[{"date_created":"2024-03-08T15:28:10Z","status":"public","day":"08","type":"dissertation","date_updated":"2025-05-14T09:27:57Z","file_date_updated":"2024-03-14T14:14:35Z","publisher":"Institute of Science and Technology Austria","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png"},"ec_funded":1,"page":"108","doi":"10.15479/at:ista:15094","project":[{"grant_number":"788183","name":"Alpha Shape Theory Extended","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"grant_number":"Z00342","name":"Mathematics, Computer Science","_id":"268116B8-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"_id":"0aa4bc98-070f-11eb-9043-e6fff9c6a316","grant_number":"I4887","name":"Persistent Homology, Algorithms and Stochastic Geometry"},{"name":"Persistence and stability of geometric complexes","grant_number":"I02979-N35","call_identifier":"FWF","_id":"2561EBF4-B435-11E9-9278-68D0E5697425"}],"supervisor":[{"orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","first_name":"Herbert","last_name":"Edelsbrunner","full_name":"Edelsbrunner, Herbert"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Point sets, geometric networks, and arrangements of hyperplanes are fundamental objects in\r\ndiscrete geometry that have captivated mathematicians for centuries, if not millennia. This\r\nthesis seeks to cast new light on these structures by illustrating specific instances where a\r\ntopological perspective, specifically through discrete Morse theory and persistent homology,\r\nprovides valuable insights.\r\n\r\nAt first glance, the topology of these geometric objects might seem uneventful: point sets\r\nessentially lack of topology, arrangements of hyperplanes are a decomposition of Rd, which\r\nis a contractible space, and the topology of a network primarily involves the enumeration\r\nof connected components and cycles within the network. However, beneath this apparent\r\nsimplicity, there lies an array of intriguing structures, a small subset of which will be uncovered\r\nin this thesis.\r\n\r\nFocused on three case studies, each addressing one of the mentioned objects, this work\r\nwill showcase connections that intertwine topology with diverse fields such as combinatorial\r\ngeometry, algorithms and data structures, and emerging applications like spatial biology.\r\n\r\n"}],"article_processing_charge":"No","language":[{"iso":"eng"}],"alternative_title":["ISTA Thesis"],"file":[{"file_size":4106872,"date_created":"2024-03-14T08:55:07Z","success":1,"file_id":"15112","creator":"scultrer","date_updated":"2024-03-14T08:55:07Z","access_level":"open_access","relation":"main_file","content_type":"application/pdf","checksum":"1e468bfa42a7dcf04d89f4dadc621c87","file_name":"Thesis Sebastiano.pdf"},{"file_size":4746234,"date_created":"2024-03-14T08:56:24Z","file_id":"15113","creator":"scultrer","date_updated":"2024-03-14T14:14:35Z","access_level":"closed","relation":"source_file","content_type":"application/zip","checksum":"bcbd213490f5a7e68855a092bbce93f1","file_name":"Thesis (1).zip"}],"publication_identifier":{"issn":["2663-337X"]},"_id":"15094","title":"Persistence and Morse theory for discrete geometric structures","ddc":["514","500","516"],"has_accepted_license":"1","oa":1,"department":[{"_id":"GradSch"},{"_id":"HeEd"}],"author":[{"full_name":"Cultrera di Montesano, Sebastiano","first_name":"Sebastiano","last_name":"Cultrera di Montesano","id":"34D2A09C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6249-0832"}],"related_material":{"record":[{"id":"15091","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"11660"},{"status":"public","relation":"part_of_dissertation","id":"15090"},{"relation":"part_of_dissertation","status":"public","id":"15093"},{"id":"13182","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"11658"}]},"citation":{"mla":"Cultrera di Montesano, Sebastiano. Persistence and Morse Theory for Discrete Geometric Structures. Institute of Science and Technology Austria, 2024, doi:10.15479/at:ista:15094.","ieee":"S. Cultrera di Montesano, “Persistence and Morse theory for discrete geometric structures,” Institute of Science and Technology Austria, 2024.","apa":"Cultrera di Montesano, S. (2024). Persistence and Morse theory for discrete geometric structures. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:15094","ama":"Cultrera di Montesano S. Persistence and Morse theory for discrete geometric structures. 2024. doi:10.15479/at:ista:15094","ista":"Cultrera di Montesano S. 2024. Persistence and Morse theory for discrete geometric structures. Institute of Science and Technology Austria.","short":"S. Cultrera di Montesano, Persistence and Morse Theory for Discrete Geometric Structures, Institute of Science and Technology Austria, 2024.","chicago":"Cultrera di Montesano, Sebastiano. “Persistence and Morse Theory for Discrete Geometric Structures.” Institute of Science and Technology Austria, 2024. https://doi.org/10.15479/at:ista:15094."},"month":"03","oa_version":"Published Version","publication_status":"published","year":"2024","degree_awarded":"PhD","date_published":"2024-03-08T00:00:00Z","corr_author":"1"},{"publication_identifier":{"issn":["1991-959X"],"eissn":["1991-9603"]},"file":[{"checksum":"270d2340402729b0532f7072ea914cae","file_name":"2024_GeoscientificModelDev_Schmidt.pdf","content_type":"application/pdf","relation":"main_file","access_level":"open_access","date_updated":"2024-03-13T08:59:21Z","creator":"dernst","file_size":13364601,"date_created":"2024-03-13T08:59:21Z","success":1,"file_id":"15111"}],"title":"Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire global storm-resolving model","_id":"15097","quality_controlled":"1","intvolume":" 17","department":[{"_id":"CaMu"}],"has_accepted_license":"1","ddc":["550"],"oa":1,"month":"02","issue":"4","citation":{"ama":"Schmidt H, Rast S, Bao J, et al. Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire global storm-resolving model. Geoscientific Model Development. 2024;17(4):1563-1584. doi:10.5194/gmd-17-1563-2024","ieee":"H. Schmidt et al., “Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire global storm-resolving model,” Geoscientific Model Development, vol. 17, no. 4. European Geosciences Union, pp. 1563–1584, 2024.","apa":"Schmidt, H., Rast, S., Bao, J., Cassim, A., Fang, S. W., Jimenez-De La Cuesta, D., … Stevens, B. (2024). Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire global storm-resolving model. Geoscientific Model Development. European Geosciences Union. https://doi.org/10.5194/gmd-17-1563-2024","mla":"Schmidt, Hauke, et al. “Effects of Vertical Grid Spacing on the Climate Simulated in the ICON-Sapphire Global Storm-Resolving Model.” Geoscientific Model Development, vol. 17, no. 4, European Geosciences Union, 2024, pp. 1563–84, doi:10.5194/gmd-17-1563-2024.","chicago":"Schmidt, Hauke, Sebastian Rast, Jiawei Bao, Amrit Cassim, Shih Wei Fang, Diego Jimenez-De La Cuesta, Paul Keil, et al. “Effects of Vertical Grid Spacing on the Climate Simulated in the ICON-Sapphire Global Storm-Resolving Model.” Geoscientific Model Development. European Geosciences Union, 2024. https://doi.org/10.5194/gmd-17-1563-2024.","short":"H. Schmidt, S. Rast, J. Bao, A. Cassim, S.W. Fang, D. Jimenez-De La Cuesta, P. Keil, L. Kluft, C. Kroll, T. Lang, U. Niemeier, A. Schneidereit, A.I.L. Williams, B. Stevens, Geoscientific Model Development 17 (2024) 1563–1584.","ista":"Schmidt H, Rast S, Bao J, Cassim A, Fang SW, Jimenez-De La Cuesta D, Keil P, Kluft L, Kroll C, Lang T, Niemeier U, Schneidereit A, Williams AIL, Stevens B. 2024. Effects of vertical grid spacing on the climate simulated in the ICON-Sapphire global storm-resolving model. Geoscientific Model Development. 17(4), 1563–1584."},"author":[{"full_name":"Schmidt, Hauke","last_name":"Schmidt","first_name":"Hauke"},{"first_name":"Sebastian","last_name":"Rast","full_name":"Rast, Sebastian"},{"id":"bb9a7399-fefd-11ed-be3c-ae648fd1d160","full_name":"Bao, Jiawei","last_name":"Bao","first_name":"Jiawei"},{"full_name":"Cassim, Amrit","last_name":"Cassim","first_name":"Amrit"},{"full_name":"Fang, Shih Wei","first_name":"Shih Wei","last_name":"Fang"},{"full_name":"Jimenez-De La Cuesta, Diego","first_name":"Diego","last_name":"Jimenez-De La Cuesta"},{"last_name":"Keil","first_name":"Paul","full_name":"Keil, Paul"},{"first_name":"Lukas","last_name":"Kluft","full_name":"Kluft, Lukas"},{"full_name":"Kroll, Clarissa","last_name":"Kroll","first_name":"Clarissa"},{"full_name":"Lang, Theresa","last_name":"Lang","first_name":"Theresa"},{"last_name":"Niemeier","first_name":"Ulrike","full_name":"Niemeier, Ulrike"},{"first_name":"Andrea","last_name":"Schneidereit","full_name":"Schneidereit, Andrea"},{"first_name":"Andrew I.L.","last_name":"Williams","full_name":"Williams, Andrew I.L."},{"last_name":"Stevens","first_name":"Bjorn","full_name":"Stevens, Bjorn"}],"article_type":"original","year":"2024","oa_version":"Published Version","publication_status":"published","date_published":"2024-02-22T00:00:00Z","type":"journal_article","day":"22","date_updated":"2025-09-04T12:17:17Z","date_created":"2024-03-10T23:00:53Z","status":"public","page":"1563-1584","acknowledgement":"The authors wish to thank Ann Kristin Naumann and three anonymous reviewers for very helpful comments on an earlier version of this paper. We are grateful to René Redler and Karl-Hermann Wieners for useful recommendations regarding running the simulations. We thank Luis Kornblueh for providing an external vertical grid generator and resolving the memory requirements for the very fine vertical grids. We acknowledge Hauke Schulz for providing the radiosonde data. The simulations were run at the German Climate Computing Center (DKRZ), and we thank the DKRZ staff for their support.\r\nHauke Schmidt and Diego Jimenez-de la Cuesta received financial support from the SOCTOC project within the framework of the ROMIC program, funded by the German Ministry of Education and Research (BMBF) (grant no. 01LG1903A).\r\nThe article processing charges for this open-access publication were covered by the Max Planck Society.","file_date_updated":"2024-03-13T08:59:21Z","isi":1,"publisher":"European Geosciences Union","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication":"Geoscientific Model Development","doi":"10.5194/gmd-17-1563-2024","external_id":{"isi":["001190535000001"]},"volume":17,"scopus_import":"1","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"Yes (via OA deal)","abstract":[{"lang":"eng","text":"Global storm-resolving models (GSRMs) use strongly refined horizontal grids compared with the climate models typically used in the Coupled Model Intercomparison Project (CMIP) but employ comparable vertical grid spacings. Here, we study how changes in the vertical grid spacing and adjustments to the integration time step affect the basic climate quantities simulated by the ICON-Sapphire atmospheric GSRM. Simulations are performed over a 45 d period for five different vertical grids with between 55 and 540 vertical layers and maximum tropospheric vertical grid spacings of between 800 and 50 m, respectively. The effects of changes in the vertical grid spacing are compared with the effects of reducing the horizontal grid spacing from 5 to 2.5 km. For most of the quantities considered, halving the vertical grid spacing has a smaller effect than halving the horizontal grid spacing, but it is not negligible. Each halving of the vertical grid spacing, along with the necessary reductions in time step length, increases cloud liquid water by about 7 %, compared with an approximate 16 % decrease for halving the horizontal grid spacing. The effect is due to both the vertical grid refinement and the time step reduction. There is no tendency toward convergence in the range of grid spacings tested here. The cloud ice amount also increases with a refinement in the vertical grid, but it is hardly affected by the time step length and does show a tendency to converge. While the effect on shortwave radiation is globally dominated by the altered reflection due to the change in the cloud liquid water content, the effect on longwave radiation is more difficult to interpret because changes in the cloud ice concentration and cloud fraction are anticorrelated in some regions. The simulations show that using a maximum tropospheric vertical grid spacing larger than 400 m would increase the truncation error strongly. Computing time investments in a further vertical grid refinement can affect the truncation errors of GSRMs similarly to comparable investments in horizontal refinement, because halving the vertical grid spacing is generally cheaper than halving the horizontal grid spacing. However, convergence of boundary layer cloud properties cannot be expected, even for the smallest maximum tropospheric grid spacing of 50 m used in this study."