[{"OA_place":"publisher","volume":696,"external_id":{"arxiv":["2411.19686 "],"isi":["001459780300005"]},"article_type":"original","title":"MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey description and early results for the galaxy population detected at 5.6 µm","publication":"Astronomy & Astrophysics","year":"2025","article_processing_charge":"Yes","acknowledgement":"We dedicate this paper to the memory of our deceased and much valued MIRI-EC team members Hans Ulrik Nørgaard-Nielsen and Olivier Le Fèvre, both of whom played a central role in defining the MIDIS project. This work is based on observations made with the NASA/ESA/CSA James Webb Space Telescope. The work presented is the effort of the entire MIRI team and the enthusiasm within the MIRI partnership is a significant factor in its success. The following National and International Funding Agencies funded and supported the MIRI development: NASA; ESA; Belgian Science Policy Office (BELSPO); Centre Nationale d’Etudes Spatiales (CNES); Danish National Space Centre; Deutsches Zentrum fur Luftund Raumfahrt (DLR); Enterprise Ireland; Ministerio De Economia y Competividad; Netherlands Research School for Astronomy (NOVA); Netherlands Organisation for Scientific Research (NWO); Science and Technology Facilities Council; Swiss Space Office; Swedish National Space Agency (SNSA); and UK Space Agency. MIRI drew on the scientific and technical expertise of the following organizations: Ames Research Center, USA; Airbus Defence and Space, UK; CEAIrfu, Saclay, France; Centre Spatial de Liège, Belgium; Consejo Superior de Investigaciones Cientficas, Spain; Carl Zeiss Optronics, Germany; Chalmers University of Technology, Sweden; Danish Space Research Institute, Denmark; Dublin Institute for Advanced Studies, Ireland; European Space Agency, Netherlands; ETCA, Belgium; ETH Zurich, Switzerland; Goddard Space Flight Center, USA; Institute d’Astrophysique Spatiale, France; Instituto Nacional de Técnica Aeroespacial,Spain; Institute for Astronomy, Edinburgh, UK; Jet Propulsion Laboratory, USA; Laboratoire d’Astrophysique de Marseille (LAM), France; Leiden University, Netherlands; Lockheed Advanced Technology Center (USA); NOVA Opt-IR group at Dwingeloo, Netherlands; Northrop Grumman, USA; Max Planck Institut f ür Astronomie (MPIA), Heidelberg, Germany; Laboratoire d’Etudes Spatiales et d’Instrumentation en Astrophysique (LESIA), France; Paul Scherrer Institut, Switzerland; Raytheon Vision Systems, USA; RUAG Aerospace, Switzerland; Rutherford Appleton Laboratory (RAL Space), UK; Space Telescope Science Institute, USA; Stockholm University, Sweden; Toegepast- Natuurwetenschappelijk Onderzoek (TNOTPD), Netherlands; UK Astronomy Technology Centre, UK; University College London, UK; University of Amsterdam, Netherlands; University of Arizona, USA; University of Cardiff, UK; University of Cologne, Germany; University of Ghent; University of Groningen, Netherlands; University of Leicester, UK; University of Leuven, Belgium; Utah State University, USA. Additional acknowledgements related to specific grants: G.Ö., J.M. and A.B. acknowledges funding from the Swedish National Space Administration (SNSA). P.G.P.-G. acknowledges support from grant PID2022-139567NB-I00 funded by Spanish Ministerio de Ciencia e Innovación MCIN/AEI/10.13039/501100011033, FEDER Una manera de hacer Europa. This work was supported by research grants (VIL16599,VIL54489) from VILLUM FONDEN. L.C. and J.A.-M. acknowledge support by grant PIB2021-127718NB-100 from the Spanish Ministry of Science and Innovation/State Agency of Research MCIN/AEI/10.13039/501100011033 and by “ERDF A way of making Europe”. M.A. acknowledges financial support from Comunidad de Madrid under Atracción de Talento grant 2020-T2/TIC-19971. J.P.P. and T.V.T. acknowledge financial support from the UK Science and Technology Facilities Council, and the UK Space Agency. A.A.-H. acknowledges financial support from grant PID2021-124665NB-I00 funded by MCIN/AEI/10.13039/501100011033 and by “ERDF A way of making Europe”. E.I. and K.I.C. acknowledge funding from the Netherlands Research School for Astronomy (NOVA). K.I.C. acknowledges funding from the Dutch Research Council (NWO) through the award of the Vici Grant VI.C.212.036. RAM acknowledges support from the Swiss National Science Foundation (SNSF) through project grant 200020_207349. The paper uses JWST data from programme #1283, obtained from the Barbara Mikulski Archive for Space Telescopes at the Space Telescope Science Institute (STScI). For the purpose of open access, the authors have applied a Creative Commons Attribution (CC BY) licence to the Author Accepted Manuscript version arising from this submission.","date_created":"2025-06-15T22:01:30Z","publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"department":[{"_id":"JoMa"}],"scopus_import":"1","article_number":"A57","quality_controlled":"1","has_accepted_license":"1","citation":{"mla":"Östlin, Göran, et al. “MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey Description and Early Results for the Galaxy Population Detected at 5.6 Μm.” <i>Astronomy &#38; Astrophysics</i>, vol. 696, A57, EDP Sciences, 2025, doi:<a href=\"https://doi.org/10.1051/0004-6361/202451723\">10.1051/0004-6361/202451723</a>.","ieee":"G. Östlin <i>et al.</i>, “MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey description and early results for the galaxy population detected at 5.6 µm,” <i>Astronomy &#38; Astrophysics</i>, vol. 696. EDP Sciences, 2025.","ista":"Östlin G, Pérez-González PG, Melinder J, Gillman S, Iani E, Costantin L, Boogaard LA, Rinaldi P, Colina L, Nørgaard-Nielsen HU, Dicken D, Greve TR, Wright G, Alonso-Herrero A, Álvarez-Márquez J, Annunziatella M, Bik A, Bosman SEI, Caputi KI, Gomez AC, Eckart A, Garcia-Marin M, Hjorth J, Ilbert O, Jermann I, Kendrew S, Labiano A, Langeroodi D, Le Fevre O, Libralato M, Meyer RA, Moutard T, Peissker F, Pye JP, Tikkanen TV, Topinka M, Walter F, Ward M, Van Der Werf P, Van Dishoeck EF, Güdel M, Henning T, Lagage PO, Ray TP, Vandenbussche B. 2025. MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey description and early results for the galaxy population detected at 5.6 µm. Astronomy &#38; Astrophysics. 696, A57.","ama":"Östlin G, Pérez-González PG, Melinder J, et al. MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey description and early results for the galaxy population detected at 5.6 µm. <i>Astronomy &#38; Astrophysics</i>. 2025;696. doi:<a href=\"https://doi.org/10.1051/0004-6361/202451723\">10.1051/0004-6361/202451723</a>","short":"G. Östlin, P.G. Pérez-González, J. Melinder, S. Gillman, E. Iani, L. Costantin, L.A. Boogaard, P. Rinaldi, L. Colina, H.U. Nørgaard-Nielsen, D. Dicken, T.R. Greve, G. Wright, A. Alonso-Herrero, J. Álvarez-Márquez, M. Annunziatella, A. Bik, S.E.I. Bosman, K.I. Caputi, A.C. Gomez, A. Eckart, M. Garcia-Marin, J. Hjorth, O. Ilbert, I. Jermann, S. Kendrew, A. Labiano, D. Langeroodi, O. Le Fevre, M. Libralato, R.A. Meyer, T. Moutard, F. Peissker, J.P. Pye, T.V. Tikkanen, M. Topinka, F. Walter, M. Ward, P. Van Der Werf, E.F. Van Dishoeck, M. Güdel, T. Henning, P.O. Lagage, T.P. Ray, B. Vandenbussche, Astronomy &#38; Astrophysics 696 (2025).","apa":"Östlin, G., Pérez-González, P. G., Melinder, J., Gillman, S., Iani, E., Costantin, L., … Vandenbussche, B. (2025). MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey description and early results for the galaxy population detected at 5.6 µm. <i>Astronomy &#38; Astrophysics</i>. EDP Sciences. <a href=\"https://doi.org/10.1051/0004-6361/202451723\">https://doi.org/10.1051/0004-6361/202451723</a>","chicago":"Östlin, Göran, Pablo G. Pérez-González, Jens Melinder, Steven Gillman, Edoardo Iani, Luca Costantin, Leindert A. Boogaard, et al. “MIRI Deep Imaging Survey (MIDIS) of the Hubble Ultra Deep Field: Survey Description and Early Results for the Galaxy Population Detected at 5.6 Μm.” <i>Astronomy &#38; Astrophysics</i>. EDP Sciences, 2025. <a href=\"https://doi.org/10.1051/0004-6361/202451723\">https://doi.org/10.1051/0004-6361/202451723</a>."},"file_date_updated":"2025-06-23T07:46:01Z","_id":"19845","author":[{"first_name":"Göran","last_name":"Östlin","full_name":"Östlin, Göran"},{"last_name":"Pérez-González","first_name":"Pablo G.","full_name":"Pérez-González, Pablo G."},{"full_name":"Melinder, Jens","first_name":"Jens","last_name":"Melinder"},{"last_name":"Gillman","first_name":"Steven","full_name":"Gillman, Steven"},{"full_name":"Iani, Edoardo","orcid":"0000-0001-8386-3546","last_name":"Iani","id":"4053390a-6b68-11ef-9828-a3b8adef8d0a","first_name":"Edoardo"},{"first_name":"Luca","last_name":"Costantin","full_name":"Costantin, Luca"},{"full_name":"Boogaard, Leindert A.","last_name":"Boogaard","first_name":"Leindert A."},{"last_name":"Rinaldi","first_name":"Pierluigi","full_name":"Rinaldi, Pierluigi"},{"full_name":"Colina, Luis","last_name":"Colina","first_name":"Luis"},{"last_name":"Nørgaard-Nielsen","first_name":"Hans Ulrik","full_name":"Nørgaard-Nielsen, Hans Ulrik"},{"last_name":"Dicken","first_name":"Daniel","full_name":"Dicken, Daniel"},{"full_name":"Greve, Thomas R.","first_name":"Thomas R.","last_name":"Greve"},{"last_name":"Wright","first_name":"Gillian","full_name":"Wright, Gillian"},{"last_name":"Alonso-Herrero","first_name":"Almudena","full_name":"Alonso-Herrero, Almudena"},{"full_name":"Álvarez-Márquez, Javier","first_name":"Javier","last_name":"Álvarez-Márquez"},{"last_name":"Annunziatella","first_name":"Marianna","full_name":"Annunziatella, Marianna"},{"last_name":"Bik","first_name":"Arjan","full_name":"Bik, Arjan"},{"full_name":"Bosman, Sarah E.I.","last_name":"Bosman","first_name":"Sarah E.I."},{"full_name":"Caputi, Karina I.","first_name":"Karina I.","last_name":"Caputi"},{"full_name":"Gomez, Alejandro Crespo","first_name":"Alejandro Crespo","last_name":"Gomez"},{"last_name":"Eckart","first_name":"Andreas","full_name":"Eckart, Andreas"},{"full_name":"Garcia-Marin, Macarena","first_name":"Macarena","last_name":"Garcia-Marin"},{"last_name":"Hjorth","first_name":"Jens","full_name":"Hjorth, Jens"},{"first_name":"Olivier","last_name":"Ilbert","full_name":"Ilbert, Olivier"},{"full_name":"Jermann, Iris","first_name":"Iris","last_name":"Jermann"},{"last_name":"Kendrew","first_name":"Sarah","full_name":"Kendrew, Sarah"},{"first_name":"Alvaro","last_name":"Labiano","full_name":"Labiano, Alvaro"},{"last_name":"Langeroodi","first_name":"Danial","full_name":"Langeroodi, Danial"},{"first_name":"Olivier","last_name":"Le Fevre","full_name":"Le Fevre, Olivier"},{"first_name":"Mattia","last_name":"Libralato","full_name":"Libralato, Mattia"},{"last_name":"Meyer","first_name":"Romain A.","full_name":"Meyer, Romain A."},{"full_name":"Moutard, Thibaud","last_name":"Moutard","first_name":"Thibaud"},{"first_name":"Florian","last_name":"Peissker","full_name":"Peissker, Florian"},{"first_name":"John P.","last_name":"Pye","full_name":"Pye, John P."},{"full_name":"Tikkanen, Tuomo V.","last_name":"Tikkanen","first_name":"Tuomo V."},{"full_name":"Topinka, Martin","first_name":"Martin","last_name":"Topinka"},{"full_name":"Walter, Fabian","last_name":"Walter","first_name":"Fabian"},{"full_name":"Ward, Martin","last_name":"Ward","first_name":"Martin"},{"full_name":"Van Der Werf, Paul","last_name":"Van Der Werf","first_name":"Paul"},{"last_name":"Van Dishoeck","first_name":"Ewine F.","full_name":"Van Dishoeck, Ewine F."},{"full_name":"Güdel, Manuel","first_name":"Manuel","last_name":"Güdel"},{"first_name":"Thomas","last_name":"Henning","full_name":"Henning, Thomas"},{"full_name":"Lagage, Pierre Olivier","last_name":"Lagage","first_name":"Pierre Olivier"},{"full_name":"Ray, Tom P.","first_name":"Tom P.","last_name":"Ray"},{"first_name":"Bart","last_name":"Vandenbussche","full_name":"Vandenbussche, Bart"}],"intvolume":"       696","publisher":"EDP Sciences","isi":1,"type":"journal_article","ddc":["520"],"abstract":[{"text":"Context. The recently launched James Webb Space Telescope (JWST) is opening new observing windows on the distant Universe. Among JWST’s instruments, the Mid Infrared Instrument (MIRI) offers the unique capability of imaging observations at wavelengths of λ > 5 μm. This enables unique access to the rest frame near-infrared (NIR, λ ≥ 1 μm) emission from galaxies at redshifts of z > 4 and the visual (λ ≳ 5000 Å) rest frame for z > 9. We report here on the guaranteed time observations (GTO), from the MIRI European Consortium, of the Hubble Ultra Deep Field (HUDF), forming the MIRI Deep Imaging Survey (MIDIS), consisting of an on source integration time of ∼41 hours in the MIRI/F560W (5.6 μm) filter. The F560W filter was selected since it would produce the deepest data in terms of AB magnitudes in a given time. To our knowledge, this constitutes the longest single filter exposure obtained with JWST of an extragalactic field as of yet.\r\nAims. The HUDF is one of the most observed extragalactic fields, with extensive multi-wavelength coverage, where (before JWST) galaxies up to z ∼ 7 have been confirmed, and at z > 10 suggested, from HST photometry. We aim to characterise the galaxy population in HUDF at 5.6 μm, enabling studies such as: the rest frame NIR morphologies for galaxies at z ≲ 4.6, probing mature stellar populations and emission lines in z > 6 sources, intrinsically red and dusty galaxies, and active galactic nuclei (AGNs) and their host galaxies at intermediate redshifts.\r\n\r\nMethods. We reduced the MIRI data using the official JWST pipeline, augmented by in-house custom scripts. We measured the noise characteristics of the resulting image. Galaxy photometry was obtained, and photometric redshifts were estimated for sources with available multi-wavelength photometry (and compared to spectroscopic redshifts when available).\r\n\r\nResults. Over the deepest part of our image, the 5σ point source limit is 28.65 mag AB (12.6 nJy), ∼0.35 mag better than predicted by the JWST exposure time calculator. We find ∼2500 sources, the overwhelming majority of which are distant galaxies, but we note that spurious sources likely remain at faint magnitudes due to imperfect cosmic ray rejection in the JWST pipeline. More than 500 galaxies with available spectroscopic redshifts, up to z ≈ 11, have been identified, the majority of which are at z < 6. More than 1000 galaxies have reliable photometric redshift estimates, of which ∼25 are at 6 < z < 12. The point spread function in the F560W filter has a full width at half maximum (FWHM) of ≈0.2″ (corresponding to 1.4 kpc at z = 4), allowing the NIR rest frame morphologies and stellar mass distributions to be resolved for z < 4.5. Moreover, > 100 objects with very red NIRCam vs MIRI (3.6–5.6 μm > 1 mag) colours have been found, suggestive of dusty or old stellar populations at high redshifts.