[{"pmid":1,"volume":63,"acknowledgement":"The authors thank Ralf Stracke (Bielefeld University, Bielefeld, Germany) for providing the myb mutants and their colleagues Bert De Rybel for the tmo5t;mo5l1 double mutant, Boris Parizot for tips on the RNA-seq analysis, Veronique Storme for statistical help on both the RNA-seq and lateral root density, and Martine De Cock for help in preparing the manuscript.","publication":"Plant & Cell Physiology","day":"21","date_published":"2022-01-21T00:00:00Z","intvolume":"        63","doi":"10.1093/pcp/pcab149","article_processing_charge":"No","oa":1,"quality_controlled":"1","date_created":"2021-12-28T11:44:18Z","citation":{"apa":"Struk, S., Braem, L., Matthys, C., Walton, A., Vangheluwe, N., Van Praet, S., … Goormachtig, S. (2022). Transcriptional analysis in the Arabidopsis roots reveals new regulators that link rac-GR24 treatment with changes in flavonol accumulation, root hair elongation and lateral root density. <i>Plant &#38; Cell Physiology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/pcp/pcab149\">https://doi.org/10.1093/pcp/pcab149</a>","chicago":"Struk, Sylwia, Lukas Braem, Cedrick Matthys, Alan Walton, Nick Vangheluwe, Stan Van Praet, Lingxiang Jiang, et al. “Transcriptional Analysis in the Arabidopsis Roots Reveals New Regulators That Link Rac-GR24 Treatment with Changes in Flavonol Accumulation, Root Hair Elongation and Lateral Root Density.” <i>Plant &#38; Cell Physiology</i>. Oxford University Press, 2022. <a href=\"https://doi.org/10.1093/pcp/pcab149\">https://doi.org/10.1093/pcp/pcab149</a>.","mla":"Struk, Sylwia, et al. “Transcriptional Analysis in the Arabidopsis Roots Reveals New Regulators That Link Rac-GR24 Treatment with Changes in Flavonol Accumulation, Root Hair Elongation and Lateral Root Density.” <i>Plant &#38; Cell Physiology</i>, vol. 63, no. 1, Oxford University Press, 2022, pp. 104–19, doi:<a href=\"https://doi.org/10.1093/pcp/pcab149\">10.1093/pcp/pcab149</a>.","ama":"Struk S, Braem L, Matthys C, et al. Transcriptional analysis in the Arabidopsis roots reveals new regulators that link rac-GR24 treatment with changes in flavonol accumulation, root hair elongation and lateral root density. <i>Plant &#38; Cell Physiology</i>. 2022;63(1):104-119. doi:<a href=\"https://doi.org/10.1093/pcp/pcab149\">10.1093/pcp/pcab149</a>","ieee":"S. Struk <i>et al.</i>, “Transcriptional analysis in the Arabidopsis roots reveals new regulators that link rac-GR24 treatment with changes in flavonol accumulation, root hair elongation and lateral root density,” <i>Plant &#38; Cell Physiology</i>, vol. 63, no. 1. Oxford University Press, pp. 104–119, 2022.","ista":"Struk S, Braem L, Matthys C, Walton A, Vangheluwe N, Van Praet S, Jiang L, Baster P, De Cuyper C, Boyer F-D, Stes E, Beeckman T, Friml J, Gevaert K, Goormachtig S. 2022. Transcriptional analysis in the Arabidopsis roots reveals new regulators that link rac-GR24 treatment with changes in flavonol accumulation, root hair elongation and lateral root density. Plant &#38; Cell Physiology. 63(1), 104–119.","short":"S. Struk, L. Braem, C. Matthys, A. Walton, N. Vangheluwe, S. Van Praet, L. Jiang, P. Baster, C. De Cuyper, F.-D. Boyer, E. Stes, T. Beeckman, J. Friml, K. Gevaert, S. Goormachtig, Plant &#38; Cell Physiology 63 (2022) 104–119."},"page":"104-119","title":"Transcriptional analysis in the Arabidopsis roots reveals new regulators that link rac-GR24 treatment with changes in flavonol accumulation, root hair elongation and lateral root density","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-02T13:40:43Z","scopus_import":"1","abstract":[{"lang":"eng","text":"The synthetic strigolactone (SL) analog, rac-GR24, has been instrumental in studying the role of SLs as well as karrikins because it activates the receptors DWARF14 (D14) and KARRIKIN INSENSITIVE 2 (KAI2) of their signaling pathways, respectively. Treatment with rac-GR24 modifies the root architecture at different levels, such as decreasing the lateral root density (LRD), while promoting root hair elongation or flavonol accumulation. Previously, we have shown that the flavonol biosynthesis is transcriptionally activated in the root by rac-GR24 treatment, but, thus far, the molecular players involved in that response have remained unknown. To get an in-depth insight into the changes that occur after the compound is perceived by the roots, we compared the root transcriptomes of the wild type and the more axillary growth2 (max2) mutant, affected in both SL and karrikin signaling pathways, with and without rac-GR24 treatment. Quantitative reverse transcription (qRT)-PCR, reporter line analysis and mutant phenotyping indicated that the flavonol response and the root hair elongation are controlled by the ELONGATED HYPOCOTYL 5 (HY5) and MYB12 transcription factors, but HY5, in contrast to MYB12, affects the LRD as well. Furthermore, we identified the transcription factors TARGET OF MONOPTEROS 5 (TMO5) and TMO5 LIKE1 as negative and the Mediator complex as positive regulators of the rac-GR24 effect on LRD. Altogether, hereby, we get closer toward understanding the molecular mechanisms that underlay the rac-GR24 responses in the root."}],"keyword":["flavonols","MAX2","rac-Gr24","RNA-seq","root development","transcriptional regulation"],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/pcp/pcab149"}],"author":[{"first_name":"Sylwia","last_name":"Struk","full_name":"Struk, Sylwia"},{"last_name":"Braem","full_name":"Braem, Lukas","first_name":"Lukas"},{"full_name":"Matthys, Cedrick","last_name":"Matthys","first_name":"Cedrick"},{"first_name":"Alan","last_name":"Walton","full_name":"Walton, Alan"},{"first_name":"Nick","last_name":"Vangheluwe","full_name":"Vangheluwe, Nick"},{"full_name":"Van Praet, Stan","last_name":"Van Praet","first_name":"Stan"},{"first_name":"Lingxiang","last_name":"Jiang","full_name":"Jiang, Lingxiang"},{"first_name":"Pawel","id":"3028BD74-F248-11E8-B48F-1D18A9856A87","full_name":"Baster, Pawel","last_name":"Baster"},{"last_name":"De Cuyper","full_name":"De Cuyper, Carolien","first_name":"Carolien"},{"full_name":"Boyer, Francois-Didier","last_name":"Boyer","first_name":"Francois-Didier"},{"full_name":"Stes, Elisabeth","last_name":"Stes","first_name":"Elisabeth"},{"last_name":"Beeckman","full_name":"Beeckman, Tom","first_name":"Tom"},{"last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Kris","last_name":"Gevaert","full_name":"Gevaert, Kris"},{"first_name":"Sofie","full_name":"Goormachtig, Sofie","last_name":"Goormachtig"}],"status":"public","publisher":"Oxford University Press","issue":"1","_id":"10583","publication_status":"published","external_id":{"pmid":["34791413"],"isi":["000877899400009"]},"type":"journal_article","oa_version":"Published Version","year":"2022","month":"01","isi":1,"publication_identifier":{"issn":["0032-0781"],"eissn":["1471-9053"]},"article_type":"original","department":[{"_id":"JiFr"}]},{"quality_controlled":"1","date_created":"2022-01-02T23:01:33Z","citation":{"ista":"Nirwan JS, Lou S, Hussain S, Nauman M, Hussain T, Conway BR, Ghori MU. 2022. Electrically tunable lens (ETL) - based variable focus imaging system for parametric surface texture analysis of materials. Micromachines. 13(1), 17.","short":"J.S. Nirwan, S. Lou, S. Hussain, M. Nauman, T. Hussain, B.R. Conway, M.U. Ghori, Micromachines 13 (2022).","ieee":"J. S. Nirwan <i>et al.</i>, “Electrically tunable lens (ETL) - based variable focus imaging system for parametric surface texture analysis of materials,” <i>Micromachines</i>, vol. 13, no. 1. MDPI, 2022.","ama":"Nirwan JS, Lou S, Hussain S, et al. Electrically tunable lens (ETL) - based variable focus imaging system for parametric surface texture analysis of materials. <i>Micromachines</i>. 2022;13(1). doi:<a href=\"https://doi.org/10.3390/mi13010017\">10.3390/mi13010017</a>","mla":"Nirwan, Jorabar Singh, et al. “Electrically Tunable Lens (ETL) - Based Variable Focus Imaging System for Parametric Surface Texture Analysis of Materials.” <i>Micromachines</i>, vol. 13, no. 1, 17, MDPI, 2022, doi:<a href=\"https://doi.org/10.3390/mi13010017\">10.3390/mi13010017</a>.","chicago":"Nirwan, Jorabar Singh, Shan Lou, Saqib Hussain, Muhammad Nauman, Tariq Hussain, Barbara R. Conway, and Muhammad Usman Ghori. “Electrically Tunable Lens (ETL) - Based Variable Focus Imaging System for Parametric Surface Texture Analysis of Materials.” <i>Micromachines</i>. MDPI, 2022. <a href=\"https://doi.org/10.3390/mi13010017\">https://doi.org/10.3390/mi13010017</a>.","apa":"Nirwan, J. S., Lou, S., Hussain, S., Nauman, M., Hussain, T., Conway, B. R., &#38; Ghori, M. U. (2022). Electrically tunable lens (ETL) - based variable focus imaging system for parametric surface texture analysis of materials. <i>Micromachines</i>. MDPI. <a href=\"https://doi.org/10.3390/mi13010017\">https://doi.org/10.3390/mi13010017</a>"},"oa":1,"article_number":"17","title":"Electrically tunable lens (ETL) - based variable focus imaging system for parametric surface texture analysis of materials","date_published":"2022-01-01T00:00:00Z","intvolume":"        13","has_accepted_license":"1","publication":"Micromachines","day":"01","acknowledgement":"The authors acknowledge the financial assistance provided by the University of Huddersfield.","volume":13,"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","file_date_updated":"2022-01-03T13:43:01Z","doi":"10.3390/mi13010017","publication_status":"published","external_id":{"isi":["000758547200001"]},"_id":"10584","issue":"1","type":"journal_article","ddc":["620"],"oa_version":"Published Version","file":[{"creator":"alisjak","file_id":"10601","relation":"main_file","file_name":"2021_Micromachines_Singh.pdf","success":1,"checksum":"5d062cae3f1acb251cacb21021724c4e","file_size":5370675,"date_created":"2022-01-03T13:43:01Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2022-01-03T13:43:01Z"}],"publisher":"MDPI","article_type":"original","department":[{"_id":"KiMo"}],"month":"01","year":"2022","publication_identifier":{"eissn":["2072-666X"]},"isi":1,"scopus_import":"1","keyword":["surface texture","electrically tunable lens","materials","hypromellose","surface topography","surface roughness","pharmaceutical tablet","variable focus imaging"],"abstract":[{"lang":"eng","text":"Electrically tunable lenses (ETLs) are those with the ability to alter their optical power in response to an electric signal. This feature allows such systems to not only image the areas of interest but also obtain spatial depth perception (depth of field, DOF). The aim of the present study was to develop an ETL-based imaging system for quantitative surface analysis. Firstly, the system was calibrated to achieve high depth resolution, warranting the accurate measurement of the depth and to account for and correct any influences from external factors on the ETL. This was completed using the Tenengrad operator which effectively identified the plane of best focus as demonstrated by the linear relationship between the control current applied to the ETL and the height at which the optical system focuses. The system was then employed to measure amplitude, spatial, hybrid, and volume surface texture parameters of a model material (pharmaceutical dosage form) which were validated against the parameters obtained using a previously validated surface texture analysis technique, optical profilometry. There were no statistically significant differences between the surface texture parameters measured by the techniques, highlighting the potential application of ETL-based imaging systems as an easily adaptable and low-cost alternative surface texture analysis technique to conventional microscopy techniques"}],"language":[{"iso":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","date_updated":"2023-08-09T10:16:10Z","status":"public","author":[{"last_name":"Nirwan","full_name":"Nirwan, Jorabar Singh","first_name":"Jorabar Singh"},{"full_name":"Lou, Shan","last_name":"Lou","first_name":"Shan"},{"first_name":"Saqib","full_name":"Hussain, Saqib","last_name":"Hussain"},{"id":"32c21954-2022-11eb-9d5f-af9f93c24e71","first_name":"Muhammad","orcid":"0000-0002-2111-4846","last_name":"Nauman","full_name":"Nauman, Muhammad"},{"first_name":"Tariq","full_name":"Hussain, Tariq","last_name":"Hussain"},{"full_name":"Conway, Barbara R.","last_name":"Conway","first_name":"Barbara R."