dynamic assembly of the octameric TPC at the plasma membrane (PM), we performed state-of-the-art dual-color live cell imaging at physiological and lowered temperatures. Lowering the temperature slowed down endocytosis, thereby enhancing the temporal resolution of the differential recruitment of endocytic components. Under both normal and lowered temperature conditions, the core TPC subunit TPLATE and the AtEH/Pan1 proteins exhibited simultaneous recruitment at the PM. These results, together with co-localization analysis of different TPC subunits, allow us to conclude that TPC in plant cells is not recruited to the PM sequentially but as an octameric complex.","lang":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1101/2020.02.13.948109","open_access":"1"}],"author":[{"full_name":"Wang, J","last_name":"Wang","first_name":"J"},{"first_name":"E","full_name":"Mylle, E","last_name":"Mylle"},{"orcid":"0000-0002-2739-8843","last_name":"Johnson","full_name":"Johnson, Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","first_name":"Alexander J"},{"full_name":"Besbrugge, N","last_name":"Besbrugge","first_name":"N"},{"first_name":"G","full_name":"De Jaeger, G","last_name":"De Jaeger"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Pleskot","full_name":"Pleskot, R","first_name":"R"},{"full_name":"van Damme, D","last_name":"van Damme","first_name":"D"}],"status":"public","publisher":"American Society of Plant Biologists","_id":"7695","issue":"3","external_id":{"pmid":["32321842"],"isi":["000550682000018"]},"publication_status":"published","type":"journal_article","oa_version":"Preprint","year":"2020","month":"07","project":[{"grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"isi":1,"publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"article_type":"original","department":[{"_id":"JiFr"}],"pmid":1,"volume":183,"publication":"Plant Physiology","day":"01","date_published":"2020-07-01T00:00:00Z","intvolume":" 183","doi":"10.1104/pp.20.00178","article_processing_charge":"No","oa":1,"quality_controlled":"1","citation":{"apa":"Wang, J., Mylle, E., Johnson, A. J., Besbrugge, N., De Jaeger, G., Friml, J., … van Damme, D. (2020). High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.20.00178","chicago":"Wang, J, E Mylle, Alexander J Johnson, N Besbrugge, G De Jaeger, Jiří Friml, R Pleskot, and D van Damme. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology. American Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00178.","mla":"Wang, J., et al. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology, vol. 183, no. 3, American Society of Plant Biologists, 2020, pp. 986–97, doi:10.1104/pp.20.00178.","ama":"Wang J, Mylle E, Johnson AJ, et al. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 2020;183(3):986-997. doi:10.1104/pp.20.00178","short":"J. Wang, E. Mylle, A.J. Johnson, N. Besbrugge, G. De Jaeger, J. Friml, R. Pleskot, D. van Damme, Plant Physiology 183 (2020) 986–997.","ista":"Wang J, Mylle E, Johnson AJ, Besbrugge N, De Jaeger G, Friml J, Pleskot R, van Damme D. 2020. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 183(3), 986–997.","ieee":"J. Wang et al., “High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits,” Plant Physiology, vol. 183, no. 3. American Society of Plant Biologists, pp. 986–997, 2020."},"date_created":"2020-04-29T15:23:00Z","page":"986-997","title":"High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits"},{"publisher":"Wiley","ddc":["580"],"type":"journal_article","oa_version":"Published Version","file":[{"file_size":3643395,"success":1,"checksum":"8e8150dbbba8cb65b72f81d1f0864b8b","date_created":"2020-11-24T12:19:38Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-11-24T12:19:38Z","creator":"dernst","file_id":"8799","relation":"main_file","file_name":"2020_09_NewPhytologist_Zhang.pdf"}],"_id":"7697","issue":"5","publication_status":"published","external_id":{"pmid":["32350870"],"isi":["000534092400001"]},"isi":1,"publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"month":"09","year":"2020","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","grant_number":"742985"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630"},{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"department":[{"_id":"JiFr"}],"article_type":"original","date_updated":"2023-09-05T15:46:04Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"* Morphogenesis and adaptive tropic growth in plants depend on gradients of the phytohormone auxin, mediated by the membrane‐based PIN‐FORMED (PIN) auxin transporters. PINs localize to a particular side of the plasma membrane (PM) or to the endoplasmic reticulum (ER) to directionally transport auxin and maintain intercellular and intracellular auxin homeostasis, respectively. However, the molecular cues that confer their diverse cellular localizations remain largely unknown.\r\n* In this study, we systematically swapped the domains between ER‐ and PM‐localized PIN proteins, as well as between apical and basal PM‐localized PINs from Arabidopsis thaliana , to shed light on why PIN family members with similar topological structures reside at different membrane compartments within cells.\r\n* Our results show that not only do the N‐ and C‐terminal transmembrane domains (TMDs) and central hydrophilic loop contribute to their differential subcellular localizations and cellular polarity, but that the pairwise‐matched N‐ and C‐terminal TMDs resulting from intramolecular domain–domain coevolution are also crucial for their divergent patterns of localization.\r\n* These findings illustrate the complexity of the evolutionary path of PIN proteins in acquiring their plethora of developmental functions and adaptive growth in plants."}],"scopus_import":"1","author":[{"first_name":"Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang","full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956"},{"full_name":"Hartinger, Corinna","last_name":"Hartinger","orcid":"0000-0003-1618-2737","id":"AEFB2266-8ABF-11EA-AA39-812C3623CBE4","first_name":"Corinna"},{"full_name":"Wang, Xiaojuan","last_name":"Wang","first_name":"Xiaojuan"},{"first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596"}],"status":"public","oa":1,"citation":{"ama":"Zhang Y, Hartinger C, Wang X, Friml J. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 2020;227(5):1406-1416. doi:10.1111/nph.16629","ieee":"Y. Zhang, C. Hartinger, X. Wang, and J. Friml, “Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters,” New Phytologist, vol. 227, no. 5. Wiley, pp. 1406–1416, 2020.","ista":"Zhang Y, Hartinger C, Wang X, Friml J. 2020. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 227(5), 1406–1416.","short":"Y. Zhang, C. Hartinger, X. Wang, J. Friml, New Phytologist 227 (2020) 1406–1416.","mla":"Zhang, Yuzhou, et al. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist, vol. 227, no. 5, Wiley, 2020, pp. 1406–16, doi:10.1111/nph.16629.","apa":"Zhang, Y., Hartinger, C., Wang, X., & Friml, J. (2020). Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. Wiley. https://doi.org/10.1111/nph.16629","chicago":"Zhang, Yuzhou, Corinna Hartinger, Xiaojuan Wang, and Jiří Friml. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16629."