\r\n\r\nConclusions. We conclude that MIDIS surpasses preflight expectations and that deep MIRI imaging has great potential to characterise the galaxy population from cosmic noon to dawn.","lang":"eng"}],"publication_status":"published","date_published":"2025-04-01T00:00:00Z","status":"public","month":"04","OA_type":"diamond","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"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1051/0004-6361/202451723","date_updated":"2026-02-16T12:10:36Z","oa_version":"Published Version","arxiv":1,"language":[{"iso":"eng"}],"oa":1,"day":"01","file":[{"date_updated":"2025-06-23T07:46:01Z","access_level":"open_access","creator":"dernst","relation":"main_file","content_type":"application/pdf","file_id":"19865","date_created":"2025-06-23T07:46:01Z","checksum":"67600eba8bda24987a130ac334f10456","file_name":"2025_AstronomyAstrophysics_Oestlin.pdf","file_size":15858045,"success":1}]},{"language":[{"iso":"eng"}],"oa":1,"date_updated":"2025-09-30T12:53:15Z","oa_version":"Published Version","issue":"6","file":[{"relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_updated":"2025-06-23T10:20:22Z","file_name":"2025_CellReportsPhysicalScience_Najjar.pdf","file_size":9771117,"success":1,"checksum":"37ff7c396f966d0ec363e4691d63d402","file_id":"19868","date_created":"2025-06-23T10:20:22Z"}],"day":"18","status":"public","date_published":"2025-06-18T00:00:00Z","ddc":["570"],"abstract":[{"lang":"eng","text":"The Ca2+-release-activated Ca2+ (CRAC) channel Orai1 is activated by interaction with the Ca2+ sensor Stromal Interaction Molecule 1 (STIM1). Owing to the lack of structurally resolved Orai1/STIM1 complexes, the impact of their coupling on individual Orai1 transmembrane domain (TM) movements is unclear. This study investigates STIM1-independent and STIM1-dependent Orai1-TM dynamics using photocrosslinking unnatural amino acids (UAAs) at each individual TM position. We primarily identify CRAC-channel-like currents directly after UAA incorporation or additional UV-light irradiation at TM3 sites that interface with non-pore-lining TMs. Using UAAs combined with conventional site-directed mutagenesis and molecular dynamics simulations, we discover that pore opening involves a widening of interfaces formed by TM3 with non-pore-lining TMs. Orai1 mutants with a UAA in TM3 exhibit weaker STIM1-induced activation after UV exposure, possibly caused by a restricted widening of non-pore-lining TM interfaces. We demonstrate that photocrosslinking UAAs are excellent tools for improving our understanding of key determinants and ion channel dynamics modulating pore opening."}],"publication_status":"published","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1016/j.xcrp.2025.102623","OA_type":"gold","month":"06","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"},"_id":"19846","file_date_updated":"2025-06-23T10:20:22Z","author":[{"first_name":"Hadil","last_name":"Najjar","full_name":"Najjar, Hadil"},{"first_name":"Sarah","last_name":"Weiß","full_name":"Weiß, Sarah"},{"full_name":"Horvath, Ferdinand","last_name":"Horvath","id":"b0dc7f61-21a3-11ef-a9b4-e6ab1aa6f21e","first_name":"Ferdinand"},{"full_name":"Hopl, Valentina","first_name":"Valentina","last_name":"Hopl"},{"full_name":"Tiffner, Adéla","last_name":"Tiffner","first_name":"Adéla"},{"last_name":"Höbarth","first_name":"Lorenz","full_name":"Höbarth, Lorenz"},{"first_name":"Julia","last_name":"Söllner","full_name":"Söllner, Julia"},{"full_name":"Fröhlich, Maximilian","last_name":"Fröhlich","first_name":"Maximilian"},{"full_name":"Prantl, Magdalena","last_name":"Prantl","first_name":"Magdalena"},{"full_name":"Müller, Nora","first_name":"Nora","last_name":"Müller"},{"full_name":"Nazarenko, Yuliia","first_name":"Yuliia","last_name":"Nazarenko"},{"last_name":"Harant","first_name":"Selina","full_name":"Harant, Selina"},{"full_name":"Weissenböck, Lukas","first_name":"Lukas","last_name":"Weissenböck"},{"full_name":"Grabmayr, Herwig","last_name":"Grabmayr","first_name":"Herwig"},{"full_name":"Sallinger, Matthias","last_name":"Sallinger","first_name":"Matthias"},{"last_name":"Maltan","first_name":"Lena","full_name":"Maltan, Lena"},{"first_name":"Linda V.","last_name":"Echefu","full_name":"Echefu, Linda V."},{"full_name":"Radiskovic, Tamara","first_name":"Tamara","last_name":"Radiskovic"},{"full_name":"Leopold, Melanie","last_name":"Leopold","first_name":"Melanie"},{"full_name":"Lindinger, Sonja","first_name":"Sonja","last_name":"Lindinger"},{"last_name":"Humer","first_name":"Christina","full_name":"Humer, Christina"},{"full_name":"Höglinger, Carmen","first_name":"Carmen","last_name":"Höglinger"},{"last_name":"Krobath","first_name":"Heinrich","full_name":"Krobath, Heinrich"},{"first_name":"Thomas","last_name":"Renger","full_name":"Renger, Thomas"},{"full_name":"Derler, Isabella","first_name":"Isabella","last_name":"Derler"}],"citation":{"ama":"Najjar H, Weiß S, Horvath F, et al. STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening. <i>Cell Reports Physical Science</i>. 2025;6(6). doi:<a href=\"https://doi.org/10.1016/j.xcrp.2025.102623\">10.1016/j.xcrp.2025.102623</a>","mla":"Najjar, Hadil, et al. “STIM1-Induced Widening of Non-Pore-Lining TM Interfaces Is Crucial for Orai1 Pore Opening.” <i>Cell Reports Physical Science</i>, vol. 6, no. 6, 102623, Elsevier, 2025, doi:<a href=\"https://doi.org/10.1016/j.xcrp.2025.102623\">10.1016/j.xcrp.2025.102623</a>.","ieee":"H. Najjar <i>et al.</i>, “STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening,” <i>Cell Reports Physical Science</i>, vol. 6, no. 6. Elsevier, 2025.","ista":"Najjar H, Weiß S, Horvath F, Hopl V, Tiffner A, Höbarth L, Söllner J, Fröhlich M, Prantl M, Müller N, Nazarenko Y, Harant S, Weissenböck L, Grabmayr H, Sallinger M, Maltan L, Echefu LV, Radiskovic T, Leopold M, Lindinger S, Humer C, Höglinger C, Krobath H, Renger T, Derler I. 2025. STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening. Cell Reports Physical Science. 6(6), 102623.","chicago":"Najjar, Hadil, Sarah Weiß, Ferdinand Horvath, Valentina Hopl, Adéla Tiffner, Lorenz Höbarth, Julia Söllner, et al. “STIM1-Induced Widening of Non-Pore-Lining TM Interfaces Is Crucial for Orai1 Pore Opening.” <i>Cell Reports Physical Science</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.xcrp.2025.102623\">https://doi.org/10.1016/j.xcrp.2025.102623</a>.","apa":"Najjar, H., Weiß, S., Horvath, F., Hopl, V., Tiffner, A., Höbarth, L., … Derler, I. (2025). STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening. <i>Cell Reports Physical Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.xcrp.2025.102623\">https://doi.org/10.1016/j.xcrp.2025.102623</a>","short":"H. Najjar, S. Weiß, F. Horvath, V. Hopl, A. Tiffner, L. Höbarth, J. Söllner, M. Fröhlich, M. Prantl, N. Müller, Y. Nazarenko, S. Harant, L. Weissenböck, H. Grabmayr, M. Sallinger, L. Maltan, L.V. Echefu, T. Radiskovic, M. Leopold, S. Lindinger, C. Humer, C. Höglinger, H. Krobath, T. Renger, I. Derler, Cell Reports Physical Science 6 (2025)."},"scopus_import":"1","quality_controlled":"1","article_number":"102623","has_accepted_license":"1","isi":1,"DOAJ_listed":"1","type":"journal_article","publisher":"Elsevier","intvolume":"         6","publication":"Cell Reports Physical Science","year":"2025","volume":6,"external_id":{"isi":["001516570500009"]},"article_type":"original","title":"STIM1-induced widening of non-pore-lining TM interfaces is crucial for Orai1 pore opening","OA_place":"publisher","department":[{"_id":"AnSa"}],"publication_identifier":{"eissn":["2666-3864"]},"article_processing_charge":"Yes","acknowledgement":"We thank S. Buchegger for excellent technical assistance. This research was funded by the Austrian Science Fund (FWF) projects https://doi.org/10.55776/P32851, https://doi.org/10.55776/P35900, and https://doi.org/10.55776/P36202 to I.D. and https://doi.org/10.55776/PAT6871323 to A.T. N.M. is funded within the DOC program of the OeAW (Austrian Academy of Science). For open access purposes, the author has applied a CC BY public copyright license to any author-accepted manuscript version arising from this submission.","date_created":"2025-06-15T22:01:31Z"},{"corr_author":"1","file":[{"relation":"main_file","content_type":"application/pdf","date_updated":"2025-12-30T08:40:55Z","access_level":"open_access","creator":"dernst","file_size":8760757,"file_name":"2025_ChemistryMaterials_PalaciosCorella.pdf","success":1,"file_id":"20897","date_created":"2025-12-30T08:40:55Z","checksum":"902c52a2f52a028436e0acd8a5a4beac"}],"day":"03","language":[{"iso":"eng"}],"oa":1,"date_updated":"2025-12-30T08:41:57Z","oa_version":"Published Version","issue":"12","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.1021/acs.chemmater.5c00213","OA_type":"hybrid","month":"06","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"},"date_published":"2025-06-03T00:00:00Z","status":"public","ddc":["540"],"abstract":[{"lang":"eng","text":"Prussian blue (PB) and Prussian blue analogues (PBAs) are a class of porous materials composed of transition metal cations, cyanide ligands, and alkali metal cations. Their ability to intercalate and deintercalate ions within their framework pores, coupled with the adaptability of their crystal structure to electrochemical changes, underpins their success in battery applications. PBAs with Fe or Co as the active site exhibit high redox potentials (vs SHE) and have been extensively explored as cathode materials, with well-documented chemistry, crystal structures, and electrochemical properties. In contrast, PBAs with Cr or Mn as the active site display lower redox potentials and remain significantly underexplored as anode materials. This gap has led to fewer reported compounds and a less comprehensive understanding of their structural and electrochemical behavior, leaving the field relatively opaque. In this perspective, we comprehensively analyze the challenges involved in producing and employing PBAs with low redox potentials as active battery materials. Conversely, we propose numerous horizons and ask fundamental questions that should pave the way for future research to advance the field."}],"publication_status":"published","isi":1,"type":"journal_article","intvolume":"        37","PlanS_conform":"1","publisher":"American Chemical Society","file_date_updated":"2025-12-30T08:40:55Z","_id":"19847","author":[{"full_name":"Palacios Corella, Mario","id":"452e82c6-803f-11ed-ab7e-ca0439e73a5d","last_name":"Palacios Corella","first_name":"Mario"},{"full_name":"Echevarría, Igor","first_name":"Igor","last_name":"Echevarría","id":"a623795e-21fb-11ed-b8a1-a0f51308eed7"},{"full_name":"Santana Santos, Carla","first_name":"Carla","last_name":"Santana Santos"},{"last_name":"Schuhmann","first_name":"Wolfgang","full_name":"Schuhmann, Wolfgang"},{"last_name":"Ventosa","first_name":"Edgar","full_name":"Ventosa, Edgar"},{"full_name":"Ibáñez, Maria","id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","orcid":"0000-0001-5013-2843","first_name":"Maria"}],"scopus_import":"1","quality_controlled":"1","has_accepted_license":"1","citation":{"apa":"Palacios Corella, M., Echevarría, I., Santana Santos, C., Schuhmann, W., Ventosa, E., &#38; Ibáñez, M. (2025). Prussian blue analogues as anode materials for battery applications: Complexities and horizons. <i>Chemistry of Materials</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.chemmater.5c00213\">https://doi.org/10.1021/acs.chemmater.5c00213</a>","short":"M. Palacios Corella, I. Echevarría, C. Santana Santos, W. Schuhmann, E. Ventosa, M. Ibáñez, Chemistry of Materials 37 (2025) 4203–4226.","chicago":"Palacios Corella, Mario, Igor Echevarría, Carla Santana Santos, Wolfgang Schuhmann, Edgar Ventosa, and Maria Ibáñez. “Prussian Blue Analogues as Anode Materials for Battery Applications: Complexities and Horizons.” <i>Chemistry of Materials</i>. American Chemical Society, 2025. <a href=\"https://doi.org/10.1021/acs.chemmater.5c00213\">https://doi.org/10.1021/acs.chemmater.5c00213</a>.","ieee":"M. Palacios Corella, I. Echevarría, C. Santana Santos, W. Schuhmann, E. Ventosa, and M. Ibáñez, “Prussian blue analogues as anode materials for battery applications: Complexities and horizons,” <i>Chemistry of Materials</i>, vol. 37, no. 12. American Chemical Society, pp. 4203–4226, 2025.","mla":"Palacios Corella, Mario, et al. “Prussian Blue Analogues as Anode Materials for Battery Applications: Complexities and Horizons.” <i>Chemistry of Materials</i>, vol. 37, no. 12, American Chemical Society, 2025, pp. 4203–26, doi:<a href=\"https://doi.org/10.1021/acs.chemmater.5c00213\">10.1021/acs.chemmater.5c00213</a>.","ista":"Palacios Corella M, Echevarría I, Santana Santos C, Schuhmann W, Ventosa E, Ibáñez M. 2025. Prussian blue analogues as anode materials for battery applications: Complexities and horizons. Chemistry of Materials. 37(12), 4203–4226.","ama":"Palacios Corella M, Echevarría I, Santana Santos C, Schuhmann W, Ventosa E, Ibáñez M. Prussian blue analogues as anode materials for battery applications: Complexities and horizons. <i>Chemistry of Materials</i>. 2025;37(12):4203-4226. doi:<a href=\"https://doi.org/10.1021/acs.chemmater.5c00213\">10.1021/acs.chemmater.5c00213</a>"},"department":[{"_id":"MaIb"}],"article_processing_charge":"Yes (via OA deal)","date_created":"2025-06-15T22:01:31Z","acknowledgement":"All the authors acknowledge financial support by the MeBattery project. MeBattery has received funding from the European Innovation Council of the European Union under Grant Agreement No. 101046742. We acknowledge the valuable scientific discussions with Christine Fiedler. M.P.-C. acknowledges that the project that gave rise to these results received the support of a fellowship from the “la Caixa” Foundation (ID 100010434) with code LCF/BQ/PI24/12040015. E.V. also acknowledges financial support by the Spanish Ministry of Science and Innovation and NextGenerationEU (TED2021-131651B-C21) and Ramón y Cajal award (Ministry of Science and Innovation and European Social Funds, RYC2018-026086-I).","publication_identifier":{"issn":["0897-4756"],"eissn":["1520-5002"]},"volume":37,"external_id":{"isi":["001501830600001"]},"title":"Prussian blue analogues as anode materials for battery applications: Complexities and horizons","article_type":"original","project":[{"grant_number":"101046742","name":"MEDIATED BIPHASIC BATTERY","_id":"eb9fa02e-77a9-11ec-83b8-ab1143e5a30f"}],"publication":"Chemistry of Materials","year":"2025","OA_place":"publisher","page":"4203-4226"},{"publisher":"Springer Nature","type":"journal_article","isi":1,"citation":{"chicago":"Tinarrage, Raphaël, Henrique Ennes, Lucas Resck, Lucas T. Gomes, Jean R. Ponciano, and Jorge Poco. “Empirical Analysis of Binding Precedent Efficiency in Brazilian Supreme Court via Case Classification.” <i>Artificial Intelligence and Law</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s10506-025-09458-6\">https://doi.org/10.1007/s10506-025-09458-6</a>.","short":"R. Tinarrage, H. Ennes, L. Resck, L.T. Gomes, J.R. Ponciano, J. Poco, Artificial Intelligence and Law (2025).","apa":"Tinarrage, R., Ennes, H., Resck, L., Gomes, L. T., Ponciano, J. R., &#38; Poco, J. (2025). Empirical analysis of binding precedent efficiency in Brazilian Supreme Court via case classification. <i>Artificial Intelligence and Law</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10506-025-09458-6\">https://doi.org/10.1007/s10506-025-09458-6</a>","ama":"Tinarrage R, Ennes H, Resck L, Gomes LT, Ponciano JR, Poco J. Empirical analysis of binding precedent efficiency in Brazilian Supreme Court via case classification. <i>Artificial Intelligence and Law</i>. 2025. doi:<a href=\"https://doi.org/10.1007/s10506-025-09458-6\">10.1007/s10506-025-09458-6</a>","ista":"Tinarrage R, Ennes H, Resck L, Gomes LT, Ponciano JR, Poco J. 2025. Empirical analysis of binding precedent efficiency in Brazilian Supreme Court via case classification. Artificial Intelligence and Law.","ieee":"R. Tinarrage, H. Ennes, L. Resck, L. T. Gomes, J. R. Ponciano, and J. Poco, “Empirical analysis of binding precedent efficiency in Brazilian Supreme Court via case classification,” <i>Artificial Intelligence and Law</i>. Springer Nature, 2025.","mla":"Tinarrage, Raphaël, et al. “Empirical Analysis of Binding Precedent Efficiency in Brazilian Supreme Court via Case Classification.” <i>Artificial Intelligence and Law</i>, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1007/s10506-025-09458-6\">10.1007/s10506-025-09458-6</a>."},"quality_controlled":"1","scopus_import":"1","author":[{"first_name":"Raphaël","id":"40ebcc9d-905f-11ef-bf0a-dc475da8a04e","last_name":"Tinarrage","orcid":"0000-0002-1404-1095","full_name":"Tinarrage, Raphaël"},{"first_name":"Henrique","last_name":"Ennes","full_name":"Ennes, Henrique"},{"first_name":"Lucas","last_name":"Resck","full_name":"Resck, Lucas"},{"full_name":"Gomes, Lucas T.","last_name":"Gomes","first_name":"Lucas T."