},{"full_name":"Ghori, Muhammad Usman","last_name":"Ghori","first_name":"Muhammad Usman"}],"license":"https://creativecommons.org/licenses/by/4.0/"},{"doi":"10.1007/s12274-021-4022-7","article_processing_charge":"No","day":"01","acknowledgement":"This project was supported by the US Department of Energy through award (No. DE-SC0018026). The work was performed in part at the Cornell NanoScale Facility, a member of the National Nanotechnology Coordinated Infrastructure (NNCI), which is supported by the National Science Foundation (No. NNCI-1542081) and in part at the Cornell Center for Materials Research with funding from the NSF MRSEC program (No. DMR-1719875). The authors thank Beth Rhodes for the technical assistance with inkjet printing, and E. Peretz and Q. Wen for the early exploratory experiments.","publication":"Nano Research","volume":15,"intvolume":"        15","date_published":"2022-05-01T00:00:00Z","page":"4536–4543","title":"Inkjet printing of epitaxially connected nanocrystal superlattices","oa":1,"citation":{"mla":"Balazs, Daniel, et al. “Inkjet Printing of Epitaxially Connected Nanocrystal Superlattices.” <i>Nano Research</i>, vol. 15, no. 5, Springer Nature, 2022, pp. 4536–4543, doi:<a href=\"https://doi.org/10.1007/s12274-021-4022-7\">10.1007/s12274-021-4022-7</a>.","apa":"Balazs, D., Erkan, N. D., Quien, M., &#38; Hanrath, T. (2022). Inkjet printing of epitaxially connected nanocrystal superlattices. <i>Nano Research</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s12274-021-4022-7\">https://doi.org/10.1007/s12274-021-4022-7</a>","chicago":"Balazs, Daniel, N. Deniz Erkan, Michelle Quien, and Tobias Hanrath. “Inkjet Printing of Epitaxially Connected Nanocrystal Superlattices.” <i>Nano Research</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s12274-021-4022-7\">https://doi.org/10.1007/s12274-021-4022-7</a>.","ama":"Balazs D, Erkan ND, Quien M, Hanrath T. Inkjet printing of epitaxially connected nanocrystal superlattices. <i>Nano Research</i>. 2022;15(5):4536–4543. doi:<a href=\"https://doi.org/10.1007/s12274-021-4022-7\">10.1007/s12274-021-4022-7</a>","short":"D. Balazs, N.D. Erkan, M. Quien, T. Hanrath, Nano Research 15 (2022) 4536–4543.","ista":"Balazs D, Erkan ND, Quien M, Hanrath T. 2022. Inkjet printing of epitaxially connected nanocrystal superlattices. Nano Research. 15(5), 4536–4543.","ieee":"D. Balazs, N. D. Erkan, M. Quien, and T. Hanrath, “Inkjet printing of epitaxially connected nanocrystal superlattices,” <i>Nano Research</i>, vol. 15, no. 5. Springer Nature, pp. 4536–4543, 2022."},"date_created":"2022-01-02T23:01:34Z","quality_controlled":"1","status":"public","author":[{"last_name":"Balazs","full_name":"Balazs, Daniel","orcid":"0000-0001-7597-043X","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","first_name":"Daniel"},{"first_name":"N. Deniz","last_name":"Erkan","full_name":"Erkan, N. Deniz"},{"first_name":"Michelle","full_name":"Quien, Michelle","last_name":"Quien"},{"first_name":"Tobias","last_name":"Hanrath","full_name":"Hanrath, Tobias"}],"date_updated":"2023-08-02T13:47:21Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","main_file_link":[{"open_access":"1","url":"https://www.osti.gov/biblio/1837946"}],"keyword":["interfacial assembly","colloidal nanocrystal","superlattice","inkjet printing"],"abstract":[{"text":"Access to a blossoming library of colloidal nanomaterials provides building blocks for complex assembled materials. The journey to bring these prospects to fruition stands to benefit from the application of advanced processing methods. Epitaxially connected nanocrystal (or quantum dot) superlattices present a captivating model system for mesocrystals with intriguing emergent properties. The conventional processing approach to creating these materials involves assembling and attaching the constituent nanocrystals at the interface between two immiscible fluids. Processing small liquid volumes of the colloidal nanocrystal solution involves several complexities arising from the concurrent spreading, evaporation, assembly, and attachment. The ability of inkjet printers to deliver small (typically picoliter) liquid volumes with precise positioning is attractive to advance fundamental insights into the processing science, and thereby potentially enable new routes to incorporate the epitaxially connected superlattices into technology platforms. In this study, we identified the processing window of opportunity, including nanocrystal ink formulation and printing approach to enable delivery of colloidal nanocrystals from an inkjet nozzle onto the surface of a sessile droplet of the immiscible subphase. We demonstrate how inkjet printing can be scaled-down to enable the fabrication of epitaxially connected superlattices on patterned sub-millimeter droplets. We anticipate that insights from this work will spur on future advances to enable more mechanistic insights into the assembly processes and new avenues to create high-fidelity superlattices.","lang":"eng"}],"scopus_import":"1","publication_identifier":{"eissn":["1998-0000"],"issn":["1998-0124"]},"isi":1,"month":"05","year":"2022","department":[{"_id":"MaIb"}],"article_type":"original","publisher":"Springer Nature","oa_version":"Submitted Version","type":"journal_article","external_id":{"isi":["000735340300001"]},"publication_status":"published","_id":"10587","issue":"5"},{"article_type":"original","department":[{"_id":"JaMa"}],"project":[{"grant_number":"716117","call_identifier":"H2020","name":"Optimal Transport and Stochastic Dynamics","_id":"256E75B8-B435-11E9-9278-68D0E5697425"},{"name":"Taming Complexity in Partial Differential Systems","_id":"fc31cba2-9c52-11eb-aca3-ff467d239cd2","grant_number":"F6504"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"year":"2022","month":"12","publication_identifier":{"eissn":["1432-1807"],"issn":["0025-5831"]},"isi":1,"external_id":{"isi":["000734150200001"],"arxiv":["2110.05137"]},"publication_status":"published","_id":"10588","file":[{"relation":"main_file","file_id":"10596","creator":"alisjak","file_name":"2021_MathAnn_DelloSchiavo.pdf","date_created":"2022-01-03T11:08:31Z","file_size":410090,"success":1,"checksum":"2593abbf195e38efa93b6006b1e90eb1","date_updated":"2022-01-03T11:08:31Z","access_level":"open_access","content_type":"application/pdf"}],"oa_version":"Published Version","ddc":["510"],"type":"journal_article","publisher":"Springer Nature","status":"public","author":[{"orcid":"0000-0002-9881-6870","last_name":"Dello Schiavo","full_name":"Dello Schiavo, Lorenzo","id":"ECEBF480-9E4F-11EA-B557-B0823DDC885E","first_name":"Lorenzo"},{"first_name":"Kohei","last_name":"Suzuki","full_name":"Suzuki, Kohei"}],"scopus_import":"1","keyword":["quasi curvature-dimension condition","sub-riemannian geometry","Sobolev-to-Lipschitz property","Varadhan short-time asymptotics"],"abstract":[{"lang":"eng","text":"We prove the Sobolev-to-Lipschitz property for metric measure spaces satisfying the quasi curvature-dimension condition recently introduced in Milman (Commun Pure Appl Math, to appear). We provide several applications to properties of the corresponding heat semigroup. In particular, under the additional assumption of infinitesimal Hilbertianity, we show the Varadhan short-time asymptotics for the heat semigroup with respect to the distance, and prove the irreducibility of the heat semigroup. These results apply in particular to large classes of (ideal) sub-Riemannian manifolds."}],"language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-02T13:39:05Z","title":"Sobolev-to-Lipschitz property on QCD- spaces and applications","page":"1815-1832","arxiv":1,"quality_controlled":"1","citation":{"ieee":"L. Dello Schiavo and K. Suzuki, “Sobolev-to-Lipschitz property on QCD- spaces and applications,” <i>Mathematische Annalen</i>, vol. 384. Springer Nature, pp. 1815–1832, 2022.","short":"L. Dello Schiavo, K. Suzuki, Mathematische Annalen 384 (2022) 1815–1832.","ista":"Dello Schiavo L, Suzuki K. 2022. Sobolev-to-Lipschitz property on QCD- spaces and applications. Mathematische Annalen. 384, 1815–1832.","ama":"Dello Schiavo L, Suzuki K. Sobolev-to-Lipschitz property on QCD- spaces and applications. <i>Mathematische Annalen</i>. 2022;384:1815-1832. doi:<a href=\"https://doi.org/10.1007/s00208-021-02331-2\">10.1007/s00208-021-02331-2</a>","chicago":"Dello Schiavo, Lorenzo, and Kohei Suzuki. “Sobolev-to-Lipschitz Property on QCD- Spaces and Applications.” <i>Mathematische Annalen</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s00208-021-02331-2\">https://doi.org/10.1007/s00208-021-02331-2</a>.","apa":"Dello Schiavo, L., &#38; Suzuki, K. (2022). Sobolev-to-Lipschitz property on QCD- spaces and applications. <i>Mathematische Annalen</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00208-021-02331-2\">https://doi.org/10.1007/s00208-021-02331-2</a>","mla":"Dello Schiavo, Lorenzo, and Kohei Suzuki. “Sobolev-to-Lipschitz Property on QCD- Spaces and Applications.” <i>Mathematische Annalen</i>, vol. 384, Springer Nature, 2022, pp. 1815–32, doi:<a href=\"https://doi.org/10.1007/s00208-021-02331-2\">10.1007/s00208-021-02331-2</a>."},"date_created":"2022-01-02T23:01:35Z","oa":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"},"ec_funded":1,"article_processing_charge":"Yes (via OA deal)","file_date_updated":"2022-01-03T11:08:31Z","doi":"10.1007/s00208-021-02331-2","date_published":"2022-12-01T00:00:00Z","intvolume":"       384","has_accepted_license":"1","publication":"Mathematische Annalen","day":"01","acknowledgement":"The authors are grateful to Dr. Bang-Xian Han for helpful discussions on the Sobolev-to-Lipschitz property on metric measure spaces, and to Professor Kazuhiro Kuwae, Professor Emanuel Milman, Dr. Giorgio Stefani, and Dr. Gioacchino Antonelli for reading a preliminary version of this work and for their valuable comments and suggestions. Finally, they wish to express their gratitude to two anonymous Reviewers whose suggestions improved the presentation of this work.\r\n\r\nL.D.S. gratefully acknowledges funding of his position by the Austrian Science Fund (FWF) grant F65, and by the European Research Council (ERC, grant No. 716117, awarded to Prof. Dr. Jan Maas).\r\n\r\nK.S. gratefully acknowledges funding by: the JSPS Overseas Research Fellowships, Grant Nr. 290142; World Premier International Research Center Initiative (WPI), MEXT, Japan; JSPS Grant-in-Aid for Scientific Research on Innovative Areas “Discrete Geometric Analysis for Materials Design”, Grant Number 17H06465; and the Alexander von Humboldt Stiftung, Humboldt-Forschungsstipendium.","volume":384},{"status":"public","author":[{"first_name":"Andrew P","id":"4AD6785A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2607-2363","last_name":"Higginbotham","full_name":"Higginbotham, Andrew P"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"date_updated":"2023-08-02T13:43:11Z","scopus_import":"1","keyword":["superconducting devices","superconducting properties and materials"],"abstract":[{"lang":"eng","text":"Superconducting devices ubiquitously have an excess of broken Cooper pairs, which can hamper their performance. It is widely believed that external radiation is responsible but a study now suggests there must be an additional, unknown source."}],"year":"2022","month":"02","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"]},"isi":1,"article_type":"letter_note","department":[{"_id":"AnHi"}],"publisher":"Springer Nature","external_id":{"isi":["000733431000007"]},"publication_status":"published","_id":"10589","type":"journal_article","oa_version":"None","doi":"10.1038/s41567-021-01459-x","article_processing_charge":"No","publication":"Nature Physics","day":"01","volume":18,"date_published":"2022-02-01T00:00:00Z","intvolume":"        18","page":"126","title":"A secret source","quality_controlled":"1","citation":{"short":"A.P. Higginbotham, Nature Physics 18 (2022) 126.","ieee":"A. P. Higginbotham, “A secret source,” <i>Nature Physics</i>, vol. 18. Springer Nature, p. 126, 2022.","ista":"Higginbotham AP. 2022. A secret source. Nature Physics. 18, 126.","ama":"Higginbotham AP. A secret source. <i>Nature Physics</i>. 2022;18:126. doi:<a href=\"https://doi.org/10.1038/s41567-021-01459-x\">10.1038/s41567-021-01459-x</a>","mla":"Higginbotham, Andrew P. “A Secret Source.” <i>Nature Physics</i>, vol. 18, Springer Nature, 2022, p. 126, doi:<a href=\"https://doi.org/10.1038/s41567-021-01459-x\">10.1038/s41567-021-01459-x</a>.","chicago":"Higginbotham, Andrew P. “A Secret Source.” <i>Nature Physics</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41567-021-01459-x\">https://doi.org/10.1038/s41567-021-01459-x</a>.","apa":"Higginbotham, A. P. (2022). A secret source. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-021-01459-x\">https://doi.org/10.1038/s41567-021-01459-x</a>"},"date_created":"2022-01-02T23:01:35Z"},{"date_created":"2022-01-03T12:19:48Z","citation":{"mla":"Henheik, Sven Joscha, and Stefan Teufel. “Adiabatic Theorem in the Thermodynamic Limit: Systems with a Uniform Gap.” <i>Journal of Mathematical Physics</i>, vol. 63, no. 1, 011901, AIP Publishing, 2022, doi:<a href=\"https://doi.org/10.1063/5.0051632\">10.1063/5.0051632</a>.","apa":"Henheik, S. J., &#38; Teufel, S. (2022). Adiabatic theorem in the thermodynamic limit: Systems with a uniform gap. <i>Journal of Mathematical Physics</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0051632\">https://doi.org/10.1063/5.0051632</a>","chicago":"Henheik, Sven Joscha, and Stefan Teufel. “Adiabatic Theorem in the Thermodynamic Limit: Systems with a Uniform Gap.” <i>Journal of Mathematical Physics</i>. AIP Publishing, 2022. <a href=\"https://doi.org/10.1063/5.0051632\">https://doi.org/10.1063/5.0051632</a>.","ama":"Henheik SJ, Teufel S. Adiabatic theorem in the thermodynamic limit: Systems with a uniform gap. <i>Journal of Mathematical Physics</i>. 2022;63(1). doi:<a href=\"https://doi.org/10.1063/5.0051632\">10.1063/5.0051632</a>","ista":"Henheik SJ, Teufel S. 2022. Adiabatic theorem in the thermodynamic limit: Systems with a uniform gap. Journal of Mathematical Physics. 