}]},{"department":[{"_id":"JuFi"}],"oa":1,"ddc":["510"],"has_accepted_license":"1","_id":"15098","title":"Global well-posedness and interior regularity of 2D Navier-Stokes equations with stochastic boundary conditions","file":[{"date_updated":"2025-01-09T08:23:36Z","access_level":"open_access","success":1,"file_id":"18790","date_created":"2025-01-09T08:23:36Z","file_size":661557,"creator":"dernst","file_name":"2024_MathAnnalen_Agresti.pdf","checksum":"d55cac8bddea09a97f06612825c4f229","relation":"main_file","content_type":"application/pdf"}],"publication_identifier":{"eissn":["1432-1807"],"issn":["0025-5831"]},"intvolume":" 390","quality_controlled":"1","article_type":"original","date_published":"2024-10-01T00:00:00Z","OA_place":"publisher","oa_version":"Published Version","publication_status":"published","year":"2024","citation":{"chicago":"Agresti, Antonio, and Eliseo Luongo. “Global Well-Posedness and Interior Regularity of 2D Navier-Stokes Equations with Stochastic Boundary Conditions.” Mathematische Annalen. Springer Nature, 2024. https://doi.org/10.1007/s00208-024-02812-0.","short":"A. Agresti, E. Luongo, Mathematische Annalen 390 (2024) 2727–2766.","ista":"Agresti A, Luongo E. 2024. Global well-posedness and interior regularity of 2D Navier-Stokes equations with stochastic boundary conditions. Mathematische Annalen. 390, 2727–2766.","ama":"Agresti A, Luongo E. Global well-posedness and interior regularity of 2D Navier-Stokes equations with stochastic boundary conditions. Mathematische Annalen. 2024;390:2727-2766. doi:10.1007/s00208-024-02812-0","ieee":"A. Agresti and E. Luongo, “Global well-posedness and interior regularity of 2D Navier-Stokes equations with stochastic boundary conditions,” Mathematische Annalen, vol. 390. Springer Nature, pp. 2727–2766, 2024.","apa":"Agresti, A., & Luongo, E. (2024). Global well-posedness and interior regularity of 2D Navier-Stokes equations with stochastic boundary conditions. Mathematische Annalen. Springer Nature. https://doi.org/10.1007/s00208-024-02812-0","mla":"Agresti, Antonio, and Eliseo Luongo. “Global Well-Posedness and Interior Regularity of 2D Navier-Stokes Equations with Stochastic Boundary Conditions.” Mathematische Annalen, vol. 390, Springer Nature, 2024, pp. 2727–66, doi:10.1007/s00208-024-02812-0."},"month":"10","author":[{"id":"673cd0cc-9b9a-11eb-b144-88f30e1fbb72","orcid":"0000-0002-9573-2962","full_name":"Agresti, Antonio","last_name":"Agresti","first_name":"Antonio"},{"full_name":"Luongo, Eliseo","last_name":"Luongo","first_name":"Eliseo"}],"pmid":1,"acknowledgement":"The authors thank Professor Franco Flandoli for useful discussions and valuable insight into the subject. In particular, A.A. would like to thank professor Franco Flandoli for hosting and financially contributing to his research visit at Scuola Normale di Pisa in January 2023, where this work started. E.L. would like to express sincere gratitude to Professor Marco Fuhrman for igniting his interest in this particular field of research. E.L. want to thank Professor Matthias Hieber and Dr. Martin Saal for useful discussions. Finally, the authors thank the anonymous referee for helpful comments which improved the paper from its initial version.Open access funding provided by Scuola Normale Superiore within the CRUI-CARE Agreement. A. Agresti has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 948819).","page":"2727-2766","publication":"Mathematische Annalen","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ec_funded":1,"publisher":"Springer Nature","file_date_updated":"2025-01-09T08:23:36Z","isi":1,"arxiv":1,"date_updated":"2025-09-04T12:19:59Z","day":"01","type":"journal_article","status":"public","date_created":"2024-03-10T23:00:54Z","OA_type":"hybrid","language":[{"iso":"eng"}],"scopus_import":"1","abstract":[{"lang":"eng","text":"The paper is devoted to the analysis of the global well-posedness and the interior regularity of the 2D Navier–Stokes equations with inhomogeneous stochastic boundary conditions. The noise, white in time and coloured in space, can be interpreted as the physical law describing the driving mechanism on the atmosphere–ocean interface, i.e. as a balance of the shear stress of the ocean and the horizontal wind force."}],"article_processing_charge":"Yes (via OA deal)","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","project":[{"call_identifier":"H2020","_id":"0aa76401-070f-11eb-9043-b5bb049fa26d","grant_number":"948819","name":"Bridging Scales in Random Materials"}],"external_id":{"arxiv":["2306.11081"],"pmid":["39351582"],"isi":["001172711400002"]},"doi":"10.1007/s00208-024-02812-0","volume":390},{"day":"01","type":"journal_article","date_updated":"2025-09-04T12:18:08Z","date_created":"2024-03-10T23:00:54Z","status":"public","page":"337-351","pmid":1,"acknowledgement":"KJ, MR, and RKB were supported by grants from the Swedish Research Council (2021-0419, 2021-05243, and 2018-03695, respectively). RKB was also supported by the Leverhulme Trust (RPG-2021-141), RF by FCT- Portuguese Science Foundation (PTDC/BIA-EVL/1614/2021 and 2020.00275.CEECIND), and AMW by Norwegian Research Council RCN (Project number 315287). We thank the members of the Integration of Speciation Research network for stimulating discussions, the Littorina research community for important contributions of data and analyses, and Cynthia Riginos for useful comments on an earlier draft.","isi":1,"file_date_updated":"2024-07-22T12:05:58Z","publication":"Trends in Genetics","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"Elsevier","external_id":{"isi":["001224671300001"],"pmid":["38395682"]},"doi":"10.1016/j.tig.2024.01.002","volume":40,"scopus_import":"1","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"text":"Speciation is a key evolutionary process that is not yet fully understood. Combining population genomic and ecological data from multiple diverging pairs of marine snails (Littorina) supports the search for speciation mechanisms. Placing pairs on a one-dimensional speciation continuum, from undifferentiated populations to species, obscured the complexity of speciation. Adding multiple axes helped to describe either speciation routes or reproductive isolation in the snails. Divergent ecological selection repeatedly generated barriers between ecotypes, but appeared less important in completing speciation while genetic incompatibilities played a key role. Chromosomal inversions contributed to genomic barriers, but with variable impact. A multidimensional (hypercube) approach supported framing of questions and identification of knowledge gaps and can be useful to understand speciation in many other systems.","lang":"eng"}],"article_processing_charge":"Yes (in subscription journal)","file":[{"checksum":"3077ea808c4cdc24d02dc58aced7eb35","file_name":"2024_TrendsGenetics_Johannesson.pdf","content_type":"application/pdf","relation":"main_file","access_level":"open_access","date_updated":"2024-07-22T12:05:58Z","creator":"dernst","file_size":2288340,"date_created":"2024-07-22T12:05:58Z","success":1,"file_id":"17313"}],"publication_identifier":{"eissn":["1362-4555"],"issn":["0168-9525"]},"_id":"15099","title":"Diverse pathways to speciation revealed by marine snails","quality_controlled":"1","intvolume":" 40","department":[{"_id":"NiBa"}],"ddc":["570"],"has_accepted_license":"1","oa":1,"citation":{"ama":"Johannesson K, Faria R, Le Moan A, et al. Diverse pathways to speciation revealed by marine snails. Trends in Genetics. 2024;40(4):337-351. doi:10.1016/j.tig.2024.01.002","mla":"Johannesson, Kerstin, et al. “Diverse Pathways to Speciation Revealed by Marine Snails.” Trends in Genetics, vol. 40, no. 4, Elsevier, 2024, pp. 337–51, doi:10.1016/j.tig.2024.01.002.","ieee":"K. Johannesson et al., “Diverse pathways to speciation revealed by marine snails,” Trends in Genetics, vol. 40, no. 4. Elsevier, pp. 337–351, 2024.","apa":"Johannesson, K., Faria, R., Le Moan, A., Rafajlović, M., Westram, A. M., Butlin, R. K., & Stankowski, S. (2024). Diverse pathways to speciation revealed by marine snails. Trends in Genetics. Elsevier. https://doi.org/10.1016/j.tig.2024.01.002","ista":"Johannesson K, Faria R, Le Moan A, Rafajlović M, Westram AM, Butlin RK, Stankowski S. 2024. Diverse pathways to speciation revealed by marine snails. Trends in Genetics. 40(4), 337–351.","chicago":"Johannesson, Kerstin, Rui Faria, Alan Le Moan, Marina Rafajlović, Anja M Westram, Roger K. Butlin, and Sean Stankowski. “Diverse Pathways to Speciation Revealed by Marine Snails.” Trends in Genetics. Elsevier, 2024. https://doi.org/10.1016/j.tig.2024.01.002.","short":"K. Johannesson, R. Faria, A. Le Moan, M. Rafajlović, A.M. Westram, R.K. Butlin, S. Stankowski, Trends in Genetics 40 (2024) 337–351."},"issue":"4","month":"04","author":[{"full_name":"Johannesson, Kerstin","first_name":"Kerstin","last_name":"Johannesson"},{"full_name":"Faria, Rui","first_name":"Rui","last_name":"Faria"},{"first_name":"Alan","last_name":"Le Moan","full_name":"Le Moan, Alan"},{"full_name":"Rafajlović, Marina","last_name":"Rafajlović","first_name":"Marina"},{"first_name":"Anja M","last_name":"Westram","full_name":"Westram, Anja M","orcid":"0000-0003-1050-4969","id":"3C147470-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Butlin, Roger K.","first_name":"Roger K.","last_name":"Butlin"},{"id":"43161670-5719-11EA-8025-FABC3DDC885E","full_name":"Stankowski, Sean","first_name":"Sean","last_name":"Stankowski"}],"article_type":"review","oa_version":"Published Version","publication_status":"published","year":"2024","date_published":"2024-04-01T00:00:00Z"},{"status":"public","date_created":"2024-03-12T13:02:58Z","day":"09","type":"research_data_reference","_id":"15108","date_updated":"2025-09-04T12:14:54Z","title":"Computer code for \"Efficiency and resilience of cooperation in asymmetric social dilemmas\"","ddc":["000"],"has_accepted_license":"1","oa":1,"publisher":"Zenodo","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"department":[{"_id":"KrCh"}],"main_file_link":[{"url":"https://10.5281/zenodo.10639167","open_access":"1"}],"author":[{"orcid":"0009-0001-5009-4987","id":"2c8aa207-dc7d-11ea-9b2f-f22972ecd910","last_name":"Hübner","first_name":"Valentin","full_name":"Hübner, Valentin"},{"full_name":"Kleshnina, Maria","last_name":"Kleshnina","first_name":"Maria"}],"related_material":{"record":[{"id":"15083","status":"public","relation":"used_in_publication"}]},"doi":"10.5281/ZENODO.10639167","citation":{"ama":"Hübner V, Kleshnina M. Computer code for “Efficiency and resilience of cooperation in asymmetric social dilemmas.” 2024. doi:10.5281/ZENODO.10639167","ieee":"V. Hübner and M. Kleshnina, “Computer code for ‘Efficiency and resilience of cooperation in asymmetric social dilemmas.’” Zenodo, 2024.","apa":"Hübner, V., & Kleshnina, M. (2024). Computer code for “Efficiency and resilience of cooperation in asymmetric social dilemmas.” Zenodo. https://doi.org/10.5281/ZENODO.10639167","mla":"Hübner, Valentin, and Maria Kleshnina. Computer Code for “Efficiency and Resilience of Cooperation in Asymmetric Social Dilemmas.” Zenodo, 2024, doi:10.5281/ZENODO.10639167.","chicago":"Hübner, Valentin, and Maria Kleshnina. “Computer Code for ‘Efficiency and Resilience of Cooperation in Asymmetric Social Dilemmas.’” Zenodo, 2024. https://doi.org/10.5281/ZENODO.10639167.","short":"V. Hübner, M. Kleshnina, (2024).","ista":"Hübner V, Kleshnina M. 2024. Computer code for ‘Efficiency and resilience of cooperation in asymmetric social dilemmas’, Zenodo, 10.5281/ZENODO.10639167."},"month":"02","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","year":"2024","abstract":[{"lang":"eng","text":"in the research article \"Efficiency and resilience of cooperation in asymmetric social dilemmas\" (by Valentin Hübner, Manuel Staab, Christian Hilbe, Krishnendu Chatterjee, and Maria Kleshnina).\r\n\r\nWe used different implementations for the case of two and three players, both described below."}],"date_published":"2024-02-09T00:00:00Z","article_processing_charge":"No","corr_author":"1"},{"date_updated":"2025-09-04T13:02:40Z","type":"journal_article","day":"05","status":"public","date_created":"2024-03-17T23:00:57Z","acknowledgement":"The authors acknowledge the financial support from the National Key Research and Development Project of China (2021YFA1500900, 2022YFE0113800), the National Natural Science Foundation of China (22141001, U21A20298), Zhejiang Innovation Team (2017R5203).","publisher":"Elsevier","publication":"Chemical Engineering Science","isi":1,"doi":"10.1016/j.ces.2024.119959","external_id":{"isi":["001203872000001"]},"volume":291,"OA_type":"free access","language":[{"iso":"eng"}],"article_number":"119959","scopus_import":"1","article_processing_charge":"No","abstract":[{"text":"As a key liquid organic hydrogen carrier, investigating the decomposition of formic acid (HCOOH) on the Pd (1 1 1) transition metal surface is imperative for harnessing hydrogen energy. Despite a multitude of studies, the major mechanisms and key intermediates involved in the dehydrogenation process of formic acid remain a great topic of debate due to ambiguous adsorbate interactions. In this research, we develop an advanced microkinetic model based on first-principles calculations, accounting for adsorbate–adsorbate interactions. Our study unveils a comprehensive mechanism for the Pd (1 1 1) surface, highlighting the significance of coverage effects in formic acid dehydrogenation. Our findings unequivocally demonstrate that H coverage on the Pd (1 1 1) surface renders formic acid more susceptible to decompose into H2 and CO2 through COOH intermediates. Consistent with experimental results, the selectivity of H2 in the decomposition of formic acid on the Pd (1 1 1) surface approaches 100 %. Considering the influence of H coverage, our kinetic analysis aligns perfectly with experimental values at a temperature of 373 K.