},{"full_name":"Ponciano, Jean R.","first_name":"Jean R.","last_name":"Ponciano"},{"last_name":"Poco","first_name":"Jorge","full_name":"Poco, Jorge"}],"_id":"19848","publication_identifier":{"issn":["0924-8463"],"eissn":["1572-8382"]},"acknowledgement":"Open access funding provided by Institute of Science and Technology (IST Austria).","date_created":"2025-06-15T22:01:31Z","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"UlWa"}],"OA_place":"publisher","year":"2025","publication":"Artificial Intelligence and Law","external_id":{"arxiv":["2407.07004"],"isi":["001494836700001"]},"title":"Empirical analysis of binding precedent efficiency in Brazilian Supreme Court via case classification","article_type":"original","day":"26","corr_author":"1","arxiv":1,"oa_version":"Published Version","date_updated":"2025-09-30T12:52:15Z","oa":1,"language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1007/s10506-025-09458-6","open_access":"1"}],"month":"05","OA_type":"hybrid","doi":"10.1007/s10506-025-09458-6","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_status":"epub_ahead","abstract":[{"lang":"eng","text":"Binding precedents (súmulas vinculantes) constitute a juridical instrument unique to the Brazilian legal system and whose objectives include the protection of the Federal Supreme Court against repetitive demands. Studies of the effectiveness of these instruments in decreasing the Court’s exposure to similar cases, however, indicate that they tend to fail in such a direction, with some of the binding precedents seemingly creating new demands. We empirically assess the legal impact of five binding precedents, 11, 14, 17, 26, and 37, at the highest Court level through their effects on the legal subjects they address. This analysis is only possible through the comparison of the Court’s ruling about the precedents’ themes before they are created, which means that these decisions should be detected through techniques of Similar Case Retrieval, which we tackle from the angle of Case Classification. The contributions of this article are therefore twofold: on the mathematical side, we compare the use of different methods of Natural Language Processing — TF-IDF, LSTM, Longformer, and regex — for Case Classification, whereas on the legal side, we contrast the inefficiency of these binding precedents with a set of hypotheses that may justify their repeated usage. We observe that the TF-IDF models performed slightly better than LSTM and Longformer when compared through common metrics; however, the deep learning models were able to detect certain important legal events that TF-IDF missed. On the legal side, we argue that the reasons for binding precedents to fail in responding to repetitive demand are heterogeneous and case-dependent, making it impossible to single out a specific cause. We identify five main hypotheses, which are found in different combinations in each of the precedents studied."}],"status":"public","date_published":"2025-05-26T00:00:00Z"},{"corr_author":"1","file":[{"access_level":"open_access","creator":"dernst","date_updated":"2025-06-23T10:31:11Z","relation":"main_file","content_type":"application/pdf","checksum":"fa8757f4780cfaeb51579c626284a8c1","file_id":"19869","date_created":"2025-06-23T10:31:11Z","file_size":1719489,"file_name":"2025_PhysReviewB_Babkin.pdf","success":1}],"day":"18","oa":1,"language":[{"iso":"eng"}],"oa_version":"Published Version","date_updated":"2025-09-30T12:53:47Z","issue":"21","arxiv":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1103/k4jh-pnxy","month":"06","OA_type":"hybrid","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"},"date_published":"2025-06-18T00:00:00Z","status":"public","ddc":["530"],"abstract":[{"lang":"eng","text":"Technology involving hybrid superconductor–semiconductor materials is a promising avenue for engineering quantum devices for information storage, manipulation, and transmission. Proximity-induced superconducting correlations are an essential part of such devices. While the proximity effect in the conduction band of common semiconductors is well understood, its manifestation in confined hole gases, realized for instance in germanium, is an active area of research. Lower-dimensional hole-based systems, particularly in germanium, are emerging as an attractive platform for a variety of solid-state quantum devices, due to their combination of efficient spin and charge control and long coherence times. The recent experimental realization of the proximity effect in germanium thus calls for a theoretical description that is tailored to hole gases. In this work, we propose a simple model to describe proximity-induced superconductivity in two-dimensional hole gases, incorporating both the heavy-hole (HH) and light-hole (LH) bands. We start from the Luttinger–Kohn model, introduce three parameters that characterize hopping across the superconductor–semiconductor interface, and derive explicit intraband and interband effective pairing terms for the HH and LH bands. Unlike previous approaches, our theory provides a quantitative relationship between induced pairings and interface properties. Restricting our general model to an experimentally relevant case where only the HH band crosses the chemical potential, we predict the coexistence of 𝑠-wave and 𝑑-wave singlet pairings, along with triplet-type pairings, and modified Zeeman and Rashba spin–orbit couplings. Our results thus present a starting point for theoretical modeling of quantum devices based on proximitized hole gases, fueling further progress in quantum technology."}],"publication_status":"published","isi":1,"type":"journal_article","intvolume":"       111","publisher":"American Physical Society","file_date_updated":"2025-06-23T10:31:11Z","_id":"19852","author":[{"last_name":"Babkin","id":"e63d75c3-72ef-11ef-b75a-e303e149911f","first_name":"Serafim","full_name":"Babkin, Serafim"},{"last_name":"Joecker","first_name":"Benjamin","full_name":"Joecker, Benjamin"},{"first_name":"Karsten","last_name":"Flensberg","full_name":"Flensberg, Karsten"},{"full_name":"Serbyn, Maksym","last_name":"Serbyn","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2399-5827","first_name":"Maksym"},{"full_name":"Danon, Jeroen","first_name":"Jeroen","last_name":"Danon"}],"quality_controlled":"1","article_number":"214518","scopus_import":"1","has_accepted_license":"1","citation":{"apa":"Babkin, S., Joecker, B., Flensberg, K., Serbyn, M., &#38; Danon, J. (2025). Superconducting proximity effect in two-dimensional hole gases. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/k4jh-pnxy\">https://doi.org/10.1103/k4jh-pnxy</a>","short":"S. Babkin, B. Joecker, K. Flensberg, M. Serbyn, J. Danon, Physical Review B 111 (2025).","chicago":"Babkin, Serafim, Benjamin Joecker, Karsten Flensberg, Maksym Serbyn, and Jeroen Danon. “Superconducting Proximity Effect in Two-Dimensional Hole Gases.” <i>Physical Review B</i>. American Physical Society, 2025. <a href=\"https://doi.org/10.1103/k4jh-pnxy\">https://doi.org/10.1103/k4jh-pnxy</a>.","mla":"Babkin, Serafim, et al. “Superconducting Proximity Effect in Two-Dimensional Hole Gases.” <i>Physical Review B</i>, vol. 111, no. 21, 214518, American Physical Society, 2025, doi:<a href=\"https://doi.org/10.1103/k4jh-pnxy\">10.1103/k4jh-pnxy</a>.","ieee":"S. Babkin, B. Joecker, K. Flensberg, M. Serbyn, and J. Danon, “Superconducting proximity effect in two-dimensional hole gases,” <i>Physical Review B</i>, vol. 111, no. 21. American Physical Society, 2025.","ista":"Babkin S, Joecker B, Flensberg K, Serbyn M, Danon J. 2025. Superconducting proximity effect in two-dimensional hole gases. Physical Review B. 111(21), 214518.","ama":"Babkin S, Joecker B, Flensberg K, Serbyn M, Danon J. Superconducting proximity effect in two-dimensional hole gases. <i>Physical Review B</i>. 2025;111(21). doi:<a href=\"https://doi.org/10.1103/k4jh-pnxy\">10.1103/k4jh-pnxy</a>"},"department":[{"_id":"MaSe"},{"_id":"GradSch"}],"article_processing_charge":"Yes (via OA deal)","acknowledgement":"We acknowledge useful discussions with Georgios Katsaros, Andrew Higginbotham, and Oliver Schwarze. This research was funded in part by the Austrian Science Fund (FWF) F 86, the European Research Council (Grant Agreement No. 856526), and by the DFG Collaborative Research Center (CRC) 183 Project No. 277101999.","date_created":"2025-06-19T16:54:54Z","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"volume":111,"external_id":{"isi":["001514328000004"],"arxiv":["2412.04084"]},"title":"Superconducting proximity effect in two-dimensional hole gases","article_type":"original","project":[{"grant_number":"F8609","_id":"34a7f947-11ca-11ed-8bc3-c5dc2bbaae25","name":"Center for Correlated Quantum Materials and Solid State Quantum Systems:  Probing topology in circuits and quantum materials"}],"publication":"Physical Review B","year":"2025","OA_place":"publisher"},{"department":[{"_id":"ToHe"}],"publication_identifier":{"issn":["0303-6812"],"eissn":["1432-1416"]},"acknowledgement":"Ondřej Huvar has been supported by the Czech Science Foundation grant No. GA22-10845S. Samuel Pastva received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie Grant Agreement No. 101034413. Kyu Hyong Park and Réka Albert have been supported by NSF grant MCB 1715826 and ARO grant 79961-SM-MUR. No funding bodies had any role in study design, analysis, decision to publish, or preparation of the manuscript.","date_created":"2025-06-22T22:02:05Z","article_processing_charge":"Yes (in subscription journal)","year":"2025","publication":"Journal of Mathematical Biology","project":[{"grant_number":"101034413","call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"}],"external_id":{"isi":["001507009300001"],"arxiv":["2410.03976"]},"title":"An open problem: Why are motif-avoidant attractors so rare in asynchronous Boolean networks?","article_type":"original","volume":91,"OA_place":"publisher","type":"journal_article","isi":1,"publisher":"Springer Nature","intvolume":"        91","author":[{"id":"07c5ea74-f61c-11ec-a664-aa7c5d957b2b","last_name":"Pastva","orcid":"0000-0003-1993-0331","first_name":"Samuel","full_name":"Pastva, Samuel"},{"first_name":"Kyu Hyong","last_name":"Park","full_name":"Park, Kyu Hyong"},{"last_name":"Huvar","first_name":"Ondřej","full_name":"Huvar, Ondřej"},{"full_name":"Rozum, Jordan C.","first_name":"Jordan C.","last_name":"Rozum"},{"first_name":"Réka","last_name":"Albert","full_name":"Albert, Réka"}],"file_date_updated":"2025-06-23T11:10:01Z","_id":"19854","citation":{"apa":"Pastva, S., Park, K. H., Huvar, O., Rozum, J. C., &#38; Albert, R. (2025). An open problem: Why are motif-avoidant attractors so rare in asynchronous Boolean networks? <i>Journal of Mathematical Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00285-025-02235-8\">https://doi.org/10.1007/s00285-025-02235-8</a>","short":"S. Pastva, K.H. Park, O. Huvar, J.C. Rozum, R. Albert, Journal of Mathematical Biology 91 (2025).","chicago":"Pastva, Samuel, Kyu Hyong Park, Ondřej Huvar, Jordan C. Rozum, and Réka Albert. “An Open Problem: Why Are Motif-Avoidant Attractors so Rare in Asynchronous Boolean Networks?” <i>Journal of Mathematical Biology</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s00285-025-02235-8\">https://doi.org/10.1007/s00285-025-02235-8</a>.","mla":"Pastva, Samuel, et al. “An Open Problem: Why Are Motif-Avoidant Attractors so Rare in Asynchronous Boolean Networks?” <i>Journal of Mathematical Biology</i>, vol. 91, 11, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1007/s00285-025-02235-8\">10.1007/s00285-025-02235-8</a>.","ista":"Pastva S, Park KH, Huvar O, Rozum JC, Albert R. 2025. An open problem: Why are motif-avoidant attractors so rare in asynchronous Boolean networks? Journal of Mathematical Biology. 91, 11.","ieee":"S. Pastva, K. H. Park, O. Huvar, J. C. Rozum, and R. Albert, “An open problem: Why are motif-avoidant attractors so rare in asynchronous Boolean networks?,” <i>Journal of Mathematical Biology</i>, vol. 91. Springer Nature, 2025.","ama":"Pastva S, Park KH, Huvar O, Rozum JC, Albert R. An open problem: Why are motif-avoidant attractors so rare in asynchronous Boolean networks? <i>Journal of Mathematical Biology</i>. 2025;91. doi:<a href=\"https://doi.org/10.1007/s00285-025-02235-8\">10.1007/s00285-025-02235-8</a>"},"has_accepted_license":"1","quality_controlled":"1","scopus_import":"1","article_number":"11","doi":"10.1007/s00285-025-02235-8","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","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"},"OA_type":"hybrid","month":"06","status":"public","date_published":"2025-06-12T00:00:00Z","abstract":[{"text":"Asynchronous Boolean networks are a type of discrete dynamical system in which each variable can take one of two states, and a single variable state is updated in each time step according to pre-selected rules. Boolean networks are popular in systems biology due to their ability to model long-term biological phenotypes within a qualitative, predictive framework. Boolean networks model phenotypes as attractors, which are closely linked to minimal trap spaces (inescapable hypercubes in the system’s state space). In biological applications, attractors and minimal trap spaces are typically in one-to-one correspondence. However, this correspondence is not guaranteed: motif-avoidant attractors (MAAs) that lie outside minimal trap spaces are possible. MAAs are rare and poorly understood, despite recent efforts. In this contribution to the BMB & JMB Special Collection “Problems, Progress and Perspectives in Mathematical and Computational Biology”, we summarize the current state of knowledge regarding MAAs and present several novel observations regarding their response to node deletion reductions and linear extensions of edges. We conduct large-scale computational studies on an ensemble of 14 000 models derived from published Boolean models of biological systems, and more than 100 million Random Boolean Networks. Our findings quantify the rarity of MAAs; in particular, we only observed MAAs in biological models after applying standard simplification methods, highlighting the role of network reduction in introducing MAAs into the dynamics. We also show that MAAs are fragile to linear extensions: in sparse networks, even a single linear node can disrupt virtually all MAAs. Motivated by this observation, we improve the upper bound on the number of delays needed to disrupt a motif-avoidant attractor.","lang":"eng"}],"publication_status":"published","ddc":["000"],"file":[{"success":1,"file_name":"2025_JourMathBiology_Pastva.pdf","file_size":1243163,"checksum":"a385ef2662f1d0c3497ed3f2721fe594","date_created":"2025-06-23T11:10:01Z","file_id":"19871","content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-06-23T11:10:01Z"}],"corr_author":"1","day":"12","language":[{"iso":"eng"}],"ec_funded":1,"oa":1,"arxiv":1,"oa_version":"Published Version","date_updated":"2025-09-30T13:36:46Z"},{"author":[{"full_name":"Gazagnes, S.","last_name":"Gazagnes","first_name":"S."},{"full_name":"Chisholm, J.","first_name":"J.","last_name":"Chisholm"},{"last_name":"Endsley","first_name":"R.","full_name":"Endsley, R."},{"first_name":"D. A.","last_name":"Berg","full_name":"Berg, D. A."},{"first_name":"F.","last_name":"Leclercq","full_name":"Leclercq, F."},{"last_name":"Jurlin","first_name":"N.","full_name":"Jurlin, N."},{"full_name":"Saldana-Lopez, A.","last_name":"Saldana-Lopez","first_name":"A."},{"full_name":"Finkelstein, S. L.","first_name":"S. L.","last_name":"Finkelstein"},{"first_name":"S. R.","last_name":"Flury","full_name":"Flury, S. R."},{"last_name":"Guseva","first_name":"N. G.","full_name":"Guseva, N. G."},{"full_name":"Henry, A.","first_name":"A.","last_name":"Henry"},{"last_name":"Izotov","first_name":"Y. I.","full_name":"Izotov, Y. I."},{"first_name":"I.","last_name":"Jung","full_name":"Jung, I."},{"full_name":"Matthee, Jorryt J","first_name":"Jorryt J","orcid":"0000-0003-2871-127X","id":"7439a258-f3c0-11ec-9501-9df22fe06720","last_name":"Matthee"},{"full_name":"Schaerer, D.","first_name":"D.","last_name":"Schaerer"}],"file_date_updated":"2025-06-23T11:02:59Z","_id":"19855","citation":{"apa":"Gazagnes, S., Chisholm, J., Endsley, R., Berg, D. A., Leclercq, F., Jurlin, N., … Schaerer, D. (2025). A negligible contribution of two luminous z ∼7.5 galaxies to the ionizing photon budget of reionization. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/staf768\">https://doi.org/10.1093/mnras/staf768</a>","short":"S. Gazagnes, J. Chisholm, R. Endsley, D.A. Berg, F. Leclercq, N. Jurlin, A. Saldana-Lopez, S.L. Finkelstein, S.R. Flury, N.G. Guseva, A. Henry, Y.I. Izotov, I. Jung, J.J. Matthee, D. Schaerer, Monthly Notices of the Royal Astronomical Society 540 (2025) 2331–2348.","chicago":"Gazagnes, S., J. Chisholm, R. Endsley, D. A. Berg, F. Leclercq, N. Jurlin, A. Saldana-Lopez, et al. “A Negligible Contribution of Two Luminous z ∼7.5 Galaxies to the Ionizing Photon Budget of Reionization.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/mnras/staf768\">https://doi.org/10.1093/mnras/staf768</a>.","ista":"Gazagnes S, Chisholm J, Endsley R, Berg DA, Leclercq F, Jurlin N, Saldana-Lopez A, Finkelstein SL, Flury SR, Guseva NG, Henry A, Izotov YI, Jung I, Matthee JJ, Schaerer D. 2025. A negligible contribution of two luminous z ∼7.5 galaxies to the ionizing photon budget of reionization. Monthly Notices of the Royal Astronomical Society. 540(3), 2331–2348.","mla":"Gazagnes, S., et al. “A Negligible Contribution of Two Luminous z ∼7.5 Galaxies to the Ionizing Photon Budget of Reionization.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 540, no. 3, Oxford University Press, 2025, pp. 2331–48, doi:<a href=\"https://doi.org/10.1093/mnras/staf768\">10.1093/mnras/staf768</a>.","ieee":"S. Gazagnes <i>et al.</i>, “A negligible contribution of two luminous z ∼7.5 galaxies to the ionizing photon budget of reionization,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 540, no. 3. Oxford University Press, pp. 2331–2348, 2025.","ama":"Gazagnes S, Chisholm J, Endsley R, et al. A negligible contribution of two luminous z ∼7.5 galaxies to the ionizing photon budget of reionization. <i>Monthly Notices of the Royal Astronomical Society</i>. 2025;540(3):2331-2348. doi:<a href=\"https://doi.org/10.1093/mnras/staf768\">10.1093/mnras/staf768</a>"},"has_accepted_license":"1","scopus_import":"1","quality_controlled":"1","type":"journal_article","isi":1,"publisher":"Oxford University Press","intvolume":"       540","year":"2025","publication":"Monthly Notices of the Royal Astronomical Society","title":"A negligible contribution of two luminous z ∼7.5 galaxies to the ionizing photon budget of reionization","external_id":{"arxiv":["2410.03337"],"isi":["001506103600001"]},"article_type":"original","volume":540,"page":"2331-2348","OA_place":"publisher","department":[{"_id":"JoMa"}],"publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"date_created":"2025-06-22T22:02:05Z","acknowledgement":"This work is based on observations made with the NASA/ESA/CSA JWST. The data were obtained from the Mikulski Archive for Space Telescopes at the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS 5–03127 for JWST. These observations are associated with program #01871. Support for program #01871 was provided by NASA through a grant from the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS 5–03127. SG is grateful for the support enabled by the Harlan J. Smith McDonald fellowship. YI and NG acknowledge support from the Simons Foundation and the National Academy of Sciences of Ukraine (Project 0121U109612). ASL acknowledges support from Knut and Alice Wallenberg Foundation.","article_processing_charge":"Yes","oa":1,"language":[{"iso":"eng"}],"arxiv":1,"issue":"3","date_updated":"2025-09-30T13:34:20Z","oa_version":"Published Version","file":[{"content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-06-23T11:02:59Z","success":1,"file_size":3111567,"file_name":"2025_MonthlyNoticesRAS_Gazagnes.pdf","checksum":"f912c990a0474f1ddf9be6b8a89c7759","date_created":"2025-06-23T11:02:59Z","file_id":"19870"}],"day":"01","status":"public","date_published":"2025-07-01T00:00:00Z","abstract":[{"text":"We present indirect constraints on the absolute escape fraction of ionizing photons (f_{\\rm esc}^{\\rm LyC}) of the system GN 42912 which comprises two luminous galaxies (M_{\\rm UV} magnitudes of -20.89 and -20.37) at z\\sim7.5, GN 42912-NE and GN 42912-SW, to determine their contribution to the ionizing photon budget of the Epoch of Reionization (EoR). The high-resolution James Webb Space Telescope NIRSpec and NIRCam observations reveal the two galaxies are separated by only ~0.1\" (0.5 kpc) on the sky and have a 358 km s^{-1} velocity separation. GN 42912-NE and GN 42912-SW are relatively massive for this redshift (log(M_\\ast/M_\\odot) \\sim 8.4 and 8.9, respectively), with gas-phase metallicities of 18 per cent and 23 per cent solar, O_{32} ratios of 5.3 and >5.8, and \\beta slopes of -1.92 and -1.51, respectively. We use the Mg II\\lambda\\lambda2796,2803 doublet to constrain f_{\\rm esc}^{\\rm LyC}. Mg II has an ionization potential close to that of neutral hydrogen and, in the optically thin regime, can be used as an indirect tracer of the LyC leakage. We establish realistic conservative upper limits on f_{\\rm esc}^{\\rm LyC} of 8.5 per cent for GN 42912-NE and 14 per cent for GN 42912-SW. These estimates align with f_{\\rm esc}^{\\rm LyC} trends observed with \\beta, O_{32}, and the H\\beta equivalent width at z<4. The small inferred ionized region sizes (<0.3 pMpc) around both galaxies indicate they have not ionized a significant fraction of the surrounding neutral gas. While these z>7 f_{\\rm esc}^{\\rm LyC} constraints do not decisively determine a specific reionization model, they support a minor contribution from these two relatively luminous galaxies to the EoR.","lang":"eng"}],"publication_status":"published","ddc":["520"],"doi":"10.1093/mnras/staf768","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","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"},"OA_type":"gold","month":"07"},{"publisher":"The Royal Society","intvolume":"        21","isi":1,"type":"journal_article","citation":{"mla":"Nikolic, Nela, et al. “A Bacterial Toxin-Antitoxin System as a Native Defence Element against RNA Phages.” <i>Biology Letters</i>, vol. 21, no. 6, 20250080, The Royal Society, 2025, doi:<a href=\"https://doi.org/10.1098/rsbl.2025.0080\">10.1098/rsbl.2025.0080</a>.","ista":"Nikolic N, Pleska M, Bergmiller T, Guet CC. 2025. A bacterial toxin-antitoxin system as a native defence element against RNA phages. Biology Letters. 21(6), 20250080.","ieee":"N. Nikolic, M. Pleska, T. Bergmiller, and C. C. Guet, “A bacterial toxin-antitoxin system as a native defence element against RNA phages,” <i>Biology Letters</i>, vol. 21, no. 6. The Royal Society, 2025.","ama":"Nikolic N, Pleska M, Bergmiller T, Guet CC. A bacterial toxin-antitoxin system as a native defence element against RNA phages. <i>Biology Letters</i>. 2025;21(6). doi:<a href=\"https://doi.org/10.1098/rsbl.2025.0080\">10.1098/rsbl.2025.0080</a>","short":"N. Nikolic, M. Pleska, T. Bergmiller, C.C. Guet, Biology Letters 21 (2025).","apa":"Nikolic, N., Pleska, M., Bergmiller, T., &#38; Guet, C. C. (2025). A bacterial toxin-antitoxin system as a native defence element against RNA phages. <i>Biology Letters</i>. The Royal Society. <a href=\"https://doi.org/10.1098/rsbl.2025.0080\">https://doi.org/10.1098/rsbl.2025.0080</a>","chicago":"Nikolic, Nela, Maros Pleska, Tobias Bergmiller, and Calin C Guet. “A Bacterial Toxin-Antitoxin System as a Native Defence Element against RNA Phages.” <i>Biology Letters</i>. The Royal Society, 2025. <a href=\"https://doi.org/10.1098/rsbl.2025.0080\">https://doi.org/10.1098/rsbl.2025.0080</a>."},"article_number":"20250080","quality_controlled":"1","scopus_import":"1","has_accepted_license":"1","_id":"19857","file_date_updated":"2025-06-23T11:34:39Z","author":[{"full_name":"Nikolic, Nela","id":"42D9CABC-F248-11E8-B48F-1D18A9856A87","last_name":"Nikolic","orcid":"0000-0001-9068-6090","first_name":"Nela"},{"full_name":"Pleska, Maros","first_name":"Maros","orcid":"0000-0001-7460-7479","id":"4569785E-F248-11E8-B48F-1D18A9856A87","last_name":"Pleska"},{"full_name":"Bergmiller, Tobias","first_name":"Tobias","last_name":"Bergmiller","id":"2C471CFA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5396-4346"},{"first_name":"Calin C","id":"47F8433E-F248-11E8-B48F-1D18A9856A87","last_name":"Guet","orcid":"0000-0001-6220-2052","full_name":"Guet, Calin C"}],"publication_identifier":{"issn":["1744-9561"],"eissn":["1744-957X"]},"acknowledged_ssus":[{"_id":"LifeSc"}],"article_processing_charge":"Yes (via OA deal)","date_created":"2025-06-22T22:02:06Z","acknowledgement":"This work was supported by ISTFELLOW (People Program – Marie Curie Actions of the European Union’s Seventh Framework Program FP7 under REA grant agreement 291734), the FWF (Austrian Science Fund) Elise Richter Program project number V 738 and the Wellcome Trust Institutional Strategic Support Award (WT105618MA), to N.N. M.P. was a Simons Foundation Fellow of the Life Sciences Research Foundation. We are grateful to Kathrin Tomasek, Lisa Butt, Chris Estell, Alys Jepson, Franklin Nobrega, Stefano Pagliara, Remy Chait, Steve West, Vicki Gold, Josh Eaton, Ivana Gudelj and Rob Beardmore for useful discussions and technical support, as well as to Robin Wright, Christian Fitch and Ben Temperton for sharing equipment. We thank Laurence Van Melderen for sharing the strains. We acknowledge the IST Austria Lab Support Facility, LSI Technical Services Team at the University of Exeter and the Translational Research Exchange @ Exeter (TREE) network. N.N. is grateful to Fabrice Gielen for his support.","department":[{"_id":"CaGu"}],"OA_place":"publisher","project":[{"grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425"},{"grant_number":"V00738","call_identifier":"FWF","name":"Bacterial toxin-antitoxin systems as antiphage defense mechanisms","_id":"26956E74-B435-11E9-9278-68D0E5697425"}],"publication":"Biology Letters","year":"2025","volume":21,"article_type":"original","external_id":{"isi":["001505019800001"],"pmid":["40494395"]},"title":"A bacterial toxin-antitoxin system as a native defence element against RNA phages","day":"11","file":[{"file_name":"2025_BiologyLetters_Nikolic.pdf","file_size":1850797,"success":1,"file_id":"19873","date_created":"2025-06-23T11:34:39Z","checksum":"016f644ed068f8609ded306ad26dbd3f","relation":"main_file","content_type":"application/pdf","date_updated":"2025-06-23T11:34:39Z","access_level":"open_access","creator":"dernst"}],"corr_author":"1","oa_version":"Published Version","date_updated":"2025-09-30T13:38:08Z","issue":"6","language":[{"iso":"eng"}],"ec_funded":1,"oa":1,"month":"06","OA_type":"hybrid","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"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1098/rsbl.2025.0080","pmid":1,"ddc":["570"],"publication_status":"published","abstract":[{"lang":"eng","text":"Bacteria have evolved a wide range of defence strategies to protect themselves against bacterial viruses (phages). Most known bacterial antiphage defence systems target phages with DNA genomes, which raises the question of how bacteria defend against phages with RNA genomes. Bacterial toxin–antitoxin systems that cleave intracellular RNA could potentially protect bacteria against RNA phages, but this has not been explored experimentally. In this study, we investigated the role of a model toxin–antitoxin system, MazEF, in protecting Escherichia coli against two RNA phage species. When challenged with these phages, the native presence of mazEF moderately reduced population susceptibility and increased the survival of individual E. coli cells. Genomic analysis further revealed an underrepresentation of the MazF cleavage site in genomes of RNA phages infecting E. coli, indicating selection against cleavage. These results show that, in addition to other physiological roles, RNA-degrading toxin–antitoxin systems may also help defend against RNA phages."}],"status":"public","date_published":"2025-06-11T00:00:00Z"},{"isi":1,"type":"conference","intvolume":"       330","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik","_id":"19858","file_date_updated":"2025-06-23T11:23:29Z","author":[{"orcid":"0000-0003-4268-7368","id":"888a098e-fcac-11ee-aff7-d347be57b725","last_name":"El-Hayek","first_name":"Antoine","full_name":"El-Hayek, Antoine"},{"first_name":"Kathrin","last_name":"Hanauer","full_name":"Hanauer, Kathrin"},{"full_name":"Henzinger, Monika H","orcid":"0000-0002-5008-6530","last_name":"Henzinger","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","first_name":"Monika H"}],"article_number":"4","quality_controlled":"1","scopus_import":"1","has_accepted_license":"1","citation":{"ama":"El-Hayek A, Hanauer K, Henzinger M. On b-matching and fully-dynamic maximum k-edge coloring. In: <i>4th Symposium on Algorithmic Foundations of Dynamic Networks</i>. Vol 330. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2025. doi:<a href=\"https://doi.org/10.4230/LIPIcs.SAND.2025.4\">10.4230/LIPIcs.SAND.2025.4</a>","ieee":"A. El-Hayek, K. Hanauer, and M. Henzinger, “On b-matching and fully-dynamic maximum k-edge coloring,” in <i>4th Symposium on Algorithmic Foundations of Dynamic Networks</i>, Liverpool, United Kingdom, 2025, vol. 330.","mla":"El-Hayek, Antoine, et al. “On B-Matching and Fully-Dynamic Maximum k-Edge Coloring.” <i>4th Symposium on Algorithmic Foundations of Dynamic Networks</i>, vol. 330, 4, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025, doi:<a href=\"https://doi.org/10.4230/LIPIcs.SAND.2025.4\">10.4230/LIPIcs.SAND.2025.4</a>.","ista":"El-Hayek A, Hanauer K, Henzinger M. 2025. On b-matching and fully-dynamic maximum k-edge coloring. 4th Symposium on Algorithmic Foundations of Dynamic Networks. SAND: Symposium on Algorithmic Foundations of Dynamic Networks, LIPIcs, vol. 330, 4.","chicago":"El-Hayek, Antoine, Kathrin Hanauer, and Monika Henzinger. “On B-Matching and Fully-Dynamic Maximum k-Edge Coloring.” In <i>4th Symposium on Algorithmic Foundations of Dynamic Networks</i>, Vol. 330. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025. <a href=\"https://doi.org/10.4230/LIPIcs.SAND.2025.4\">https://doi.org/10.4230/LIPIcs.SAND.2025.4</a>.","short":"A. El-Hayek, K. Hanauer, M. Henzinger, in:, 4th Symposium on Algorithmic Foundations of Dynamic Networks, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2025.","apa":"El-Hayek, A., Hanauer, K., &#38; Henzinger, M. (2025). On b-matching and fully-dynamic maximum k-edge coloring. In <i>4th Symposium on Algorithmic Foundations of Dynamic Networks</i> (Vol. 330). Liverpool, United Kingdom: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.SAND.2025.4\">https://doi.org/10.4230/LIPIcs.SAND.2025.4</a>"},"conference":{"name":"SAND: Symposium on Algorithmic Foundations of Dynamic Networks","location":"Liverpool, United Kingdom","start_date":"2025-06-09","end_date":"2025-06-11"},"department":[{"_id":"MoHe"}],"article_processing_charge":"No","date_created":"2025-06-22T22:02:06Z","acknowledgement":"This project has received funding from the European Research Council (ERC) under the\r\nEuropean Union’s Horizon 2020 research and innovation programme (MoDynStruct, No. 101019564) and the Austrian Science Fund (FWF) grant DOI 10.55776/Z422, grant DOI 10.55776/I5982, and grant DOI 10.55776/P33775 with additional funding from the netidee SCIENCE Stiftung, 2020–2024. This work was further supported by the Federal Ministry of Education and Research (BMBF) project, 6G-RIC: 6G Research and Innovation Cluster, grant 16KISK020K.","publication_identifier":{"issn":["1868-8969"],"isbn":["9783959773683"]},"volume":330,"title":"On b-matching and fully-dynamic maximum k-edge coloring","external_id":{"arxiv":["2310.01149"],"isi":["001532136900004"]},"project":[{"_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","name":"The design and evaluation of modern fully dynamic data structures","grant_number":"101019564","call_identifier":"H2020"},{"grant_number":"Z00422","name":"Efficient algorithms","_id":"34def286-11ca-11ed-8bc3-da5948e1613c"},{"_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103","name":"Static and Dynamic Hierarchical Graph Decompositions","grant_number":"I05982"},{"_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","name":"Fast Algorithms for a Reactive Network Layer","grant_number":"P33775"}],"publication":"4th Symposium on Algorithmic Foundations of Dynamic Networks","year":"2025","OA_place":"publisher","corr_author":"1","file":[{"checksum":"ad93a1e052adb29d7bfe8bd551bab193","date_created":"2025-06-23T11:23:29Z","file_id":"19872","success":1,"file_name":"2025_LIPIcs_ElHayek.pdf","file_size":995666,"creator":"dernst","access_level":"open_access","date_updated":"2025-06-23T11:23:29Z","content_type":"application/pdf","relation":"main_file"}],"day":"02","ec_funded":1,"oa":1,"language":[{"iso":"eng"}],"alternative_title":["LIPIcs"],"oa_version":"Published Version","date_updated":"2025-09-30T13:37:28Z","arxiv":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.4230/LIPIcs.SAND.2025.4","OA_type":"gold","month":"06","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"},"date_published":"2025-06-02T00:00:00Z","status":"public","ddc":["000"],"publication_status":"published","abstract":[{"text":"Given a graph G that undergoes a sequence of edge insertions and deletions, we study the Maximum k-Edge Coloring problem (MkEC): Having access to k different colors, color as many edges of G as possible such that no two adjacent edges share the same color. While this problem is different from simply maintaining a b-matching with b = k, the two problems are related. However, maximum b-matching can be solved efficiently in the static setting, whereas MkEC is NP-hard and even APX-hard for k ≥ 2. \r\nWe present new results on both problems: For b-matching, we show a new integrality gap result and we adapt Wajc’s matching sparsification scheme [David Wajc, 2020] for the case where b is a constant.\r\nUsing these as basis, we give three new algorithms for the dynamic MkEC problem: Our MatchO algorithm builds on the dynamic (2+ε)-approximation algorithm of Bhattacharya, Gupta, and Mohan [Sayan Bhattacharya et al., 2017] for b-matching and achieves a (2+ε)(k+1)/k-approximation in O(poly(log n, ε^-1)) update time against an oblivious adversary. Our MatchA algorithm builds on the dynamic (7+ε)-approximation algorithm by Bhattacharya, Henzinger, and Italiano [Sayan Bhattacharya et al., 2015] for fractional b-matching and achieves a (7+ε)(3k+3)/(3k-1)-approximation in O(poly(log n, ε^-1)) update time against an adaptive adversary. Moreover, our reductions use the dynamic b-matching algorithm as a black box, so any future improvement in the approximation ratio for dynamic b-matching will automatically translate into a better approximation ratio for our algorithms. Finally, we present a greedy algorithm with O(Δ+k) update time, which guarantees a 2.16 approximation factor.","lang":"eng"}]},{"arxiv":1,"oa_version":"Published Version","date_updated":"2025-06-23T12:01:36Z","oa":1,"language":[{"iso":"eng"}],"day":"01","file":[{"file_size":746588,"file_name":"2025_AnnalesHenriLebesgue_Lichev.pdf","success":1,"checksum":"cca22d171b7affa010d17f5e793b0045","file_id":"19875","date_created":"2025-06-23T11:59:22Z","relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_updated":"2025-06-23T11:59:22Z"}],"corr_author":"1","ddc":["510"],"abstract":[{"lang":"eng","text":"We consider a recently introduced model of color-avoiding percolation (abbreviated CA-percolation) defined as follows. Every edge in a graph G is colored in some of k>=2 colors. Two vertices u and v in G are said to be CA-connected if u and v may be connected using any subset of k-1 colors. CA-connectivity defines an equivalence relation on the vertex set of G whose classes are called CA-components.\r\nWe study the component structure of a randomly colored Erdős–Rényi random graph of constant average degree. We distinguish three regimes for the size of the largest component: a supercritical regime, a so-called intermediate regime, and a subcritical regime, in which the largest CA-component has respectively linear, logarithmic, and bounded size. Interestingly, in the subcritical regime, the bound is deterministic and given by the number of colors."}],"publication_status":"published","status":"public","date_published":"2025-06-01T00:00:00Z","month":"06","OA_type":"gold","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"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","doi":"10.5802/ahl.228","citation":{"ama":"Lichev L, Schapira B. Color-avoiding percolation on the Erdős–Rényi random graph. <i>Annales Henri Lebesgue</i>. 2025;8:35-65. doi:<a href=\"https://doi.org/10.5802/ahl.228\">10.5802/ahl.228</a>","ista":"Lichev L, Schapira B. 2025. Color-avoiding percolation on the Erdős–Rényi random graph. Annales Henri Lebesgue. 8, 35–65.","ieee":"L. Lichev and B. Schapira, “Color-avoiding percolation on the Erdős–Rényi random graph,” <i>Annales Henri Lebesgue</i>, vol. 8. École normale supérieure de Rennes, pp. 35–65, 2025.","mla":"Lichev, Lyuben, and Bruno Schapira. “Color-Avoiding Percolation on the Erdős–Rényi Random Graph.” <i>Annales Henri Lebesgue</i>, vol. 8, École normale supérieure de Rennes, 2025, pp. 35–65, doi:<a href=\"https://doi.org/10.5802/ahl.228\">10.5802/ahl.228</a>.","chicago":"Lichev, Lyuben, and Bruno Schapira. “Color-Avoiding Percolation on the Erdős–Rényi Random Graph.” <i>Annales Henri Lebesgue</i>. École normale supérieure de Rennes, 2025. <a href=\"https://doi.org/10.5802/ahl.228\">https://doi.org/10.5802/ahl.228</a>.","short":"L. Lichev, B. Schapira, Annales Henri Lebesgue 8 (2025) 35–65.","apa":"Lichev, L., &#38; Schapira, B. (2025). Color-avoiding percolation on the Erdős–Rényi random graph. <i>Annales Henri Lebesgue</i>. École normale supérieure de Rennes. <a href=\"https://doi.org/10.5802/ahl.228\">https://doi.org/10.5802/ahl.228</a>"},"scopus_import":"1","quality_controlled":"1","has_accepted_license":"1","file_date_updated":"2025-06-23T11:59:22Z","_id":"19859","author":[{"full_name":"Lichev, Lyuben","first_name":"Lyuben","id":"9aa8388e-d003-11ee-8458-c4c1d7447977","last_name":"Lichev"},{"last_name":"Schapira","first_name":"Bruno","full_name":"Schapira, Bruno"}],"publisher":"École normale supérieure de Rennes","intvolume":"         8","DOAJ_listed":"1","type":"journal_article","page":"35-65","OA_place":"publisher","publication":"Annales Henri Lebesgue","year":"2025","volume":8,"external_id":{"arxiv":["2211.16086 "]},"article_type":"original","title":"Color-avoiding percolation on the Erdős–Rényi random graph","publication_identifier":{"eissn":["2644-9463"]},"article_processing_charge":"Yes","date_created":"2025-06-22T22:02:07Z","acknowledgement":"We thank Dieter Mitsche for enlightening discussions, Balázs Ráth for a number of comments\r\nand corrections on a first version of this paper, and an anonymous referee for several useful remarks.","department":[{"_id":"MaKw"}]},{"publication_identifier":{"eissn":["1558-5646"],"issn":["0014-3820"]},"acknowledged_ssus":[{"_id":"ScienComp"}],"date_created":"2025-06-23T13:51:00Z","acknowledgement":"We thank Nick Barton for useful comments on the manuscript. This research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by Scientific Computing (SciComp).","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"NiBa"}],"related_material":{"record":[{"relation":"research_data","id":"18712","status":"public"}]},"page":"1185-1198","OA_place":"publisher","year":"2025","publication":"Evolution","title":"Effect of assortative mating and sexual selection on polygenic barriers to gene flow","external_id":{"isi":["001490646300001"]},"article_type":"original","volume":79,"publisher":"Oxford University Press","intvolume":"        79","type":"journal_article","isi":1,"citation":{"ama":"Surendranadh P, Sachdeva H. Effect of assortative mating and sexual selection on polygenic barriers to gene flow. <i>Evolution</i>. 2025;79(7):1185-1198. doi:<a href=\"https://doi.org/10.1093/evolut/qpaf047\">10.1093/evolut/qpaf047</a>","ista":"Surendranadh P, Sachdeva H. 2025. Effect of assortative mating and sexual selection on polygenic barriers to gene flow. Evolution. 79(7), 1185–1198.","mla":"Surendranadh, Parvathy, and Himani Sachdeva. “Effect of Assortative Mating and Sexual Selection on Polygenic Barriers to Gene Flow.” <i>Evolution</i>, vol. 79, no. 7, Oxford University Press, 2025, pp. 1185–98, doi:<a href=\"https://doi.org/10.1093/evolut/qpaf047\">10.1093/evolut/qpaf047</a>.","ieee":"P. Surendranadh and H. Sachdeva, “Effect of assortative mating and sexual selection on polygenic barriers to gene flow,” <i>Evolution</i>, vol. 79, no. 7. Oxford University Press, pp. 1185–1198, 2025.","chicago":"Surendranadh, Parvathy, and Himani Sachdeva. “Effect of Assortative Mating and Sexual Selection on Polygenic Barriers to Gene Flow.” <i>Evolution</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/evolut/qpaf047\">https://doi.org/10.1093/evolut/qpaf047</a>.","apa":"Surendranadh, P., &#38; Sachdeva, H. (2025). Effect of assortative mating and sexual selection on polygenic barriers to gene flow. <i>Evolution</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evolut/qpaf047\">https://doi.org/10.1093/evolut/qpaf047</a>","short":"P. Surendranadh, H. Sachdeva, Evolution 79 (2025) 1185–1198."},"has_accepted_license":"1","scopus_import":"1","quality_controlled":"1","author":[{"full_name":"Surendranadh, Parvathy","last_name":"Surendranadh","id":"455235B8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6395-386X","first_name":"Parvathy"},{"last_name":"Sachdeva","first_name":"Himani","full_name":"Sachdeva, Himani"}],"_id":"19876","file_date_updated":"2025-12-30T08:43:33Z","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","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"month":"07","OA_type":"hybrid","doi":"10.1093/evolut/qpaf047","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Assortative mating and sexual selection are widespread in nature and can play an important role in speciation by facilitating the buildup and maintenance of reproductive isolation (RI). However, their contribution to genome-wide suppression of gene flow during RI is rarely quantified.\r\nHere, we consider a polygenic “magic” trait that is divergently selected across two populations connected by migration, while also serving as the basis of assortative mating, thus generating sexual selection on one or both sexes. We obtain theoretical predictions for divergence at\r\nindividual trait loci by assuming that the effect of all other loci on any locus can be encapsulated via an effective migration rate, which bears a simple relationship to measurable fitness components of migrants and various early-generation hybrids. Our analysis clarifies how “tipping\r\npoints” (characterized by an abrupt collapse of adaptive divergence) arise, and when assortative mating can shift the critical level of migration beyond which divergence collapses. We quantify the relative contributions of viability and sexual selection to genome-wide barriers to gene\r\nflow and discuss how these depend on existing divergence levels. Our results suggest that effective migration rates provide a useful way of understanding genomic divergence, even in scenarios involving multiple, interacting mechanisms of RI. ","lang":"eng"}],"publication_status":"published","ddc":["570"],"status":"public","date_published":"2025-07-01T00:00:00Z","day":"01","file":[{"content_type":"application/pdf","relation":"main_file","date_updated":"2025-12-30T08:43:33Z","creator":"dernst","access_level":"open_access","success":1,"file_name":"2025_Evolution_Surendranadh.pdf","file_size":2784295,"date_created":"2025-12-30T08:43:33Z","file_id":"20898","checksum":"288ca936cef794d68a55356e70671846"}],"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","corr_author":"1","issue":"7","oa_version":"Published Version","date_updated":"2025-12-30T08:44:13Z","language":[{"iso":"eng"}],"oa":1},{"file":[{"success":1,"file_size":1330044,"file_name":"2025_PPoPP_Frantar.pdf","date_created":"2025-06-24T06:04:17Z","file_id":"19883","checksum":"a0566ea3c168e8273501a5eb7d767cf8","content_type":"application/pdf","relation":"main_file","date_updated":"2025-06-24T06:04:17Z","creator":"dernst","access_level":"open_access"}],"corr_author":"1","day":"28","language":[{"iso":"eng"}],"oa":1,"arxiv":1,"date_updated":"2025-09-30T13:41:57Z","oa_version":"Published Version","doi":"10.1145/3710848.3710871","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","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"},"month":"02","OA_type":"hybrid","status":"public","date_published":"2025-02-28T00:00:00Z","publication_status":"published","abstract":[{"lang":"eng","text":"As inference on Large Language Models (LLMs) emerges as an important workload in machine learning applications, model weight quantization has become a standard technique for efficient GPU deployment. Quantization not only reduces model size, but has also been shown to yield substantial speedups for single-user inference, due to reduced memory movement, with low accuracy impact. Yet, it remains a key open question whether speedups are achievable also in batched settings with multiple parallel clients, which are highly relevant for practical serving. It is unclear whether GPU kernels can be designed to remain practically memory-bound, while supporting the substantially increased compute requirements of batched workloads.\r\nIn this paper, we resolve this question positively by introducing a new design for Mixed-precision Auto-Regressive LINear kernels, called MARLIN. Concretely, given a model whose weights are compressed via quantization to, e.g., 4 bits per element, MARLIN shows that batchsizes up to 16-32 can be practically supported with close to maximum (4×) quantization speedup, and larger batchsizes up to 64-128 with gradually decreasing, but still significant, acceleration. MARLIN accomplishes this via a combination of techniques, such as asynchronous memory access, complex task scheduling and pipelining, and bespoke quantization support. Our experiments show that MARLIN's near-optimal performance on individual LLM layers across different scenarios can also lead to significant end-to-end LLM inference speedups (of up to 2.8×) when integrated with the popular vLLM open-source serving engine. Finally, we show that MARLIN is extensible to further compression techniques, like NVIDIA 2:4 sparsity, leading to additional speedups."}],"ddc":["000"],"type":"conference","isi":1,"publisher":"Association for Computing Machinery","author":[{"full_name":"Frantar, Elias","last_name":"Frantar","id":"09a8f98d-ec99-11ea-ae11-c063a7b7fe5f","first_name":"Elias"},{"full_name":"Castro, Roberto L.","last_name":"Castro","first_name":"Roberto L."},{"full_name":"Chen, Jiale","first_name":"Jiale","last_name":"Chen","id":"4d0a9064-1ff6-11ee-9fa6-ec046c604785","orcid":"0000-0001-5337-5875"},{"first_name":"Torsten","last_name":"Hoefler","full_name":"Hoefler, Torsten"},{"full_name":"Alistarh, Dan-Adrian","first_name":"Dan-Adrian","orcid":"0000-0003-3650-940X","id":"4A899BFC-F248-11E8-B48F-1D18A9856A87","last_name":"Alistarh"}],"_id":"19877","file_date_updated":"2025-06-24T06:04:17Z","citation":{"apa":"Frantar, E., Castro, R. L., Chen, J., Hoefler, T., &#38; Alistarh, D.-A. (2025). MARLIN: Mixed-precision auto-regressive parallel inference on Large Language Models. In <i>Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming</i> (pp. 239–251). Las Vegas, NV, United States: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3710848.3710871\">https://doi.org/10.1145/3710848.3710871</a>","short":"E. Frantar, R.L. Castro, J. Chen, T. Hoefler, D.