},"date_created":"2020-04-30T08:43:29Z","quality_controlled":"1","page":"1406-1416","title":"Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters","volume":227,"day":"01","publication":"New Phytologist","pmid":1,"intvolume":" 227","has_accepted_license":"1","date_published":"2020-09-01T00:00:00Z","doi":"10.1111/nph.16629","file_date_updated":"2020-11-24T12:19:38Z","article_processing_charge":"Yes (via OA deal)","ec_funded":1,"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"}},{"citation":{"apa":"Hikaru, I., Wojtan, C., Thuerey, N., Igarashi, T., & Ando, R. (2020). Simulating liquids on dynamically warping grids. IEEE Transactions on Visualization and Computer Graphics. IEEE. https://doi.org/10.1109/TVCG.2018.2883628","chicago":"Hikaru, Ibayashi, Chris Wojtan, Nils Thuerey, Takeo Igarashi, and Ryoichi Ando. “Simulating Liquids on Dynamically Warping Grids.” IEEE Transactions on Visualization and Computer Graphics. IEEE, 2020. https://doi.org/10.1109/TVCG.2018.2883628.","mla":"Hikaru, Ibayashi, et al. “Simulating Liquids on Dynamically Warping Grids.” IEEE Transactions on Visualization and Computer Graphics, vol. 26, no. 6, IEEE, 2020, pp. 2288–302, doi:10.1109/TVCG.2018.2883628.","ama":"Hikaru I, Wojtan C, Thuerey N, Igarashi T, Ando R. Simulating liquids on dynamically warping grids. IEEE Transactions on Visualization and Computer Graphics. 2020;26(6):2288-2302. doi:10.1109/TVCG.2018.2883628","ista":"Hikaru I, Wojtan C, Thuerey N, Igarashi T, Ando R. 2020. Simulating liquids on dynamically warping grids. IEEE Transactions on Visualization and Computer Graphics. 26(6), 2288–2302.","short":"I. Hikaru, C. Wojtan, N. Thuerey, T. Igarashi, R. Ando, IEEE Transactions on Visualization and Computer Graphics 26 (2020) 2288–2302.","ieee":"I. Hikaru, C. Wojtan, N. Thuerey, T. Igarashi, and R. Ando, “Simulating liquids on dynamically warping grids,” IEEE Transactions on Visualization and Computer Graphics, vol. 26, no. 6. IEEE, pp. 2288–2302, 2020."},"date_created":"2018-12-16T22:59:21Z","acknowledged_ssus":[{"_id":"ScienComp"}],"quality_controlled":"1","oa":1,"title":"Simulating liquids on dynamically warping grids","page":"2288-2302","intvolume":" 26","has_accepted_license":"1","date_published":"2020-06-01T00:00:00Z","volume":26,"acknowledgement":"This work was partially supported by JSPS Grant-in-Aid forYoung Scientists (Start-up) 16H07410, the ERC StartingGrantsrealFlow(StG-2015-637014) andBigSplash(StG-2014-638176). This research was supported by the Scientific Ser-vice Units (SSU) of IST Austria through resources providedby Scientific Computing. We would like to express my grati-tude to Nobuyuki Umetani and Tomas Skrivan for insight-ful discussion.","publication":"IEEE Transactions on Visualization and Computer Graphics","day":"01","pmid":1,"article_processing_charge":"No","doi":"10.1109/TVCG.2018.2883628","file_date_updated":"2020-10-08T08:34:53Z","type":"journal_article","file":[{"creator":"wojtan","file_id":"8626","relation":"main_file","file_name":"preprint.pdf","file_size":21910098,"success":1,"checksum":"8d4c55443a0ee335bb5bb652de503042","date_created":"2020-10-08T08:34:53Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2020-10-08T08:34:53Z"}],"oa_version":"Submitted Version","ddc":["006"],"issue":"6","_id":"5681","external_id":{"pmid":["30507534"],"isi":["000532295600014"]},"publication_status":"published","publisher":"IEEE","department":[{"_id":"ChWo"}],"article_type":"original","isi":1,"publication_identifier":{"eissn":["19410506"],"issn":["10772626"]},"month":"06","year":"2020","abstract":[{"text":"We introduce dynamically warping grids for adaptive liquid simulation. Our primary contributions are a strategy for dynamically deforming regular grids over the course of a simulation and a method for efficiently utilizing these deforming grids for liquid simulation. Prior work has shown that unstructured grids are very effective for adaptive fluid simulations. However, unstructured grids often lead to complicated implementations and a poor cache hit rate due to inconsistent memory access. Regular grids, on the other hand, provide a fast, fixed memory access pattern and straightforward implementation. Our method combines the advantages of both: we leverage the simplicity of regular grids while still achieving practical and controllable spatial adaptivity. We demonstrate that our method enables adaptive simulations that are fast, flexible, and robust to null-space issues. At the same time, our method is simple to implement and takes advantage of existing highly-tuned algorithms.","lang":"eng"}],"scopus_import":"1","date_updated":"2023-09-18T09:30:01Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","language":[{"iso":"eng"}],"author":[{"full_name":"Hikaru, Ibayashi","last_name":"Hikaru","first_name":"Ibayashi"},{"full_name":"Wojtan, Christopher J","last_name":"Wojtan","orcid":"0000-0001-6646-5546","id":"3C61F1D2-F248-11E8-B48F-1D18A9856A87","first_name":"Christopher J"},{"last_name":"Thuerey","full_name":"Thuerey, Nils","first_name":"Nils"},{"first_name":"Takeo","full_name":"Igarashi, Takeo","last_name":"Igarashi"},{"full_name":"Ando, Ryoichi","last_name":"Ando","first_name":"Ryoichi"}],"status":"public"},{"doi":"10.1214/19-AOP1379","article_processing_charge":"No","ec_funded":1,"volume":48,"day":"01","publication":"Annals of Probability","intvolume":" 48","date_published":"2020-03-01T00:00:00Z","page":"963-1001","title":"Correlated random matrices: Band rigidity and edge universality","oa":1,"citation":{"mla":"Alt, Johannes, et al. “Correlated Random Matrices: Band Rigidity and Edge Universality.” Annals of Probability, vol. 48, no. 2, Institute of Mathematical Statistics, 2020, pp. 963–1001, doi:10.1214/19-AOP1379.","chicago":"Alt, Johannes, László Erdös, Torben H Krüger, and Dominik J Schröder. “Correlated Random Matrices: Band Rigidity and Edge Universality.” Annals of Probability. Institute of Mathematical Statistics, 2020. https://doi.org/10.1214/19-AOP1379.","apa":"Alt, J., Erdös, L., Krüger, T. H., & Schröder, D. J. (2020). Correlated random matrices: Band rigidity and edge universality. Annals of Probability. Institute of Mathematical Statistics. https://doi.org/10.1214/19-AOP1379","ista":"Alt J, Erdös L, Krüger TH, Schröder DJ. 2020. Correlated random matrices: Band rigidity and edge universality. Annals of Probability. 48(2), 963–1001.","ieee":"J. Alt, L. Erdös, T. H. Krüger, and D. J. Schröder, “Correlated random matrices: Band rigidity and edge universality,” Annals of Probability, vol. 48, no. 2. Institute of Mathematical Statistics, pp. 963–1001, 2020.","short":"J. Alt, L. Erdös, T.H. Krüger, D.J. Schröder, Annals of Probability 48 (2020) 963–1001.","ama":"Alt J, Erdös L, Krüger TH, Schröder DJ. Correlated random matrices: Band rigidity and edge universality. Annals of Probability. 2020;48(2):963-1001. doi:10.1214/19-AOP1379"},"date_created":"2019-03-28T09:20:08Z","quality_controlled":"1","arxiv":1,"author":[{"full_name":"Alt, Johannes","last_name":"Alt","first_name":"Johannes","id":"36D3D8B6-F248-11E8-B48F-1D18A9856A87"},{"first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603","last_name":"Erdös","full_name":"Erdös, László"},{"full_name":"Krüger, Torben H","last_name":"Krüger","orcid":"0000-0002-4821-3297","first_name":"Torben H","id":"3020C786-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Dominik J","id":"408ED176-F248-11E8-B48F-1D18A9856A87","last_name":"Schröder","full_name":"Schröder, Dominik J","orcid":"0000-0002-2904-1856"}],"status":"public","date_updated":"2024-02-22T14:34:33Z","language":[{"iso":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"We prove edge universality for a general class of correlated real symmetric or complex Hermitian Wigner matrices with arbitrary expectation. Our theorem also applies to internal edges of the self-consistent density of states. In particular, we establish a strong form of band rigidity which excludes mismatches between location and label of eigenvalues close to internal edges in these general models.