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"Unravelling the reaction mechanism for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic modeling","_id":"15114","publication_identifier":{"issn":["0009-2509"]},"intvolume":" 291","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1016/j.ces.2024.119959","open_access":"1"}],"department":[{"_id":"MaIb"}],"oa":1,"month":"06","citation":{"mla":"Yao, Zihao, et al. “Unravelling the Reaction Mechanism for H2 Production via Formic Acid Decomposition over Pd: Coverage-Dependent Microkinetic Modeling.” Chemical Engineering Science, vol. 291, 119959, Elsevier, 2024, doi:10.1016/j.ces.2024.119959.","ieee":"Z. Yao, X. Liu, R. Bunting, and J. Wang, “Unravelling the reaction mechanism for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic modeling,” Chemical Engineering Science, vol. 291. Elsevier, 2024.","apa":"Yao, Z., Liu, X., Bunting, R., & Wang, J. (2024). Unravelling the reaction mechanism for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic modeling. Chemical Engineering Science. Elsevier. https://doi.org/10.1016/j.ces.2024.119959","ama":"Yao Z, Liu X, Bunting R, Wang J. Unravelling the reaction mechanism for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic modeling. Chemical Engineering Science. 2024;291. doi:10.1016/j.ces.2024.119959","ista":"Yao Z, Liu X, Bunting R, Wang J. 2024. Unravelling the reaction mechanism for H2 production via formic acid decomposition over Pd: Coverage-dependent microkinetic modeling. Chemical Engineering Science. 291, 119959.","chicago":"Yao, Zihao, Xu Liu, Rhys Bunting, and Jianguo Wang. “Unravelling the Reaction Mechanism for H2 Production via Formic Acid Decomposition over Pd: Coverage-Dependent Microkinetic Modeling.” Chemical Engineering Science. Elsevier, 2024. https://doi.org/10.1016/j.ces.2024.119959.","short":"Z. Yao, X. Liu, R. Bunting, J. Wang, Chemical Engineering Science 291 (2024)."},"author":[{"last_name":"Yao","first_name":"Zihao","full_name":"Yao, Zihao"},{"last_name":"Liu","first_name":"Xu","full_name":"Liu, Xu"},{"id":"91deeae8-1207-11ec-b130-c194ad5b50c6","orcid":"0000-0001-6928-074X","first_name":"Rhys","last_name":"Bunting","full_name":"Bunting, Rhys"},{"full_name":"Wang, Jianguo","first_name":"Jianguo","last_name":"Wang"}],"article_type":"original","date_published":"2024-06-05T00:00:00Z","year":"2024","oa_version":"None","publication_status":"published"},{"author":[{"last_name":"Giubertoni","first_name":"Giulia","full_name":"Giubertoni, Giulia"},{"full_name":"Feng, Liru","first_name":"Liru","last_name":"Feng"},{"first_name":"Kevin","last_name":"Klein","full_name":"Klein, Kevin"},{"first_name":"Guido","last_name":"Giannetti","full_name":"Giannetti, Guido"},{"first_name":"Luco","last_name":"Rutten","full_name":"Rutten, Luco"},{"first_name":"Yeji","last_name":"Choi","full_name":"Choi, Yeji"},{"last_name":"Van Der Net","first_name":"Anouk","full_name":"Van Der Net, Anouk"},{"full_name":"Castro-Linares, Gerard","last_name":"Castro-Linares","first_name":"Gerard"},{"full_name":"Caporaletti, Federico","last_name":"Caporaletti","first_name":"Federico"},{"full_name":"Micha, Dimitra","first_name":"Dimitra","last_name":"Micha"},{"full_name":"Hunger, Johannes","first_name":"Johannes","last_name":"Hunger"},{"first_name":"Antoine","last_name":"Deblais","full_name":"Deblais, Antoine"},{"full_name":"Bonn, Daniel","last_name":"Bonn","first_name":"Daniel"},{"full_name":"Sommerdijk, Nico","last_name":"Sommerdijk","first_name":"Nico"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","full_name":"Šarić, Anđela","first_name":"Anđela","last_name":"Šarić"},{"first_name":"Ioana M.","last_name":"Ilie","full_name":"Ilie, Ioana M."},{"last_name":"Koenderink","first_name":"Gijsje H.","full_name":"Koenderink, Gijsje H."},{"first_name":"Sander","last_name":"Woutersen","full_name":"Woutersen, Sander"}],"related_material":{"record":[{"status":"public","relation":"research_data","id":"15126"}]},"month":"03","issue":"11","citation":{"ieee":"G. Giubertoni et al., “Elucidating the role of water in collagen self-assembly by isotopically modulating collagen hydration,” Proceedings of the National Academy of Sciences of the United States of America, vol. 121, no. 11. National Academy of Sciences, 2024.","apa":"Giubertoni, G., Feng, L., Klein, K., Giannetti, G., Rutten, L., Choi, Y., … Woutersen, S. (2024). Elucidating the role of water in collagen self-assembly by isotopically modulating collagen hydration. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.2313162121","mla":"Giubertoni, Giulia, et al. “Elucidating the Role of Water in Collagen Self-Assembly by Isotopically Modulating Collagen Hydration.” Proceedings of the National Academy of Sciences of the United States of America, vol. 121, no. 11, e2313162121, National Academy of Sciences, 2024, doi:10.1073/pnas.2313162121.","ama":"Giubertoni G, Feng L, Klein K, et al. Elucidating the role of water in collagen self-assembly by isotopically modulating collagen hydration. Proceedings of the National Academy of Sciences of the United States of America. 2024;121(11). doi:10.1073/pnas.2313162121","chicago":"Giubertoni, Giulia, Liru Feng, Kevin Klein, Guido Giannetti, Luco Rutten, Yeji Choi, Anouk Van Der Net, et al. “Elucidating the Role of Water in Collagen Self-Assembly by Isotopically Modulating Collagen Hydration.” Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 2024. https://doi.org/10.1073/pnas.2313162121.","short":"G. Giubertoni, L. Feng, K. Klein, G. Giannetti, L. Rutten, Y. Choi, A. Van Der Net, G. Castro-Linares, F. Caporaletti, D. Micha, J. Hunger, A. Deblais, D. Bonn, N. Sommerdijk, A. Šarić, I.M. Ilie, G.H. Koenderink, S. Woutersen, Proceedings of the National Academy of Sciences of the United States of America 121 (2024).","ista":"Giubertoni G, Feng L, Klein K, Giannetti G, Rutten L, Choi Y, Van Der Net A, Castro-Linares G, Caporaletti F, Micha D, Hunger J, Deblais A, Bonn D, Sommerdijk N, Šarić A, Ilie IM, Koenderink GH, Woutersen S. 2024. Elucidating the role of water in collagen self-assembly by isotopically modulating collagen hydration. Proceedings of the National Academy of Sciences of the United States of America. 121(11), e2313162121."},"year":"2024","oa_version":"Published Version","publication_status":"published","date_published":"2024-03-12T00:00:00Z","article_type":"original","quality_controlled":"1","intvolume":" 121","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"file":[{"content_type":"application/pdf","relation":"main_file","checksum":"a3f7fdc29dd9f0a38952ab4e322b3a05","file_name":"2024_PNAS_Giubertoni.pdf","creator":"dernst","date_created":"2024-03-19T10:22:42Z","file_size":12952586,"success":1,"file_id":"15125","access_level":"open_access","date_updated":"2024-03-19T10:22:42Z"}],"title":"Elucidating the role of water in collagen self-assembly by isotopically modulating collagen hydration","_id":"15116","has_accepted_license":"1","ddc":["550"],"oa":1,"department":[{"_id":"AnSa"}],"volume":121,"doi":"10.1073/pnas.2313162121","external_id":{"isi":["001206387400001"],"pmid":["38451946"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"Yes (in subscription journal)","abstract":[{"text":"Water is known to play an important role in collagen self-assembly, but it is still largely unclear how water–collagen interactions influence the assembly process and determine the fibril network properties. Here, we use the H2O/D2O isotope effect on the hydrogen-bond strength in water to investigate the role of hydration in collagen self-assembly. We dissolve collagen in H2O and D2O and compare the growth kinetics and the structure of the collagen assemblies formed in these water isotopomers. Surprisingly, collagen assembly occurs ten times faster in D2O than in H2O, and collagen in D2O self-assembles into much thinner fibrils, that form a more inhomogeneous and softer network, with a fourfold reduction in elastic modulus when compared to H2O. Combining spectroscopic measurements with atomistic simulations, we show that collagen in D2O is less hydrated than in H2O. This partial dehydration lowers the enthalpic penalty for water removal and reorganization at the collagen–water interface, increasing the self-assembly rate and the number of nucleation centers, leading to thinner fibrils and a softer network. Coarse-grained simulations show that the acceleration in the initial nucleation rate can be reproduced by the enhancement of electrostatic interactions. These results show that water acts as a mediator between collagen monomers, by modulating their interactions so as to optimize the assembly process and, thus, the final network properties. We believe that isotopically modulating the hydration of proteins can be a valuable method to investigate the role of water in protein structural dynamics and protein self-assembly.","lang":"eng"}],"scopus_import":"1","language":[{"iso":"eng"}],"article_number":"e2313162121","status":"public","date_created":"2024-03-17T23:00:57Z","type":"journal_article","day":"12","date_updated":"2025-09-04T13:03:56Z","file_date_updated":"2024-03-19T10:22:42Z","isi":1,"publisher":"National Academy of Sciences","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication":"Proceedings of the National Academy of Sciences of the United States of America","acknowledgement":"We thank Dr. Steven Roeters (Aarhus University), Dr. Federica Burla, and Prof. Dr. Mischa Bonn (Institute for Polymer Research, Mainz, Germany) for the useful discussions. We thank Dr. Wim Roeterdink and Michiel Hilberts for technical support. G.H.K. acknowledges financial support by the “BaSyC Building a Synthetic Cell” Gravitation grant (024.003.019) of The Netherlands Ministry of Education, Culture and Science (OCW) and The Netherlands Organization for Scientific Research and from NWO grant OCENW.GROOT.2019.022. This work has received support from the National Research Foundation of Korea (NRF), funded by the Ministry of Science and ICT, under Grant No. 2022K1A3A1A04062969. This publication is part of the project (with Project Number VI.Veni.212.240) of the research programme NWO Talent Programme Veni 2021, which is financed by the Dutch Research Council (NWO). I.M.I. acknowledges support from the Sectorplan Bèta & Techniek of the Dutch Government and the Dementia Research - Synapsis Foundation Switzerland. A.Š. and K.K. acknowledge support from Royal Society and European Research Council Starting Grant. G. Giubertoni kindly thanks to the Care4Bones community and the Collagen Café community for reminding that we do not own the knowledge we create, but it is, rather, a collective resource intended for the advancement of human progress.","pmid":1},{"author":[{"id":"3AE48E0A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7577-1676","first_name":"David H","last_name":"Vandael","full_name":"Vandael, David H"},{"full_name":"Jonas, Peter M","last_name":"Jonas","first_name":"Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804"}],"issue":"6687","citation":{"short":"D.H. Vandael, P.M. Jonas, Science 383 (2024) eadg6757.","chicago":"Vandael, David H, and Peter M Jonas. “Structure, Biophysics, and Circuit Function of a ‘Giant’ Cortical Presynaptic Terminal.” Science. AAAS, 2024. https://doi.org/10.1126/science.adg6757.","ista":"Vandael DH, Jonas PM. 2024. Structure, biophysics, and circuit function of a ‘giant’ cortical presynaptic terminal. Science. 383(6687), eadg6757.","ieee":"D. H. Vandael and P. M. Jonas, “Structure, biophysics, and circuit function of a ‘giant’ cortical presynaptic terminal,” Science, vol. 383, no. 6687. AAAS, p. eadg6757, 2024.","apa":"Vandael, D. H., & Jonas, P. M. (2024). Structure, biophysics, and circuit function of a “giant” cortical presynaptic terminal. Science. AAAS. https://doi.org/10.1126/science.adg6757","mla":"Vandael, David H., and Peter M. Jonas. “Structure, Biophysics, and Circuit Function of a ‘Giant’ Cortical Presynaptic Terminal.” Science, vol. 383, no. 6687, AAAS, 2024, p. eadg6757, doi:10.1126/science.adg6757.","ama":"Vandael DH, Jonas PM. Structure, biophysics, and circuit function of a “giant” cortical presynaptic terminal. Science. 2024;383(6687):eadg6757. doi:10.1126/science.adg6757"},"month":"03","date_published":"2024-03-08T00:00:00Z","publication_status":"published","oa_version":"None","year":"2024","corr_author":"1","article_type":"review","intvolume":" 383","quality_controlled":"1","_id":"15117","title":"Structure, biophysics, and circuit function of a \"giant\" cortical presynaptic terminal","publication_identifier":{"eissn":["1095-9203"]},"department":[{"_id":"PeJo"}],"volume":383,"project":[{"grant_number":"692692","name":"Biophysics and circuit function of a giant cortical glutamatergic synapse","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"_id":"25C5A090-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Synaptic communication in neuronal microcircuits","grant_number":"Z00312"},{"name":"Mechanisms of GABA release in hippocampal circuits","grant_number":"P36232","_id":"bd88be38-d553-11ed-ba76-81d5a70a6ef5"}],"external_id":{"pmid":["38452088"],"isi":["001216996700015"]},"doi":"10.1126/science.adg6757","abstract":[{"lang":"eng","text":"The hippocampal mossy fiber synapse, formed between axons of dentate gyrus granule cells and dendrites of CA3 pyramidal neurons, is a key synapse in the trisynaptic circuitry of the hippocampus. Because of its comparatively large size, this synapse is accessible to direct presynaptic recording, allowing a rigorous investigation of the biophysical mechanisms of synaptic transmission and plasticity. Furthermore, because of its placement in the very center of the hippocampal memory circuit, this synapse seems to be critically involved in several higher network functions, such as learning, memory, pattern separation, and pattern completion. Recent work based on new technologies in both nanoanatomy and nanophysiology, including presynaptic patch-clamp recording, paired recording, super-resolution light microscopy, and freeze-fracture and “flash-and-freeze” electron microscopy, has provided new insights into the structure, biophysics, and network function of this intriguing synapse. This brings us one step closer to answering a fundamental question in neuroscience: how basic synaptic properties shape higher network computations."