63(1), 011901.","short":"S.J. Henheik, S. Teufel, Journal of Mathematical Physics 63 (2022).","ieee":"S. J. Henheik and S. Teufel, “Adiabatic theorem in the thermodynamic limit: Systems with a uniform gap,” <i>Journal of Mathematical Physics</i>, vol. 63, no. 1. AIP Publishing, 2022."},"quality_controlled":"1","arxiv":1,"article_number":"011901","oa":1,"title":"Adiabatic theorem in the thermodynamic limit: Systems with a uniform gap","intvolume":"        63","date_published":"2022-01-03T00:00:00Z","volume":63,"day":"03","acknowledgement":"J.H. acknowledges partial financial support from ERC Advanced Grant “RMTBeyond” No. 101020331.","publication":"Journal of Mathematical Physics","article_processing_charge":"No","ec_funded":1,"doi":"10.1063/5.0051632","oa_version":"Preprint","type":"journal_article","_id":"10600","issue":"1","external_id":{"arxiv":["2012.15238"],"isi":["000739446000009"]},"publication_status":"published","publisher":"AIP Publishing","department":[{"_id":"GradSch"},{"_id":"LaEr"}],"article_type":"original","isi":1,"publication_identifier":{"issn":["0022-2488"],"eissn":["1089-7658"]},"month":"01","year":"2022","project":[{"grant_number":"101020331","call_identifier":"H2020","name":"Random matrices beyond Wigner-Dyson-Mehta","_id":"62796744-2b32-11ec-9570-940b20777f1d"}],"abstract":[{"text":"We show that recent results on adiabatic theory for interacting gapped many-body systems on finite lattices remain valid in the thermodynamic limit. More precisely, we prove a generalized super-adiabatic theorem for the automorphism group describing the infinite volume dynamics on the quasi-local algebra of observables. The key assumption is the existence of a sequence of gapped finite volume Hamiltonians, which generates the same infinite volume dynamics in the thermodynamic limit. Our adiabatic theorem also holds for certain perturbations of gapped ground states that close the spectral gap (so it is also an adiabatic theorem for resonances and, in this sense, “generalized”), and it provides an adiabatic approximation to all orders in the adiabatic parameter (a property often called “super-adiabatic”). In addition to the existing results for finite lattices, we also perform a resummation of the adiabatic expansion and allow for observables that are not strictly local. Finally, as an application, we prove the validity of linear and higher order response theory for our class of perturbations for infinite systems. While we consider the result and its proof as new and interesting in itself, we also lay the foundation for the proof of an adiabatic theorem for systems with a gap only in the bulk, which will be presented in a follow-up article.","lang":"eng"}],"keyword":["mathematical physics","statistical and nonlinear physics"],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2012.15238"}],"date_updated":"2023-08-02T13:44:32Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","author":[{"id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","first_name":"Sven Joscha","full_name":"Henheik, Sven Joscha","last_name":"Henheik","orcid":"0000-0003-1106-327X"},{"first_name":"Stefan","full_name":"Teufel, Stefan","last_name":"Teufel"}],"status":"public"},{"date_updated":"2023-08-02T13:49:28Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","keyword":["computer networks and communications","information systems","software"],"abstract":[{"lang":"eng","text":"Transforming ω-automata into parity automata is traditionally done using appearance records. We present an efficient variant of this idea, tailored to Rabin automata, and several optimizations applicable to all appearance records. We compare the methods experimentally and show that our method produces significantly smaller automata than previous approaches."}],"scopus_import":"1","status":"public","author":[{"first_name":"Jan","id":"44CEF464-F248-11E8-B48F-1D18A9856A87","last_name":"Kretinsky","full_name":"Kretinsky, Jan","orcid":"0000-0002-8122-2881"},{"first_name":"Tobias","id":"b21b0c15-30a2-11eb-80dc-f13ca25802e1","full_name":"Meggendorfer, Tobias","last_name":"Meggendorfer","orcid":"0000-0002-1712-2165"},{"first_name":"Clara","full_name":"Waldmann, Clara","last_name":"Waldmann"},{"first_name":"Maximilian","last_name":"Weininger","full_name":"Weininger, Maximilian"}],"publisher":"Springer Nature","ddc":["000"],"type":"journal_article","oa_version":"Published Version","file":[{"file_name":"2021_ActaInfor_Křetínský.pdf","relation":"main_file","creator":"cchlebak","file_id":"10603","date_updated":"2022-01-07T07:50:31Z","content_type":"application/pdf","access_level":"open_access","date_created":"2022-01-07T07:50:31Z","checksum":"bf1c195b6aaf59e8530cf9e3a9d731f7","file_size":1066082,"success":1}],"external_id":{"isi":["000735765500001"]},"publication_status":"published","_id":"10602","publication_identifier":{"eissn":["1432-0525"],"issn":["0001-5903"]},"isi":1,"project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"year":"2022","month":"10","department":[{"_id":"KrCh"}],"article_type":"original","publication":"Acta Informatica","acknowledgement":"This work is partially funded by the German Research Foundation (DFG) projects Verified Model Checkers (No. 317422601) and Statistical Unbounded Verification (No. 383882557), and the Alexander von Humboldt Foundation with funds from the German Federal Ministry of Education and Research. It is an extended version of [21], including all proofs together with further explanations and examples. Moreover, we provide a new, more efficient construction based on (total) preorders, unifying previous optimizations. Experiments are performed with a new, performant implementation, comparing our approach to the current state of the art.","day":"01","volume":59,"has_accepted_license":"1","intvolume":"        59","date_published":"2022-10-01T00:00:00Z","doi":"10.1007/s00236-021-00412-y","file_date_updated":"2022-01-07T07:50:31Z","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 (via OA deal)","oa":1,"date_created":"2022-01-06T12:37:27Z","citation":{"ista":"Kretinsky J, Meggendorfer T, Waldmann C, Weininger M. 2022. Index appearance record with preorders. Acta Informatica. 59, 585–618.","ieee":"J. Kretinsky, T. Meggendorfer, C. Waldmann, and M. Weininger, “Index appearance record with preorders,” <i>Acta Informatica</i>, vol. 59. Springer Nature, pp. 585–618, 2022.","short":"J. Kretinsky, T. Meggendorfer, C. Waldmann, M. Weininger, Acta Informatica 59 (2022) 585–618.","ama":"Kretinsky J, Meggendorfer T, Waldmann C, Weininger M. Index appearance record with preorders. <i>Acta Informatica</i>. 2022;59:585-618. doi:<a href=\"https://doi.org/10.1007/s00236-021-00412-y\">10.1007/s00236-021-00412-y</a>","mla":"Kretinsky, Jan, et al. “Index Appearance Record with Preorders.” <i>Acta Informatica</i>, vol. 59, Springer Nature, 2022, pp. 585–618, doi:<a href=\"https://doi.org/10.1007/s00236-021-00412-y\">10.1007/s00236-021-00412-y</a>.","chicago":"Kretinsky, Jan, Tobias Meggendorfer, Clara Waldmann, and Maximilian Weininger. “Index Appearance Record with Preorders.” <i>Acta Informatica</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s00236-021-00412-y\">https://doi.org/10.1007/s00236-021-00412-y</a>.","apa":"Kretinsky, J., Meggendorfer, T., Waldmann, C., &#38; Weininger, M. (2022). Index appearance record with preorders. <i>Acta Informatica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00236-021-00412-y\">https://doi.org/10.1007/s00236-021-00412-y</a>"},"quality_controlled":"1","page":"585-618","title":"Index appearance record with preorders"},{"file_date_updated":"2022-07-29T06:59:10Z","doi":"10.1002/evl3.270","article_processing_charge":"No","publication":"Evolution Letters","acknowledgement":"We thank S. O'Neill, C. Simmons, and the World Mosquito Project for providing access to unpublished data. S. Ritchie provided valuable insights into Aedes aegypti biology and the literature describing A. aegypti populations near Cairns. We thank B. Cooper for help with the figures and D. Shropshire, S. O'Neill, S. Ritchie, A. Hoffmann, B. Cooper, and members of the Cooper lab for comments on an earlier draft. Comments from three reviewers greatly improved our presentation.","day":"01","volume":6,"date_published":"2022-02-01T00:00:00Z","intvolume":"         6","has_accepted_license":"1","page":"92-105","title":"Why did the Wolbachia transinfection cross the road? Drift, deterministic dynamics, and disease control","oa":1,"quality_controlled":"1","date_created":"2022-01-09T09:45:17Z","citation":{"ama":"Turelli M, Barton NH. Why did the Wolbachia transinfection cross the road? Drift, deterministic dynamics, and disease control. <i>Evolution Letters</i>. 2022;6(1):92-105. doi:<a href=\"https://doi.org/10.1002/evl3.270\">10.1002/evl3.270</a>","short":"M. Turelli, N.H. Barton, Evolution Letters 6 (2022) 92–105.","ista":"Turelli M, Barton NH. 2022. Why did the Wolbachia transinfection cross the road? Drift, deterministic dynamics, and disease control. Evolution Letters. 6(1), 92–105.","ieee":"M. Turelli and N. H. Barton, “Why did the Wolbachia transinfection cross the road? Drift, deterministic dynamics, and disease control,” <i>Evolution Letters</i>, vol. 6, no. 1. Wiley, pp. 92–105, 2022.","mla":"Turelli, Michael, and Nicholas H. Barton. “Why Did the Wolbachia Transinfection Cross the Road? Drift, Deterministic Dynamics, and Disease Control.” <i>Evolution Letters</i>, vol. 6, no. 1, Wiley, 2022, pp. 92–105, doi:<a href=\"https://doi.org/10.1002/evl3.270\">10.1002/evl3.270</a>.","apa":"Turelli, M., &#38; Barton, N. H. (2022). Why did the Wolbachia transinfection cross the road? Drift, deterministic dynamics, and disease control. <i>Evolution Letters</i>. Wiley. <a href=\"https://doi.org/10.1002/evl3.270\">https://doi.org/10.1002/evl3.270</a>","chicago":"Turelli, Michael, and Nicholas H Barton. “Why Did the Wolbachia Transinfection Cross the Road? Drift, Deterministic Dynamics, and Disease Control.” <i>Evolution Letters</i>. Wiley, 2022. <a href=\"https://doi.org/10.1002/evl3.270\">https://doi.org/10.1002/evl3.270</a>."},"status":"public","author":[{"last_name":"Turelli","full_name":"Turelli, Michael","first_name":"Michael"},{"first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"date_updated":"2023-08-02T13:50:09Z","related_material":{"record":[{"status":"public","relation":"research_data","id":"11686"}]},"keyword":["genetics","ecology","evolution","behavior and systematics"],"abstract":[{"lang":"eng","text":"Maternally inherited Wolbachia transinfections are being introduced into natural mosquito populations to reduce the transmission of dengue, Zika, and other arboviruses. Wolbachia-induced cytoplasmic incompatibility provides a frequency-dependent reproductive advantage to infected females that can spread transinfections within and among populations. However, because transinfections generally reduce host fitness, they tend to spread within populations only after their frequency exceeds a critical threshold. This produces bistability with stable equilibrium frequencies at both 0 and 1, analogous to the bistability produced by underdominance between alleles or karyotypes and by population dynamics under Allee effects. Here, we analyze how stochastic frequency variation produced by finite population size can facilitate the local spread of variants with bistable dynamics into areas where invasion is unexpected from deterministic models. Our exemplar is the establishment of wMel Wolbachia in the Aedes aegypti population of Pyramid Estates (PE), a small community in far north Queensland, Australia. In 2011, wMel was stably introduced into Gordonvale, separated from PE by barriers to A. aegypti dispersal. After nearly 6 years during which wMel was observed only at low frequencies in PE, corresponding to an apparent equilibrium between immigration and selection, wMel rose to fixation by 2018. Using analytic approximations and statistical analyses, we demonstrate that the observed fixation of wMel at PE is consistent with both stochastic transition past an unstable threshold frequency and deterministic transformation produced by steady immigration at a rate just above the threshold required for deterministic invasion. The indeterminacy results from a delicate balance of parameters needed to produce the delayed transition observed. Our analyses suggest that once Wolbachia transinfections are established locally through systematic introductions, stochastic “threshold crossing” is likely to only minimally enhance spatial spread, providing a local ratchet that slightly—but systematically—aids area-wide transformation of disease-vector populations in heterogeneous landscapes."