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1804.07744"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"149"},{"status":"public","relation":"dissertation_contains","id":"6179"}]},"scopus_import":"1","isi":1,"publication_identifier":{"issn":["0091-1798"]},"year":"2020","month":"03","project":[{"grant_number":"338804","_id":"258DCDE6-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems"}],"department":[{"_id":"LaEr"}],"article_type":"original","publisher":"Institute of Mathematical Statistics","type":"journal_article","oa_version":"Preprint","issue":"2","_id":"6184","external_id":{"arxiv":["1804.07744"],"isi":["000528269100013"]},"publication_status":"published"},{"author":[{"orcid":"0000-0001-5366-9603","full_name":"Erdös, László","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László"},{"last_name":"Krüger","full_name":"Krüger, Torben H","orcid":"0000-0002-4821-3297","id":"3020C786-F248-11E8-B48F-1D18A9856A87","first_name":"Torben H"},{"id":"408ED176-F248-11E8-B48F-1D18A9856A87","first_name":"Dominik J","orcid":"0000-0002-2904-1856","last_name":"Schröder","full_name":"Schröder, Dominik J"}],"status":"public","scopus_import":"1","abstract":[{"lang":"eng","text":"For complex Wigner-type matrices, i.e. Hermitian random matrices with independent, not necessarily identically distributed entries above the diagonal, we show that at any cusp singularity of the limiting eigenvalue distribution the local eigenvalue statistics are universal and form a Pearcey process. Since the density of states typically exhibits only square root or cubic root cusp singularities, our work complements previous results on the bulk and edge universality and it thus completes the resolution of the Wigner–Dyson–Mehta universality conjecture for the last remaining universality type in the complex Hermitian class. Our analysis holds not only for exact cusps, but approximate cusps as well, where an extended Pearcey process emerges. As a main technical ingredient we prove an optimal local law at the cusp for both symmetry classes. This result is also the key input in the companion paper (Cipolloni et al. in Pure Appl Anal, 2018. arXiv:1811.04055) where the cusp universality for real symmetric Wigner-type matrices is proven. The novel cusp fluctuation mechanism is also essential for the recent results on the spectral radius of non-Hermitian random matrices (Alt et al. in Spectral radius of random matrices with independent entries, 2019. arXiv:1907.13631), and the non-Hermitian edge universality (Cipolloni et al. in Edge universality for non-Hermitian random matrices, 2019. arXiv:1908.00969)."}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"6179"}]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"date_updated":"2023-09-07T12:54:12Z","article_type":"original","department":[{"_id":"LaEr"}],"month":"09","year":"2020","project":[{"grant_number":"338804","call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","_id":"258DCDE6-B435-11E9-9278-68D0E5697425"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"isi":1,"publication_identifier":{"issn":["0010-3616"],"eissn":["1432-0916"]},"_id":"6185","external_id":{"isi":["000529483000001"],"arxiv":["1809.03971"]},"publication_status":"published","oa_version":"Published Version","type":"journal_article","file":[{"file_name":"2020_CommMathPhysics_Erdoes.pdf","relation":"main_file","creator":"dernst","file_id":"8771","date_updated":"2020-11-18T11:14:37Z","content_type":"application/pdf","access_level":"open_access","date_created":"2020-11-18T11:14:37Z","file_size":2904574,"checksum":"c3a683e2afdcea27afa6880b01e53dc2","success":1}],"ddc":["530","510"],"publisher":"Springer Nature","article_processing_charge":"Yes (via OA deal)","ec_funded":1,"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file_date_updated":"2020-11-18T11:14:37Z","doi":"10.1007/s00220-019-03657-4","date_published":"2020-09-01T00:00:00Z","intvolume":" 378","has_accepted_license":"1","volume":378,"publication":"Communications in Mathematical Physics","acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria). The authors are very grateful to Johannes Alt for numerous discussions on the Dyson equation and for his invaluable help in adjusting [10] to the needs of the present work.","day":"01","title":"Cusp universality for random matrices I: Local law and the complex Hermitian case","page":"1203-1278","quality_controlled":"1","arxiv":1,"citation":{"apa":"Erdös, L., Krüger, T. H., & Schröder, D. J. (2020). Cusp universality for random matrices I: Local law and the complex Hermitian case. Communications in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s00220-019-03657-4","chicago":"Erdös, László, Torben H Krüger, and Dominik J Schröder. “Cusp Universality for Random Matrices I: Local Law and the Complex Hermitian Case.” Communications in Mathematical Physics. Springer Nature, 2020. https://doi.org/10.1007/s00220-019-03657-4.","mla":"Erdös, László, et al. “Cusp Universality for Random Matrices I: Local Law and the Complex Hermitian Case.” Communications in Mathematical Physics, vol. 378, Springer Nature, 2020, pp. 1203–78, doi:10.1007/s00220-019-03657-4.","ama":"Erdös L, Krüger TH, Schröder DJ. Cusp universality for random matrices I: Local law and the complex Hermitian case. Communications in Mathematical Physics. 2020;378:1203-1278. doi:10.1007/s00220-019-03657-4","ieee":"L. Erdös, T. H. Krüger, and D. J. Schröder, “Cusp universality for random matrices I: Local law and the complex Hermitian case,” Communications in Mathematical Physics, vol. 378. Springer Nature, pp. 1203–1278, 2020.","short":"L. Erdös, T.H. Krüger, D.J. Schröder, Communications in Mathematical Physics 378 (2020) 1203–1278.","ista":"Erdös L, Krüger TH, Schröder DJ. 2020. Cusp universality for random matrices I: Local law and the complex Hermitian case. Communications in Mathematical Physics. 378, 1203–1278."},"date_created":"2019-03-28T10:21:15Z","oa":1},{"page":"319-378","title":"Non-commutative calculus, optimal transport and functional inequalities in dissipative quantum systems","oa":1,"date_created":"2019-04-30T07:34:18Z","citation":{"chicago":"Carlen, Eric A., and Jan Maas. “Non-Commutative Calculus, Optimal Transport and Functional Inequalities in Dissipative Quantum Systems.” Journal of Statistical Physics. Springer Nature, 2020. https://doi.org/10.1007/s10955-019-02434-w.","apa":"Carlen, E. A., & Maas, J. (2020). Non-commutative calculus, optimal transport and functional inequalities in dissipative quantum systems. Journal of Statistical Physics. Springer Nature. https://doi.org/10.1007/s10955-019-02434-w","mla":"Carlen, Eric A., and Jan Maas. “Non-Commutative Calculus, Optimal Transport and Functional Inequalities in Dissipative Quantum Systems.” Journal of Statistical Physics, vol. 178, no. 2, Springer Nature, 2020, pp. 319–78, doi:10.1007/s10955-019-02434-w.","ieee":"E. A. Carlen and J. Maas, “Non-commutative calculus, optimal transport and functional inequalities in dissipative quantum systems,” Journal of Statistical Physics, vol. 178, no. 2. Springer Nature, pp. 319–378, 2020.","ista":"Carlen EA, Maas J. 2020. Non-commutative calculus, optimal transport and functional inequalities in dissipative quantum systems. Journal of Statistical Physics. 178(2), 319–378.","short":"E.A. Carlen, J. Maas, Journal of Statistical Physics 178 (2020) 319–378.","ama":"Carlen EA, Maas J. Non-commutative calculus, optimal transport and functional inequalities in dissipative quantum systems. Journal of Statistical Physics. 