}],"article_processing_charge":"No","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"scopus_import":"1","status":"public","date_created":"2024-03-17T23:00:57Z","date_updated":"2025-09-04T13:04:34Z","day":"08","type":"journal_article","publication":"Science","publisher":"AAAS","ec_funded":1,"isi":1,"pmid":1,"acknowledgement":"We thank previous students, postdocs, and collaborators, particularly J. Geiger, and (in alphabetical order) H. Alle, J. Bischofberger, C. Borges-Merjane, D. Engel, M. Frotscher, S. Hallermann, M. Heckmann, S. Jamrichova, O. Kim, L. Li, K. Lichter, P. Lin, J. Lübke, Y. Okamoto, C. Pawlu, C. Schmidt-Hieber, N. Spruston, and N. Vyleta for their outstanding experimental contributions. We also thank P. Castillo, J. Geiger, T. Sakaba, S. Siegert, T. Vogels, and J. Watson for critically reading the manuscript, E. Kralli-Beller for text editing, and J. Malikovic and L. Slomianka for useful discussions. We apologize that, due to space constraints, not all relevant papers could be cited.\r\nThis project was supported by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement 692692, AdG “GIANTSYN”) and the Fonds zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein Award; P 36232-B, stand-alone grant), both to P.J.","page":"eadg6757"},{"scopus_import":"1","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledged_ssus":[{"_id":"LifeSc"}],"article_processing_charge":"No","abstract":[{"lang":"eng","text":"Cell division in all domains of life requires the orchestration of many proteins, but in Archaea most of the machinery remains poorly characterized. Here we investigate the FtsZ-based cell division mechanism in Haloferax volcanii and find proteins containing photosynthetic reaction centre (PRC) barrel domains that play an essential role in archaeal cell division. We rename these proteins cell division protein B 1 (CdpB1) and CdpB2. Depletions and deletions in their respective genes cause severe cell division defects, generating drastically enlarged cells. Fluorescence microscopy of tagged FtsZ1, FtsZ2 and SepF in CdpB1 and CdpB2 mutant strains revealed an unusually disordered divisome that is not organized into a distinct ring-like structure. Biochemical analysis shows that SepF forms a tripartite complex with CdpB1/2 and crystal structures suggest that these two proteins might form filaments, possibly aligning SepF and the FtsZ2 ring during cell division. Overall our results indicate that PRC-domain proteins play essential roles in FtsZ-based cell division in Archaea."}],"doi":"10.1038/s41564-024-01600-5","external_id":{"isi":["001183270800021"],"pmid":["38443575"]},"project":[{"name":"In vitro reconstitution of bacterial cell division","grant_number":"P34607","_id":"fc38323b-9c52-11eb-aca3-ff8afb4a011d"}],"volume":9,"page":"698-711","acknowledgement":"We thank X. Ye (ISTA) for providing the His–SUMO expression plasmid pSVA13429. pCDB302 was a gift from C. Bahl (Addgene plasmid number 113673; http://n2t.net/addgene:113673; RRID Addgene_113673). We thank B. Ahsan, G. Sharov, G. Cannone and S. Chen from the Medical Research Council (MRC) LMB Electron Microscopy Facility for help and support. We thank Scientific Computing at the MRC LMB for their support. We thank L. Trübestein and N. Krasnici of the protein service unit of the ISTA Lab Support Facility for help with the SEC coupled with multi-angle light scattering experiments. We thank D. Grohmann and R. Reichelt from the Archaea Centre at the University of Regensburg for providing the P. furiosus cell material. P.N. and S.-V.A. were supported by a Momentum grant from the Volkswagen (VW) Foundation (grant number 94933). D.K.-C. and D.B. were supported by the VW Stiftung ‘Life?’ programme (to J.L.; grant number Az 96727) and by the MRC, as part of UK Research and Innovation (UKRI), MRC file reference number U105184326 (to J.L.). N.T. and S.G. acknowledge support from the French Government’s Investissement d’Avenir program, Laboratoire d’Excellence ‘Integrative Biology of Emerging Infectious Diseases’ (grant number ANR-10-LABX-62-IBEID), and the computational and storage services (Maestro cluster) provided by the IT department at Institut Pasteur. M.K. and M.L. were supported by the Austrian Science Fund (FWF) Stand-Alone P34607. For the purpose of open access, the MRC Laboratory of Molecular Biology has applied a CC BY public copyright licence to any author accepted manuscript version arising.","pmid":1,"isi":1,"publisher":"Springer Nature","publication":"Nature Microbiology","type":"journal_article","day":"04","date_updated":"2025-12-18T14:51:41Z","date_created":"2024-03-17T23:00:58Z","status":"public","article_type":"original","year":"2024","publication_status":"published","oa_version":"None","date_published":"2024-03-04T00:00:00Z","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"20741"}]},"month":"03","issue":"3","citation":{"mla":"Nußbaum, Phillip, et al. “Proteins Containing Photosynthetic Reaction Centre Domains Modulate FtsZ-Based Archaeal Cell Division.” Nature Microbiology, vol. 9, no. 3, Springer Nature, 2024, pp. 698–711, doi:10.1038/s41564-024-01600-5.","ieee":"P. Nußbaum et al., “Proteins containing photosynthetic reaction centre domains modulate FtsZ-based archaeal cell division,” Nature Microbiology, vol. 9, no. 3. Springer Nature, pp. 698–711, 2024.","apa":"Nußbaum, P., Kureisaite-Ciziene, D., Bellini, D., Van Der Does, C., Kojic, M., Taib, N., … Albers, S. V. (2024). Proteins containing photosynthetic reaction centre domains modulate FtsZ-based archaeal cell division. Nature Microbiology. Springer Nature. https://doi.org/10.1038/s41564-024-01600-5","ama":"Nußbaum P, Kureisaite-Ciziene D, Bellini D, et al. Proteins containing photosynthetic reaction centre domains modulate FtsZ-based archaeal cell division. Nature Microbiology. 2024;9(3):698-711. doi:10.1038/s41564-024-01600-5","ista":"Nußbaum P, Kureisaite-Ciziene D, Bellini D, Van Der Does C, Kojic M, Taib N, Yeates A, Tourte M, Gribaldo S, Loose M, Löwe J, Albers SV. 2024. Proteins containing photosynthetic reaction centre domains modulate FtsZ-based archaeal cell division. Nature Microbiology. 9(3), 698–711.","chicago":"Nußbaum, Phillip, Danguole Kureisaite-Ciziene, Dom Bellini, Chris Van Der Does, Marko Kojic, Najwa Taib, Anna Yeates, et al. “Proteins Containing Photosynthetic Reaction Centre Domains Modulate FtsZ-Based Archaeal Cell Division.” Nature Microbiology. Springer Nature, 2024. https://doi.org/10.1038/s41564-024-01600-5.","short":"P. Nußbaum, D. Kureisaite-Ciziene, D. Bellini, C. Van Der Does, M. Kojic, N. Taib, A. Yeates, M. Tourte, S. Gribaldo, M. Loose, J. Löwe, S.V. Albers, Nature Microbiology 9 (2024) 698–711."},"author":[{"full_name":"Nußbaum, Phillip","last_name":"Nußbaum","first_name":"Phillip"},{"full_name":"Kureisaite-Ciziene, Danguole","first_name":"Danguole","last_name":"Kureisaite-Ciziene"},{"first_name":"Dom","last_name":"Bellini","full_name":"Bellini, Dom"},{"last_name":"Van Der Does","first_name":"Chris","full_name":"Van Der Does, Chris"},{"orcid":"0000-0001-7244-8128","id":"73e7ecd4-dc85-11ea-9058-88a16394b160","full_name":"Kojic, Marko","first_name":"Marko","last_name":"Kojic"},{"last_name":"Taib","first_name":"Najwa","full_name":"Taib, Najwa"},{"full_name":"Yeates, Anna","last_name":"Yeates","first_name":"Anna"},{"first_name":"Maxime","last_name":"Tourte","full_name":"Tourte, Maxime"},{"first_name":"Simonetta","last_name":"Gribaldo","full_name":"Gribaldo, Simonetta"},{"orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","last_name":"Loose","first_name":"Martin","full_name":"Loose, Martin"},{"first_name":"Jan","last_name":"Löwe","full_name":"Löwe, Jan"},{"full_name":"Albers, Sonja Verena","first_name":"Sonja Verena","last_name":"Albers"}],"department":[{"_id":"MaLo"}],"publication_identifier":{"eissn":["2058-5276"]},"title":"Proteins containing photosynthetic reaction centre domains modulate FtsZ-based archaeal cell division","_id":"15118","quality_controlled":"1","intvolume":" 9"},{"corr_author":"1","article_type":"original","date_published":"2024-02-01T00:00:00Z","year":"2024","publication_status":"published","oa_version":"Preprint","month":"02","issue":"1","citation":{"mla":"Agresti, Antonio, and Mark Veraar. “Stochastic Maximal Lp(Lq)-Regularity for Second Order Systems with Periodic Boundary Conditions.” Annales de l’institut Henri Poincare Probability and Statistics, vol. 60, no. 1, Institute of Mathematical Statistics, 2024, pp. 413–30, doi:10.1214/22-AIHP1333.","apa":"Agresti, A., & Veraar, M. (2024). Stochastic maximal Lp(Lq)-regularity for second order systems with periodic boundary conditions. Annales de l’institut Henri Poincare Probability and Statistics. Institute of Mathematical Statistics. https://doi.org/10.1214/22-AIHP1333","ieee":"A. Agresti and M. Veraar, “Stochastic maximal Lp(Lq)-regularity for second order systems with periodic boundary conditions,” Annales de l’institut Henri Poincare Probability and Statistics, vol. 60, no. 1. Institute of Mathematical Statistics, pp. 413–430, 2024.","ama":"Agresti A, Veraar M. Stochastic maximal Lp(Lq)-regularity for second order systems with periodic boundary conditions. Annales de l’institut Henri Poincare Probability and Statistics. 2024;60(1):413-430. doi:10.1214/22-AIHP1333","ista":"Agresti A, Veraar M. 2024. Stochastic maximal Lp(Lq)-regularity for second order systems with periodic boundary conditions. Annales de l’institut Henri Poincare Probability and Statistics. 60(1), 413–430.","chicago":"Agresti, Antonio, and Mark Veraar. “Stochastic Maximal Lp(Lq)-Regularity for Second Order Systems with Periodic Boundary Conditions.” Annales de l’institut Henri Poincare Probability and Statistics. Institute of Mathematical Statistics, 2024. https://doi.org/10.1214/22-AIHP1333.","short":"A. Agresti, M. Veraar, Annales de l’institut Henri Poincare Probability and Statistics 60 (2024) 413–430."},"author":[{"id":"673cd0cc-9b9a-11eb-b144-88f30e1fbb72","orcid":"0000-0002-9573-2962","full_name":"Agresti, Antonio","last_name":"Agresti","first_name":"Antonio"},{"full_name":"Veraar, Mark","first_name":"Mark","last_name":"Veraar"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2106.01274"}],"department":[{"_id":"JuFi"}],"oa":1,"title":"Stochastic maximal Lp(Lq)-regularity for second order systems with periodic boundary conditions","_id":"15119","publication_identifier":{"issn":["0246-0203"]},"intvolume":" 60","quality_controlled":"1","language":[{"iso":"eng"}],"scopus_import":"1","article_processing_charge":"No","abstract":[{"text":"In this paper we consider an SPDE where the leading term is a second order operator with periodic boundary conditions, coefficients which are measurable in (t,ω) , and Hölder continuous in space. Assuming stochastic parabolicity conditions, we prove Lp((0,T)×Ω,tκdt;Hσ,q(Td)) -estimates. The main novelty is that we do not require p=q . Moreover, we allow arbitrary σ∈R and weights in time. Such mixed regularity estimates play a crucial role in applications to nonlinear SPDEs which is clear from our previous work. To prove our main results we develop a general perturbation theory for SPDEs. Moreover, we prove a new result on pointwise multiplication in spaces with fractional smoothness.