-A. Alistarh, in:, Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming, Association for Computing Machinery, 2025, pp. 239–251.","chicago":"Frantar, Elias, Roberto L. Castro, Jiale Chen, Torsten Hoefler, and Dan-Adrian Alistarh. “MARLIN: Mixed-Precision Auto-Regressive Parallel Inference on Large Language Models.” In <i>Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming</i>, 239–51. Association for Computing Machinery, 2025. <a href=\"https://doi.org/10.1145/3710848.3710871\">https://doi.org/10.1145/3710848.3710871</a>.","ista":"Frantar E, Castro RL, Chen J, Hoefler T, Alistarh D-A. 2025. MARLIN: Mixed-precision auto-regressive parallel inference on Large Language Models. Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming. PPoPP: Symposium on Principles and Practice of Parallel Programming, 239–251.","ieee":"E. Frantar, R. L. Castro, J. Chen, T. Hoefler, and D.-A. Alistarh, “MARLIN: Mixed-precision auto-regressive parallel inference on Large Language Models,” in <i>Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming</i>, Las Vegas, NV, United States, 2025, pp. 239–251.","mla":"Frantar, Elias, et al. “MARLIN: Mixed-Precision Auto-Regressive Parallel Inference on Large Language Models.” <i>Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming</i>, Association for Computing Machinery, 2025, pp. 239–51, doi:<a href=\"https://doi.org/10.1145/3710848.3710871\">10.1145/3710848.3710871</a>.","ama":"Frantar E, Castro RL, Chen J, Hoefler T, Alistarh D-A. MARLIN: Mixed-precision auto-regressive parallel inference on Large Language Models. In: <i>Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming</i>. Association for Computing Machinery; 2025:239-251. doi:<a href=\"https://doi.org/10.1145/3710848.3710871\">10.1145/3710848.3710871</a>"},"has_accepted_license":"1","quality_controlled":"1","scopus_import":"1","department":[{"_id":"DaAl"}],"conference":{"start_date":"2025-03-01","end_date":"2025-03-05","location":"Las Vegas, NV, United States","name":"PPoPP: Symposium on Principles and Practice of Parallel Programming"},"publication_identifier":{"isbn":["9798400714436"]},"date_created":"2025-06-23T13:51:58Z","acknowledgement":"The authors would like to thank the Neural Magic team, in particular Michael Goin, Alexander Matveev, and Rob Shaw, for support with the vLLM integration. This research was supported in part by generous grants from NVIDIA and Google.","article_processing_charge":"Yes (via OA deal)","year":"2025","publication":"Proceedings of the 30th ACM SIGPLAN Annual Symposium on Principles and Practice of Parallel Programming","external_id":{"arxiv":["2408.11743"],"isi":["001437826500019"]},"title":"MARLIN: Mixed-precision auto-regressive parallel inference on Large Language Models","related_material":{"record":[{"status":"public","id":"19884","relation":"software"}]},"OA_place":"publisher","page":"239-251"},{"OA_place":"publisher","volume":130,"article_type":"original","title":"Method dependence in thermal conductivity and aerodynamic roughness length estimates on a debris‐covered glacier","external_id":{"isi":["001508794200001"]},"publication":"Journal of Geophysical Research: Earth Surface","year":"2025","article_processing_charge":"Yes (via OA deal)","date_created":"2025-06-23T13:54:01Z","acknowledgement":"This project received funding from the Swiss National Science Foundation (Grant 204322, project “REsolving the thickNess Of debris on Earth's glacIers and its Rate of change,” RENOIR). We thank Lars Groeneveld, Diego Hernández, Alonso Mejías, Gabriela Reyes and Gabriela Tala for their support during fieldwork. Open access funding provided by Institute of Science and Technology Austria/KEMÖ.","publication_identifier":{"eissn":["2169-9011"],"issn":["2169-9003"]},"department":[{"_id":"FrPe"}],"quality_controlled":"1","scopus_import":"1","article_number":"e2025JF008360","has_accepted_license":"1","citation":{"ama":"Melo Velasco JV, Miles E, McCarthy M, et al. Method dependence in thermal conductivity and aerodynamic roughness length estimates on a debris‐covered glacier. <i>Journal of Geophysical Research: Earth Surface</i>. 2025;130(6). doi:<a href=\"https://doi.org/10.1029/2025jf008360\">10.1029/2025jf008360</a>","ieee":"J. V. Melo Velasco <i>et al.</i>, “Method dependence in thermal conductivity and aerodynamic roughness length estimates on a debris‐covered glacier,” <i>Journal of Geophysical Research: Earth Surface</i>, vol. 130, no. 6. Wiley, 2025.","mla":"Melo Velasco, Juan Vicente, et al. “Method Dependence in Thermal Conductivity and Aerodynamic Roughness Length Estimates on a Debris‐covered Glacier.” <i>Journal of Geophysical Research: Earth Surface</i>, vol. 130, no. 6, e2025JF008360, Wiley, 2025, doi:<a href=\"https://doi.org/10.1029/2025jf008360\">10.1029/2025jf008360</a>.","ista":"Melo Velasco JV, Miles E, McCarthy M, Shaw T, Fyffe CL, Fontrodona-Bach A, Pellicciotti F. 2025. Method dependence in thermal conductivity and aerodynamic roughness length estimates on a debris‐covered glacier. Journal of Geophysical Research: Earth Surface. 130(6), e2025JF008360.","chicago":"Melo Velasco, Juan Vicente, Evan Miles, Michael McCarthy, Thomas Shaw, Catriona Louise Fyffe, Adrià Fontrodona-Bach, and Francesca Pellicciotti. “Method Dependence in Thermal Conductivity and Aerodynamic Roughness Length Estimates on a Debris‐covered Glacier.” <i>Journal of Geophysical Research: Earth Surface</i>. Wiley, 2025. <a href=\"https://doi.org/10.1029/2025jf008360\">https://doi.org/10.1029/2025jf008360</a>.","apa":"Melo Velasco, J. V., Miles, E., McCarthy, M., Shaw, T., Fyffe, C. L., Fontrodona-Bach, A., &#38; Pellicciotti, F. (2025). Method dependence in thermal conductivity and aerodynamic roughness length estimates on a debris‐covered glacier. <i>Journal of Geophysical Research: Earth Surface</i>. Wiley. <a href=\"https://doi.org/10.1029/2025jf008360\">https://doi.org/10.1029/2025jf008360</a>","short":"J.V. Melo Velasco, E. Miles, M. McCarthy, T. Shaw, C.L. Fyffe, A. Fontrodona-Bach, F. Pellicciotti, Journal of Geophysical Research: Earth Surface 130 (2025)."},"file_date_updated":"2025-06-24T06:27:34Z","_id":"19878","author":[{"full_name":"Melo Velasco, Juan Vicente","last_name":"Melo Velasco","id":"2611dec0-b9c6-11ed-9bea-a81c2b17a549","first_name":"Juan Vicente"},{"last_name":"Miles","first_name":"Evan","full_name":"Miles, Evan"},{"first_name":"Michael","id":"22a2674a-61ce-11ee-94b5-d18813baf16f","last_name":"McCarthy","full_name":"McCarthy, Michael"},{"full_name":"Shaw, Thomas","id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e","last_name":"Shaw","orcid":"0000-0001-7640-6152","first_name":"Thomas"},{"full_name":"Fyffe, Catriona Louise","id":"001b0422-8d15-11ed-bc51-cab6c037a228","last_name":"Fyffe","first_name":"Catriona Louise"},{"full_name":"Fontrodona-Bach, Adrià","last_name":"Fontrodona-Bach","id":"f06891fd-9f42-11ee-8632-a20971c43046","first_name":"Adrià"},{"full_name":"Pellicciotti, Francesca","first_name":"Francesca","orcid":"0000-0002-5554-8087","id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","last_name":"Pellicciotti"}],"intvolume":"       130","publisher":"Wiley","isi":1,"type":"journal_article","ddc":["550"],"abstract":[{"lang":"eng","text":"Rock debris partially covers glaciers worldwide, with varying extents and distributions, and controls sub‐debris melt rates by modifying energy transfer from the atmosphere to the ice. Two key physical properties controlling this energy exchange are thermal conductivity (k) and aerodynamic roughness length (z0). Accurate representation of these properties in energy‐balance models is critical for understanding climate‐glacier interactions and predicting the behavior of debris‐covered glaciers. However, k and z0 have been derived at very few sites from limited local measurements, using different approaches, and most model applications rely on values reported from these few sites and studies. We derive k and z0 using established and modified approaches from data at three locations on Pirámide Glacier in the central Chilean Andes. By comparing methods and evaluating melt simulated with an energy‐balance model, we reveal substantial differences between approaches. These lead to discrepancies between ice melt from energy‐balance simulations and observed data, and highlight the impact of method choice on calculated ice melt. Optimizing k against measured melt appears a viable approach to constrain melt simulations. Determining z0 seems less critical, as it has a smaller impact on total melt. Profile aerodynamic method measurements for estimating z0, despite higher costs, are independent of ice melt calculations. The large, unexpected differences between methods indicate a substantial knowledge gap. The fact that field‐derived k and z0 fail to work well in energy‐balance models, suggests that model values represent bulk properties distinct from theoretical field measurements. Addressing this gap is essential for improving glacier melt predictions."}],"publication_status":"published","date_published":"2025-06-15T00:00:00Z","status":"public","month":"06","OA_type":"hybrid","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"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","doi":"10.1029/2025jf008360","date_updated":"2025-09-30T13:42:28Z","oa_version":"Published Version","issue":"6","oa":1,"language":[{"iso":"eng"}],"day":"15","corr_author":"1","file":[{"success":1,"file_name":"2025_JGREarthSurface_MeloVelasco.pdf","file_size":3949928,"date_created":"2025-06-24T06:27:34Z","file_id":"19886","checksum":"ca91541516c71d240321630ca42b4dc4","content_type":"application/pdf","relation":"main_file","date_updated":"2025-06-24T06:27:34Z","creator":"dernst","access_level":"open_access"}]},{"article_type":"original","external_id":{"arxiv":["2312.13061"],"isi":["001443061400001"]},"title":"Precoloring extension in planar near-Eulerian-triangulations","volume":127,"year":"2025","publication":"European Journal of Combinatorics","OA_place":"publisher","department":[{"_id":"MaKw"}],"acknowledgement":"Supported by project 22-17398S (Flows and cycles in graphs on surfaces) of Czech Science Foundation. An extended abstract appeared in Proceedings of the 12th European Conference on Combinatorics, Graph Theory and Applications (EUROCOMB’23)","date_created":"2025-06-23T13:54:46Z","article_processing_charge":"Yes (via OA deal)","publication_identifier":{"issn":["0195-6698"]},"author":[{"full_name":"Dvořák, Zdeněk","first_name":"Zdeněk","last_name":"Dvořák"},{"id":"6dc1a1be-bf1c-11ed-8d2b-d044840f49d6","last_name":"Moore","first_name":"Benjamin","full_name":"Moore, Benjamin"},{"first_name":"Michaela","last_name":"Seifrtová","full_name":"Seifrtová, Michaela"},{"last_name":"Šámal","first_name":"Robert","full_name":"Šámal, Robert"}],"_id":"19879","file_date_updated":"2025-06-24T06:33:30Z","has_accepted_license":"1","scopus_import":"1","article_number":"104138","quality_controlled":"1","citation":{"ista":"Dvořák Z, Moore B, Seifrtová M, Šámal R. 2025. Precoloring extension in planar near-Eulerian-triangulations. European Journal of Combinatorics. 127, 104138.","mla":"Dvořák, Zdeněk, et al. “Precoloring Extension in Planar Near-Eulerian-Triangulations.” <i>European Journal of Combinatorics</i>, vol. 127, 104138, Elsevier, 2025, doi:<a href=\"https://doi.org/10.1016/j.ejc.2025.104138\">10.1016/j.ejc.2025.104138</a>.","ieee":"Z. Dvořák, B. Moore, M. Seifrtová, and R. Šámal, “Precoloring extension in planar near-Eulerian-triangulations,” <i>European Journal of Combinatorics</i>, vol. 127. Elsevier, 2025.","ama":"Dvořák Z, Moore B, Seifrtová M, Šámal R. Precoloring extension in planar near-Eulerian-triangulations. <i>European Journal of Combinatorics</i>. 2025;127. doi:<a href=\"https://doi.org/10.1016/j.ejc.2025.104138\">10.1016/j.ejc.2025.104138</a>","short":"Z. Dvořák, B. Moore, M. Seifrtová, R. Šámal, European Journal of Combinatorics 127 (2025).","apa":"Dvořák, Z., Moore, B., Seifrtová, M., &#38; Šámal, R. (2025). Precoloring extension in planar near-Eulerian-triangulations. <i>European Journal of Combinatorics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ejc.2025.104138\">https://doi.org/10.1016/j.ejc.2025.104138</a>","chicago":"Dvořák, Zdeněk, Benjamin Moore, Michaela Seifrtová, and Robert Šámal. “Precoloring Extension in Planar Near-Eulerian-Triangulations.” <i>European Journal of Combinatorics</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.ejc.2025.104138\">https://doi.org/10.1016/j.ejc.2025.104138</a>."},"type":"journal_article","isi":1,"intvolume":"       127","publisher":"Elsevier","date_published":"2025-06-01T00:00:00Z","status":"public","publication_status":"published","abstract":[{"text":"We consider the 4-precoloring extension problem in planar near-Eulerian- triangulations, i.e., plane graphs where all faces except possibly for the outer one have length three, all vertices not incident with the outer face have even degree, and exactly the vertices incident with the outer face are precolored. We give a necessary topological condition for the precoloring to extend, and give a complete characterization when the outer face has length at most five and when all vertices of the outer face have odd degree and are colored using only three colors.","lang":"eng"}],"ddc":["510"],"doi":"10.1016/j.ejc.2025.104138","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","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"},"month":"06","OA_type":"hybrid","language":[{"iso":"eng"}],"oa":1,"date_updated":"2025-09-30T13:42:59Z","oa_version":"Published Version","arxiv":1,"corr_author":"1","file":[{"success":1,"file_name":"2025_EuropJournCombinatorics_Dvorak.pdf","file_size":564203,"date_created":"2025-06-24T06:33:30Z","file_id":"19887","checksum":"8b3585df45b25091fba9bee9854b7d01","content_type":"application/pdf","relation":"main_file","date_updated":"2025-06-24T06:33:30Z","creator":"dernst","access_level":"open_access"}],"day":"01"},{"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"},"month":"06","OA_type":"hybrid","pmid":1,"doi":"10.1063/5.0271155","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","abstract":[{"lang":"eng","text":"We investigate quantum transport in a two-dimensional electron system coupled to a chiral molecular potential, demonstrating how molecular chirality and orientation affect charge and spin transport properties. We propose a minimal model for realizing true chiral symmetry breaking on a magnetized surface, with a crucial role played by the tilt angle of the molecular dipole with respect to the surface. For non-zero tilting, we show that the Hall response exhibits clear signatures of chirality-induced effects, in both charge- and spin-resolved observables. Concerning the former, tilted enantiomers produce asymmetric Hall conductances and, even more remarkably, the persistence of this feature in the absence of spin–orbit coupling (SOC) signals how the enantiospecific charge response results from electron scattering off the molecular potential. Concerning spin-resolved observables where SOC plays a relevant role, we reveal that chiral symmetry breaking is crucial in enabling spin-flipping processes."