2020;178(2):319-378. doi:10.1007/s10955-019-02434-w"},"quality_controlled":"1","arxiv":1,"doi":"10.1007/s10955-019-02434-w","file_date_updated":"2020-07-14T12:47:28Z","ec_funded":1,"article_processing_charge":"Yes (via OA deal)","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":178,"day":"01","publication":"Journal of Statistical Physics","has_accepted_license":"1","intvolume":" 178","date_published":"2020-01-01T00:00:00Z","isi":1,"publication_identifier":{"issn":["00224715"],"eissn":["15729613"]},"month":"01","year":"2020","project":[{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"},{"grant_number":"716117","_id":"256E75B8-B435-11E9-9278-68D0E5697425","name":"Optimal Transport and Stochastic Dynamics","call_identifier":"H2020"},{"_id":"260482E2-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Taming Complexity in Partial Di erential Systems","grant_number":" F06504"}],"department":[{"_id":"JaMa"}],"article_type":"original","publisher":"Springer Nature","oa_version":"Published Version","type":"journal_article","ddc":["500"],"file":[{"relation":"main_file","file_id":"7209","creator":"dernst","file_name":"2019_JourStatistPhysics_Carlen.pdf","date_created":"2019-12-23T12:03:09Z","checksum":"7b04befbdc0d4982c0ee945d25d19872","file_size":905538,"date_updated":"2020-07-14T12:47:28Z","access_level":"open_access","content_type":"application/pdf"}],"issue":"2","_id":"6358","publication_status":"published","external_id":{"arxiv":["1811.04572"],"isi":["000498933300001"]},"author":[{"first_name":"Eric A.","full_name":"Carlen, Eric A.","last_name":"Carlen"},{"orcid":"0000-0002-0845-1338","last_name":"Maas","full_name":"Maas, Jan","first_name":"Jan","id":"4C5696CE-F248-11E8-B48F-1D18A9856A87"}],"status":"public","date_updated":"2023-08-17T13:49:40Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"lang":"eng","text":"We study dynamical optimal transport metrics between density matricesassociated to symmetric Dirichlet forms on finite-dimensional C∗-algebras. Our settingcovers arbitrary skew-derivations and it provides a unified framework that simultaneously generalizes recently constructed transport metrics for Markov chains, Lindblad equations, and the Fermi Ornstein–Uhlenbeck semigroup. We develop a non-nommutative differential calculus that allows us to obtain non-commutative Ricci curvature bounds, logarithmic Sobolev inequalities, transport-entropy inequalities, andspectral gap estimates."}],"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1007/s10955-020-02671-4"}]},"scopus_import":"1"},{"abstract":[{"text":"The strong rate of convergence of the Euler-Maruyama scheme for nondegenerate SDEs with irregular drift coefficients is considered. In the case of α-Hölder drift in the recent literature the rate α/2 was proved in many related situations. By exploiting the regularising effect of the noise more efficiently, we show that the rate is in fact arbitrarily close to 1/2 for all α>0. The result extends to Dini continuous coefficients, while in d=1 also to all bounded measurable coefficients.","lang":"eng"}],"scopus_import":"1","date_updated":"2023-10-16T09:22:50Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Dareiotis, Konstantinos","last_name":"Dareiotis","first_name":"Konstantinos"},{"id":"44ECEDF2-F248-11E8-B48F-1D18A9856A87","first_name":"Mate","last_name":"Gerencser","full_name":"Gerencser, Mate"}],"status":"public","ddc":["510"],"file":[{"date_updated":"2020-09-21T13:15:02Z","access_level":"open_access","content_type":"application/pdf","date_created":"2020-09-21T13:15:02Z","checksum":"8e7c42e72596f6889d786e8e8b89994f","file_size":273042,"success":1,"file_name":"2020_EJournProbab_Dareiotis.pdf","relation":"main_file","file_id":"8549","creator":"dernst"}],"type":"journal_article","oa_version":"Published Version","_id":"6359","publication_status":"published","external_id":{"arxiv":["1812.04583"],"isi":["000550150700001"]},"publisher":"Institute of Mathematical Statistics","department":[{"_id":"JaMa"}],"article_type":"original","isi":1,"publication_identifier":{"eissn":["1083-6489"]},"month":"07","year":"2020","intvolume":" 25","has_accepted_license":"1","date_published":"2020-07-16T00:00:00Z","volume":25,"day":"16","publication":"Electronic Journal of Probability","article_processing_charge":"No","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.1214/20-EJP479","file_date_updated":"2020-09-21T13:15:02Z","date_created":"2019-04-30T07:40:17Z","citation":{"apa":"Dareiotis, K., & Gerencser, M. (2020). On the regularisation of the noise for the Euler-Maruyama scheme with irregular drift. Electronic Journal of Probability. Institute of Mathematical Statistics. https://doi.org/10.1214/20-EJP479","chicago":"Dareiotis, Konstantinos, and Mate Gerencser. “On the Regularisation of the Noise for the Euler-Maruyama Scheme with Irregular Drift.” Electronic Journal of Probability. Institute of Mathematical Statistics, 2020. https://doi.org/10.1214/20-EJP479.","mla":"Dareiotis, Konstantinos, and Mate Gerencser. “On the Regularisation of the Noise for the Euler-Maruyama Scheme with Irregular Drift.” Electronic Journal of Probability, vol. 25, 82, Institute of Mathematical Statistics, 2020, doi:10.1214/20-EJP479.","ama":"Dareiotis K, Gerencser M. On the regularisation of the noise for the Euler-Maruyama scheme with irregular drift. Electronic Journal of Probability. 2020;25. doi:10.1214/20-EJP479","ieee":"K. Dareiotis and M. Gerencser, “On the regularisation of the noise for the Euler-Maruyama scheme with irregular drift,” Electronic Journal of Probability, vol. 25. Institute of Mathematical Statistics, 2020.","short":"K. Dareiotis, M. Gerencser, Electronic Journal of Probability 25 (2020).","ista":"Dareiotis K, Gerencser M. 2020. On the regularisation of the noise for the Euler-Maruyama scheme with irregular drift. Electronic Journal of Probability. 25, 82."},"quality_controlled":"1","arxiv":1,"article_number":"82","oa":1,"title":"On the regularisation of the noise for the Euler-Maruyama scheme with irregular drift"},{"type":"journal_article","oa_version":"Preprint","issue":"3","_id":"6488","external_id":{"isi":["000547464400001"],"arxiv":["1806.08751"]},"publication_status":"published","publisher":"World Scientific Publishing","department":[{"_id":"LaEr"}],"article_type":"original","isi":1,"publication_identifier":{"eissn":["20103271"],"issn":["20103263"]},"year":"2020","month":"07","project":[{"_id":"258DCDE6-B435-11E9-9278-68D0E5697425","name":"Random matrices, universality and disordered quantum systems","call_identifier":"FP7","grant_number":"338804"},{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"abstract":[{"lang":"eng","text":"We prove a central limit theorem for the difference of linear eigenvalue statistics of a sample covariance matrix W˜ and its minor W. We find that the fluctuation of this difference is much smaller than those of the individual linear statistics, as a consequence of the strong correlation between the eigenvalues of W˜ and W. Our result identifies the fluctuation of the spatial derivative of the approximate Gaussian field in the recent paper by Dumitru and Paquette. Unlike in a similar result for Wigner matrices, for sample covariance matrices, the fluctuation may entirely vanish."