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1214/22-AIHP1333","external_id":{"arxiv":["2106.01274"]},"volume":60,"acknowledgement":"The first author has been partially supported by the Nachwuchsring – Network for the promotion of young scientists – at TU Kaiserslautern. The second author is supported by the VIDI subsidy 639.032.427 of the Netherlands Organisation for Scientific Research (NWO). The authors thank the anonymous referees and Max Sauerbrey for careful reading and helpful suggestions.","page":"413-430","publisher":"Institute of Mathematical Statistics","publication":"Annales de l'institut Henri Poincare Probability and Statistics","date_updated":"2024-10-09T21:08:30Z","arxiv":1,"type":"journal_article","day":"01","date_created":"2024-03-17T23:00:58Z","status":"public"},{"scopus_import":"1","language":[{"iso":"eng"}],"article_number":"013223","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","abstract":[{"text":"Quantum computers are increasing in size and quality but are still very noisy. Error mitigation extends the size of the quantum circuits that noisy devices can meaningfully execute. However, state-of-the-art error mitigation methods are hard to implement and the limited qubit connectivity in superconducting qubit devices restricts most applications to the hardware's native topology. Here we show a quantum approximate optimization algorithm (QAOA) on nonplanar random regular graphs with up to 40 nodes enabled by a machine learning-based error mitigation. We use a swap network with careful decision-variable-to-qubit mapping and a feed-forward neural network to optimize a depth-two QAOA on up to 40 qubits. We observe a meaningful parameter optimization for the largest graph which requires running quantum circuits with 958 two-qubit gates. Our paper emphasizes the need to mitigate samples, and not only expectation values, in quantum approximate optimization. These results are a step towards executing quantum approximate optimization at a scale that is not classically simulable. Reaching such system sizes is key to properly understanding the true potential of heuristic algorithms like QAOA.","lang":"eng"}],"doi":"10.1103/PhysRevResearch.6.013223","external_id":{"arxiv":["2307.14427"]},"project":[{"name":"IMB PhD Nomination Fellowship - Stefan Sack","_id":"bd660c93-d553-11ed-ba76-fb0fb6f49c0d"}],"volume":6,"acknowledgement":"S.H.S. acknowledges support from the IBM Ph.D. fellowship 2022 in quantum computing. The authors also thank M. Serbyn, R. Kueng, R. A. Medina, and S. Woerner for fruitful discussions.","file_date_updated":"2024-03-19T07:16:38Z","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"American Physical Society","publication":"Physical Review Research","type":"journal_article","day":"01","date_updated":"2025-05-14T09:32:15Z","arxiv":1,"status":"public","date_created":"2024-03-17T23:00:59Z","article_type":"original","corr_author":"1","year":"2024","DOAJ_listed":"1","oa_version":"Published Version","publication_status":"published","date_published":"2024-03-01T00:00:00Z","month":"03","citation":{"chicago":"Sack, Stefan, and Daniel J. Egger. “Large-Scale Quantum Approximate Optimization on Nonplanar Graphs with Machine Learning Noise Mitigation.” Physical Review Research. American Physical Society, 2024. https://doi.org/10.1103/PhysRevResearch.6.013223.","short":"S. Sack, D.J. Egger, Physical Review Research 6 (2024).","ista":"Sack S, Egger DJ. 2024. Large-scale quantum approximate optimization on nonplanar graphs with machine learning noise mitigation. Physical Review Research. 6(1), 013223.","ieee":"S. Sack and D. J. Egger, “Large-scale quantum approximate optimization on nonplanar graphs with machine learning noise mitigation,” Physical Review Research, vol. 6, no. 1. American Physical Society, 2024.","apa":"Sack, S., & Egger, D. J. (2024). Large-scale quantum approximate optimization on nonplanar graphs with machine learning noise mitigation. Physical Review Research. American Physical Society. https://doi.org/10.1103/PhysRevResearch.6.013223","mla":"Sack, Stefan, and Daniel J. Egger. “Large-Scale Quantum Approximate Optimization on Nonplanar Graphs with Machine Learning Noise Mitigation.” Physical Review Research, vol. 6, no. 1, 013223, American Physical Society, 2024, doi:10.1103/PhysRevResearch.6.013223.","ama":"Sack S, Egger DJ. Large-scale quantum approximate optimization on nonplanar graphs with machine learning noise mitigation. Physical Review Research. 2024;6(1). doi:10.1103/PhysRevResearch.6.013223"},"issue":"1","author":[{"orcid":"0000-0001-5400-8508","id":"dd622248-f6e0-11ea-865d-ce382a1c81a5","full_name":"Sack, Stefan","last_name":"Sack","first_name":"Stefan"},{"full_name":"Egger, Daniel J.","last_name":"Egger","first_name":"Daniel J."}],"department":[{"_id":"MaSe"}],"has_accepted_license":"1","ddc":["530"],"oa":1,"publication_identifier":{"eissn":["2643-1564"]},"file":[{"file_name":"2024_PhysicalReviewResearch_Sack.pdf","checksum":"274c9f1b15b3547a10a03f39e4ccc582","relation":"main_file","content_type":"application/pdf","date_updated":"2024-03-19T07:16:38Z","access_level":"open_access","file_id":"15123","success":1,"date_created":"2024-03-19T07:16:38Z","file_size":2777593,"creator":"dernst"}],"title":"Large-scale quantum approximate optimization on nonplanar graphs with machine learning noise mitigation","_id":"15122","quality_controlled":"1","intvolume":" 6"},{"acknowledgement":"Open Access funding provided by IST Austria. We thank Armel Nicolas and his team at the ISTA proteomics facility, Alois Schloegl, Stefano Elefante, and colleagues at the ISTA Scientific Computing facility, Tommaso Constanzo and Ludek Lovicar at the Electron Microsocpy Facility (EMF), and Thomas Menner at the Miba Machine shop for their support. We also thank Wanda Kukulski (University of Bern) as well as Darío Porley, Andreas Thader, and other members of the Schur group for helpful discussions. Matt Swulius and Jessica Heebner provided great support in using Dragonfly. We thank Dorotea Fracciolla (Art & Science) for support in figure illustration.\r\n\r\nThis research was supported by the Scientific Service Units of ISTA through resources provided by Scientific Computing, the Lab Support Facility, and the Electron Microscopy Facility. We acknowledge funding support from the following sources: Austrian Science Fund (FWF) grant P33367 (to F.K.M. Schur), the Federation of European Biochemical Societies (to F.K.M. Schur), Niederösterreich (NÖ) Fonds (to B. Zens), FWF grant E435 (to J.M. Hansen), European Research Council under the European Union’s Horizon 2020 research (grant agreement No. 724373) (to M. Sixt), and Jenny and Antti Wihuri Foundation (to J. Alanko). This publication has been made possible in part by CZI grant DAF2021-234754 and grant DOI https://doi.org/10.37921/812628ebpcwg from the Chan Zuckerberg Initiative DAF, an advised fund of Silicon Valley Community Foundation (to F.K.M. Schur).","pmid":1,"ec_funded":1,"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"Rockefeller University Press","publication":"Journal of Cell Biology","file_date_updated":"2024-03-25T12:52:04Z","isi":1,"date_updated":"2025-09-04T13:17:16Z","type":"journal_article","day":"20","status":"public","date_created":"2024-03-21T06:45:51Z","language":[{"iso":"eng"}],"article_number":"e202309125","scopus_import":"1","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"ScienComp"},{"_id":"EM-Fac"},{"_id":"M-Shop"}],"article_processing_charge":"Yes (via OA deal)","abstract":[{"lang":"eng","text":"The extracellular matrix (ECM) serves as a scaffold for cells and plays an essential role in regulating numerous cellular processes, including cell migration and proliferation. Due to limitations in specimen preparation for conventional room-temperature electron microscopy, we lack structural knowledge on how ECM components are secreted, remodeled, and interact with surrounding cells. We have developed a 3D-ECM platform compatible with sample thinning by cryo-focused ion beam milling, the lift-out extraction procedure, and cryo-electron tomography. Our workflow implements cell-derived matrices (CDMs) grown on EM grids, resulting in a versatile tool closely mimicking ECM environments. This allows us to visualize ECM for the first time in its hydrated, native context. Our data reveal an intricate network of extracellular fibers, their positioning relative to matrix-secreting cells, and previously unresolved structural entities. Our workflow and results add to the structural atlas of the ECM, providing novel insights into its secretion and assembly."}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","project":[{"name":"Structure and isoform diversity of the Arp2/3 complex","grant_number":"P33367","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A"},{"grant_number":"E435","name":"In Situ Actin Structures via Hybrid Cryo-electron Microscopy","_id":"7bd318a1-9f16-11ee-852c-cc9217763180"},{"_id":"25FE9508-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"724373","name":"Cellular Navigation Along Spatial Gradients"},{"_id":"059B463C-7A3F-11EA-A408-12923DDC885E","name":"NÃ-Fonds Preis für die Jungforscherin des Jahres am IST Austria"},{"_id":"2615199A-B435-11E9-9278-68D0E5697425","grant_number":"21317","name":"Spatiotemporal regulation of chemokine-induced signalling in leukocyte chemotaxis"},{"_id":"62909c6f-2b32-11ec-9570-e1476aab5308","grant_number":"CZI01","name":"CryoMinflux-guided in-situ visual proteomics and structure determination"}],"doi":"10.1083/jcb.202309125","external_id":{"pmid":["38506714"],"isi":["001264190100001"]},"volume":223,"department":[{"_id":"FlSc"},{"_id":"MiSi"},{"_id":"Bio"},{"_id":"EM-Fac"}],"oa":1,"has_accepted_license":"1","ddc":["570"],"title":"Lift-out cryo-FIBSEM and cryo-ET reveal the ultrastructural landscape of extracellular matrix","_id":"15146","publication_identifier":{"issn":["0021-9525"],"eissn":["1540-8140"]},"file":[{"relation":"main_file","content_type":"application/pdf","file_name":"2024_JCB_Zens.pdf","checksum":"90d1984a93660735e506c2a304bc3f73","success":1,"file_id":"15188","date_created":"2024-03-25T12:52:04Z","file_size":11907016,"creator":"dernst","date_updated":"2024-03-25T12:52:04Z","access_level":"open_access"}],"intvolume":" 223","quality_controlled":"1","corr_author":"1","article_type":"original","date_published":"2024-03-20T00:00:00Z","year":"2024","oa_version":"Published Version","publication_status":"published","month":"03","citation":{"ista":"Zens B, Fäßler F, Hansen J, Hauschild R, Datler J, Hodirnau V-V, Zheden V, Alanko JH, Sixt MK, Schur FK. 2024. Lift-out cryo-FIBSEM and cryo-ET reveal the ultrastructural landscape of extracellular matrix. Journal of Cell Biology. 223(6), e202309125.","chicago":"Zens, Bettina, Florian Fäßler, Jesse Hansen, Robert Hauschild, Julia Datler, Victor-Valentin Hodirnau, Vanessa Zheden, Jonna H Alanko, Michael K Sixt, and Florian KM Schur. “Lift-out Cryo-FIBSEM and Cryo-ET Reveal the Ultrastructural Landscape of Extracellular Matrix.” Journal of Cell Biology. Rockefeller University Press, 2024. https://doi.org/10.1083/jcb.202309125.","short":"B. Zens, F. Fäßler, J. Hansen, R. Hauschild, J. Datler, V.-V. Hodirnau, V. Zheden, J.H. Alanko, M.K. Sixt, F.K. Schur, Journal of Cell Biology 223 (2024).","mla":"Zens, Bettina, et al. “Lift-out Cryo-FIBSEM and Cryo-ET Reveal the Ultrastructural Landscape of Extracellular Matrix.” Journal of Cell Biology, vol. 223, no. 6, e202309125, Rockefeller University Press, 2024, doi:10.1083/jcb.202309125.","ieee":"B. Zens et al., “Lift-out cryo-FIBSEM and cryo-ET reveal the ultrastructural landscape of extracellular matrix,” Journal of Cell Biology, vol. 223, no. 6. Rockefeller University Press, 2024.","apa":"Zens, B., Fäßler, F., Hansen, J., Hauschild, R., Datler, J., Hodirnau, V.-V., … Schur, F. K. (2024). Lift-out cryo-FIBSEM and cryo-ET reveal the ultrastructural landscape of extracellular matrix. Journal of Cell Biology. Rockefeller University Press. https://doi.org/10.1083/jcb.202309125","ama":"Zens B, Fäßler F, Hansen J, et al. Lift-out cryo-FIBSEM and cryo-ET reveal the ultrastructural landscape of extracellular matrix. Journal of Cell Biology. 2024;223(6). doi:10.1083/jcb.202309125"},"issue":"6","author":[{"id":"45FD126C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9561-1239","last_name":"Zens","first_name":"Bettina","full_name":"Zens, Bettina"},{"id":"404F5528-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7149-769X","full_name":"Fäßler, Florian","last_name":"Fäßler","first_name":"Florian"},{"full_name":"Hansen, Jesse","last_name":"Hansen","first_name":"Jesse","orcid":"0000-0001-7967-2085","id":"1063c618-6f9b-11ec-9123-f912fccded63"},{"id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522","last_name":"Hauschild","first_name":"Robert","full_name":"Hauschild, Robert"},{"last_name":"Datler","first_name":"Julia","full_name":"Datler, Julia","id":"3B12E2E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3616-8580"},{"orcid":"0000-0003-3904-947X","id":"3661B498-F248-11E8-B48F-1D18A9856A87","last_name":"Hodirnau","first_name":"Victor-Valentin","full_name":"Hodirnau, Victor-Valentin"},{"orcid":"0000-0002-9438-4783","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","first_name":"Vanessa","last_name":"Zheden","full_name":"Zheden, Vanessa"},{"full_name":"Alanko, Jonna H","first_name":"Jonna H","last_name":"Alanko","orcid":"0000-0002-7698-3061","id":"2CC12E8C-F248-11E8-B48F-1D18A9856A87"},{"id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179","last_name":"Sixt","first_name":"Michael K","full_name":"Sixt, Michael K"},{"first_name":"Florian KM","last_name":"Schur","full_name":"Schur, Florian KM","orcid":"0000-0003-4790-8078","id":"48AD8942-F248-11E8-B48F-1D18A9856A87"}]},{"article_processing_charge":"No","abstract":[{"lang":"eng","text":"For some k∈Z≥0∪{∞}, we call a linear forest k-bounded if each of its components has at most k edges. We will say a (k,ℓ)-bounded linear forest decomposition of a graph G is a partition of E(G) into the edge sets of two linear forests Fk,Fℓ where Fk is k-bounded and Fℓ is ℓ-bounded. We show that the problem of deciding whether a given graph has such a decomposition is NP-complete if both k and ℓ are at least 2, NP-complete if k≥9 and ℓ=1, and is in P for (k,ℓ)=(2,1). Before this, the only known NP-complete cases were the (2,2) and (3,3) cases. Our hardness result answers a question of Bermond et al. from 1984. We also show that planar graphs of girth at least nine decompose into a linear forest and a matching, which in particular is stronger than 3-edge-colouring such graphs."