}],"month":"02","year":"2022","publication_identifier":{"eissn":["2056-3744"]},"isi":1,"article_type":"original","department":[{"_id":"NiBa"}],"publisher":"Wiley","publication_status":"published","external_id":{"isi":["000754412600008"]},"_id":"10604","issue":"1","file":[{"file_name":"2022_EvolutionLetters_Turelli.pdf","creator":"dernst","file_id":"11689","relation":"main_file","content_type":"application/pdf","access_level":"open_access","date_updated":"2022-07-29T06:59:10Z","file_size":2435185,"checksum":"7e9a37e3b65b480cd7014a6a4a7e460a","success":1,"date_created":"2022-07-29T06:59:10Z"}],"type":"journal_article","ddc":["570"],"oa_version":"Published Version"},{"has_accepted_license":"1","intvolume":"        20","date_published":"2022-01-06T00:00:00Z","acknowledgement":"We thank the following for their contributions: Plasmids were supplied by the Drosophila Genomics Resource Center (NIH 2P40OD010949-10A1); fly stocks were provided by K. Brueckner, B. Stramer, M. Uhlirova, O. Schuldiner, the Bloomington Drosophila Stock Center (NIH P40OD018537) and the Vienna Drosophila Resource Center, FlyBase for essential genomic information, and the BDGP in situ database for data. For antibodies, we thank the Developmental Studies Hybridoma Bank, which was created by the Eunice Kennedy Shriver National Institute of Child Health and Human Development of the NIH and is maintained at the University of Iowa, as well as J. Zeitlinger for her generous gift of Dfos antibody. We thank the Vienna BioCenter Core Facilities for RNA sequencing and analysis and the Life Scientific Service Units at IST Austria for technical support and assistance with microscopy and FACS analysis. We thank C. P. Heisenberg, P. Martin, M. Sixt, and Siekhaus group members for discussions and T. Hurd, A. Ratheesh, and P. Rangan for comments on the manuscript.","day":"06","publication":"PLoS Biology","volume":20,"pmid":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"},"ec_funded":1,"article_processing_charge":"No","doi":"10.1371/journal.pbio.3001494","file_date_updated":"2022-01-12T13:50:04Z","acknowledged_ssus":[{"_id":"LifeSc"}],"citation":{"ista":"Belyaeva V, Wachner S, György A, Emtenani S, Gridchyn I, Akhmanova M, Linder M, Roblek M, Sibilia M, Siekhaus DE. 2022. Fos regulates macrophage infiltration against surrounding tissue resistance by a cortical actin-based mechanism in Drosophila. PLoS Biology. 20(1), e3001494.","ieee":"V. Belyaeva <i>et al.</i>, “Fos regulates macrophage infiltration against surrounding tissue resistance by a cortical actin-based mechanism in Drosophila,” <i>PLoS Biology</i>, vol. 20, no. 1. Public Library of Science, p. e3001494, 2022.","short":"V. Belyaeva, S. Wachner, A. György, S. Emtenani, I. Gridchyn, M. Akhmanova, M. Linder, M. Roblek, M. Sibilia, D.E. Siekhaus, PLoS Biology 20 (2022) e3001494.","ama":"Belyaeva V, Wachner S, György A, et al. Fos regulates macrophage infiltration against surrounding tissue resistance by a cortical actin-based mechanism in Drosophila. <i>PLoS Biology</i>. 2022;20(1):e3001494. doi:<a href=\"https://doi.org/10.1371/journal.pbio.3001494\">10.1371/journal.pbio.3001494</a>","mla":"Belyaeva, Vera, et al. “Fos Regulates Macrophage Infiltration against Surrounding Tissue Resistance by a Cortical Actin-Based Mechanism in Drosophila.” <i>PLoS Biology</i>, vol. 20, no. 1, Public Library of Science, 2022, p. e3001494, doi:<a href=\"https://doi.org/10.1371/journal.pbio.3001494\">10.1371/journal.pbio.3001494</a>.","chicago":"Belyaeva, Vera, Stephanie Wachner, Attila György, Shamsi Emtenani, Igor Gridchyn, Maria Akhmanova, M Linder, Marko Roblek, M Sibilia, and Daria E Siekhaus. “Fos Regulates Macrophage Infiltration against Surrounding Tissue Resistance by a Cortical Actin-Based Mechanism in Drosophila.” <i>PLoS Biology</i>. Public Library of Science, 2022. <a href=\"https://doi.org/10.1371/journal.pbio.3001494\">https://doi.org/10.1371/journal.pbio.3001494</a>.","apa":"Belyaeva, V., Wachner, S., György, A., Emtenani, S., Gridchyn, I., Akhmanova, M., … Siekhaus, D. E. (2022). Fos regulates macrophage infiltration against surrounding tissue resistance by a cortical actin-based mechanism in Drosophila. <i>PLoS Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pbio.3001494\">https://doi.org/10.1371/journal.pbio.3001494</a>"},"date_created":"2022-01-12T10:18:17Z","quality_controlled":"1","oa":1,"title":"Fos regulates macrophage infiltration against surrounding tissue resistance by a cortical actin-based mechanism in Drosophila","page":"e3001494","related_material":{"link":[{"relation":"earlier_version","url":"https://www.biorxiv.org/content/10.1101/2020.09.18.301481"},{"description":"News on the ISTA Website","relation":"press_release","url":"https://ista.ac.at/en/news/resisting-the-pressure/"}],"record":[{"id":"8557","status":"public","relation":"earlier_version"},{"id":"11193","relation":"dissertation_contains","status":"public"}]},"abstract":[{"lang":"eng","text":"The infiltration of immune cells into tissues underlies the establishment of tissue-resident macrophages and responses to infections and tumors. Yet the mechanisms immune cells utilize to negotiate tissue barriers in living organisms are not well understood, and a role for cortical actin has not been examined. Here, we find that the tissue invasion of Drosophila macrophages, also known as plasmatocytes or hemocytes, utilizes enhanced cortical F-actin levels stimulated by the Drosophila member of the fos proto oncogene transcription factor family (Dfos, Kayak). RNA sequencing analysis and live imaging show that Dfos enhances F-actin levels around the entire macrophage surface by increasing mRNA levels of the membrane spanning molecular scaffold tetraspanin TM4SF, and the actin cross-linking filamin Cheerio, which are themselves required for invasion. Both the filamin and the tetraspanin enhance the cortical activity of Rho1 and the formin Diaphanous and thus the assembly of cortical actin, which is a critical function since expressing a dominant active form of Diaphanous can rescue the Dfos macrophage invasion defect. In vivo imaging shows that Dfos enhances the efficiency of the initial phases of macrophage tissue entry. Genetic evidence argues that this Dfos-induced program in macrophages counteracts the constraint produced by the tension of surrounding tissues and buffers the properties of the macrophage nucleus from affecting tissue entry. We thus identify strengthening the cortical actin cytoskeleton through Dfos as a key process allowing efficient forward movement of an immune cell into surrounding tissues. "}],"scopus_import":"1","date_updated":"2024-03-25T23:30:15Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"status":"public","author":[{"last_name":"Belyaeva","full_name":"Belyaeva, Vera","first_name":"Vera","id":"47F080FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Wachner, Stephanie","last_name":"Wachner","id":"2A95E7B0-F248-11E8-B48F-1D18A9856A87","first_name":"Stephanie"},{"full_name":"György, Attila","last_name":"György","orcid":"0000-0002-1819-198X","id":"3BCEDBE0-F248-11E8-B48F-1D18A9856A87","first_name":"Attila"},{"first_name":"Shamsi","id":"49D32318-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6981-6938","last_name":"Emtenani","full_name":"Emtenani, Shamsi"},{"orcid":"0000-0002-1807-1929","full_name":"Gridchyn, Igor","last_name":"Gridchyn","first_name":"Igor","id":"4B60654C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Akhmanova","full_name":"Akhmanova, Maria","orcid":"0000-0003-1522-3162","id":"3425EC26-F248-11E8-B48F-1D18A9856A87","first_name":"Maria"},{"first_name":"M","last_name":"Linder","full_name":"Linder, M"},{"full_name":"Roblek, Marko","last_name":"Roblek","orcid":"0000-0001-9588-1389","id":"3047D808-F248-11E8-B48F-1D18A9856A87","first_name":"Marko"},{"first_name":"M","full_name":"Sibilia, M","last_name":"Sibilia"},{"orcid":"0000-0001-8323-8353","last_name":"Siekhaus","full_name":"Siekhaus, Daria E","first_name":"Daria E","id":"3D224B9E-F248-11E8-B48F-1D18A9856A87"}],"ddc":["570"],"oa_version":"Published Version","type":"journal_article","file":[{"file_name":"2022_PLOSBio_Belyaeva.pdf","relation":"main_file","creator":"cchlebak","file_id":"10615","date_updated":"2022-01-12T13:50:04Z","content_type":"application/pdf","access_level":"open_access","date_created":"2022-01-12T13:50:04Z","checksum":"f454212a5522a7818ba4b2892315c478","success":1,"file_size":5426932}],"external_id":{"pmid":["34990456"],"isi":["000971223700001"]},"publication_status":"published","_id":"10614","issue":"1","publisher":"Public Library of Science","department":[{"_id":"DaSi"},{"_id":"JoCs"}],"article_type":"original","publication_identifier":{"eissn":["1545-7885"],"issn":["1544-9173"]},"isi":1,"project":[{"grant_number":"P29638","name":"Drosophila TNFa´s Funktion in Immunzellen","call_identifier":"FWF","_id":"253B6E48-B435-11E9-9278-68D0E5697425"},{"_id":"26199CA4-B435-11E9-9278-68D0E5697425","name":"Tissue barrier penetration is crucial for immunity and metastasis","grant_number":"24800"},{"call_identifier":"FP7","name":"Investigating the role of transporters in invasive migration through junctions","_id":"2536F660-B435-11E9-9278-68D0E5697425","grant_number":"334077"}],"year":"2022","month":"01"},{"_id":"10623","issue":"1","publication_status":"published","external_id":{"arxiv":["2106.02015"],"isi":["000741387600001"]},"oa_version":"Published Version","file":[{"file_name":"2022_MathPhyAnalGeo_Henheik.pdf","file_id":"10624","creator":"cchlebak","relation":"main_file","access_level":"open_access","content_type":"application/pdf","date_updated":"2022-01-14T07:27:45Z","checksum":"d44f8123a52592a75b2c3b8ee2cd2435","success":1,"file_size":505804,"date_created":"2022-01-14T07:27:45Z"}],"type":"journal_article","ddc":["514"],"publisher":"Springer Nature","article_type":"original","department":[{"_id":"GradSch"},{"_id":"LaEr"}],"year":"2022","month":"01","project":[{"grant_number":"101020331","_id":"62796744-2b32-11ec-9570-940b20777f1d","call_identifier":"H2020","name":"Random matrices beyond Wigner-Dyson-Mehta"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"isi":1,"publication_identifier":{"issn":["1385-0172"],"eissn":["1572-9656"]},"scopus_import":"1","abstract":[{"text":"We investigate the BCS critical temperature Tc in the high-density limit and derive an asymptotic formula, which strongly depends on the behavior of the interaction potential V on the Fermi-surface. Our results include a rigorous confirmation for the behavior of Tc at high densities proposed by Langmann et al. (Phys Rev Lett 122:157001, 2019) and identify precise conditions under which superconducting domes arise in BCS theory.","lang":"eng"}],"keyword":["geometry and topology","mathematical physics"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"date_updated":"2023-08-02T13:51:52Z","author":[{"last_name":"Henheik","full_name":"Henheik, Sven Joscha","orcid":"0000-0003-1106-327X","first_name":"Sven Joscha","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb"}],"status":"public","quality_controlled":"1","arxiv":1,"date_created":"2022-01-13T15:40:53Z","citation":{"ama":"Henheik SJ. The BCS critical temperature at high density. <i>Mathematical Physics, Analysis and Geometry</i>. 2022;25(1). doi:<a href=\"https://doi.org/10.1007/s11040-021-09415-0\">10.1007/s11040-021-09415-0</a>","short":"S.J. Henheik, Mathematical Physics, Analysis and Geometry 25 (2022).","ista":"Henheik SJ. 2022. The BCS critical temperature at high density. Mathematical Physics, Analysis and Geometry. 25(1), 3.","ieee":"S. J. Henheik, “The BCS critical temperature at high density,” <i>Mathematical Physics, Analysis and Geometry</i>, vol. 25, no. 1. Springer Nature, 2022.","apa":"Henheik, S. J. (2022). The BCS critical temperature at high density. <i>Mathematical Physics, Analysis and Geometry</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11040-021-09415-0\">https://doi.org/10.1007/s11040-021-09415-0</a>","chicago":"Henheik, Sven Joscha. “The BCS Critical Temperature at High Density.” <i>Mathematical Physics, Analysis and Geometry</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s11040-021-09415-0\">https://doi.org/10.1007/s11040-021-09415-0</a>.","mla":"Henheik, Sven Joscha. “The BCS Critical Temperature at High Density.” <i>Mathematical Physics, Analysis and Geometry</i>, vol. 25, no. 1, 3, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1007/s11040-021-09415-0\">10.1007/s11040-021-09415-0</a>."},"article_number":"3","oa":1,"title":"The BCS critical temperature at high density","date_published":"2022-01-11T00:00:00Z","has_accepted_license":"1","intvolume":"        25","volume":25,"publication":"Mathematical Physics, Analysis and Geometry","acknowledgement":"I am very grateful to Robert Seiringer for his guidance during this project and for many valuable comments on an earlier version of the manuscript. Moreover, I would like to thank Asbjørn Bækgaard Lauritsen for many helpful discussions and comments, pointing out the reference [22] and for his involvement in a closely related joint project [13]. Finally, I am grateful to Christian Hainzl for valuable comments on an earlier version of the manuscript and Andreas Deuchert for interesting discussions.","day":"11","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":"2022-01-14T07:27:45Z","doi":"10.1007/s11040-021-09415-0"},{"publication_identifier":{"issn":["0022-538X"],"eissn":["1098-5514"]},"isi":1,"project":[{"call_identifier":"FWF","name":"Structural conservation and diversity in retroviral capsid","_id":"26736D6A-B435-11E9-9278-68D0E5697425","grant_number":"P31445"}],"month":"03","year":"2022","department":[{"_id":"FlSc"}],"article_type":"original","publisher":"American Society for Microbiology","type":"journal_article","oa_version":"Published Version","publication_status":"published","external_id":{"isi":["000779305000033"],"pmid":["35019710"]},"issue":"5","_id":"10639","status":"public","author":[{"last_name":"Windhaber","full_name":"Windhaber, Stefan","first_name":"Stefan"},{"full_name":"Xin, Qilin","last_name":"Xin","first_name":"Qilin"},{"first_name":"Zina M.","last_name":"Uckeley","full_name":"Uckeley, Zina M."