}],"publication_status":"published","ddc":["530"],"date_published":"2025-06-21T00:00:00Z","status":"public","day":"21","corr_author":"1","file":[{"date_updated":"2025-06-23T14:03:30Z","access_level":"open_access","creator":"dernst","relation":"main_file","content_type":"application/pdf","file_id":"19881","date_created":"2025-06-23T14:03:30Z","checksum":"e278631d949657baa9d5309dad5f4b77","file_size":7202681,"file_name":"2025_JourChemicalPhysics_AlHyder.pdf","success":1}],"issue":"23","date_updated":"2025-09-30T13:40:55Z","oa_version":"Published Version","arxiv":1,"oa":1,"ec_funded":1,"language":[{"iso":"eng"}],"acknowledgement":"We thank Artem Volosniev, Narcis Avarvari, Georgios Koutentakis, Sandro Wimberger, and Binghai Yan for useful discussions. R.A. received funding from the Austrian Academy of Science ÖWA, Grant No. PR1029OEAW03. M.L. acknowledges support by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). A.C. received funding from the European Union’s Horizon Europe research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 101062862-NeqMolRot.","date_created":"2025-06-23T13:55:28Z","article_processing_charge":"Yes (via OA deal)","publication_identifier":{"eissn":["1089-7690"],"issn":["0021-9606"]},"department":[{"_id":"MiLe"}],"OA_place":"publisher","title":"Quantum transport in the presence of a chiral molecular potential","article_type":"original","external_id":{"arxiv":["2503.14124"],"pmid":["40526561"],"isi":["001512872900010"]},"volume":162,"year":"2025","project":[{"name":"Angulon: physics and applications of a new quasiparticle","_id":"2688CF98-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"801770"},{"name":"Non-Equilibrium Field Theory of Molecular Rotations","_id":"bd7b5202-d553-11ed-ba76-9b1c1b258338","grant_number":"101062862"},{"grant_number":"12078","name":"Polarons in Lead Halide Perovskites","_id":"8fa7db46-16d5-11f0-9cad-917600954daf"}],"publication":"The Journal of Chemical Physics","intvolume":"       162","publisher":"AIP Publishing","type":"journal_article","isi":1,"has_accepted_license":"1","quality_controlled":"1","article_number":"234106","scopus_import":"1","citation":{"mla":"Al Hyder, Ragheed, et al. “Quantum Transport in the Presence of a Chiral Molecular Potential.” <i>The Journal of Chemical Physics</i>, vol. 162, no. 23, 234106, AIP Publishing, 2025, doi:<a href=\"https://doi.org/10.1063/5.0271155\">10.1063/5.0271155</a>.","ieee":"R. 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This research was supported by the Scientific Service Units of ISTA through resources provided by the MIBA Machine Shop and the Nanofabrication Facility. G.K. acknowledges support from the NOMIS Foundation, the HORIZON-RIA (project no. 101069515) and the FWF Projects (DOIs: 10.55776/F86 and 10.55776/I5060). N.A. acknowledges support from the European Research Council (grant agreement 948932), and the Royal Society (grant no. URF/R1/191150). This project received support from the US Army Research Office (ARO) under Award No. W911NF-24-2-0043. C.C. acknowledges support from the UKRI Doctoral Training Partnership related to EP/W524311/1 (project ref. 2887634).","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"},"date_created":"2025-06-24T06:56:03Z","month":"06","article_processing_charge":"No"},{"date_published":"2025-06-27T00:00:00Z","title":"Files for \"Evolutionary repurposing of a DNA segregation machinery into a cytoskeletal system controlling cyanobacterial cell shape\"","project":[{"call_identifier":"H2020","grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"},{"grant_number":"101076260","_id":"bd980d18-d553-11ed-ba76-ceaa645c97eb","name":"A molecular atlas of Actin filament IDentities in the cell motility machinery"}],"status":"public","year":"2025","user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","doi":"10.15479/AT:ISTA:19915","department":[{"_id":"MaLo"}],"article_processing_charge":"No","month":"06","acknowledgement":"We thank all members of the Martin Loose lab at ISTA for helpful discussions and Marko Kojic for critical reading of the manuscript. This research was supported by the Scientific Service Units (SSU) of ISTA through resources provided by the Imaging & Optics Facility (IOF), the Scientific Computing (SciComp) and the Electron Microscopy Facility (EMF), as well as the Lab Support Facility (LSF). This project has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No.101034413 awarded to BLS as well as an ERC grant (ActinID, 101076260) from the European Union awarded to FKMS. Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union or the European Research Council. Neither the European Union nor the granting authority can be held responsible for them.\r\n\r\nWe are grateful for Antonia Herrero (Sevilla University) for sharing her extensive BACTH plasmid library and other plasmids as well as cyanobacterial strains. Likewise, we would like to thank Tal Dagan and Fabian Nies (both Kiel University) for sharing cyanobacterial strains and plasmids and for valuable discussions.\r\n\r\nWe would further like to express our gratitude to Nicolas Sapay and Alexis Michon for providing the Amphipaseek code, which enabled us to perform our large-scale amphipathic helix screen of cyanobacterial CorR proteins. Finally, we also want to thank Jesse Hansen for advice in cryo-EM data processing","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","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"date_created":"2025-06-27T07:34:52Z","contributor":[{"contributor_type":"project_leader","first_name":"Benjamin L","last_name":"Springstein","id":"b4eb62ef-ac72-11ed-9503-ed3b4d66c083","orcid":"0000-0002-3461-5391"},{"contributor_type":"researcher","last_name":"Javoor","id":"305ab18b-dc7d-11ea-9b2f-b58195228ea2","first_name":"Manjunath"},{"first_name":"Daniela","last_name":"Megrian","contributor_type":"researcher"},{"last_name":"Hajdu","id":"ffab949d-133f-11ed-8f02-94de21ace503","first_name":"Roman","contributor_type":"researcher"},{"contributor_type":"researcher","last_name":"Hanke","first_name":"Dustin M"},{"contributor_type":"researcher","first_name":"Florian KM","orcid":"0000-0003-4790-8078","last_name":"Schur","id":"48AD8942-F248-11E8-B48F-1D18A9856A87"},{"contributor_type":"supervisor","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","last_name":"Loose","first_name":"Martin"}],"_id":"19915","ec_funded":1,"file_date_updated":"2025-07-02T08:10:21Z","oa":1,"author":[{"first_name":"Benjamin L","orcid":"0000-0002-3461-5391","last_name":"Springstein","id":"b4eb62ef-ac72-11ed-9503-ed3b4d66c083","full_name":"Springstein, Benjamin L"}],"date_updated":"2025-07-02T08:25:37Z","oa_version":"None","has_accepted_license":"1","citation":{"mla":"Springstein, Benjamin L. <i>Files for “Evolutionary Repurposing of a DNA Segregation Machinery into a Cytoskeletal System Controlling Cyanobacterial Cell Shape.”</i> Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:19915\">10.15479/AT:ISTA:19915</a>.","ista":"Springstein BL. 2025. Files for ‘Evolutionary repurposing of a DNA segregation machinery into a cytoskeletal system controlling cyanobacterial cell shape’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:19915\">10.15479/AT:ISTA:19915</a>.","ieee":"B. L. Springstein, “Files for ‘Evolutionary repurposing of a DNA segregation machinery into a cytoskeletal system controlling cyanobacterial cell shape.’” Institute of Science and Technology Austria, 2025.","ama":"Springstein BL. Files for “Evolutionary repurposing of a DNA segregation machinery into a cytoskeletal system controlling cyanobacterial cell shape.” 2025. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:19915\">10.15479/AT:ISTA:19915</a>","apa":"Springstein, B. L. (2025). Files for “Evolutionary repurposing of a DNA segregation machinery into a cytoskeletal system controlling cyanobacterial cell shape.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:19915\">https://doi.org/10.15479/AT:ISTA:19915</a>","short":"B.L. Springstein, (2025).","chicago":"Springstein, Benjamin L. “Files for ‘Evolutionary Repurposing of a DNA Segregation Machinery into a Cytoskeletal System Controlling Cyanobacterial Cell Shape.’” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT:ISTA:19915\">https://doi.org/10.15479/AT:ISTA:19915</a>."},"corr_author":"1","file":[{"checksum":"5b85c299bdd46cbde000e3449da835e0","file_id":"19916","date_created":"2025-06-27T07:35:29Z","file_name":"Supplementary Movie 1) in vivo time lapse microscopy of 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Inflammation and Protects from Colitis.” <i>Journal of Experimental Medicine</i>. Rockefeller University Press, 2025. <a href=\"https://doi.org/10.1084/jem.20240109\">https://doi.org/10.1084/jem.20240109</a>.","apa":"Gawish, R., Varada, R., Deckert, F., Hladik, A., Steinbichl, L., Cimatti, L., … Vesely, C. (2025). Filamin A editing in myeloid cells reduces intestinal inflammation and protects from colitis. <i>Journal of Experimental Medicine</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1084/jem.20240109\">https://doi.org/10.1084/jem.20240109</a>","short":"R. Gawish, R. Varada, F. Deckert, A. Hladik, L. Steinbichl, L. Cimatti, K. Milanovic, M. Jain, N. Torgasheva, A. Tanzer, K. De Paepe, T. Van De Wiele, B. Hausmann, M. Lang, M. Pechhacker, N. Ibrahim, I. de Vries, C. Brostjan, M.K. Sixt, C. Gasche, L. Boon, D. Berry, M.F. Jantsch, F.C. Pereira, C. Vesely, Journal of Experimental Medicine 222 (2025).","ama":"Gawish R, Varada R, Deckert F, et al. Filamin A editing in myeloid cells reduces intestinal inflammation and protects from colitis. <i>Journal of Experimental Medicine</i>. 2025;222(9). doi:<a href=\"https://doi.org/10.1084/jem.20240109\">10.1084/jem.20240109</a>","mla":"Gawish, Riem, et al. “Filamin A Editing in Myeloid Cells Reduces Intestinal Inflammation and Protects from Colitis.” <i>Journal of Experimental Medicine</i>, vol. 222, no. 9, e20240109, Rockefeller University Press, 2025, doi:<a href=\"https://doi.org/10.1084/jem.20240109\">10.1084/jem.20240109</a>.","ista":"Gawish R, Varada R, Deckert F, Hladik A, Steinbichl L, Cimatti L, Milanovic K, Jain M, Torgasheva N, Tanzer A, De Paepe K, Van De Wiele T, Hausmann B, Lang M, Pechhacker M, Ibrahim N, de Vries I, Brostjan C, Sixt MK, Gasche C, Boon L, Berry D, Jantsch MF, Pereira FC, Vesely C. 2025. Filamin A editing in myeloid cells reduces intestinal inflammation and protects from colitis. Journal of Experimental Medicine. 222(9), e20240109.","ieee":"R. Gawish <i>et al.</i>, “Filamin A editing in myeloid cells reduces intestinal inflammation and protects from colitis,” <i>Journal of Experimental Medicine</i>, vol. 222, no. 9. Rockefeller University Press, 2025."},"scopus_import":"1","article_number":"e20240109","quality_controlled":"1","has_accepted_license":"1","_id":"19928","file_date_updated":"2025-12-30T09:00:04Z","author":[{"full_name":"Gawish, Riem","first_name":"Riem","last_name":"Gawish"},{"full_name":"Varada, Rajagopal","last_name":"Varada","first_name":"Rajagopal"},{"first_name":"Florian","last_name":"Deckert","full_name":"Deckert, Florian"},{"full_name":"Hladik, Anastasiya","last_name":"Hladik","first_name":"Anastasiya"},{"first_name":"Linda","last_name":"Steinbichl","full_name":"Steinbichl, Linda"},{"first_name":"Laura","last_name":"Cimatti","full_name":"Cimatti, Laura"},{"first_name":"Katarina","last_name":"Milanovic","full_name":"Milanovic, Katarina"},{"full_name":"Jain, Mamta","last_name":"Jain","first_name":"Mamta"},{"full_name":"Torgasheva, Natalya","first_name":"Natalya","last_name":"Torgasheva"},{"first_name":"Andrea","last_name":"Tanzer","full_name":"Tanzer, Andrea"},{"last_name":"De Paepe","first_name":"Kim","full_name":"De Paepe, Kim"},{"first_name":"Tom","last_name":"Van De Wiele","full_name":"Van De Wiele, Tom"},{"first_name":"Bela","last_name":"Hausmann","full_name":"Hausmann, Bela"},{"full_name":"Lang, Michaela","last_name":"Lang","first_name":"Michaela"},{"full_name":"Pechhacker, Martin","last_name":"Pechhacker","first_name":"Martin"},{"full_name":"Ibrahim, Nahla","first_name":"Nahla","last_name":"Ibrahim"},{"full_name":"De Vries, Ingrid","last_name":"De Vries","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87","first_name":"Ingrid"},{"full_name":"Brostjan, Christine","first_name":"Christine","last_name":"Brostjan"},{"full_name":"Sixt, Michael K","first_name":"Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt"},{"full_name":"Gasche, Christoph","last_name":"Gasche","first_name":"Christoph"},{"full_name":"Boon, Louis","last_name":"Boon","first_name":"Louis"},{"full_name":"Berry, David","last_name":"Berry","first_name":"David"},{"full_name":"Jantsch, Michael F.","last_name":"Jantsch","first_name":"Michael F."},{"full_name":"Pereira, Fatima C.","first_name":"Fatima C.","last_name":"Pereira"},{"first_name":"Cornelia","last_name":"Vesely","full_name":"Vesely, Cornelia"}],"publication_identifier":{"issn":["0022-1007"],"eissn":["1540-9538"]},"article_processing_charge":"Yes (via OA deal)","date_created":"2025-06-29T22:01:15Z","acknowledgement":"Sequencing was performed by the Vienna BioCenter Core Facilities (Medical University of Vienna Core Facility) and the Biomedical Sequencing Facility at CeMM, Vienna. Cell sorting and flow cytometry were performed at the Core Facility Flow Cytometry and Imaging (Medical University of Vienna). We thank Jasmin Schwarz, Gudrun Kohl, Petra Pjevac, and Joana Seneca Silva from the Joint Microbiome Facility of the Medical University of Vienna and the University of Vienna for assisting with amplicon and metagenomic sequencing, as well as repositing of sequencing data. We thank Sophia Derdak and Michael Schuster for initial data analysis, Robert Vilvoi and Stephan Hemm for animal handling, Marcel Kertesz for mouse genotyping, and Salwan Roumaia for next generation sequencing sample preparation. Treatment schemes and graphical abstracts were created with https://BioRender.com.\r\n\r\nThis work was supported by the Austrian Science Fund, grant number ZK 57-B28 to C. Vesely, R. Gawish, and F.C. Pereira; grant number V 1025-B to R. Gawish; grant number DOC32-B28 to R. Varada and M.F. Jantsch; and F8007 and P32678 to M.F. Jantsch. Open Access funding provided by Medical University of Vienna.","department":[{"_id":"MiSi"}],"OA_place":"publisher","publication":"Journal of Experimental Medicine","year":"2025","volume":222,"article_type":"original","title":"Filamin A editing in myeloid cells reduces intestinal inflammation and protects from colitis","external_id":{"isi":["001502896900001"],"pmid":["40471139"]},"day":"01","file":[{"success":1,"file_name":"2025_JEM_Gawish.pdf","file_size":9349311,"checksum":"708d61fb8cf1d83ee1e33ddcfde0857e","date_created":"2025-12-30T09:00:04Z","file_id":"20899","content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-12-30T09:00:04Z"}],"date_updated":"2025-12-30T09:00:42Z","oa_version":"Published Version","issue":"9","language":[{"iso":"eng"}],"oa":1,"month":"09","OA_type":"hybrid","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"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"doi":"10.1084/jem.20240109","ddc":["570"],"publication_status":"published","abstract":[{"lang":"eng","text":"Patho-mechanistic origins of ulcerative colitis are still poorly understood. The actin cross-linker filamin A (FLNA) impacts cellular responses through interaction with cytosolic proteins. Posttranscriptional A-to-I editing generates two forms of FLNA: genome-encoded FLNAQ and FLNAR. FLNA is edited in colon fibroblasts, smooth muscle cells, and endothelial cells. We found that the FLNA editing status determines colitis severity. Editing was highest in healthy colons and reduced during murine and human colitis. Mice that exclusively express FLNAR were highly resistant to DSS-induced colitis, whereas fully FLNAQ animals developed severe inflammation. While the genetic induction of FLNA editing influenced transcriptional states of structural cells and microbiome composition, we found that FLNAR exerts protection specifically via myeloid cells, which are physiologically unedited. Introducing fixed FLNAR did not hamper cell migration but reduced macrophage inflammation and rendered neutrophils less prone to NETosis. Thus, loss of FLNA editing correlates with colitis severity, and targeted editing of myeloid cells serves as a novel therapeutic approach in intestinal inflammation."}],"status":"public","date_published":"2025-09-01T00:00:00Z"},{"doi":"10.1051/0004-6361/202453547","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","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"},"OA_type":"diamond","month":"06","date_published":"2025-06-01T00:00:00Z","status":"public","publication_status":"published","abstract":[{"lang":"eng","text":"Context. The observed Lyman-alpha (Lyα) line profile is a convolution of the complex Lyα radiative transfer taking place in the interstellar, circumgalactic, and intergalactic media (ISM, CGM, and IGM, respectively). Discerning the different components of the Lyα line is crucial in order to use it as a probe of galaxy formation or the evolution of the IGM.