}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"article_number":"113962","scopus_import":"1","volume":347,"doi":"10.1016/j.disc.2024.113962","external_id":{"arxiv":["2301.11615"],"isi":["001226893800001"]},"publisher":"Elsevier","publication":"Discrete Mathematics","isi":1,"acknowledgement":"We wish to thank Dániel Marx and András Sebő for making us aware of the results in [8] and some clarifications on them.","date_created":"2024-03-24T23:00:58Z","status":"public","arxiv":1,"date_updated":"2025-09-04T13:10:26Z","type":"journal_article","day":"01","date_published":"2024-06-01T00:00:00Z","year":"2024","oa_version":"Preprint","publication_status":"published","corr_author":"1","article_type":"original","author":[{"full_name":"Campbell, Rutger","first_name":"Rutger","last_name":"Campbell"},{"full_name":"Hörsch, Florian","first_name":"Florian","last_name":"Hörsch"},{"full_name":"Moore, Benjamin","first_name":"Benjamin","last_name":"Moore","id":"6dc1a1be-bf1c-11ed-8d2b-d044840f49d6"}],"month":"06","citation":{"mla":"Campbell, Rutger, et al. “Decompositions into Two Linear Forests of Bounded Lengths.” Discrete Mathematics, vol. 347, no. 6, 113962, Elsevier, 2024, doi:10.1016/j.disc.2024.113962.","apa":"Campbell, R., Hörsch, F., & Moore, B. (2024). Decompositions into two linear forests of bounded lengths. Discrete Mathematics. Elsevier. https://doi.org/10.1016/j.disc.2024.113962","ieee":"R. Campbell, F. Hörsch, and B. Moore, “Decompositions into two linear forests of bounded lengths,” Discrete Mathematics, vol. 347, no. 6. Elsevier, 2024.","ama":"Campbell R, Hörsch F, Moore B. Decompositions into two linear forests of bounded lengths. Discrete Mathematics. 2024;347(6). doi:10.1016/j.disc.2024.113962","ista":"Campbell R, Hörsch F, Moore B. 2024. Decompositions into two linear forests of bounded lengths. Discrete Mathematics. 347(6), 113962.","chicago":"Campbell, Rutger, Florian Hörsch, and Benjamin Moore. “Decompositions into Two Linear Forests of Bounded Lengths.” Discrete Mathematics. Elsevier, 2024. https://doi.org/10.1016/j.disc.2024.113962.","short":"R. Campbell, F. Hörsch, B. Moore, Discrete Mathematics 347 (2024)."},"issue":"6","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2301.11615"}],"department":[{"_id":"MaKw"}],"intvolume":" 347","quality_controlled":"1","title":"Decompositions into two linear forests of bounded lengths","_id":"15163","publication_identifier":{"issn":["0012-365X"]}},{"doi":"10.1016/j.medengphy.2024.104143","external_id":{"isi":["001219145400001"],"pmid":["38621845"]},"volume":126,"language":[{"iso":"eng"}],"article_number":"104143","scopus_import":"1","article_processing_charge":"Yes (in subscription journal)","abstract":[{"text":"Primary implant stability, which refers to the stability of the implant during the initial healing period is a crucial factor in determining the long-term success of the implant and lays the foundation for secondary implant stability achieved through osseointegration. Factors affecting primary stability include implant design, surgical technique, and patient-specific factors like bone quality and morphology. In vivo, the cyclic nature of anatomical loading puts osteosynthesis locking screws under dynamic loads, which can lead to the formation of micro cracks and defects that slowly degrade the mechanical connection between the bone and screw, thus compromising the initial stability and secondary stability of the implant. Monotonic quasi-static loading used for testing the holding capacity of implanted screws is not well suited to capture this behavior since it cannot capture the progressive deterioration of peri‑implant bone at small displacements. In order to address this issue, this study aims to determine a critical point of loss of primary implant stability in osteosynthesis locking screws under cyclic overloading by investigating the evolution of damage, dissipated energy, and permanent deformation. A custom-made test setup was used to test implanted 2.5 mm locking screws under cyclic overloading test. For each loading cycle, maximum forces and displacement were recorded as well as initial and final cycle displacements and used to calculate damage and energy dissipation evolution. The results of this study demonstrate that for axial, shear, and mixed loading significant damage and energy dissipation can be observed at approximately 20 % of the failure force. Additionally, at this load level, permanent deformations on the screw-bone interface were found to be in the range of 50 to 150 mm which promotes osseointegration and secondary implant stability. This research can assist surgeons in making informed preoperative decisions by providing a better understanding of the critical point of loss of primary implant stability, thus improving the long-term success of the implant and overall patient satisfaction.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_updated":"2025-09-04T13:11:03Z","type":"journal_article","day":"01","status":"public","date_created":"2024-03-24T23:00:58Z","acknowledgement":"The authors declare no conflict of interest related to this study. This project was funded by the Gesellschaft fuer Forschungsfoerderung Niederoesterreich m.b.H. Life Science Call 2017 Grant No. LS17004 and Science call 2019 Dissertationen Grant No. SC19014. No ethical approval was required for this study.","pmid":1,"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"Elsevier","publication":"Medical Engineering and Physics","file_date_updated":"2024-03-25T08:29:52Z","isi":1,"month":"04","citation":{"short":"J.D. Silva-Henao, S. Schober, D.H. Pahr, A.G. Reisinger, Medical Engineering and Physics 126 (2024).","chicago":"Silva-Henao, Juan D., Sophie Schober, Dieter H. Pahr, and Andreas G. Reisinger. “Critical Loss of Primary Implant Stability in Osteosynthesis Locking Screws under Cyclic Overloading.” Medical Engineering and Physics. Elsevier, 2024. https://doi.org/10.1016/j.medengphy.2024.104143.","ista":"Silva-Henao JD, Schober S, Pahr DH, Reisinger AG. 2024. Critical loss of primary implant stability in osteosynthesis locking screws under cyclic overloading. Medical Engineering and Physics. 126, 104143.","ieee":"J. D. Silva-Henao, S. Schober, D. H. Pahr, and A. G. Reisinger, “Critical loss of primary implant stability in osteosynthesis locking screws under cyclic overloading,” Medical Engineering and Physics, vol. 126. Elsevier, 2024.","apa":"Silva-Henao, J. D., Schober, S., Pahr, D. H., & Reisinger, A. G. (2024). Critical loss of primary implant stability in osteosynthesis locking screws under cyclic overloading. Medical Engineering and Physics. Elsevier. https://doi.org/10.1016/j.medengphy.2024.104143","mla":"Silva-Henao, Juan D., et al. “Critical Loss of Primary Implant Stability in Osteosynthesis Locking Screws under Cyclic Overloading.” Medical Engineering and Physics, vol. 126, 104143, Elsevier, 2024, doi:10.1016/j.medengphy.2024.104143.","ama":"Silva-Henao JD, Schober S, Pahr DH, Reisinger AG. Critical loss of primary implant stability in osteosynthesis locking screws under cyclic overloading. Medical Engineering and Physics. 2024;126. doi:10.1016/j.medengphy.2024.104143"},"author":[{"full_name":"Silva-Henao, Juan D.","first_name":"Juan D.","last_name":"Silva-Henao"},{"id":"80b0a0ef-4b9f-11ec-b119-8d9d94c4a1d8","full_name":"Schober, Sophie","first_name":"Sophie","last_name":"Schober"},{"full_name":"Pahr, Dieter H.","first_name":"Dieter H.","last_name":"Pahr"},{"full_name":"Reisinger, Andreas G.","first_name":"Andreas G.","last_name":"Reisinger"}],"article_type":"original","date_published":"2024-04-01T00:00:00Z","year":"2024","oa_version":"Published Version","publication_status":"published","title":"Critical loss of primary implant stability in osteosynthesis locking screws under cyclic overloading","_id":"15164","publication_identifier":{"eissn":["1873-4030"],"issn":["1350-4533"]},"file":[{"relation":"main_file","content_type":"application/pdf","checksum":"974acbf2731e7382dcf5920ac762e551","file_name":"2024_MedEngineeringPhysics_SilvaHenao.pdf","date_created":"2024-03-25T08:29:52Z","file_size":10039402,"success":1,"file_id":"15177","creator":"dernst","date_updated":"2024-03-25T08:29:52Z","access_level":"open_access"}],"intvolume":" 126","quality_controlled":"1","department":[{"_id":"PreCl"}],"oa":1,"has_accepted_license":"1","ddc":["610"]},{"tmp":{"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","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)"},"publisher":"Wiley","ec_funded":1,"publication":"Geophysical Research Letters","file_date_updated":"2024-03-25T08:36:00Z","isi":1,"acknowledgement":"The author gratefully acknowledges ISTA for supporting this research through funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Project CLUSTER, grant agreement No. 805041).","date_created":"2024-03-24T23:00:58Z","status":"public","date_updated":"2025-09-04T13:11:41Z","type":"journal_article","day":"16","article_processing_charge":"Yes","abstract":[{"lang":"eng","text":"Current knowledge suggests a drought Indian monsoon (perhaps a severe one) when the El Nino Southern Oscillation and Pacific Decadal Oscillation each exhibit positive phases (a joint positive phase). For the monsoons, which are exceptions in this regard, we found northeast India often gets excess pre-monsoon rainfall. Further investigation reveals that this excess pre-monsoon rainfall is produced by the interaction of the large-scale circulation associated with the joint phase with the mountains in northeast India. We posit that a warmer troposphere, a consequence of excess rainfall over northeast India, drives a stronger monsoon circulation and enhances monsoon rainfall over central India. Hence, we argue that pre-monsoon rainfall over northeast India can be used for seasonal monsoon rainfall prediction over central India. Most importantly, its predictive value is at its peak when the Pacific Ocean exhibits a joint positive phase and the threat of extreme drought monsoon looms over India."}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","language":[{"iso":"eng"}],"OA_type":"gold","article_number":"e2023GL106569","scopus_import":"1","volume":51,"project":[{"call_identifier":"H2020","_id":"629205d8-2b32-11ec-9570-e1356ff73576","name":"Organization of CLoUdS, and implications of Tropical cyclones and for the Energetics of the tropics, in current and waRming climate","grant_number":"805041"}],"doi":"10.1029/2023GL106569","external_id":{"isi":["001181635700001"]},"oa":1,"has_accepted_license":"1","ddc":["550"],"department":[{"_id":"CaMu"}],"intvolume":" 51","quality_controlled":"1","title":"A pre-monsoon signal of false alarms of Indian monsoon droughts","_id":"15165","publication_identifier":{"issn":["0094-8276"],"eissn":["1944-8007"]},"file":[{"content_type":"application/pdf","relation":"main_file","checksum":"243bd966aca968ec7d9e474af8639f8d","file_name":"2024_GeophysResLetters_Goswami.pdf","creator":"dernst","file_size":2887134,"date_created":"2024-03-25T08:36:00Z","file_id":"15178","success":1,"access_level":"open_access","date_updated":"2024-03-25T08:36:00Z"}],"OA_place":"publisher","date_published":"2024-03-16T00:00:00Z","year":"2024","publication_status":"published","DOAJ_listed":"1","oa_version":"Published Version","corr_author":"1","article_type":"original","author":[{"orcid":"0000-0001-8602-3083","id":"3a4ac09c-6d61-11ec-bf66-884cde66b64b","last_name":"Goswami","first_name":"Bidyut B","full_name":"Goswami, Bidyut B"}],"APC_amount":"1470 EUR","month":"03","issue":"5","citation":{"ama":"GOSWAMI BB. A pre-monsoon signal of false alarms of Indian monsoon droughts. Geophysical Research Letters. 2024;51(5). doi:10.1029/2023GL106569","apa":"GOSWAMI, B. B. (2024). A pre-monsoon signal of false alarms of Indian monsoon droughts. Geophysical Research Letters. Wiley. https://doi.org/10.1029/2023GL106569","ieee":"B. B. GOSWAMI, “A pre-monsoon signal of false alarms of Indian monsoon droughts,” Geophysical Research Letters, vol. 51, no. 5. Wiley, 2024.","mla":"GOSWAMI, BIDYUT B. “A Pre-Monsoon Signal of False Alarms of Indian Monsoon Droughts.” Geophysical Research Letters, vol. 51, no. 5, e2023GL106569, Wiley, 2024, doi:10.1029/2023GL106569.","short":"B.B. GOSWAMI, Geophysical Research Letters 51 (2024).","chicago":"GOSWAMI, BIDYUT B. “A Pre-Monsoon Signal of False Alarms of Indian Monsoon Droughts.” Geophysical Research Letters. Wiley, 2024. https://doi.org/10.1029/2023GL106569.","ista":"GOSWAMI BB. 2024. A pre-monsoon signal of false alarms of Indian monsoon droughts. Geophysical Research Letters. 51(5), e2023GL106569."}},{"external_id":{"pmid":["38484066"],"isi":["001273082800019"]},"doi":"10.1126/science.ado4077","project":[{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"volume":383,"scopus_import":"1","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"text":"Reducing defects boosts room-temperature performance of a thermoelectric device","lang":"eng"}],"article_processing_charge":"No","day":"14","type":"journal_article","date_updated":"2025-09-04T13:12:19Z","date_created":"2024-03-24T23:00:58Z","status":"public","page":"1184","pmid":1,"acknowledgement":"The authors thank the Werner-Siemens-Stiftung and the Institute of Science and Technology Austria for financial support.","isi":1,"publication":"Science","publisher":"American Association for the Advancement of Science","issue":"6688","citation":{"ama":"Jakhar N, Ibáñez M. Electron highways are cooler. Science. 