},{"first_name":"Jana","full_name":"Koch, Jana","last_name":"Koch"},{"full_name":"Obr, Martin","last_name":"Obr","first_name":"Martin","id":"4741CA5A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Garnier","full_name":"Garnier, Céline","first_name":"Céline"},{"first_name":"Catherine","full_name":"Luengo-Guyonnot, Catherine","last_name":"Luengo-Guyonnot"},{"full_name":"Duboeuf, Maëva","last_name":"Duboeuf","first_name":"Maëva"},{"first_name":"Florian KM","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4790-8078","last_name":"Schur","full_name":"Schur, Florian KM"},{"full_name":"Lozach, Pierre-Yves","last_name":"Lozach","first_name":"Pierre-Yves"}],"date_updated":"2023-08-02T13:52:33Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","keyword":["virology","insect science","immunology","microbiology"],"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8906410"}],"abstract":[{"text":"With more than 80 members worldwide, the Orthobunyavirus genus in the Peribunyaviridae family is a large genus of enveloped RNA viruses, many of which are emerging pathogens in humans and livestock. How orthobunyaviruses (OBVs) penetrate and infect mammalian host cells remains poorly characterized. Here, we investigated the entry mechanisms of the OBV Germiston (GERV). Viral particles were visualized by cryo-electron microscopy and appeared roughly spherical with an average diameter of 98 nm. Labeling of the virus with fluorescent dyes did not adversely affect its infectivity and allowed the monitoring of single particles in fixed and live cells. Using this approach, we found that endocytic internalization of bound viruses was asynchronous and occurred within 30-40 min. The virus entered Rab5a+ early endosomes and, subsequently, late endosomal vacuoles containing Rab7a but not LAMP-1. Infectious entry did not require proteolytic cleavage, and endosomal acidification was sufficient and necessary for viral fusion. Acid-activated penetration began 15-25 min after initiation of virus internalization and relied on maturation of early endosomes to late endosomes. The optimal pH for viral membrane fusion was slightly below 6.0, and penetration was hampered when the potassium influx was abolished. Overall, our study provides real-time visualization of GERV entry into host cells and demonstrates the importance of late endosomal maturation in facilitating OBV penetration.","lang":"eng"}],"scopus_import":"1","title":"The Orthobunyavirus Germiston enters host cells from late endosomes","oa":1,"article_number":"e02146-21","date_created":"2022-01-18T10:04:18Z","acknowledged_ssus":[{"_id":"EM-Fac"}],"citation":{"ista":"Windhaber S, Xin Q, Uckeley ZM, Koch J, Obr M, Garnier C, Luengo-Guyonnot C, Duboeuf M, Schur FK, Lozach P-Y. 2022. The Orthobunyavirus Germiston enters host cells from late endosomes. Journal of Virology. 96(5), e02146-21.","short":"S. Windhaber, Q. Xin, Z.M. Uckeley, J. Koch, M. Obr, C. Garnier, C. Luengo-Guyonnot, M. Duboeuf, F.K. Schur, P.-Y. Lozach, Journal of Virology 96 (2022).","ieee":"S. Windhaber <i>et al.</i>, “The Orthobunyavirus Germiston enters host cells from late endosomes,” <i>Journal of Virology</i>, vol. 96, no. 5. American Society for Microbiology, 2022.","ama":"Windhaber S, Xin Q, Uckeley ZM, et al. The Orthobunyavirus Germiston enters host cells from late endosomes. <i>Journal of Virology</i>. 2022;96(5). doi:<a href=\"https://doi.org/10.1128/jvi.02146-21\">10.1128/jvi.02146-21</a>","mla":"Windhaber, Stefan, et al. “The Orthobunyavirus Germiston Enters Host Cells from Late Endosomes.” <i>Journal of Virology</i>, vol. 96, no. 5, e02146-21, American Society for Microbiology, 2022, doi:<a href=\"https://doi.org/10.1128/jvi.02146-21\">10.1128/jvi.02146-21</a>.","chicago":"Windhaber, Stefan, Qilin Xin, Zina M. Uckeley, Jana Koch, Martin Obr, Céline Garnier, Catherine Luengo-Guyonnot, Maëva Duboeuf, Florian KM Schur, and Pierre-Yves Lozach. “The Orthobunyavirus Germiston Enters Host Cells from Late Endosomes.” <i>Journal of Virology</i>. American Society for Microbiology, 2022. <a href=\"https://doi.org/10.1128/jvi.02146-21\">https://doi.org/10.1128/jvi.02146-21</a>.","apa":"Windhaber, S., Xin, Q., Uckeley, Z. M., Koch, J., Obr, M., Garnier, C., … Lozach, P.-Y. (2022). The Orthobunyavirus Germiston enters host cells from late endosomes. <i>Journal of Virology</i>. American Society for Microbiology. <a href=\"https://doi.org/10.1128/jvi.02146-21\">https://doi.org/10.1128/jvi.02146-21</a>"},"quality_controlled":"1","doi":"10.1128/jvi.02146-21","article_processing_charge":"No","publication":"Journal of Virology","acknowledgement":"This work  was  supported  by  INRAE  starter  funds, Project IDEXLYON  (University  of  Lyon) within  the  Programme  Investissements  d’Avenir  (ANR-16-IDEX-0005),  and  FINOVIAO14 (Fondation  pour  l’Université  de  Lyon),  all  to  P.Y.L.  This  work  was  also  supported  by CellNetworks  Research  Group  funds  and  Deutsche  Forschungsgemeinschaft  (DFG)  funding (grant  numbers  LO-2338/1-1  and  LO-2338/3-1)  awarded  to  P.Y.L., Austrian  Science  Fund (FWF)  grant  P31445  to  F.K.M.S., a  Chinese  Scholarship  Council (CSC;no.  201904910701) fellowship  to   Q.X.,  and  a  ministére  de  l’enseignement  supérieur,  de  la  recherche  et  de l’innovation (MESRI) doctoral thesis grant to M.D.","day":"01","volume":96,"pmid":1,"intvolume":"        96","date_published":"2022-03-01T00:00:00Z"},{"status":"public","author":[{"first_name":"Sven Joscha","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","orcid":"0000-0003-1106-327X","full_name":"Henheik, Sven Joscha","last_name":"Henheik"},{"full_name":"Teufel, Stefan","last_name":"Teufel","first_name":"Stefan"},{"first_name":"Tom","last_name":"Wessel","full_name":"Wessel, Tom"}],"keyword":["mathematical physics","statistical and nonlinear physics"],"abstract":[{"lang":"eng","text":"Based on a result by Yarotsky (J Stat Phys 118, 2005), we prove that localized but otherwise arbitrary perturbations of weakly interacting quantum spin systems with uniformly gapped on-site terms change the ground state of such a system only locally, even if they close the spectral gap. We call this a strong version of the local perturbations perturb locally (LPPL) principle which is known to hold for much more general gapped systems, but only for perturbations that do not close the spectral gap of the Hamiltonian. We also extend this strong LPPL-principle to Hamiltonians that have the appropriate structure of gapped on-site terms and weak interactions only locally in some region of space. While our results are technically corollaries to a theorem of Yarotsky, we expect that the paradigm of systems with a locally gapped ground state that is completely insensitive to the form of the Hamiltonian elsewhere extends to other situations and has important physical consequences."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"date_updated":"2023-08-02T13:57:02Z","article_type":"original","department":[{"_id":"GradSch"},{"_id":"LaEr"}],"project":[{"grant_number":"101020331","_id":"62796744-2b32-11ec-9570-940b20777f1d","name":"Random matrices beyond Wigner-Dyson-Mehta","call_identifier":"H2020"}],"month":"01","year":"2022","publication_identifier":{"issn":["0377-9017"],"eissn":["1573-0530"]},"isi":1,"publication_status":"published","external_id":{"isi":["000744930400001"],"arxiv":["2106.13780"]},"issue":"1","_id":"10642","file":[{"date_updated":"2022-01-19T09:41:14Z","access_level":"open_access","content_type":"application/pdf","date_created":"2022-01-19T09:41:14Z","file_size":357547,"success":1,"checksum":"7e8e69b76e892c305071a4736131fe18","file_name":"2022_LettersMathPhys_Henheik.pdf","relation":"main_file","file_id":"10647","creator":"cchlebak"}],"type":"journal_article","oa_version":"Published Version","ddc":["530"],"publisher":"Springer Nature","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"},"ec_funded":1,"article_processing_charge":"No","file_date_updated":"2022-01-19T09:41:14Z","doi":"10.1007/s11005-021-01494-y","date_published":"2022-01-18T00:00:00Z","has_accepted_license":"1","intvolume":"       112","publication":"Letters in Mathematical Physics","day":"18","acknowledgement":"J. H. acknowledges partial financial support by the ERC Advanced Grant “RMTBeyond” No. 101020331. S. T. thanks Marius Lemm and Simone Warzel for very helpful comments and discussions and Jürg Fröhlich for references to the literature. Open Access funding enabled and organized by Projekt DEAL.","volume":112,"title":"Local stability of ground states in locally gapped and weakly interacting quantum spin systems","quality_controlled":"1","arxiv":1,"citation":{"ista":"Henheik SJ, Teufel S, Wessel T. 2022. Local stability of ground states in locally gapped and weakly interacting quantum spin systems. Letters in Mathematical Physics. 112(1), 9.","short":"S.J. Henheik, S. Teufel, T. Wessel, Letters in Mathematical Physics 112 (2022).","ieee":"S. J. Henheik, S. Teufel, and T. Wessel, “Local stability of ground states in locally gapped and weakly interacting quantum spin systems,” <i>Letters in Mathematical Physics</i>, vol. 112, no. 1. Springer Nature, 2022.","ama":"Henheik SJ, Teufel S, Wessel T. Local stability of ground states in locally gapped and weakly interacting quantum spin systems. <i>Letters in Mathematical Physics</i>. 2022;112(1). doi:<a href=\"https://doi.org/10.1007/s11005-021-01494-y\">10.1007/s11005-021-01494-y</a>","chicago":"Henheik, Sven Joscha, Stefan Teufel, and Tom Wessel. “Local Stability of Ground States in Locally Gapped and Weakly Interacting Quantum Spin Systems.” <i>Letters in Mathematical Physics</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s11005-021-01494-y\">https://doi.org/10.1007/s11005-021-01494-y</a>.","apa":"Henheik, S. J., Teufel, S., &#38; Wessel, T. (2022). Local stability of ground states in locally gapped and weakly interacting quantum spin systems. <i>Letters in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11005-021-01494-y\">https://doi.org/10.1007/s11005-021-01494-y</a>","mla":"Henheik, Sven Joscha, et al. “Local Stability of Ground States in Locally Gapped and Weakly Interacting Quantum Spin Systems.” <i>Letters in Mathematical Physics</i>, vol. 112, no. 1, 9, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1007/s11005-021-01494-y\">10.1007/s11005-021-01494-y</a>."},"date_created":"2022-01-18T16:18:25Z","oa":1,"article_number":"9"},{"volume":10,"day":"18","publication":"Forum of Mathematics, Sigma","acknowledgement":"J.H. acknowledges partial financial support by the ERC Advanced Grant ‘RMTBeyond’ No. 101020331. Support for publication costs from the Deutsche Forschungsgemeinschaft and the Open Access Publishing Fund of the University of Tübingen is gratefully acknowledged.","intvolume":"        10","has_accepted_license":"1","date_published":"2022-01-18T00:00:00Z","doi":"10.1017/fms.2021.80","file_date_updated":"2022-01-19T09:27:43Z","article_processing_charge":"Yes","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"},"article_number":"e4","oa":1,"citation":{"ieee":"S. J. Henheik and S. Teufel, “Adiabatic theorem in the thermodynamic limit: Systems with a gap in the bulk,” <i>Forum of Mathematics, Sigma</i>, vol. 10. Cambridge University Press, 2022.","short":"S.J. Henheik, S. Teufel, Forum of Mathematics, Sigma 10 (2022).","ista":"Henheik SJ, Teufel S. 2022. Adiabatic theorem in the thermodynamic limit: Systems with a gap in the bulk. Forum of Mathematics, Sigma. 10, e4.","ama":"Henheik SJ, Teufel S. Adiabatic theorem in the thermodynamic limit: Systems with a gap in the bulk. <i>Forum of Mathematics, Sigma</i>. 2022;10. doi:<a href=\"https://doi.org/10.1017/fms.2021.80\">10.1017/fms.2021.80</a>","mla":"Henheik, Sven Joscha, and Stefan Teufel. “Adiabatic Theorem in the Thermodynamic Limit: Systems with a Gap in the Bulk.” <i>Forum of Mathematics, Sigma</i>, vol. 10, e4, Cambridge University Press, 2022, doi:<a href=\"https://doi.org/10.1017/fms.2021.80\">10.1017/fms.2021.80</a>.","chicago":"Henheik, Sven Joscha, and Stefan Teufel. “Adiabatic Theorem in the Thermodynamic Limit: Systems with a Gap in the Bulk.” <i>Forum of Mathematics, Sigma</i>. Cambridge University Press, 2022. <a href=\"https://doi.org/10.1017/fms.2021.80\">https://doi.org/10.1017/fms.2021.80</a>.","apa":"Henheik, S. J., &#38; Teufel, S. (2022). Adiabatic theorem in the thermodynamic limit: Systems with a gap in the bulk. <i>Forum of Mathematics, Sigma</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/fms.2021.80\">https://doi.org/10.1017/fms.2021.80</a>"},"date_created":"2022-01-18T16:18:51Z","quality_controlled":"1","arxiv":1,"title":"Adiabatic theorem in the thermodynamic limit: Systems with a gap in the bulk","date_updated":"2023-08-02T13:53:11Z","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"lang":"eng","text":"We prove a generalised super-adiabatic theorem for extended fermionic systems assuming a spectral gap only in the bulk. More precisely, we assume that the infinite system has a unique ground state and that the corresponding Gelfand–Naimark–Segal Hamiltonian has a spectral gap above its eigenvalue zero. Moreover, we show that a similar adiabatic theorem also holds in the bulk of finite systems up to errors that vanish faster than any inverse power of the system size, although the corresponding finite-volume Hamiltonians need not have a spectral gap.