}],"main_file_link":[{"url":"https://arxiv.org/abs/1806.08751","open_access":"1"}],"scopus_import":"1","date_updated":"2023-08-28T08:38:48Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"last_name":"Cipolloni","full_name":"Cipolloni, Giorgio","orcid":"0000-0002-4901-7992","first_name":"Giorgio","id":"42198EFA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Erdös, László","last_name":"Erdös","orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László"}],"status":"public","date_created":"2019-05-26T21:59:14Z","citation":{"mla":"Cipolloni, Giorgio, and László Erdös. “Fluctuations for Differences of Linear Eigenvalue Statistics for Sample Covariance Matrices.” Random Matrices: Theory and Application, vol. 9, no. 3, 2050006, World Scientific Publishing, 2020, doi:10.1142/S2010326320500069.","apa":"Cipolloni, G., & Erdös, L. (2020). Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices. Random Matrices: Theory and Application. World Scientific Publishing. https://doi.org/10.1142/S2010326320500069","chicago":"Cipolloni, Giorgio, and László Erdös. “Fluctuations for Differences of Linear Eigenvalue Statistics for Sample Covariance Matrices.” Random Matrices: Theory and Application. World Scientific Publishing, 2020. https://doi.org/10.1142/S2010326320500069.","ama":"Cipolloni G, Erdös L. Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices. Random Matrices: Theory and Application. 2020;9(3). doi:10.1142/S2010326320500069","short":"G. Cipolloni, L. Erdös, Random Matrices: Theory and Application 9 (2020).","ieee":"G. Cipolloni and L. Erdös, “Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices,” Random Matrices: Theory and Application, vol. 9, no. 3. World Scientific Publishing, 2020.","ista":"Cipolloni G, Erdös L. 2020. Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices. Random Matrices: Theory and Application. 9(3), 2050006."},"quality_controlled":"1","arxiv":1,"article_number":"2050006","oa":1,"title":"Fluctuations for differences of linear eigenvalue statistics for sample covariance matrices","intvolume":" 9","date_published":"2020-07-01T00:00:00Z","volume":9,"publication":"Random Matrices: Theory and Application","day":"01","ec_funded":1,"article_processing_charge":"No","doi":"10.1142/S2010326320500069"},{"page":"311-330","title":"Are two given maps homotopic? An algorithmic viewpoint","oa":1,"quality_controlled":"1","arxiv":1,"date_created":"2019-06-16T21:59:14Z","citation":{"mla":"Filakovský, Marek, and Lukas Vokřínek. “Are Two given Maps Homotopic? An Algorithmic Viewpoint.” Foundations of Computational Mathematics, vol. 20, Springer Nature, 2020, pp. 311–30, doi:10.1007/s10208-019-09419-x.","chicago":"Filakovský, Marek, and Lukas Vokřínek. “Are Two given Maps Homotopic? An Algorithmic Viewpoint.” Foundations of Computational Mathematics. Springer Nature, 2020. https://doi.org/10.1007/s10208-019-09419-x.","apa":"Filakovský, M., & Vokřínek, L. (2020). Are two given maps homotopic? An algorithmic viewpoint. Foundations of Computational Mathematics. Springer Nature. https://doi.org/10.1007/s10208-019-09419-x","ista":"Filakovský M, Vokřínek L. 2020. Are two given maps homotopic? An algorithmic viewpoint. Foundations of Computational Mathematics. 20, 311–330.","short":"M. Filakovský, L. Vokřínek, Foundations of Computational Mathematics 20 (2020) 311–330.","ieee":"M. Filakovský and L. Vokřínek, “Are two given maps homotopic? An algorithmic viewpoint,” Foundations of Computational Mathematics, vol. 20. Springer Nature, pp. 311–330, 2020.","ama":"Filakovský M, Vokřínek L. Are two given maps homotopic? An algorithmic viewpoint. Foundations of Computational Mathematics. 2020;20:311-330. doi:10.1007/s10208-019-09419-x"},"doi":"10.1007/s10208-019-09419-x","article_processing_charge":"No","day":"01","publication":"Foundations of Computational Mathematics","volume":20,"date_published":"2020-04-01T00:00:00Z","intvolume":" 20","project":[{"call_identifier":"FWF","name":"Algorithms for Embeddings and Homotopy Theory","_id":"26611F5C-B435-11E9-9278-68D0E5697425","grant_number":"P31312"}],"month":"04","year":"2020","publication_identifier":{"issn":["16153375"],"eissn":["16153383"]},"isi":1,"article_type":"original","department":[{"_id":"UlWa"}],"publisher":"Springer Nature","external_id":{"arxiv":["1312.2337"],"isi":["000522437400004"]},"publication_status":"published","_id":"6563","oa_version":"Preprint","type":"journal_article","status":"public","author":[{"id":"3E8AF77E-F248-11E8-B48F-1D18A9856A87","first_name":"Marek","last_name":"Filakovský","full_name":"Filakovský, Marek"},{"last_name":"Vokřínek","full_name":"Vokřínek, Lukas","first_name":"Lukas"}],"language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-17T13:50:44Z","scopus_import":"1","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1312.2337"}],"abstract":[{"lang":"eng","text":"This paper presents two algorithms. The first decides the existence of a pointed homotopy between given simplicial maps 𝑓,𝑔:𝑋→𝑌, and the second computes the group [𝛴𝑋,𝑌]∗ of pointed homotopy classes of maps from a suspension; in both cases, the target Y is assumed simply connected. More generally, these algorithms work relative to 𝐴⊆𝑋."}]},{"date_published":"2020-05-01T00:00:00Z","has_accepted_license":"1","intvolume":" 84","volume":84,"day":"01","acknowledgement":"The research of this author is supported by the ERC grant at the IST.","publication":"Numerical Algorithms","ec_funded":1,"article_processing_charge":"No","file_date_updated":"2020-07-14T12:47:34Z","doi":"10.1007/s11075-019-00758-y","quality_controlled":"1","citation":{"chicago":"Shehu, Yekini, Xiao-Huan Li, and Qiao-Li Dong. “An Efficient Projection-Type Method for Monotone Variational Inequalities in Hilbert Spaces.” Numerical Algorithms. Springer Nature, 2020. https://doi.org/10.1007/s11075-019-00758-y.","apa":"Shehu, Y., Li, X.-H., & Dong, Q.-L. (2020). An efficient projection-type method for monotone variational inequalities in Hilbert spaces. Numerical Algorithms. Springer Nature. https://doi.org/10.1007/s11075-019-00758-y","mla":"Shehu, Yekini, et al. “An Efficient Projection-Type Method for Monotone Variational Inequalities in Hilbert Spaces.” Numerical Algorithms, vol. 84, Springer Nature, 2020, pp. 365–88, doi:10.1007/s11075-019-00758-y.","ieee":"Y. Shehu, X.-H. Li, and Q.-L. Dong, “An efficient projection-type method for monotone variational inequalities in Hilbert spaces,” Numerical Algorithms, vol. 84. Springer Nature, pp. 365–388, 2020.","short":"Y. Shehu, X.-H. Li, Q.-L. Dong, Numerical Algorithms 84 (2020) 365–388.","ista":"Shehu Y, Li X-H, Dong Q-L. 2020. An efficient projection-type method for monotone variational inequalities in Hilbert spaces. Numerical Algorithms. 84, 365–388.","ama":"Shehu Y, Li X-H, Dong Q-L. An efficient projection-type method for monotone variational inequalities in Hilbert spaces. Numerical Algorithms. 2020;84:365-388. doi:10.1007/s11075-019-00758-y"},"date_created":"2019-06-27T20:09:33Z","oa":1,"title":"An efficient projection-type method for monotone variational inequalities in Hilbert spaces","page":"365-388","scopus_import":"1","abstract":[{"lang":"eng","text":"We consider the monotone variational inequality problem in a Hilbert space and describe a projection-type method with inertial terms under the following properties: (a) The method generates a strongly convergent iteration sequence; (b) The method requires, at each iteration, only one projection onto the feasible set and two evaluations of the operator; (c) The method is designed for variational inequality for which the underline operator is monotone and uniformly continuous; (d) The method includes an inertial term. The latter is also shown to speed up the convergence in our numerical results. A comparison with some related methods is given and indicates that the new method is promising."