2024;383(6688):1184. doi:10.1126/science.ado4077","mla":"Jakhar, Navita, and Maria Ibáñez. “Electron Highways Are Cooler.” Science, vol. 383, no. 6688, American Association for the Advancement of Science, 2024, p. 1184, doi:10.1126/science.ado4077.","ieee":"N. Jakhar and M. Ibáñez, “Electron highways are cooler,” Science, vol. 383, no. 6688. American Association for the Advancement of Science, p. 1184, 2024.","apa":"Jakhar, N., & Ibáñez, M. (2024). Electron highways are cooler. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.ado4077","ista":"Jakhar N, Ibáñez M. 2024. Electron highways are cooler. Science. 383(6688), 1184.","short":"N. Jakhar, M. Ibáñez, Science 383 (2024) 1184.","chicago":"Jakhar, Navita, and Maria Ibáñez. “Electron Highways Are Cooler.” Science. American Association for the Advancement of Science, 2024. https://doi.org/10.1126/science.ado4077."},"month":"03","author":[{"full_name":"Navita, Navita","last_name":"Navita","first_name":"Navita","id":"6ebe278d-ba0b-11ee-8184-f34cdc671de4","orcid":"0000-0001-7408-8197"},{"orcid":"0000-0001-5013-2843","id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","first_name":"Maria","full_name":"Ibáñez, Maria"}],"article_type":"letter_note","corr_author":"1","publication_status":"published","oa_version":"None","year":"2024","date_published":"2024-03-14T00:00:00Z","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"_id":"15166","title":"Electron highways are cooler","quality_controlled":"1","intvolume":" 383","department":[{"_id":"MaIb"}]},{"date_updated":"2025-09-04T13:07:33Z","arxiv":1,"day":"19","type":"journal_article","status":"public","date_created":"2024-03-24T23:00:59Z","acknowledgement":"We thank Félix Werner and Kris Van Houcke for interesting discussions.","publication":"Physical Review A","publisher":"American Physical Society","isi":1,"external_id":{"arxiv":["2311.14536"],"isi":["001198511300017"]},"doi":"10.1103/PhysRevA.109.033315","volume":109,"article_number":"033315","language":[{"iso":"eng"}],"scopus_import":"1","abstract":[{"text":"We perform a diagrammatic analysis of the energy of a mobile impurity immersed in a strongly interacting two-component Fermi gas to second order in the impurity-bath interaction. These corrections demonstrate divergent behavior in the limit of large impurity momentum. We show the fundamental processes responsible for these logarithmically divergent terms. We study the problem in the general case without any assumptions regarding the fermion-fermion interactions in the bath. We show that the divergent term can be summed up to all orders in the Fermi-Fermi interaction and that the resulting expression is equivalent to the one obtained in the few-body calculation. Finally, we provide a perturbative calculation to the second order in the Fermi-Fermi interaction, and we show the diagrams responsible for these terms.","lang":"eng"}],"article_processing_charge":"No","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","_id":"15167","title":"Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy","publication_identifier":{"eissn":["2469-9934"],"issn":["2469-9926"]},"intvolume":" 109","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2311.14536","open_access":"1"}],"department":[{"_id":"MiLe"}],"oa":1,"citation":{"short":"R. Al Hyder, F. Chevy, X. Leyronas, Physical Review A 109 (2024).","chicago":"Al Hyder, Ragheed, F. Chevy, and X. Leyronas. “Exploring Beyond-Mean-Field Logarithmic Divergences in Fermi-Polaron Energy.” Physical Review A. American Physical Society, 2024. https://doi.org/10.1103/PhysRevA.109.033315.","ista":"Al Hyder R, Chevy F, Leyronas X. 2024. Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy. Physical Review A. 109(3), 033315.","ama":"Al Hyder R, Chevy F, Leyronas X. Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy. Physical Review A. 2024;109(3). doi:10.1103/PhysRevA.109.033315","apa":"Al Hyder, R., Chevy, F., & Leyronas, X. (2024). Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy. Physical Review A. American Physical Society. https://doi.org/10.1103/PhysRevA.109.033315","ieee":"R. Al Hyder, F. Chevy, and X. Leyronas, “Exploring beyond-mean-field logarithmic divergences in Fermi-polaron energy,” Physical Review A, vol. 109, no. 3. American Physical Society, 2024.","mla":"Al Hyder, Ragheed, et al. “Exploring Beyond-Mean-Field Logarithmic Divergences in Fermi-Polaron Energy.” Physical Review A, vol. 109, no. 3, 033315, American Physical Society, 2024, doi:10.1103/PhysRevA.109.033315."},"issue":"3","month":"03","author":[{"last_name":"Al Hyder","first_name":"Ragheed","full_name":"Al Hyder, Ragheed","id":"d1c405be-ae15-11ed-8510-ccf53278162e"},{"full_name":"Chevy, F.","last_name":"Chevy","first_name":"F."},{"full_name":"Leyronas, X.","first_name":"X.","last_name":"Leyronas"}],"corr_author":"1","article_type":"original","date_published":"2024-03-19T00:00:00Z","publication_status":"published","oa_version":"Preprint","year":"2024"},{"oa":1,"ddc":["510"],"has_accepted_license":"1","department":[{"_id":"UlWa"}],"conference":{"location":"Clermont-Ferrand, France","name":"STACS: Symposium on Theoretical Aspects of Computer Science","end_date":"2024-03-14","start_date":"2024-03-12"},"intvolume":" 289","quality_controlled":"1","alternative_title":["LIPIcs"],"_id":"15168","title":"Hardness of linearly ordered 4-colouring of 3-colourable 3-uniform hypergraphs","file":[{"file_name":"2024_LIPICs_Filakovsky.pdf","checksum":"0524d4189fd1ed08989546511343edf3","relation":"main_file","content_type":"application/pdf","date_updated":"2024-03-25T07:44:30Z","access_level":"open_access","success":1,"file_id":"15175","date_created":"2024-03-25T07:44:30Z","file_size":927290,"creator":"dernst"}],"publication_identifier":{"eissn":["1868-8969"],"isbn":["9783959773119"]},"date_published":"2024-03-01T00:00:00Z","oa_version":"Published Version","publication_status":"published","year":"2024","corr_author":"1","author":[{"full_name":"Filakovský, Marek","last_name":"Filakovský","first_name":"Marek","id":"3E8AF77E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Nakajima, Tamio Vesa","last_name":"Nakajima","first_name":"Tamio Vesa"},{"first_name":"Jakub","last_name":"Opršal","full_name":"Opršal, Jakub","id":"ec596741-c539-11ec-b829-c79322a91242","orcid":"0000-0003-1245-3456"},{"full_name":"Tasinato, Gianluca","first_name":"Gianluca","last_name":"Tasinato","id":"0433290C-AF8F-11E9-A4C7-F729E6697425"},{"id":"36690CA2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1494-0568","last_name":"Wagner","first_name":"Uli","full_name":"Wagner, Uli"}],"citation":{"ama":"Filakovský M, Nakajima TV, Opršal J, Tasinato G, Wagner U. Hardness of linearly ordered 4-colouring of 3-colourable 3-uniform hypergraphs. In: 41st International Symposium on Theoretical Aspects of Computer Science. Vol 289. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2024. doi:10.4230/LIPIcs.STACS.2024.34","mla":"Filakovský, Marek, et al. “Hardness of Linearly Ordered 4-Colouring of 3-Colourable 3-Uniform Hypergraphs.” 41st International Symposium on Theoretical Aspects of Computer Science, vol. 289, 34, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024, doi:10.4230/LIPIcs.STACS.2024.34.","ieee":"M. Filakovský, T. V. Nakajima, J. Opršal, G. Tasinato, and U. Wagner, “Hardness of linearly ordered 4-colouring of 3-colourable 3-uniform hypergraphs,” in 41st International Symposium on Theoretical Aspects of Computer Science, Clermont-Ferrand, France, 2024, vol. 289.","apa":"Filakovský, M., Nakajima, T. V., Opršal, J., Tasinato, G., & Wagner, U. (2024). Hardness of linearly ordered 4-colouring of 3-colourable 3-uniform hypergraphs. In 41st International Symposium on Theoretical Aspects of Computer Science (Vol. 289). Clermont-Ferrand, France: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. https://doi.org/10.4230/LIPIcs.STACS.2024.34","ista":"Filakovský M, Nakajima TV, Opršal J, Tasinato G, Wagner U. 2024. Hardness of linearly ordered 4-colouring of 3-colourable 3-uniform hypergraphs. 41st International Symposium on Theoretical Aspects of Computer Science. STACS: Symposium on Theoretical Aspects of Computer Science, LIPIcs, vol. 289, 34.","short":"M. Filakovský, T.V. Nakajima, J. Opršal, G. Tasinato, U. Wagner, in:, 41st International Symposium on Theoretical Aspects of Computer Science, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024.","chicago":"Filakovský, Marek, Tamio Vesa Nakajima, Jakub Opršal, Gianluca Tasinato, and Uli Wagner. “Hardness of Linearly Ordered 4-Colouring of 3-Colourable 3-Uniform Hypergraphs.” In 41st International Symposium on Theoretical Aspects of Computer Science, Vol. 289. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2024. https://doi.org/10.4230/LIPIcs.STACS.2024.34."},"month":"03","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"20339"}]},"publication":"41st International Symposium on Theoretical Aspects of Computer Science","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"ec_funded":1,"publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","file_date_updated":"2024-03-25T07:44:30Z","isi":1,"acknowledgement":"Marek Filakovský: This research was supported by Charles University (project PRIMUS/\r\n21/SCI/014), the Austrian Science Fund (FWF project P31312-N35), and MSCAfellow5_MUNI\r\n(CZ.02.01.01/00/22_010/0003229). Tamio-Vesa Nakajima: This research was funded by UKRI EP/X024431/1 and by a Clarendon Fund Scholarship. All data is provided in full in the results section of this paper. Jakub Opršal: This project has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No 101034413. Uli Wagner: This research was supported by the Austrian Science Fund (FWF project P31312-N35).","status":"public","date_created":"2024-03-24T23:00:59Z","date_updated":"2025-09-18T11:30:38Z","arxiv":1,"day":"01","type":"conference","abstract":[{"lang":"eng","text":"A linearly ordered (LO) k-colouring of a hypergraph is a colouring of its vertices with colours 1, … , k such that each edge contains a unique maximal colour. Deciding whether an input hypergraph admits LO k-colouring with a fixed number of colours is NP-complete (and in the special case of graphs, LO colouring coincides with the usual graph colouring). Here, we investigate the complexity of approximating the \"linearly ordered chromatic number\" of a hypergraph. We prove that the following promise problem is NP-complete: Given a 3-uniform hypergraph, distinguish between the case that it is LO 3-colourable, and the case that it is not even LO 4-colourable. We prove this result by a combination of algebraic, topological, and combinatorial methods, building on and extending a topological approach for studying approximate graph colouring introduced by Krokhin, Opršal, Wrochna, and Živný (2023)."}],"article_processing_charge":"No","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_number":"34","language":[{"iso":"eng"}],"scopus_import":"1","volume":289,"project":[{"name":"Algorithms for Embeddings and Homotopy Theory","grant_number":"P31312","_id":"26611F5C-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020"}],"external_id":{"arxiv":["2312.12981"],"isi":["001300393400034"]},"doi":"10.4230/LIPIcs.STACS.2024.34"},{"title":"kCSD-python, reliable current source density estimation with quality control","_id":"15169","publication_identifier":{"issn":["1553-734X"],"eissn":["1553-7358"]},"file":[{"access_level":"open_access","date_updated":"2025-06-25T05:47:36Z","creator":"dernst","date_created":"2025-06-25T05:47:36Z","file_size":2540277,"file_id":"19897","success":1,"checksum":"c09718d0d09614642d877d0716ce32e8","file_name":"2024_PLoSCompBio_Chintaluri.pdf","content_type":"application/pdf","relation":"main_file"}],"intvolume":" 20","quality_controlled":"1","department":[{"_id":"TiVo"}],"oa":1,"has_accepted_license":"1","ddc":["000","570"],"month":"03","issue":"3","citation":{"mla":"Chintaluri, Chaitanya, et al. “KCSD-Python, Reliable Current Source Density Estimation with Quality Control.” PLoS Computational Biology, vol. 20, no. 3, e1011941, Public Library of Science, 2024, doi:10.1371/journal.pcbi.1011941.","ieee":"C. Chintaluri et al., “kCSD-python, reliable current source density estimation with quality control,” PLoS Computational Biology, vol. 20, no. 3. Public Library of Science, 2024.","apa":"Chintaluri, C., Bejtka, M., Sredniawa, W., Czerwinski, M., Dzik, J. M., Jedrzejewska-Szmek, J., & Wojciki, D. K. (2024). kCSD-python, reliable current source density estimation with quality control. PLoS Computational Biology. Public Library of Science. https://doi.org/10.1371/journal.pcbi.1011941","ama":"Chintaluri C, Bejtka M, Sredniawa W, et al. kCSD-python, reliable current source density estimation with quality control. PLoS Computational Biology. 2024;20(3). doi:10.1371/journal.pcbi.1011941","ista":"Chintaluri C, Bejtka M, Sredniawa W, Czerwinski M, Dzik JM, Jedrzejewska-Szmek J, Wojciki DK. 2024. kCSD-python, reliable current source density estimation with quality control. PLoS Computational Biology. 20(3), e1011941.","chicago":"Chintaluri, Chaitanya, Marta Bejtka, Wladyslaw Sredniawa, Michal Czerwinski, Jakub M. Dzik, Joanna Jedrzejewska-Szmek, and Daniel K. Wojciki. “KCSD-Python, Reliable Current Source Density Estimation with Quality Control.” PLoS Computational Biology. Public Library of Science, 2024. https://doi.org/10.1371/journal.pcbi.1011941.","short":"C. Chintaluri, M. Bejtka, W. Sredniawa, M. Czerwinski, J.M. Dzik, J. Jedrzejewska-Szmek, D.K. Wojciki, PLoS Computational Biology 20 (2024)."