\r\n\r\n"}],"keyword":["computational mathematics","discrete mathematics and combinatorics","geometry and topology","mathematical physics","statistics and probability","algebra and number theory","theoretical computer science","analysis"],"author":[{"orcid":"0000-0003-1106-327X","full_name":"Henheik, Sven Joscha","last_name":"Henheik","first_name":"Sven Joscha","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb"},{"first_name":"Stefan","last_name":"Teufel","full_name":"Teufel, Stefan"}],"status":"public","publisher":"Cambridge University Press","type":"journal_article","file":[{"date_created":"2022-01-19T09:27:43Z","success":1,"checksum":"87592a755adcef22ea590a99dc728dd3","file_size":705323,"date_updated":"2022-01-19T09:27:43Z","content_type":"application/pdf","access_level":"open_access","relation":"main_file","creator":"cchlebak","file_id":"10646","file_name":"2022_ForumMathSigma_Henheik.pdf"}],"ddc":["510"],"oa_version":"Published Version","_id":"10643","publication_status":"published","external_id":{"arxiv":["2012.15239"],"isi":["000743615000001"]},"isi":1,"publication_identifier":{"eissn":["2050-5094"]},"month":"01","year":"2022","project":[{"name":"Random matrices beyond Wigner-Dyson-Mehta","call_identifier":"H2020","_id":"62796744-2b32-11ec-9570-940b20777f1d","grant_number":"101020331"}],"department":[{"_id":"GradSch"},{"_id":"LaEr"}],"article_type":"original"},{"doi":"10.1103/PhysRevResearch.4.013023","file_date_updated":"2022-01-24T11:12:44Z","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 (via OA deal)","day":"10","acknowledgement":"O.H. is supported by Institute of Science and Technology Austria. The author thanks Jess Riedel for discussions.","publication":"Physical Review Research","volume":4,"has_accepted_license":"1","intvolume":"         4","date_published":"2022-01-10T00:00:00Z","title":"Constraints on probing quantum coherence to infer gravitational entanglement","oa":1,"article_number":"013023","date_created":"2022-01-23T23:01:27Z","citation":{"short":"O. Hosten, Physical Review Research 4 (2022).","ieee":"O. Hosten, “Constraints on probing quantum coherence to infer gravitational entanglement,” <i>Physical Review Research</i>, vol. 4, no. 1. American Physical Society, 2022.","ista":"Hosten O. 2022. Constraints on probing quantum coherence to infer gravitational entanglement. Physical Review Research. 4(1), 013023.","ama":"Hosten O. Constraints on probing quantum coherence to infer gravitational entanglement. <i>Physical Review Research</i>. 2022;4(1). doi:<a href=\"https://doi.org/10.1103/PhysRevResearch.4.013023\">10.1103/PhysRevResearch.4.013023</a>","mla":"Hosten, Onur. “Constraints on Probing Quantum Coherence to Infer Gravitational Entanglement.” <i>Physical Review Research</i>, vol. 4, no. 1, 013023, American Physical Society, 2022, doi:<a href=\"https://doi.org/10.1103/PhysRevResearch.4.013023\">10.1103/PhysRevResearch.4.013023</a>.","chicago":"Hosten, Onur. “Constraints on Probing Quantum Coherence to Infer Gravitational Entanglement.” <i>Physical Review Research</i>. American Physical Society, 2022. <a href=\"https://doi.org/10.1103/PhysRevResearch.4.013023\">https://doi.org/10.1103/PhysRevResearch.4.013023</a>.","apa":"Hosten, O. (2022). Constraints on probing quantum coherence to infer gravitational entanglement. <i>Physical Review Research</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevResearch.4.013023\">https://doi.org/10.1103/PhysRevResearch.4.013023</a>"},"quality_controlled":"1","status":"public","author":[{"id":"4C02D85E-F248-11E8-B48F-1D18A9856A87","first_name":"Onur","full_name":"Hosten, Onur","last_name":"Hosten","orcid":"0000-0002-2031-204X"}],"date_updated":"2022-05-16T11:21:38Z","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Finding a feasible scheme for testing the quantum mechanical nature of the gravitational interaction has been attracting an increasing level of attention. Gravity mediated entanglement generation so far appears to be the key ingredient for a potential experiment. In a recent proposal [D. Carney et al., PRX Quantum 2, 030330 (2021)] combining an atom interferometer with a low-frequency mechanical oscillator, a coherence revival test is proposed for verifying this entanglement generation. With measurements performed only on the atoms, this protocol bypasses the need for correlation measurements. Here, we explore formulations of such a protocol, and specifically find that in the envisioned regime of operation with high thermal excitation, semiclassical models, where there is no concept of entanglement, also give the same experimental signatures. We elucidate in a fully quantum mechanical calculation that entanglement is not the source of the revivals in the relevant parameter regime. We argue that, in its current form, the suggested test is only relevant if the oscillator is nearly in a pure quantum state, and in this regime the effects are too small to be measurable. We further discuss potential open ends. The results highlight the importance and subtleties of explicitly considering how the quantum case differs from the classical expectations when testing for the quantum mechanical nature of a physical system."}],"scopus_import":"1","publication_identifier":{"issn":["2643-1564"]},"year":"2022","month":"01","department":[{"_id":"OnHo"}],"article_type":"original","publisher":"American Physical Society","oa_version":"Published Version","file":[{"creator":"cchlebak","file_id":"10660","relation":"main_file","file_name":"2022_PhysRevResearch_Hosten.pdf","success":1,"checksum":"7254d267a0633ca5d63131d345e58686","file_size":236329,"date_created":"2022-01-24T11:12:44Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2022-01-24T11:12:44Z"}],"type":"journal_article","ddc":["530"],"publication_status":"published","issue":"1","_id":"10652"},{"citation":{"ama":"Abramian S, Muller CJ, Risi C. Shear-convection interactions and orientation of tropical squall lines. <i>Geophysical Research Letters</i>. 2022;49(1). doi:<a href=\"https://doi.org/10.1029/2021GL095184\">10.1029/2021GL095184</a>","ieee":"S. Abramian, C. J. Muller, and C. Risi, “Shear-convection interactions and orientation of tropical squall lines,” <i>Geophysical Research Letters</i>, vol. 49, no. 1. Wiley, 2022.","short":"S. Abramian, C.J. Muller, C. Risi, Geophysical Research Letters 49 (2022).","ista":"Abramian S, Muller CJ, Risi C. 2022. Shear-convection interactions and orientation of tropical squall lines. Geophysical Research Letters. 49(1), e2021GL095184.","mla":"Abramian, Sophie, et al. “Shear-Convection Interactions and Orientation of Tropical Squall Lines.” <i>Geophysical Research Letters</i>, vol. 49, no. 1, e2021GL095184, Wiley, 2022, doi:<a href=\"https://doi.org/10.1029/2021GL095184\">10.1029/2021GL095184</a>.","apa":"Abramian, S., Muller, C. J., &#38; Risi, C. (2022). Shear-convection interactions and orientation of tropical squall lines. <i>Geophysical Research Letters</i>. Wiley. <a href=\"https://doi.org/10.1029/2021GL095184\">https://doi.org/10.1029/2021GL095184</a>","chicago":"Abramian, Sophie, Caroline J Muller, and Camille Risi. “Shear-Convection Interactions and Orientation of Tropical Squall Lines.” <i>Geophysical Research Letters</i>. Wiley, 2022. <a href=\"https://doi.org/10.1029/2021GL095184\">https://doi.org/10.1029/2021GL095184</a>."},"date_created":"2022-01-23T23:01:27Z","quality_controlled":"1","oa":1,"article_number":"e2021GL095184","title":"Shear-convection interactions and orientation of tropical squall lines","intvolume":"        49","has_accepted_license":"1","date_published":"2022-01-16T00:00:00Z","day":"16","publication":"Geophysical Research Letters","acknowledgement":"The authors gratefully acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (Project CLUSTER, Grant Agreement No. 805041), and from the PhD fellowship of Ecole Normale Supérieure de Paris-Saclay. Two supplementary movies are also provided showing the angle detection method and the squall line of the Usfc = 10 m s−1 simulation.","volume":49,"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":"No","ec_funded":1,"doi":"10.1029/2021GL095184","file_date_updated":"2022-01-24T12:14:41Z","type":"journal_article","ddc":["550"],"oa_version":"Published Version","file":[{"content_type":"application/pdf","access_level":"open_access","date_updated":"2022-01-24T12:14:41Z","file_size":1117408,"checksum":"08f88b57b8e409b42e382452cd5f297b","success":1,"date_created":"2022-01-24T12:14:41Z","file_name":"2022_GeophysResearchLet_Abramian.pdf","creator":"cchlebak","file_id":"10662","relation":"main_file"}],"external_id":{"isi":["000743989800040"]},"publication_status":"published","_id":"10653","issue":"1","publisher":"Wiley","department":[{"_id":"CaMu"}],"article_type":"original","publication_identifier":{"issn":["0094-8276"],"eissn":["1944-8007"]},"isi":1,"project":[{"_id":"629205d8-2b32-11ec-9570-e1356ff73576","call_identifier":"H2020","name":"organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate","grant_number":"805041"}],"year":"2022","month":"01","related_material":{"link":[{"relation":"earlier_version","url":"https://doi.org/10.1002/essoar.10507697.1"}]},"abstract":[{"text":"Squall lines are known to be the consequence of the interaction of low-level shear with cold pools associated with convective downdrafts. Also, as the magnitude of the shear increases beyond a critical shear, squall lines tend to orient themselves. The existing literature suggests that this orientation reduces incoming wind shear to the squall line, and maintains equilibrium between wind shear and cold pool spreading. Although this theory is widely accepted, very few quantitative studies have been conducted on supercritical regime especially. Here, we test this hypothesis with tropical squall lines obtained by imposing a vertical wind shear in cloud resolving simulations in radiative convective equilibrium. In the sub-critical regime, squall lines are perpendicular to the shear. In the super-critical regime, their orientation maintain the equilibrium, supporting existing theories. We also find that as shear increases, cold pools become more intense. However, this intensification has little impact on squall line orientation.","lang":"eng"}],"scopus_import":"1","date_updated":"2023-08-02T14:00:17Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"status":"public","author":[{"full_name":"Abramian, Sophie","last_name":"Abramian","first_name":"Sophie"},{"orcid":"0000-0001-5836-5350","full_name":"Muller, Caroline J","last_name":"Muller","first_name":"Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b"},{"full_name":"Risi, Camille","last_name":"Risi","first_name":"Camille"}]},{"article_type":"original","department":[{"_id":"BjHo"}],"month":"01","year":"2022","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"_id":"25152F3A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Decoding the complexity of turbulence at its origin","grant_number":"306589"},{"_id":"238598C6-32DE-11EA-91FC-C7463DDC885E","name":"Revisiting the Turbulence Problem Using Statistical Mechanics: Experimental Studies on Transitional and Turbulent Flows","grant_number":"662960"}],"isi":1,"publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"issue":"1","_id":"10654","publication_status":"published","external_id":{"arxiv":["2111.14894"],"pmid":["35061458"],"isi":["000748271700010"]},"type":"journal_article","oa_version":"Preprint","publisher":"American Physical Society","author":[{"first_name":"Lukasz","id":"2C9AF1C2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1740-7635","last_name":"Klotz","full_name":"Klotz, Lukasz"},{"last_name":"Lemoult","full_name":"Lemoult, Grégoire M","first_name":"Grégoire M","id":"4787FE80-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Avila, Kerstin","last_name":"Avila","first_name":"Kerstin"},{"last_name":"Hof","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn"}],"status":"public","scopus_import":"1","abstract":[{"text":"Directed percolation (DP) has recently emerged as a possible solution to the century old puzzle surrounding the transition to turbulence. Multiple model studies reported DP exponents, however, experimental evidence is limited since the largest possible observation times are orders of magnitude shorter than the flows’ characteristic timescales. An exception is cylindrical Couette flow where the limit is not temporal, but rather the realizable system size. We present experiments in a Couette setup of unprecedented azimuthal and axial aspect ratios. Approaching the critical point to within less than 0.1% we determine five critical exponents, all of which are in excellent agreement with the 2+1D DP universality class. The complex dynamics encountered at \r\nthe onset of turbulence can hence be fully rationalized within the framework of statistical mechanics.