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"date_updated":"2023-08-17T13:51:18Z","author":[{"first_name":"Yekini","id":"3FC7CB58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9224-7139","last_name":"Shehu","full_name":"Shehu, Yekini"},{"first_name":"Xiao-Huan","full_name":"Li, Xiao-Huan","last_name":"Li"},{"last_name":"Dong","full_name":"Dong, Qiao-Li","first_name":"Qiao-Li"}],"status":"public","_id":"6593","publication_status":"published","external_id":{"isi":["000528979000015"]},"file":[{"checksum":"bb1a1eb3ebb2df380863d0db594673ba","file_size":359654,"date_created":"2019-10-01T13:14:10Z","access_level":"open_access","content_type":"application/pdf","date_updated":"2020-07-14T12:47:34Z","file_id":"6927","creator":"kschuh","relation":"main_file","file_name":"ExtragradientMethodPaper.pdf"}],"ddc":["000"],"type":"journal_article","oa_version":"Submitted Version","publisher":"Springer Nature","article_type":"original","department":[{"_id":"VlKo"}],"month":"05","year":"2020","project":[{"grant_number":"616160","call_identifier":"FP7","name":"Discrete Optimization in Computer Vision: Theory and Practice","_id":"25FBA906-B435-11E9-9278-68D0E5697425"}],"isi":1,"publication_identifier":{"eissn":["1572-9265"],"issn":["1017-1398"]}},{"publication_identifier":{"isbn":["9781713829546"]},"year":"2020","page":"11525-11538","title":"Object-centric learning with slot attention","department":[{"_id":"FrLo"}],"publisher":"Curran Associates","oa":1,"date_created":"2023-09-13T12:03:46Z","citation":{"short":"F. Locatello, D. Weissenborn, T. Unterthiner, A. Mahendran, G. Heigold, J. Uszkoreit, A. Dosovitskiy, T. Kipf, in:, Advances in Neural Information Processing Systems, Curran Associates, 2020, pp. 11525–11538.","ista":"Locatello F, Weissenborn D, Unterthiner T, Mahendran A, Heigold G, Uszkoreit J, Dosovitskiy A, Kipf T. 2020. Object-centric learning with slot attention. Advances in Neural Information Processing Systems. NeurIPS: Neural Information Processing Systems vol. 33, 11525–11538.","ieee":"F. Locatello et al., “Object-centric learning with slot attention,” in Advances in Neural Information Processing Systems, Virtual, 2020, vol. 33, pp. 11525–11538.","ama":"Locatello F, Weissenborn D, Unterthiner T, et al. Object-centric learning with slot attention. In: Advances in Neural Information Processing Systems. Vol 33. Curran Associates; 2020:11525-11538.","chicago":"Locatello, Francesco, Dirk Weissenborn, Thomas Unterthiner, Aravindh Mahendran, Georg Heigold, Jakob Uszkoreit, Alexey Dosovitskiy, and Thomas Kipf. “Object-Centric Learning with Slot Attention.” In Advances in Neural Information Processing Systems, 33:11525–38. Curran Associates, 2020.","apa":"Locatello, F., Weissenborn, D., Unterthiner, T., Mahendran, A., Heigold, G., Uszkoreit, J., … Kipf, T. (2020). Object-centric learning with slot attention. In Advances in Neural Information Processing Systems (Vol. 33, pp. 11525–11538). Virtual: Curran Associates.","mla":"Locatello, Francesco, et al. “Object-Centric Learning with Slot Attention.” Advances in Neural Information Processing Systems, vol. 33, Curran Associates, 2020, pp. 11525–38."},"oa_version":"Preprint","type":"conference","_id":"14326","conference":{"start_date":"2020-12-06","name":"NeurIPS: Neural Information Processing Systems","location":"Virtual","end_date":"2020-12-12"},"arxiv":1,"external_id":{"arxiv":["2006.15055"]},"publication_status":"published","quality_controlled":"1","article_processing_charge":"No","author":[{"id":"26cfd52f-2483-11ee-8040-88983bcc06d4","first_name":"Francesco","full_name":"Locatello, Francesco","last_name":"Locatello","orcid":"0000-0002-4850-0683"},{"first_name":"Dirk","last_name":"Weissenborn","full_name":"Weissenborn, Dirk"},{"first_name":"Thomas","last_name":"Unterthiner","full_name":"Unterthiner, Thomas"},{"first_name":"Aravindh","last_name":"Mahendran","full_name":"Mahendran, Aravindh"},{"first_name":"Georg","last_name":"Heigold","full_name":"Heigold, Georg"},{"first_name":"Jakob","full_name":"Uszkoreit, Jakob","last_name":"Uszkoreit"},{"first_name":"Alexey","full_name":"Dosovitskiy, Alexey","last_name":"Dosovitskiy"},{"full_name":"Kipf, Thomas","last_name":"Kipf","first_name":"Thomas"}],"status":"public","volume":33,"date_updated":"2023-09-13T12:19:19Z","publication":"Advances in Neural Information Processing Systems","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"abstract":[{"text":"Learning object-centric representations of complex scenes is a promising step towards enabling efficient abstract reasoning from low-level perceptual features. Yet, most deep learning approaches learn distributed representations that do not capture the compositional properties of natural scenes. In this paper, we present the Slot Attention module, an architectural component that interfaces with perceptual representations such as the output of a convolutional neural network and produces a set of task-dependent abstract representations which we call slots. These slots are exchangeable and can bind to any object in the input by specializing through a competitive procedure over multiple rounds of attention. We empirically demonstrate that Slot Attention can extract object-centric representations that enable generalization to unseen compositions when trained on unsupervised object discovery and supervised property prediction tasks.\r\n\r\n","lang":"eng"}],"intvolume":" 33","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2006.15055"}],"date_published":"2020-01-01T00:00:00Z","extern":"1"},{"publisher":"Institute of Science and Technology Austria","oa":1,"type":"research_data","ddc":["570"],"file":[{"file_size":49297,"checksum":"0108616e2a59e51879ea51299a29b091","success":1,"date_created":"2023-11-22T14:58:44Z","content_type":"application/zip","access_level":"open_access","date_updated":"2023-11-22T14:58:44Z","creator":"fschur","file_id":"14593","relation":"main_file","file_name":"3Dprint-files_download_v2.zip"},{"file_id":"14637","creator":"cchlebak","relation":"main_file","file_name":"readme.txt","success":1,"checksum":"4c66ddedee4d01c1c4a7978208350cfc","file_size":641,"date_created":"2023-12-01T10:39:59Z","access_level":"open_access","content_type":"text/plain","date_updated":"2023-12-01T10:39:59Z"}],"oa_version":"Published Version","date_created":"2023-11-22T15:00:57Z","citation":{"apa":"Schur, F. K. (2020). STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:14592","chicago":"Schur, Florian KM. “STL-Files for 3D-Printed Grid Holders Described in Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:14592.","mla":"Schur, Florian KM. STL-Files for 3D-Printed Grid Holders Described in Fäßler F, Zens B, et Al.; 3D Printed Cell Culture Grid Holders for Improved Cellular Specimen Preparation in Cryo-Electron Microscopy. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:14592.","ama":"Schur FK. STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy. 2020. doi:10.15479/AT:ISTA:14592","ieee":"F. K. Schur, “STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy.” Institute of Science and Technology Austria, 2020.","short":"F.K. Schur, (2020).","ista":"Schur FK. 2020. STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy, Institute of Science and Technology Austria, 10.15479/AT:ISTA:14592."