},"related_material":{"link":[{"url":"https://github.com/Neuroinflab/kCSD-python","relation":"software"}]},"author":[{"id":"E4EDB536-3485-11EA-98D2-20AF3DDC885E","last_name":"Chintaluri","first_name":"Chaitanya","full_name":"Chintaluri, Chaitanya"},{"full_name":"Bejtka, Marta","last_name":"Bejtka","first_name":"Marta"},{"first_name":"Wladyslaw","last_name":"Sredniawa","full_name":"Sredniawa, Wladyslaw"},{"last_name":"Czerwinski","first_name":"Michal","full_name":"Czerwinski, Michal"},{"first_name":"Jakub M.","last_name":"Dzik","full_name":"Dzik, Jakub M."},{"full_name":"Jedrzejewska-Szmek, Joanna","last_name":"Jedrzejewska-Szmek","first_name":"Joanna"},{"last_name":"Wojciki","first_name":"Daniel K.","full_name":"Wojciki, Daniel K."}],"corr_author":"1","article_type":"original","OA_place":"publisher","date_published":"2024-03-14T00:00:00Z","year":"2024","oa_version":"Published Version","DOAJ_listed":"1","publication_status":"published","date_updated":"2025-09-04T13:08:54Z","type":"journal_article","day":"14","date_created":"2024-03-24T23:00:59Z","status":"public","acknowledgement":"The Python implementation of kCSD was started by Grzegorz Parka during Google Summer of Code project through the International Neuroinformatics Coordinating Facility. Jan Mąka implemented the first Python version of skCSD class. This work was supported by the Polish National Science Centre (2013/08/W/NZ4/00691 to DKW; 2015/17/B/ST7/04123 to DKW). ","pmid":1,"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publisher":"Public Library of Science","publication":"PLoS Computational Biology","file_date_updated":"2025-06-25T05:47:36Z","isi":1,"doi":"10.1371/journal.pcbi.1011941","external_id":{"pmid":["38484020"],"isi":["001190689800001"]},"volume":20,"OA_type":"gold","language":[{"iso":"eng"}],"article_number":"e1011941","scopus_import":"1","article_processing_charge":"Yes","abstract":[{"text":"Interpretation of extracellular recordings can be challenging due to the long range of electric field. This challenge can be mitigated by estimating the current source density (CSD). Here we introduce kCSD-python, an open Python package implementing Kernel Current Source Density (kCSD) method and related tools to facilitate CSD analysis of experimental data and the interpretation of results. We show how to counter the limitations imposed by noise and assumptions in the method itself. kCSD-python allows CSD estimation for an arbitrary distribution of electrodes in 1D, 2D, and 3D, assuming distributions of sources in tissue, a slice, or in a single cell, and includes a range of diagnostic aids. We demonstrate its features in a Jupyter Notebook tutorial which illustrates a typical analytical workflow and main functionalities useful in validating analysis results.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345"},{"date_updated":"2025-09-04T13:09:41Z","arxiv":1,"type":"journal_article","day":"01","date_created":"2024-03-24T23:00:59Z","status":"public","acknowledgement":"J.E.G. and A.D.G acknowledge support from NSF/AAG grant No. 1007094, and J.E.G. also acknowledges support from NSF/AAG grant No. 1007052. A.Z. acknowledges support by grant No. 2020750 from the United States-Israel Binational Science Foundation (BSF) and grant No. 2109066 from the United States National Science Foundation (NSF), and by the Ministry of Science & Technology of Israel. The Cosmic Dawn Center is funded by the Danish National Research Foundation (DNRF) under grant No. 140. This work has received funding from the Swiss State Secretariat for Education, Research and Innovation (SERI) under contract number MB22.00072, as well as from the Swiss National Science Foundation (SNSF) through project grant 200020_207349. P.D. acknowledges support from the NWO grant 016.VIDI.189.162 (\"ODIN\") and from the European Commission's and University of Groningen's CO-FUND Rosalind Franklin program. K.G. and T.N. acknowledge support from Australian Research Council Laureate Fellowship FL180100060. H.A. and I.C. acknowledge support from CNES, focused on the JWST mission, and the Programme National Cosmology and Galaxies (PNCG) of CNRS/INSU with INP and IN2P3, cofunded by CEA and CNES. R.P.N. acknowledges funding from JWST programs GO-1933 and GO-2279. Support for this work was provided by NASA through the NASA Hubble Fellowship grant HST-HF2-51515.001-A awarded by the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Incorporated, under NASA contract NAS5-26555. The research of C.C.W. is supported by NOIRLab, which is managed by the Association of Universities for Research in Astronomy (AURA) under a cooperative agreement with the National Science Foundation. B.W. acknowledges support from JWST-GO-02561.022-A. A.J.B. acknowledges funding support from NASA/ADAP grant 21-ADAP21-0187. Support for this work was provided by The Brinson Foundation through a Brinson Prize Fellowship grant. R.P.N. acknowledges support for this work provided by NASA through the NASA Hubble Fellowship grant HST-HF2-51515.001-A awarded by the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Incorporated, under NASA contract NAS5-26555. C.P. thanks Marsha and Ralph Schilling for the generous support of this research.","publisher":"IOP Publishing","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication":"Astrophysical Journal","isi":1,"file_date_updated":"2024-03-25T08:02:43Z","doi":"10.3847/1538-4357/ad1e5f","external_id":{"arxiv":["2309.05714"],"isi":["001184746500001"]},"volume":964,"language":[{"iso":"eng"}],"article_number":"39","scopus_import":"1","article_processing_charge":"Yes","abstract":[{"text":"The James Webb Space Telescope is revealing a new population of dust-reddened broad-line active galactic nuclei (AGN) at redshifts z ≳ 5. Here we present deep NIRSpec/Prism spectroscopy from the Cycle 1 Treasury program Ultradeep NIRSpec and NIRCam ObserVations before the Epoch of Reionization (UNCOVER) of 15 AGN candidates selected to be compact, with red continua in the rest-frame optical but with blue slopes in the UV. From NIRCam photometry alone, they could have been dominated by dusty star formation or an AGN. Here we show that the majority of the compact red sources in UNCOVER are dust-reddened AGN: 60% show definitive evidence for broad-line Hα with a FWHM > 2000 km s −1, 20% of the current data are inconclusive, and 20% are brown dwarf stars. We propose an updated photometric criterion to select red z > 5 AGN that excludes brown dwarfs and is expected to yield >80% AGN. Remarkably, among all zphot > 5 galaxies with F277W – F444W > 1 in UNCOVER at least 33% are AGN regardless of compactness, climbing to at least 80% AGN for sources with F277W – F444W > 1.6. The confirmed AGN have black hole masses of 107–109M⊙. While their UV luminosities (−16 > MUV > −20 AB mag) are low compared to UV-selected AGN at these epochs, consistent with percent-level scattered AGN light or low levels of unobscured star formation, the inferred bolometric luminosities are typical of 107–109M⊙ black holes radiating at ∼10%–40% the Eddington limit. The number densities are surprisingly high at ∼10−5 Mpc−3 mag−1, 100 times more common than the faintest UV-selected quasars, while accounting for ∼1% of the UV-selected galaxies. While their UV faintness suggests they may not contribute strongly to reionization, their ubiquity poses challenges to models of black hole growth.","lang":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","title":"UNCOVER spectroscopy confirms the surprising ubiquity of active galactic nuclei in red sources at z > 5","_id":"15170","publication_identifier":{"issn":["0004-637X"],"eissn":["1538-4357"]},"file":[{"relation":"main_file","content_type":"application/pdf","checksum":"389a880e176799d5c062ea7cb82d08c9","file_name":"2024_AstrophysicalJourn_Greene.pdf","date_created":"2024-03-25T08:02:43Z","file_size":2700137,"file_id":"15176","success":1,"creator":"dernst","date_updated":"2024-03-25T08:02:43Z","access_level":"open_access"}],"intvolume":" 964","quality_controlled":"1","department":[{"_id":"JoMa"}],"oa":1,"has_accepted_license":"1","ddc":["550"],"month":"03","citation":{"ama":"Greene JE, Labbe I, Goulding AD, et al. UNCOVER spectroscopy confirms the surprising ubiquity of active galactic nuclei in red sources at z > 5. Astrophysical Journal. 2024;964. doi:10.3847/1538-4357/ad1e5f","ieee":"J. E. Greene et al., “UNCOVER spectroscopy confirms the surprising ubiquity of active galactic nuclei in red sources at z > 5,” Astrophysical Journal, vol. 964. IOP Publishing, 2024.","apa":"Greene, J. E., Labbe, I., Goulding, A. D., Furtak, L. J., Chemerynska, I., Kokorev, V., … Zitrin, A. (2024). UNCOVER spectroscopy confirms the surprising ubiquity of active galactic nuclei in red sources at z > 5. Astrophysical Journal. IOP Publishing. https://doi.org/10.3847/1538-4357/ad1e5f","mla":"Greene, Jenny E., et al. “UNCOVER Spectroscopy Confirms the Surprising Ubiquity of Active Galactic Nuclei in Red Sources at z > 5.” Astrophysical Journal, vol. 964, 39, IOP Publishing, 2024, doi:10.3847/1538-4357/ad1e5f.","chicago":"Greene, Jenny E., Ivo Labbe, Andy D. Goulding, Lukas J. Furtak, Iryna Chemerynska, Vasily Kokorev, Pratika Dayal, et al. “UNCOVER Spectroscopy Confirms the Surprising Ubiquity of Active Galactic Nuclei in Red Sources at z > 5.” Astrophysical Journal. IOP Publishing, 2024. https://doi.org/10.3847/1538-4357/ad1e5f.","short":"J.E. Greene, I. Labbe, A.D. Goulding, L.J. Furtak, I. Chemerynska, V. Kokorev, P. Dayal, M. Volonteri, C.C. Williams, B. Wang, D.J. Setton, A.J. Burgasser, R. Bezanson, H. Atek, G. Brammer, S.E. Cutler, R. Feldmann, S. Fujimoto, K. Glazebrook, A. De Graaff, G. Khullar, J. Leja, D. Marchesini, M.V. Maseda, J.J. Matthee, T.B. Miller, R.P. Naidu, T. Nanayakkara, P.A. Oesch, R. Pan, C. Papovich, S.H. Price, P. Van Dokkum, J.R. Weaver, K.E. Whitaker, A. Zitrin, Astrophysical Journal 964 (2024).","ista":"Greene JE, Labbe I, Goulding AD, Furtak LJ, Chemerynska I, Kokorev V, Dayal P, Volonteri M, Williams CC, Wang B, Setton DJ, Burgasser AJ, Bezanson R, Atek H, Brammer G, Cutler SE, Feldmann R, Fujimoto S, Glazebrook K, De Graaff A, Khullar G, Leja J, Marchesini D, Maseda MV, Matthee JJ, Miller TB, Naidu RP, Nanayakkara T, Oesch PA, Pan R, Papovich C, Price SH, Van Dokkum P, Weaver JR, Whitaker KE, Zitrin A. 2024. UNCOVER spectroscopy confirms the surprising ubiquity of active galactic nuclei in red sources at z > 5. Astrophysical Journal. 964, 39."},"author":[{"full_name":"Greene, Jenny E.","last_name":"Greene","first_name":"Jenny E."},{"first_name":"Ivo","last_name":"Labbe","full_name":"Labbe, Ivo"},{"full_name":"Goulding, Andy D.","first_name":"Andy D.","last_name":"Goulding"},{"full_name":"Furtak, Lukas J.","first_name":"Lukas J.","last_name":"Furtak"},{"full_name":"Chemerynska, Iryna","first_name":"Iryna","last_name":"Chemerynska"},{"full_name":"Kokorev, Vasily","last_name":"Kokorev","first_name":"Vasily"},{"full_name":"Dayal, Pratika","last_name":"Dayal","first_name":"Pratika"},{"full_name":"Volonteri, Marta","last_name":"Volonteri","first_name":"Marta"},{"first_name":"Christina C.","last_name":"Williams","full_name":"Williams, Christina C."},{"full_name":"Wang, Bingjie","last_name":"Wang","first_name":"Bingjie"},{"full_name":"Setton, David J.","last_name":"Setton","first_name":"David J."},{"full_name":"Burgasser, Adam J.","first_name":"Adam J.","last_name":"Burgasser"},{"full_name":"Bezanson, Rachel","last_name":"Bezanson","first_name":"Rachel"},{"last_name":"Atek","first_name":"Hakim","full_name":"Atek, Hakim"},{"last_name":"Brammer","first_name":"Gabriel","full_name":"Brammer, Gabriel"},{"first_name":"Sam E.","last_name":"Cutler","full_name":"Cutler, Sam E."},{"full_name":"Feldmann, Robert","last_name":"Feldmann","first_name":"Robert"},{"full_name":"Fujimoto, Seiji","first_name":"Seiji","last_name":"Fujimoto"},{"first_name":"Karl","last_name":"Glazebrook","full_name":"Glazebrook, Karl"},{"last_name":"De Graaff","first_name":"Anna","full_name":"De Graaff, Anna"},{"last_name":"Khullar","first_name":"Gourav","full_name":"Khullar, Gourav"},{"first_name":"Joel","last_name":"Leja","full_name":"Leja, Joel"},{"full_name":"Marchesini, Danilo","first_name":"Danilo","last_name":"Marchesini"},{"last_name":"Maseda","first_name":"Michael V.","full_name":"Maseda, Michael V."},{"id":"7439a258-f3c0-11ec-9501-9df22fe06720","orcid":"0000-0003-2871-127X","full_name":"Matthee, Jorryt J","first_name":"Jorryt J","last_name":"Matthee"},{"last_name":"Miller","first_name":"Tim B.","full_name":"Miller, Tim B."},{"last_name":"Naidu","first_name":"Rohan P.","full_name":"Naidu, Rohan P."},{"first_name":"Themiya","last_name":"Nanayakkara","full_name":"Nanayakkara, Themiya"},{"last_name":"Oesch","first_name":"Pascal A.","full_name":"Oesch, Pascal A."},{"full_name":"Pan, Richard","first_name":"Richard","last_name":"Pan"},{"last_name":"Papovich","first_name":"Casey","full_name":"Papovich, Casey"},{"last_name":"Price","first_name":"Sedona H.","full_name":"Price, Sedona H."},{"first_name":"Pieter","last_name":"Van Dokkum","full_name":"Van Dokkum, Pieter"},{"full_name":"Weaver, John R.","last_name":"Weaver","first_name":"John R."},{"full_name":"Whitaker, Katherine E.","last_name":"Whitaker","first_name":"Katherine E."},{"full_name":"Zitrin, Adi","last_name":"Zitrin","first_name":"Adi"}],"article_type":"original","date_published":"2024-03-01T00:00:00Z","year":"2024","oa_version":"Published Version","DOAJ_listed":"1","publication_status":"published"}]