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/2111.14894"}],"language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-08-02T13:59:19Z","title":"Phase transition to turbulence in spatially extended shear flows","arxiv":1,"quality_controlled":"1","date_created":"2022-01-23T23:01:28Z","citation":{"apa":"Klotz, L., Lemoult, G. M., Avila, K., &#38; Hof, B. (2022). Phase transition to turbulence in spatially extended shear flows. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.128.014502\">https://doi.org/10.1103/PhysRevLett.128.014502</a>","chicago":"Klotz, Lukasz, Grégoire M Lemoult, Kerstin Avila, and Björn Hof. “Phase Transition to Turbulence in Spatially Extended Shear Flows.” <i>Physical Review Letters</i>. American Physical Society, 2022. <a href=\"https://doi.org/10.1103/PhysRevLett.128.014502\">https://doi.org/10.1103/PhysRevLett.128.014502</a>.","mla":"Klotz, Lukasz, et al. “Phase Transition to Turbulence in Spatially Extended Shear Flows.” <i>Physical Review Letters</i>, vol. 128, no. 1, 014502, American Physical Society, 2022, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.128.014502\">10.1103/PhysRevLett.128.014502</a>.","ama":"Klotz L, Lemoult GM, Avila K, Hof B. Phase transition to turbulence in spatially extended shear flows. <i>Physical Review Letters</i>. 2022;128(1). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.128.014502\">10.1103/PhysRevLett.128.014502</a>","ieee":"L. Klotz, G. M. Lemoult, K. Avila, and B. Hof, “Phase transition to turbulence in spatially extended shear flows,” <i>Physical Review Letters</i>, vol. 128, no. 1. American Physical Society, 2022.","short":"L. Klotz, G.M. Lemoult, K. Avila, B. Hof, Physical Review Letters 128 (2022).","ista":"Klotz L, Lemoult GM, Avila K, Hof B. 2022. Phase transition to turbulence in spatially extended shear flows. Physical Review Letters. 128(1), 014502."},"acknowledged_ssus":[{"_id":"M-Shop"}],"article_number":"014502","oa":1,"article_processing_charge":"No","ec_funded":1,"doi":"10.1103/PhysRevLett.128.014502","date_published":"2022-01-05T00:00:00Z","intvolume":"       128","pmid":1,"volume":128,"day":"05","acknowledgement":"We thank T.Menner, T.Asenov, P. Maier and the Miba machine shop of IST Austria for their valuable support in all technical aspects. We thank Marc Avila for comments on the manuscript. This work was supported by a grant from the Simons Foundation (662960, B.H.). We acknowledge the European Research Council under the European Union’s Seventh Framework Programme (FP/2007-2013)/ERC Grant Agreement 306589 for financial support. K.A.\r\nacknowledges funding from the Central Research Development Fund of the University of Bremen, grant number ZF04B /2019/FB04 Avila Kerstin (”Independent Project for Postdocs”). L.K. was supported by the European Union’s Horizon 2020 Research and innovation programme under the Marie Sklodowska-Curie grant agreement  No. 754411.\r\n","publication":"Physical Review Letters"},{"article_processing_charge":"No","doi":"10.1007/978-3-031-19803-8_21","date_published":"2022-10-23T00:00:00Z","intvolume":"     13681","volume":13681,"day":"23","publication":"Computer Vision – ECCV 2022","title":"Almost-orthogonal layers for efficient general-purpose Lipschitz networks","page":"350-365","conference":{"start_date":"2022-10-23","name":"ECCV: European Conference on Computer Vision","location":"Tel Aviv, Israel","end_date":"2022-10-27"},"quality_controlled":"1","arxiv":1,"date_created":"2022-08-12T15:09:47Z","citation":{"mla":"Prach, Bernd, and Christoph Lampert. “Almost-Orthogonal Layers for Efficient General-Purpose Lipschitz Networks.” <i>Computer Vision – ECCV 2022</i>, vol. 13681, Springer Nature, 2022, pp. 350–65, doi:<a href=\"https://doi.org/10.1007/978-3-031-19803-8_21\">10.1007/978-3-031-19803-8_21</a>.","apa":"Prach, B., &#38; Lampert, C. (2022). Almost-orthogonal layers for efficient general-purpose Lipschitz networks. In <i>Computer Vision – ECCV 2022</i> (Vol. 13681, pp. 350–365). Tel Aviv, Israel: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-031-19803-8_21\">https://doi.org/10.1007/978-3-031-19803-8_21</a>","chicago":"Prach, Bernd, and Christoph Lampert. “Almost-Orthogonal Layers for Efficient General-Purpose Lipschitz Networks.” In <i>Computer Vision – ECCV 2022</i>, 13681:350–65. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/978-3-031-19803-8_21\">https://doi.org/10.1007/978-3-031-19803-8_21</a>.","ama":"Prach B, Lampert C. Almost-orthogonal layers for efficient general-purpose Lipschitz networks. In: <i>Computer Vision – ECCV 2022</i>. Vol 13681. Springer Nature; 2022:350-365. doi:<a href=\"https://doi.org/10.1007/978-3-031-19803-8_21\">10.1007/978-3-031-19803-8_21</a>","short":"B. Prach, C. Lampert, in:, Computer Vision – ECCV 2022, Springer Nature, 2022, pp. 350–365.","ista":"Prach B, Lampert C. 2022. Almost-orthogonal layers for efficient general-purpose Lipschitz networks. Computer Vision – ECCV 2022. ECCV: European Conference on Computer Vision, LNCS, vol. 13681, 350–365.","ieee":"B. Prach and C. Lampert, “Almost-orthogonal layers for efficient general-purpose Lipschitz networks,” in <i>Computer Vision – ECCV 2022</i>, Tel Aviv, Israel, 2022, vol. 13681, pp. 350–365."},"oa":1,"author":[{"first_name":"Bernd","id":"2D561D42-C427-11E9-89B4-9C1AE6697425","full_name":"Prach, Bernd","last_name":"Prach"},{"id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph","orcid":"0000-0001-8622-7887","last_name":"Lampert","full_name":"Lampert, Christoph"}],"status":"public","scopus_import":"1","abstract":[{"lang":"eng","text":"It is a highly desirable property for deep networks to be robust against\r\nsmall input changes. One popular way to achieve this property is by designing\r\nnetworks with a small Lipschitz constant. In this work, we propose a new\r\ntechnique for constructing such Lipschitz networks that has a number of\r\ndesirable properties: it can be applied to any linear network layer\r\n(fully-connected or convolutional), it provides formal guarantees on the\r\nLipschitz constant, it is easy to implement and efficient to run, and it can be\r\ncombined with any training objective and optimization method. In fact, our\r\ntechnique is the first one in the literature that achieves all of these\r\nproperties simultaneously. Our main contribution is a rescaling-based weight\r\nmatrix parametrization that guarantees each network layer to have a Lipschitz\r\nconstant of at most 1 and results in the learned weight matrices to be close to\r\northogonal. Hence we call such layers almost-orthogonal Lipschitz (AOL).\r\nExperiments and ablation studies in the context of image classification with\r\ncertified robust accuracy confirm that AOL layers achieve results that are on\r\npar with most existing methods. Yet, they are simpler to implement and more\r\nbroadly applicable, because they do not require computationally expensive\r\nmatrix orthogonalization or inversion steps as part of the network\r\narchitecture. We provide code at https://github.com/berndprach/AOL."}],"main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2208.03160","open_access":"1"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"date_updated":"2023-05-03T08:00:46Z","department":[{"_id":"GradSch"},{"_id":"ChLa"}],"year":"2022","month":"10","publication_identifier":{"isbn":["9783031198021"],"eisbn":["9783031198038"]},"_id":"11839","external_id":{"arxiv":["2208.03160"]},"alternative_title":["LNCS"],"publication_status":"published","oa_version":"Preprint","type":"conference","publisher":"Springer Nature"},{"citation":{"ista":"Toprakcioglu Z, Kamada A, Michaels TCT, Xie M, Krausser J, Wei J, Šarić A, Vendruscolo M, Knowles TPJ. 2022. Adsorption free energy predicts amyloid protein nucleation rates. Proceedings of the National Academy of Sciences of the United States of America. 119(31), e2109718119.","short":"Z. Toprakcioglu, A. Kamada, T.C.T. Michaels, M. Xie, J. Krausser, J. Wei, A. Šarić, M. Vendruscolo, T.P.J. Knowles, Proceedings of the National Academy of Sciences of the United States of America 119 (2022).","ieee":"Z. Toprakcioglu <i>et al.</i>, “Adsorption free energy predicts amyloid protein nucleation rates,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 119, no. 31. Proceedings of the National Academy of Sciences, 2022.","ama":"Toprakcioglu Z, Kamada A, Michaels TCT, et al. Adsorption free energy predicts amyloid protein nucleation rates. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2022;119(31). doi:<a href=\"https://doi.org/10.1073/pnas.2109718119\">10.1073/pnas.2109718119</a>","chicago":"Toprakcioglu, Zenon, Ayaka Kamada, Thomas C.T. Michaels, Mengqi Xie, Johannes Krausser, Jiapeng Wei, Anđela Šarić, Michele Vendruscolo, and Tuomas P.J. Knowles. “Adsorption Free Energy Predicts Amyloid Protein Nucleation Rates.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences, 2022. <a href=\"https://doi.org/10.1073/pnas.2109718119\">https://doi.org/10.1073/pnas.2109718119</a>.","apa":"Toprakcioglu, Z., Kamada, A., Michaels, T. C. T., Xie, M., Krausser, J., Wei, J., … Knowles, T. P. J. (2022). Adsorption free energy predicts amyloid protein nucleation rates. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2109718119\">https://doi.org/10.1073/pnas.2109718119</a>","mla":"Toprakcioglu, Zenon, et al. “Adsorption Free Energy Predicts Amyloid Protein Nucleation Rates.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 119, no. 31, e2109718119, Proceedings of the National Academy of Sciences, 2022, doi:<a href=\"https://doi.org/10.1073/pnas.2109718119\">10.1073/pnas.2109718119</a>."},"date_created":"2022-08-14T22:01:45Z","quality_controlled":"1","article_number":"e2109718119","oa":1,"title":"Adsorption free energy predicts amyloid protein nucleation rates","has_accepted_license":"1","intvolume":"       119","date_published":"2022-07-28T00:00:00Z","volume":119,"publication":"Proceedings of the National Academy of Sciences of the United States of America","day":"28","acknowledgement":"The research leading to these results has received funding from the European Research Council (ERC) under the European Union’s Seventh Framework Programme (FP7/2007-2013) through the ERC grant PhysProt\r\n(agreement 337969). We are grateful for financial support from the Biotechnology and Biological Sciences Research Council (BBSRC) (T.P.J.K.), the Newman\r\nFoundation (T.P.J.K.), the Wellcome Trust (T.P.J.K. and M.V.), Peterhouse College\r\nCambridge (T.C.T.M.), the ERC Starting Grant (StG) Non-Equilibrium Protein Assembly (NEPA) (A.S.), the Royal Society (A.S.), the Academy of Medical Sciences\r\n(A.S. and J.K.), and the Cambridge Centre for Misfolding Diseases (CMD).","article_processing_charge":"No","ec_funded":1,"tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"doi":"10.1073/pnas.2109718119","file_date_updated":"2023-10-04T09:05:44Z","oa_version":"Published Version","type":"journal_article","ddc":["570"],"file":[{"file_name":"2022_PNAS_Toprakcioglu.pdf","relation":"main_file","file_id":"14386","creator":"dernst","date_updated":"2023-10-04T09:05:44Z","access_level":"open_access","content_type":"application/pdf","date_created":"2023-10-04T09:05:44Z","file_size":2476021,"checksum":"0fe3878896cbeb6c44e29222ec2f336a","success":1}],"issue":"31","_id":"11841","external_id":{"isi":["000903753500002"]},"publication_status":"published","publisher":"Proceedings of the National Academy of Sciences","department":[{"_id":"AnSa"}],"article_type":"original","isi":1,"publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"07","year":"2022","project":[{"grant_number":"802960","call_identifier":"H2020","name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e"}],"abstract":[{"text":"Primary nucleation is the fundamental event that initiates the conversion of proteins from their normal physiological forms into pathological amyloid aggregates associated with the onset and development of disorders including systemic amyloidosis, as well as the neurodegenerative conditions Alzheimer’s and Parkinson’s diseases. It has become apparent that the presence of surfaces can dramatically modulate nucleation. However, the underlying physicochemical parameters governing this process have been challenging to elucidate, with interfaces in some cases having been found to accelerate aggregation, while in others they can inhibit the kinetics of this process. Here we show through kinetic analysis that for three different fibril-forming proteins, interfaces affect the aggregation reaction mainly through modulating the primary nucleation step. Moreover, we show through direct measurements of the Gibbs free energy of adsorption, combined with theory and coarse-grained computer simulations, that overall nucleation rates are suppressed at high and at low surface interaction strengths but significantly enhanced at intermediate strengths, and we verify these regimes experimentally. Taken together, these results provide a quantitative description of the fundamental process which triggers amyloid formation and shed light on the key factors that control this process.","lang":"eng"}],"scopus_import":"1","date_updated":"2023-10-04T09:06:52Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"author":[{"first_name":"Zenon","last_name":"Toprakcioglu","full_name":"Toprakcioglu, Zenon"},{"first_name":"Ayaka","full_name":"Kamada, Ayaka","last_name":"Kamada"},{"first_name":"Thomas C.T.","full_name":"Michaels, Thomas C.T.","last_name":"Michaels"},{"full_name":"Xie, Mengqi","last_name":"Xie","first_name":"Mengqi"},{"first_name":"Johannes","full_name":"Krausser, Johannes","last_name":"Krausser"},{"last_name":"Wei","full_name":"Wei, Jiapeng","first_name":"Jiapeng"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","first_name":"Anđela","orcid":"0000-0002-7854-2139","last_name":"Šarić","full_name":"Šarić, Anđela"},{"first_name":"Michele","last_name":"Vendruscolo","full_name":"Vendruscolo, Michele"},{"first_name":"Tuomas P.J.","full_name":"Knowles, Tuomas P.J.","last_name":"Knowles"}],"status":"public","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/"},{"file_date_updated":"2022-08-16T06:55:22Z","doi":"10.1007/s00021-022-00722-2","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"},"ec_funded":1,"article_processing_charge":"No","day":"01","acknowledgement":"The authors warmly thank their former resp. current PhD advisor Julian Fischer for the suggestion of this problem and for valuable initial discussions on the subjects of this paper. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 948819) , and from the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC-2047/1 – 390685813.","publication":"Journal of Mathematical Fluid Mechanics","volume":24,"date_published":"2022-08-01T00:00:00Z","has_accepted_license":"1","intvolume":"        24","title":"Weak-strong uniqueness for the Navier–Stokes equation for two fluids with ninety degree contact angle and same viscosities","oa":1,"article_number":"93","quality_controlled":"1","arxiv":1,"citation":{"apa":"Hensel, S., &#38; Marveggio, A. (2022). Weak-strong uniqueness for the Navier–Stokes equation for two fluids with ninety degree contact angle and same viscosities. <i>Journal of Mathematical Fluid Mechanics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00021-022-00722-2\">https://doi.org/10.1007/s00021-022-00722-2</a>","chicago":"Hensel, Sebastian, and Alice Marveggio. “Weak-Strong Uniqueness for the Navier–Stokes Equation for Two Fluids with Ninety Degree Contact Angle and Same Viscosities.” <i>Journal of Mathematical Fluid Mechanics</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1007/s00021-022-00722-2\">https://doi.org/10.1007/s00021-022-00722-2</a>.","mla":"Hensel, Sebastian, and Alice Marveggio. “Weak-Strong Uniqueness for the Navier–Stokes Equation for Two Fluids with Ninety Degree Contact Angle and Same Viscosities.” <i>Journal of Mathematical Fluid Mechanics</i>, vol. 24, no. 3, 93, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1007/s00021-022-00722-2\">10.1007/s00021-022-00722-2</a>.","ama":"Hensel S, Marveggio A. Weak-strong uniqueness for the Navier–Stokes equation for two fluids with ninety degree contact angle and same viscosities. <i>Journal of Mathematical Fluid Mechanics</i>. 2022;24(3). doi:<a href=\"https://doi.org/10.1007/s00021-022-00722-2\">10.1007/s00021-022-00722-2</a>","ista":"Hensel S, Marveggio A. 2022. Weak-strong uniqueness for the Navier–Stokes equation for two fluids with ninety degree contact angle and same viscosities. Journal of Mathematical Fluid Mechanics. 24(3), 93.","ieee":"S. Hensel and A. Marveggio, “Weak-strong uniqueness for the Navier–Stokes equation for two fluids with ninety degree contact angle and same viscosities,” <i>Journal of Mathematical Fluid Mechanics</i>, vol. 24, no. 3. Springer Nature, 2022.","short":"S. Hensel, A. Marveggio, Journal of Mathematical Fluid Mechanics 24 (2022)."},"date_created":"2022-08-14T22:01:45Z","status":"public","author":[{"last_name":"Hensel","full_name":"Hensel, Sebastian","orcid":"0000-0001-7252-8072","id":"4D23B7DA-F248-11E8-B48F-1D18A9856A87","first_name":"Sebastian"},{"full_name":"Marveggio, Alice","last_name":"Marveggio","id":"25647992-AA84-11E9-9D75-8427E6697425","first_name":"Alice"}],"language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_updated":"2023-11-30T13:25:02Z","scopus_import":"1","related_material":{"record":[{"id":"14587","relation":"dissertation_contains","status":"public"}]},"abstract":[{"text":"We consider the flow of two viscous and incompressible fluids within a bounded domain modeled by means of a two-phase Navier–Stokes system. The two fluids are assumed to be immiscible, meaning that they are separated by an interface. With respect to the motion of the interface, we consider pure transport by the fluid flow. Along the boundary of the domain, a complete slip boundary condition for the fluid velocities and a constant ninety degree contact angle condition for the interface are assumed. In the present work, we devise for the resulting evolution problem a suitable weak solution concept based on the framework of varifolds and establish as the main result a weak-strong uniqueness principle in 2D. The proof is based on a relative entropy argument and requires a non-trivial further development of ideas from the recent work of Fischer and the first author (Arch. Ration. Mech. Anal. 236, 2020) to incorporate the contact angle condition. To focus on the effects of the necessarily singular geometry of the evolving fluid domains, we work for simplicity in the regime of same viscosities for the two fluids.","lang":"eng"}],"project":[{"grant_number":"948819","_id":"0aa76401-070f-11eb-9043-b5bb049fa26d","name":"Bridging Scales in Random Materials","call_identifier":"H2020"}],"month":"08","year":"2022","publication_identifier":{"issn":["1422-6928"],"eissn":["1422-6952"]},"isi":1,"article_type":"original","department":[{"_id":"JuFi"}],"publisher":"Springer Nature","publication_status":"published","external_id":{"arxiv":["2112.11154"],"isi":["000834834300001"]},"issue":"3","_id":"11842","type":"journal_article","oa_version":"Published Version","file":[{"file_name":"2022_JMathFluidMech_Hensel.pdf","relation":"main_file","creator":"cchlebak","file_id":"11848","date_updated":"2022-08-16T06:55:22Z","content_type":"application/pdf","access_level":"open_access","date_created":"2022-08-16T06:55:22Z","file_size":2045570,"checksum":"75c5f286300e6f0539cf57b4dba108d5","success":1}],"ddc":["510"]},{"department":[{"_id":"MiSi"},{"_id":"CaGu"}],"article_type":"original","isi":1,"publication_identifier":{"eissn":["2050-084X"]},"year":"2022","month":"07","project":[{"grant_number":"724373","name":"Cellular navigation along spatial gradients","call_identifier":"H2020","_id":"25FE9508-B435-11E9-9278-68D0E5697425"},{"grant_number":"P29911","name":"Mechanical adaptation of lamellipodial actin","call_identifier":"FWF","_id":"26018E70-B435-11E9-9278-68D0E5697425"}],"ddc":["570"],"oa_version":"Published Version","file":[{"date_updated":"2022-08-16T08:57:37Z","content_type":"application/pdf","access_level":"open_access","date_created":"2022-08-16T08:57:37Z","checksum":"002a3c7c7ea5caa9af9cfbea308f6ea4","file_size":2057577,"success":1,"file_name":"2022_eLife_Tomasek.pdf","relation":"main_file","creator":"cchlebak","file_id":"11861"}],"type":"journal_article","_id":"11843","publication_status":"published","external_id":{"isi":["000838410200001"]},"publisher":"eLife Sciences Publications","author":[{"id":"3AEC8556-F248-11E8-B48F-1D18A9856A87","first_name":"Kathrin","full_name":"Tomasek, Kathrin","last_name":"Tomasek"},{"first_name":"Alexander F","id":"3B1B77E4-F248-11E8-B48F-1D18A9856A87","last_name":"Leithner","full_name":"Leithner, Alexander F"},{"first_name":"Ivana","id":"727b3c7d-4939-11ec-89b3-b9b0750ab74d","full_name":"Glatzová, Ivana","last_name":"Glatzová"},{"last_name":"Lukesch","full_name":"Lukesch, Michael S.","first_name":"Michael S."},{"id":"47F8433E-F248-11E8-B48F-1D18A9856A87","first_name":"Calin C","full_name":"Guet, Calin C","last_name":"Guet","orcid":"0000-0001-6220-2052"},{"orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","last_name":"Sixt","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"status":"public","abstract":[{"text":"A key attribute of persistent or recurring bacterial infections is the ability of the pathogen to evade the host’s immune response. Many Enterobacteriaceae express type 1 pili, a pre-adapted virulence trait, to invade host epithelial cells and establish persistent infections. However, the molecular mechanisms and strategies by which bacteria actively circumvent the immune response of the host remain poorly understood. Here, we identified CD14, the major co-receptor for lipopolysaccharide detection, on mouse dendritic cells (DCs) as a binding partner of FimH, the protein located at the tip of the type 1 pilus of Escherichia coli. The FimH amino acids involved in CD14 binding are highly conserved across pathogenic and non-pathogenic strains. Binding of the pathogenic strain CFT073 to CD14 reduced DC migration by overactivation of integrins and blunted expression of co-stimulatory molecules by overactivating the NFAT (nuclear factor of activated T-cells) pathway, both rate-limiting factors of T cell activation. This response was binary at the single-cell level, but averaged in larger populations exposed to both piliated and non-piliated pathogens, presumably via the exchange of immunomodulatory cytokines. While defining an active molecular mechanism of immune evasion by pathogens, the interaction between FimH and CD14 represents a potential target to interfere with persistent and recurrent infections, such as urinary tract infections or Crohn’s disease.","lang":"eng"}],"related_material":{"record":[{"status":"public","relation":"earlier_version","id":"10316"}]},"scopus_import":"1","date_updated":"2023-08-03T12:54:21Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"title":"Type 1 piliated uropathogenic Escherichia coli hijack the host immune response by binding to CD14","citation":{"mla":"Tomasek, Kathrin, et al. “Type 1 Piliated Uropathogenic Escherichia Coli Hijack the Host Immune Response by Binding to CD14.” <i>ELife</i>, vol. 11, e78995, eLife Sciences Publications, 2022, doi:<a href=\"https://doi.org/10.7554/eLife.78995\">10.7554/eLife.78995</a>.","chicago":"Tomasek, Kathrin, Alexander F Leithner, Ivana Glatzová, Michael S. Lukesch, Calin C Guet, and Michael K Sixt. “Type 1 Piliated Uropathogenic Escherichia Coli Hijack the Host Immune Response by Binding to CD14.” <i>ELife</i>. eLife Sciences Publications, 2022. <a href=\"https://doi.org/10.7554/eLife.78995\">https://doi.org/10.7554/eLife.78995</a>.","apa":"Tomasek, K., Leithner, A. F., Glatzová, I., Lukesch, M. S., Guet, C. C., &#38; Sixt, M. K. (2022). Type 1 piliated uropathogenic Escherichia coli hijack the host immune response by binding to CD14. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.78995\">https://doi.org/10.7554/eLife.78995</a>","ieee":"K. Tomasek, A. F. Leithner, I. Glatzová, M. S. Lukesch, C. C. Guet, and M. K. Sixt, “Type 1 piliated uropathogenic Escherichia coli hijack the host immune response by binding to CD14,” <i>eLife</i>, vol. 11. eLife Sciences Publications, 2022.","short":"K. Tomasek, A.F. Leithner, I. Glatzová, M.S. Lukesch, C.C. Guet, M.K. Sixt, ELife 11 (2022).","ista":"Tomasek K, Leithner AF, Glatzová I, Lukesch MS, Guet CC, Sixt MK. 2022. Type 1 piliated uropathogenic Escherichia coli hijack the host immune response by binding to CD14. eLife. 11, e78995.","ama":"Tomasek K, Leithner AF, Glatzová I, Lukesch MS, Guet CC, Sixt MK. Type 1 piliated uropathogenic Escherichia coli hijack the host immune response by binding to CD14. <i>eLife</i>. 2022;11. doi:<a href=\"https://doi.org/10.7554/eLife.78995\">10.7554/eLife.78995</a>"},"acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"},{"_id":"EM-Fac"}],"date_created":"2022-08-14T22:01:46Z","quality_controlled":"1","article_number":"e78995","oa":1,"ec_funded":1,"article_processing_charge":"Yes","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":"10.7554/eLife.78995","file_date_updated":"2022-08-16T08:57:37Z","intvolume":"        11","has_accepted_license":"1","date_published":"2022-07-26T00:00:00Z","volume":11,"acknowledgement":"We thank Ulrich Dobrindt for providing UPEC strains CFT073, UTI89, and 536, Frank Assen, Vlad Gavra, Maximilian Götz, Bor Kavčič, Jonna Alanko, and Eva Kiermaier for help with experiments and Robert Hauschild, Julian Stopp, and Saren Tasciyan for help with data analysis. We thank the IST Austria Scientific Service Units, especially the Bioimaging facility, the Preclinical facility and the Electron microscopy facility for technical support, Jakob Wallner and all members of the Guet and Sixt lab for fruitful discussions and Daria Siekhaus for critically reading the manuscript. This work was supported by grants from the Austrian Research Promotion Agency (FEMtech 868984) to IG, the European Research Council (CoG 724373), and the Austrian Science Fund (FWF P29911) to MS.","publication":"eLife","day":"26"}]