},"_id":"14592","contributor":[{"contributor_type":"researcher","first_name":"Florian","id":"404F5528-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7149-769X","last_name":"Fäßler"},{"first_name":"Bettina","contributor_type":"researcher","id":"45FD126C-F248-11E8-B48F-1D18A9856A87","last_name":"Zens"},{"last_name":"Hauschild","first_name":"Robert","contributor_type":"researcher","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0003-4790-8078","last_name":"Schur","contributor_type":"researcher","first_name":"Florian KM","id":"48AD8942-F248-11E8-B48F-1D18A9856A87"}],"project":[{"name":"Structure and isoform diversity of the Arp2/3 complex","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","grant_number":"P33367"}],"month":"12","year":"2020","department":[{"_id":"FlSc"}],"title":"STL-files for 3D-printed grid holders described in Fäßler F, Zens B, et al.; 3D printed cell culture grid holders for improved cellular specimen preparation in cryo-electron microscopy","day":"01","date_updated":"2024-02-21T12:44:48Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","related_material":{"record":[{"id":"8586","status":"public","relation":"research_data"}]},"has_accepted_license":"1","abstract":[{"lang":"eng","text":"Cryo-electron microscopy (cryo-EM) of cellular specimens provides insights into biological processes and structures within a native context. However, a major challenge still lies in the efficient and reproducible preparation of adherent cells for subsequent cryo-EM analysis. This is due to the sensitivity of many cellular specimens to the varying seeding and culturing conditions required for EM experiments, the often limited amount of cellular material and also the fragility of EM grids and their substrate. Here, we present low-cost and reusable 3D printed grid holders, designed to improve specimen preparation when culturing challenging cellular samples directly on grids. The described grid holders increase cell culture reproducibility and throughput, and reduce the resources required for cell culturing. We show that grid holders can be integrated into various cryo-EM workflows, including micro-patterning approaches to control cell seeding on grids, and for generating samples for cryo-focused ion beam milling and cryo-electron tomography experiments. Their adaptable design allows for the generation of specialized grid holders customized to a large variety of applications."}],"date_published":"2020-12-01T00:00:00Z","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","doi":"10.15479/AT:ISTA:14592","file_date_updated":"2023-12-01T10:39:59Z","tmp":{"short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"status":"public","article_processing_charge":"No","author":[{"first_name":"Florian KM","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","full_name":"Schur, Florian KM","last_name":"Schur","orcid":"0000-0003-4790-8078"}]},{"page":"1421-1539","title":"The Dyson equation with linear self-energy: Spectral bands, edges and cusps","oa":1,"quality_controlled":"1","arxiv":1,"date_created":"2023-12-18T10:37:43Z","citation":{"ama":"Alt J, Erdös L, Krüger TH. The Dyson equation with linear self-energy: Spectral bands, edges and cusps. Documenta Mathematica. 2020;25:1421-1539. doi:10.4171/dm/780","short":"J. Alt, L. Erdös, T.H. Krüger, Documenta Mathematica 25 (2020) 1421–1539.","ista":"Alt J, Erdös L, Krüger TH. 2020. The Dyson equation with linear self-energy: Spectral bands, edges and cusps. Documenta Mathematica. 25, 1421–1539.","ieee":"J. Alt, L. Erdös, and T. H. Krüger, “The Dyson equation with linear self-energy: Spectral bands, edges and cusps,” Documenta Mathematica, vol. 25. EMS Press, pp. 1421–1539, 2020.","apa":"Alt, J., Erdös, L., & Krüger, T. H. (2020). The Dyson equation with linear self-energy: Spectral bands, edges and cusps. Documenta Mathematica. EMS Press. https://doi.org/10.4171/dm/780","chicago":"Alt, Johannes, László Erdös, and Torben H Krüger. “The Dyson Equation with Linear Self-Energy: Spectral Bands, Edges and Cusps.” Documenta Mathematica. EMS Press, 2020. https://doi.org/10.4171/dm/780.","mla":"Alt, Johannes, et al. “The Dyson Equation with Linear Self-Energy: Spectral Bands, Edges and Cusps.” Documenta Mathematica, vol. 25, EMS Press, 2020, pp. 1421–539, doi:10.4171/dm/780."},"file_date_updated":"2023-12-18T10:42:32Z","doi":"10.4171/dm/780","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_processing_charge":"Yes","day":"01","publication":"Documenta Mathematica","volume":25,"date_published":"2020-09-01T00:00:00Z","intvolume":" 25","has_accepted_license":"1","month":"09","year":"2020","publication_identifier":{"issn":["1431-0635"],"eissn":["1431-0643"]},"article_type":"original","department":[{"_id":"LaEr"}],"publisher":"EMS Press","publication_status":"published","external_id":{"arxiv":["1804.07752"]},"_id":"14694","ddc":["510"],"oa_version":"Published Version","file":[{"relation":"main_file","file_id":"14695","creator":"dernst","file_name":"2020_DocumentaMathematica_Alt.pdf","date_created":"2023-12-18T10:42:32Z","file_size":1374708,"success":1,"checksum":"12aacc1d63b852ff9a51c1f6b218d4a6","date_updated":"2023-12-18T10:42:32Z","access_level":"open_access","content_type":"application/pdf"}],"type":"journal_article","status":"public","author":[{"full_name":"Alt, Johannes","last_name":"Alt","id":"36D3D8B6-F248-11E8-B48F-1D18A9856A87","first_name":"Johannes"},{"id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László","orcid":"0000-0001-5366-9603","full_name":"Erdös, László","last_name":"Erdös"},{"first_name":"Torben H","id":"3020C786-F248-11E8-B48F-1D18A9856A87","last_name":"Krüger","full_name":"Krüger, Torben H","orcid":"0000-0002-4821-3297"}],"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-12-18T10:46:09Z","related_material":{"record":[{"id":"6183","status":"public","relation":"earlier_version"}]},"keyword":["General Mathematics"],"abstract":[{"lang":"eng","text":"We study the unique solution m of the Dyson equation \\( -m(z)^{-1} = z\\1 - a + S[m(z)] \\) on a von Neumann algebra A with the constraint Imm≥0. Here, z lies in the complex upper half-plane, a is a self-adjoint element of A and S is a positivity-preserving linear operator on A. We show that m is the Stieltjes transform of a compactly supported A-valued measure on R. Under suitable assumptions, we establish that this measure has a uniformly 1/3-Hölder continuous density with respect to the Lebesgue measure, which is supported on finitely many intervals, called bands. In fact, the density is analytic inside the bands with a square-root growth at the edges and internal cubic root cusps whenever the gap between two bands vanishes. The shape of these singularities is universal and no other singularity may occur. We give a precise asymptotic description of m near the singular points. These asymptotics generalize the analysis at the regular edges given in the companion paper on the Tracy-Widom universality for the edge eigenvalue statistics for correlated random matrices [the first author et al., Ann. Probab. 48, No. 2, 963--1001 (2020; Zbl 1434.60017)] and they play a key role in the proof of the Pearcey universality at the cusp for Wigner-type matrices [G. Cipolloni et al., Pure Appl. Anal. 1, No. 4, 615--707 (2019; Zbl 07142203); the second author et al., Commun. Math. Phys. 378, No. 2, 1203--1278 (2020; Zbl 07236118)]. We also extend the finite dimensional band mass formula from [the first author et al., loc. cit.] to the von Neumann algebra setting by showing that the spectral mass of the bands is topologically rigid under deformations and we conclude that these masses are quantized in some important cases."