\r\n\r\nAims. We aim to present the second version of zELDA (redshift Estimator for Line profiles of Distant Lyman-Alpha emitters), an open-source Python module focused on modelling and fitting observed Lyα line profiles. This new version of zELDA focuses on disentangling the galactic from the IGM effects.\r\n\r\nMethods. We built realistic Lyα line profiles that include the ISM and IGM contributions by combining the Monte Carlo radiative-transfer simulations for the so-called shell model (ISM) and IGM transmission curves generated from TNG100. We used these mock line profiles to train different artificial neural networks. These use the observed spectrum as input and the outflow parameters of the best fitting ‘shell model’ as output along with the redshift and Lyα emission IGM escape fraction of the source.\r\n\r\nResults. We measured the accuracy of zELDA on mock Lyα line profiles. We find that zELDA is capable of reconstructing the ISM emerging Lyα line profile with high levels of accuracy (Kolmogórov-Smirnov<0.1) for 95% of the cases for HST/COS-like observations and 80% for MUSE-WIDE-like observations. zELDA is able to measure the IGM transmission with typical uncertainties below 10% for HST/COS and MUSE-WIDE data.\r\n\r\nConclusions. This work represents a step forward in the high-precision reconstruction of IGM-attenuated Lyα line profiles. zELDA allows the disentanglement of the galactic and IGM contribution shaping the Lyα line shape and thus allows us to use Lyα as a tool to study galaxy and ISM evolution."}],"ddc":["520"],"file":[{"content_type":"application/pdf","relation":"main_file","creator":"dernst","access_level":"open_access","date_updated":"2025-06-30T08:28:40Z","success":1,"file_name":"2025_AstronomyAstrophysics_GurungLopez.pdf","file_size":5758102,"checksum":"a50a817b72f03534c6a867035b51e433","date_created":"2025-06-30T08:28:40Z","file_id":"19933"}],"day":"01","oa":1,"language":[{"iso":"eng"}],"oa_version":"Published Version","date_updated":"2026-02-16T12:11:56Z","arxiv":1,"department":[{"_id":"JoMa"}],"acknowledgement":"The authors acknowledge the financial support from the MICIU with funding from the European Union NextGenerationEU and Generalitat Valenciana in the call Programa de Planes Complementarios de I+D+i (PRTR 2022) Project (VAL-JPAS), reference ASFAE/2022/025. This work is part of the research Project PID2023-149420NB-I00 funded by MICIU/AEI/10.13039/501100011033 and by ERDF/EU. This work is also supported by the project of excellence PROMETEO CIPROM/2023/21 of the Conselleria de Educación, Universidades y Empleo (Generalitat Valenciana). MG thanks the Max Planck Society for support through the Max Planck Research Group. DS acknowledges the support by the Tsinghua Shui Mu Scholarship, funding of the National Key R&D Program of China (grant no. 2023YFA1605600), the science research grants from the China Manned Space Project with no. CMS-CSST2021-A05, and the Tsinghua University Initiative Scientific Research Program (no. 20223080023). This research made use of matplotlib, a Python library for publication quality graphics (Hunter 2007), NumPy (Harris et al. 2020) and SciPy (Virtanen et al. 2020).","date_created":"2025-06-29T22:01:15Z","article_processing_charge":"No","publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"external_id":{"arxiv":["2501.04077"],"isi":["001507317300003"]},"title":"zELDA II: Reconstruction of galactic Lyman-alpha spectra attenuated by the intergalactic medium using neural networks","article_type":"original","volume":698,"year":"2025","publication":"Astronomy & Astrophysics","OA_place":"publisher","type":"journal_article","isi":1,"intvolume":"       698","publisher":"EDP Sciences","author":[{"full_name":"Gurung-López, Siddhartha","first_name":"Siddhartha","last_name":"Gurung-López"},{"first_name":"Chris","last_name":"Byrohl","full_name":"Byrohl, Chris"},{"first_name":"Max","last_name":"Gronke","full_name":"Gronke, Max"},{"full_name":"Spinoso, Daniele","first_name":"Daniele","last_name":"Spinoso"},{"full_name":"Torralba Torregrosa, Alberto","id":"018f0249-0e87-11f0-b167-cbce08fbd541","last_name":"Torralba Torregrosa","orcid":"0000-0001-5586-6950","first_name":"Alberto"},{"full_name":"Fernández-Soto, Alberto","first_name":"Alberto","last_name":"Fernández-Soto"},{"full_name":"Arnalte-Mur, Pablo","last_name":"Arnalte-Mur","first_name":"Pablo"},{"full_name":"Martínez, Vicent J.","last_name":"Martínez","first_name":"Vicent J."}],"file_date_updated":"2025-06-30T08:28:40Z","_id":"19929","has_accepted_license":"1","scopus_import":"1","article_number":"A139","quality_controlled":"1","citation":{"chicago":"Gurung-López, Siddhartha, Chris Byrohl, Max Gronke, Daniele Spinoso, Alberto Torralba Torregrosa, Alberto Fernández-Soto, Pablo Arnalte-Mur, and Vicent J. Martínez. “ZELDA II: Reconstruction of Galactic Lyman-Alpha Spectra Attenuated by the Intergalactic Medium Using Neural Networks.” <i>Astronomy &#38; Astrophysics</i>. EDP Sciences, 2025. <a href=\"https://doi.org/10.1051/0004-6361/202453547\">https://doi.org/10.1051/0004-6361/202453547</a>.","short":"S. Gurung-López, C. Byrohl, M. Gronke, D. Spinoso, A. Torralba Torregrosa, A. Fernández-Soto, P. Arnalte-Mur, V.J. Martínez, Astronomy &#38; Astrophysics 698 (2025).","apa":"Gurung-López, S., Byrohl, C., Gronke, M., Spinoso, D., Torralba Torregrosa, A., Fernández-Soto, A., … Martínez, V. J. (2025). zELDA II: Reconstruction of galactic Lyman-alpha spectra attenuated by the intergalactic medium using neural networks. <i>Astronomy &#38; Astrophysics</i>. EDP Sciences. <a href=\"https://doi.org/10.1051/0004-6361/202453547\">https://doi.org/10.1051/0004-6361/202453547</a>","ama":"Gurung-López S, Byrohl C, Gronke M, et al. zELDA II: Reconstruction of galactic Lyman-alpha spectra attenuated by the intergalactic medium using neural networks. <i>Astronomy &#38; Astrophysics</i>. 2025;698. doi:<a href=\"https://doi.org/10.1051/0004-6361/202453547\">10.1051/0004-6361/202453547</a>","ista":"Gurung-López S, Byrohl C, Gronke M, Spinoso D, Torralba Torregrosa A, Fernández-Soto A, Arnalte-Mur P, Martínez VJ. 2025. zELDA II: Reconstruction of galactic Lyman-alpha spectra attenuated by the intergalactic medium using neural networks. Astronomy &#38; Astrophysics. 698, A139.","mla":"Gurung-López, Siddhartha, et al. “ZELDA II: Reconstruction of Galactic Lyman-Alpha Spectra Attenuated by the Intergalactic Medium Using Neural Networks.” <i>Astronomy &#38; Astrophysics</i>, vol. 698, A139, EDP Sciences, 2025, doi:<a href=\"https://doi.org/10.1051/0004-6361/202453547\">10.1051/0004-6361/202453547</a>.","ieee":"S. Gurung-López <i>et al.</i>, “zELDA II: Reconstruction of galactic Lyman-alpha spectra attenuated by the intergalactic medium using neural networks,” <i>Astronomy &#38; Astrophysics</i>, vol. 698. EDP Sciences, 2025."}},{"department":[{"_id":"JoMa"}],"publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"acknowledgement":"We acknowledges support from the INAF Large Grant for Extragalactic Surveys with JWST and from the PRIN 2022 MUR project 2022CB3PJ3 – First Light And Galaxy aSsembly (FLAGS) funded by the European Union – Next Generation EU. PS acknowledges INAF Mini Grant 2022 “The evolution of passive galaxies through cosmic time”. Part of the research activities described in this paper were carried out with the contribution of the Next Generation EU funds within the National Recovery and Resilience Plan (PNRR), Mission 4 – Education and Research, Component 2 – From Research to Business (M4C2), Investment Line 3.1 – Strengthening and creation of Research Infrastructures, Project IR0000034 – “STILES – Strengthening the Italian Leadership in ELT and SKA”. RA acknowledges support of Grant project PID2023-147386NB-I00 funded by MICIU/AEI/10.13039/501100011033 and by ERDF/EU, and the Severo Ochoa grant CEX2021-001131-S funded by MCIN/AEI/10.13039/50110001103.","date_created":"2025-06-29T22:01:15Z","article_processing_charge":"No","year":"2025","publication":"Astronomy & Astrophysics","article_type":"original","external_id":{"isi":["001510826300019"],"arxiv":["2412.01623"]},"title":"Evolution of the UV slope of galaxies at cosmic morning (z > 4): The properties of extremely blue galaxies","volume":698,"OA_place":"publisher","type":"journal_article","isi":1,"publisher":"EDP Sciences","intvolume":"       698","author":[{"last_name":"Dottorini","first_name":"D.","full_name":"Dottorini, D."},{"first_name":"A.","last_name":"Calabrò","full_name":"Calabrò, A."},{"first_name":"L.","last_name":"Pentericci","full_name":"Pentericci, L."},{"first_name":"Sara","last_name":"Mascia","id":"edaf889c-c7cd-11ef-ab1b-bb28c431bd29","full_name":"Mascia, Sara"},{"full_name":"Llerena, M.","last_name":"Llerena","first_name":"M."},{"last_name":"Napolitano","first_name":"L.","full_name":"Napolitano, L."},{"full_name":"Santini, P.","first_name":"P.","last_name":"Santini"},{"last_name":"Roberts-Borsani","first_name":"G.","full_name":"Roberts-Borsani, G."},{"full_name":"Castellano, M.","first_name":"M.","last_name":"Castellano"},{"full_name":"Amorin, R.","first_name":"R.","last_name":"Amorin"},{"full_name":"Dickinson, M.","last_name":"Dickinson","first_name":"M."},{"full_name":"Fontana, A.","last_name":"Fontana","first_name":"A."},{"last_name":"Hathi","first_name":"N.","full_name":"Hathi, N."},{"full_name":"Hirschmann, M.","first_name":"M.","last_name":"Hirschmann"},{"first_name":"A. M.","last_name":"Koekemoer","full_name":"Koekemoer, A. M."},{"first_name":"R. A.","last_name":"Lucas","full_name":"Lucas, R. A."},{"first_name":"E.","last_name":"Merlin","full_name":"Merlin, E."},{"full_name":"Morales, A.","last_name":"Morales","first_name":"A."},{"full_name":"Pacucci, F.","last_name":"Pacucci","first_name":"F."},{"full_name":"Wilkins, S.","first_name":"S.","last_name":"Wilkins"},{"first_name":"P.","last_name":"Arrabal Haro","full_name":"Arrabal Haro, P."},{"first_name":"M.","last_name":"Bagley","full_name":"Bagley, M."},{"first_name":"S. L.","last_name":"Finkelstein","full_name":"Finkelstein, S. L."},{"first_name":"J.","last_name":"Kartaltepe","full_name":"Kartaltepe, J."},{"first_name":"C.","last_name":"Papovich","full_name":"Papovich, C."},{"full_name":"Pirzkal, N.","first_name":"N.","last_name":"Pirzkal"}],"file_date_updated":"2025-06-30T08:22:08Z","_id":"19930","citation":{"ama":"Dottorini D, Calabrò A, Pentericci L, et al. Evolution of the UV slope of galaxies at cosmic morning (z &#62; 4): The properties of extremely blue galaxies. <i>Astronomy &#38; Astrophysics</i>. 2025;698. doi:<a href=\"https://doi.org/10.1051/0004-6361/202453267\">10.1051/0004-6361/202453267</a>","ista":"Dottorini D, Calabrò A, Pentericci L, Mascia S, Llerena M, Napolitano L, Santini P, Roberts-Borsani G, Castellano M, Amorin R, Dickinson M, Fontana A, Hathi N, Hirschmann M, Koekemoer AM, Lucas RA, Merlin E, Morales A, Pacucci F, Wilkins S, Arrabal Haro P, Bagley M, Finkelstein SL, Kartaltepe J, Papovich C, Pirzkal N. 2025. Evolution of the UV slope of galaxies at cosmic morning (z &#62; 4): The properties of extremely blue galaxies. Astronomy &#38; Astrophysics. 698, A234.","mla":"Dottorini, D., et al. “Evolution of the UV Slope of Galaxies at Cosmic Morning (z &#62; 4): The Properties of Extremely Blue Galaxies.” <i>Astronomy &#38; Astrophysics</i>, vol. 698, A234, EDP Sciences, 2025, doi:<a href=\"https://doi.org/10.1051/0004-6361/202453267\">10.1051/0004-6361/202453267</a>.","ieee":"D. Dottorini <i>et al.</i>, “Evolution of the UV slope of galaxies at cosmic morning (z &#62; 4): The properties of extremely blue galaxies,” <i>Astronomy &#38; Astrophysics</i>, vol. 698. EDP Sciences, 2025.","chicago":"Dottorini, D., A. Calabrò, L. Pentericci, Sara Mascia, M. Llerena, L. Napolitano, P. Santini, et al. “Evolution of the UV Slope of Galaxies at Cosmic Morning (z &#62; 4): The Properties of Extremely Blue Galaxies.” <i>Astronomy &#38; Astrophysics</i>. EDP Sciences, 2025. <a href=\"https://doi.org/10.1051/0004-6361/202453267\">https://doi.org/10.1051/0004-6361/202453267</a>.","short":"D. Dottorini, A. Calabrò, L. Pentericci, S. Mascia, M. Llerena, L. Napolitano, P. Santini, G. Roberts-Borsani, M. Castellano, R. Amorin, M. Dickinson, A. Fontana, N. Hathi, M. Hirschmann, A.M. Koekemoer, R.A. Lucas, E. Merlin, A. Morales, F. Pacucci, S. Wilkins, P. Arrabal Haro, M. Bagley, S.L. Finkelstein, J. Kartaltepe, C. Papovich, N. Pirzkal, Astronomy &#38; Astrophysics 698 (2025).","apa":"Dottorini, D., Calabrò, A., Pentericci, L., Mascia, S., Llerena, M., Napolitano, L., … Pirzkal, N. (2025). Evolution of the UV slope of galaxies at cosmic morning (z &#62; 4): The properties of extremely blue galaxies. <i>Astronomy &#38; Astrophysics</i>. EDP Sciences. <a href=\"https://doi.org/10.1051/0004-6361/202453267\">https://doi.org/10.1051/0004-6361/202453267</a>"},"has_accepted_license":"1","scopus_import":"1","article_number":"A234","quality_controlled":"1","doi":"10.1051/0004-6361/202453267","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","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"},"OA_type":"diamond","month":"06","status":"public","date_published":"2025-06-01T00:00:00Z","publication_status":"published","abstract":[{"text":"We present an analysis of the UV continuum slope, β, using a sample of 726 galaxies with z > 4, selected from a mixture of JWST ERS, GTO, and GO observational programs. We considered only spectroscopic data obtained with the low-resolution (R ∼ 30 − 300) PRISM/CLEAR NIRSpec configuration. Studying the correlation between β and MUV, we find an overall decreasing trend, described by β = ( − 0.055 ± 0.017)MUV + ( − 2.98 ± 0.34). This is consistent with previous studies, where brighter galaxies show redder β values. However, when analyzing the trend in separate redshift bins, we find that at high redshift the relation becomes much flatter and is consistent with a flat slope within 1σ. Furthermore, we find that β tends to decrease with redshift, following β = ( − 0.075 ± 0.010)z + ( − 1.496 ± 0.056). This is consistent with most recent results showing a steepening of the spectra at higher z. We selected a sample of galaxies with extremely blue slopes (i.e., β < −2.6). Such slopes are steeper than predicted by stellar evolution models – even for dust-free, young, metal-poor populations – when the contribution of nebular emission is included. We selected 44 extremely blue galaxies (XBGs) and investigated the possible physical origin of their steep slopes by comparing them to a subsample of redder galaxies (matched in Δz = ±0.5 and ΔMUV = ±0.2). We find that XBGs have younger stellar populations, stronger ionization fields, lower dust attenuation, and lower but not pristine metallicity (∼10% Z⊙) compared to red galaxies. However, these properties alone cannot explain the extreme β values. Using indirect inference of Lyman continuum escape with the most recent models, we estimated the escape fraction fesc > 10% in at least 25% of the XBGs, whereas all the red sources exhibit much lower fesc values. A reduced nebular continuum contribution – resulting from either a high escape fraction or a bursty star formation history – is likely the origin of the extremely blue slopes.","lang":"eng"}],"ddc":["520"],"file":[{"checksum":"100f897d468de9d0113277c870035b62","file_id":"19932","date_created":"2025-06-30T08:22:08Z","file_name":"2025_AstronomyAstrophysics_Dottorini.pdf","file_size":2442076,"success":1,"access_level":"open_access","creator":"dernst","date_updated":"2025-06-30T08:22:08Z","relation":"main_file","content_type":"application/pdf"}],"day":"01","language":[{"iso":"eng"}],"oa":1,"arxiv":1,"oa_version":"Published Version","date_updated":"2026-02-16T12:11:39Z"}]