}]},{"page":"35-73","title":" The local density approximation in density functional theory","oa":1,"quality_controlled":"1","arxiv":1,"date_created":"2024-01-28T23:01:44Z","citation":{"mla":"Lewin, Mathieu, et al. “ The Local Density Approximation in Density Functional Theory.” Pure and Applied Analysis, vol. 2, no. 1, Mathematical Sciences Publishers, 2020, pp. 35–73, doi:10.2140/paa.2020.2.35.","apa":"Lewin, M., Lieb, E. H., & Seiringer, R. (2020). The local density approximation in density functional theory. Pure and Applied Analysis. Mathematical Sciences Publishers. https://doi.org/10.2140/paa.2020.2.35","chicago":"Lewin, Mathieu, Elliott H. Lieb, and Robert Seiringer. “ The Local Density Approximation in Density Functional Theory.” Pure and Applied Analysis. Mathematical Sciences Publishers, 2020. https://doi.org/10.2140/paa.2020.2.35.","ama":"Lewin M, Lieb EH, Seiringer R. The local density approximation in density functional theory. Pure and Applied Analysis. 2020;2(1):35-73. doi:10.2140/paa.2020.2.35","ista":"Lewin M, Lieb EH, Seiringer R. 2020. The local density approximation in density functional theory. Pure and Applied Analysis. 2(1), 35–73.","ieee":"M. Lewin, E. H. Lieb, and R. Seiringer, “ The local density approximation in density functional theory,” Pure and Applied Analysis, vol. 2, no. 1. Mathematical Sciences Publishers, pp. 35–73, 2020.","short":"M. Lewin, E.H. Lieb, R. Seiringer, Pure and Applied Analysis 2 (2020) 35–73."},"doi":"10.2140/paa.2020.2.35","article_processing_charge":"No","day":"01","publication":"Pure and Applied Analysis","volume":2,"date_published":"2020-01-01T00:00:00Z","intvolume":" 2","month":"01","year":"2020","publication_identifier":{"issn":["2578-5893"],"eissn":["2578-5885"]},"article_type":"original","department":[{"_id":"RoSe"}],"publisher":"Mathematical Sciences Publishers","publication_status":"published","external_id":{"arxiv":["1903.04046"]},"issue":"1","_id":"14891","type":"journal_article","oa_version":"Preprint","status":"public","author":[{"last_name":"Lewin","full_name":"Lewin, Mathieu","first_name":"Mathieu"},{"full_name":"Lieb, Elliott H.","last_name":"Lieb","first_name":"Elliott H."},{"first_name":"Robert","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","last_name":"Seiringer","full_name":"Seiringer, Robert","orcid":"0000-0002-6781-0521"}],"language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2024-01-29T09:01:12Z","scopus_import":"1","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.1903.04046","open_access":"1"}],"abstract":[{"lang":"eng","text":"We give the first mathematically rigorous justification of the local density approximation in density functional theory. We provide a quantitative estimate on the difference between the grand-canonical Levy–Lieb energy of a given density (the lowest possible energy of all quantum states having this density) and the integral over the uniform electron gas energy of this density. The error involves gradient terms and justifies the use of the local density approximation in the situation where the density is very flat on sufficiently large regions in space."}]},{"department":[{"_id":"MaLo"}],"article_type":"original","publication_identifier":{"issn":["0022-2836"]},"month":"10","year":"2020","type":"journal_article","oa_version":"Published Version","issue":"21","_id":"15036","external_id":{"pmid":["32910969"]},"publication_status":"published","publisher":"Elsevier","author":[{"last_name":"Rosa","full_name":"Rosa, Higor Vinícius Dias","first_name":"Higor Vinícius Dias"},{"first_name":"Diego Antonio","full_name":"Leonardo, Diego Antonio","last_name":"Leonardo"},{"first_name":"Gabriel","id":"D96FFDA0-A884-11E9-9968-DC26E6697425","last_name":"Brognara","full_name":"Brognara, Gabriel"},{"first_name":"José","full_name":"Brandão-Neto, José","last_name":"Brandão-Neto"},{"last_name":"D'Muniz Pereira","full_name":"D'Muniz Pereira, Humberto","first_name":"Humberto"},{"first_name":"Ana Paula Ulian","full_name":"Araújo, Ana Paula Ulian","last_name":"Araújo"},{"full_name":"Garratt, Richard Charles","last_name":"Garratt","first_name":"Richard Charles"}],"status":"public","abstract":[{"text":"The assembly of a septin filament requires that homologous monomers must distinguish between one another in establishing appropriate interfaces with their neighbors. To understand this phenomenon at the molecular level, we present the first four crystal structures of heterodimeric septin complexes. We describe in detail the two distinct types of G-interface present within the octameric particles, which must polymerize to form filaments. These are formed between SEPT2 and SEPT6 and between SEPT7 and SEPT3, and their description permits an understanding of the structural basis for the selectivity necessary for correct filament assembly. By replacing SEPT6 by SEPT8 or SEPT11, it is possible to rationalize Kinoshita's postulate, which predicts the exchangeability of septins from within a subgroup. Switches I and II, which in classical small GTPases provide a mechanism for nucleotide-dependent conformational change, have been repurposed in septins to play a fundamental role in molecular recognition. Specifically, it is switch I which holds the key to discriminating between the two different G-interfaces. Moreover, residues which are characteristic for a given subgroup play subtle, but pivotal, roles in guaranteeing that the correct interfaces are formed.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.jmb.2020.09.001"}],"keyword":["Molecular Biology","Structural Biology"],"date_updated":"2024-02-28T12:37:54Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"title":"Molecular recognition at septin interfaces: The switches hold the key","page":"5784-5801","citation":{"ista":"Rosa HVD, Leonardo DA, Brognara G, Brandão-Neto J, D’Muniz Pereira H, Araújo APU, Garratt RC. 2020. Molecular recognition at septin interfaces: The switches hold the key. Journal of Molecular Biology. 432(21), 5784–5801.","short":"H.V.D. Rosa, D.A. Leonardo, G. Brognara, J. Brandão-Neto, H. D’Muniz Pereira, A.P.U. Araújo, R.C. Garratt, Journal of Molecular Biology 432 (2020) 5784–5801.","ieee":"H. V. D. Rosa et al., “Molecular recognition at septin interfaces: The switches hold the key,” Journal of Molecular Biology, vol. 432, no. 21. Elsevier, pp. 5784–5801, 2020.","ama":"Rosa HVD, Leonardo DA, Brognara G, et al. Molecular recognition at septin interfaces: The switches hold the key. Journal of Molecular Biology. 2020;432(21):5784-5801. doi:10.1016/j.jmb.2020.09.001","mla":"Rosa, Higor Vinícius Dias, et al. “Molecular Recognition at Septin Interfaces: The Switches Hold the Key.” Journal of Molecular Biology, vol. 432, no. 21, Elsevier, 2020, pp. 5784–801, doi:10.1016/j.jmb.2020.09.001.","chicago":"Rosa, Higor Vinícius Dias, Diego Antonio Leonardo, Gabriel Brognara, José Brandão-Neto, Humberto D’Muniz Pereira, Ana Paula Ulian Araújo, and Richard Charles Garratt. “Molecular Recognition at Septin Interfaces: The Switches Hold the Key.” Journal of Molecular Biology. Elsevier, 2020. https://doi.org/10.1016/j.jmb.2020.09.001.","apa":"Rosa, H. V. D., Leonardo, D. A., Brognara, G., Brandão-Neto, J., D’Muniz Pereira, H., Araújo, A. P. U., & Garratt, R. C. (2020). Molecular recognition at septin interfaces: The switches hold the key. Journal of Molecular Biology. Elsevier. https://doi.org/10.1016/j.jmb.2020.09.001"},"date_created":"2024-02-28T08:50:34Z","quality_controlled":"1","oa":1,"article_processing_charge":"No","doi":"10.1016/j.jmb.2020.09.001","intvolume":" 432","date_published":"2020-10-02T00:00:00Z","volume":432,"publication":"Journal of Molecular Biology","day":"02","pmid":1}]