[{"date_published":"2023-01-01T00:00:00Z","project":[{"call_identifier":"H2020","name":"Alpha Shape Theory Extended","_id":"266A2E9E-B435-11E9-9278-68D0E5697425","grant_number":"788183"},{"grant_number":"Z00342","_id":"268116B8-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Mathematics, Computer Science"},{"call_identifier":"FWF","name":"Persistence and stability of geometric complexes","_id":"2561EBF4-B435-11E9-9278-68D0E5697425","grant_number":"I02979-N35"}],"article_type":"original","date_created":"2022-09-11T22:01:57Z","author":[{"full_name":"Edelsbrunner, Herbert","first_name":"Herbert","orcid":"0000-0002-9823-6833","id":"3FB178DA-F248-11E8-B48F-1D18A9856A87","last_name":"Edelsbrunner"},{"full_name":"Osang, Georg F","first_name":"Georg F","orcid":"0000-0002-8882-5116","last_name":"Osang","id":"464B40D6-F248-11E8-B48F-1D18A9856A87"}],"title":"A simple algorithm for higher-order Delaunay mosaics and alpha shapes","ec_funded":1,"file":[{"relation":"main_file","date_updated":"2023-01-20T10:02:48Z","content_type":"application/pdf","checksum":"71685ca5121f4c837f40c3f8eb50c915","success":1,"file_id":"12322","access_level":"open_access","file_name":"2023_Algorithmica_Edelsbrunner.pdf","creator":"dernst","date_created":"2023-01-20T10:02:48Z","file_size":911017}],"acknowledgement":"Open access funding provided by Austrian Science Fund (FWF). This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme, Grant No. 788183, from the Wittgenstein Prize, Austrian Science Fund (FWF), Grant No. Z 342-N31, and from the DFG Collaborative Research Center TRR 109, ‘Discretization in Geometry and Dynamics’, Austrian Science Fund (FWF), Grant No. I 02979-N35.","doi":"10.1007/s00453-022-01027-6","ddc":["510"],"intvolume":"        85","scopus_import":"1","pmid":1,"publication":"Algorithmica","year":"2023","volume":85,"publication_identifier":{"eissn":["1432-0541"],"issn":["0178-4617"]},"day":"01","isi":1,"has_accepted_license":"1","status":"public","publication_status":"published","external_id":{"isi":["000846967100001"],"pmid":["36687803"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"HeEd"}],"file_date_updated":"2023-01-20T10:02:48Z","_id":"12086","abstract":[{"text":"We present a simple algorithm for computing higher-order Delaunay mosaics that works in Euclidean spaces of any finite dimensions. The algorithm selects the vertices of the order-k mosaic from incrementally constructed lower-order mosaics and uses an algorithm for weighted first-order Delaunay mosaics as a black-box to construct the order-k mosaic from its vertices. Beyond this black-box, the algorithm uses only combinatorial operations, thus facilitating easy implementation. We extend this algorithm to compute higher-order α-shapes and provide open-source implementations. We present experimental results for properties of higher-order Delaunay mosaics of random point sets.","lang":"eng"}],"page":"277-295","oa":1,"type":"journal_article","month":"01","citation":{"mla":"Edelsbrunner, Herbert, and Georg F. Osang. “A Simple Algorithm for Higher-Order Delaunay Mosaics and Alpha Shapes.” <i>Algorithmica</i>, vol. 85, Springer Nature, 2023, pp. 277–95, doi:<a href=\"https://doi.org/10.1007/s00453-022-01027-6\">10.1007/s00453-022-01027-6</a>.","ieee":"H. Edelsbrunner and G. F. Osang, “A simple algorithm for higher-order Delaunay mosaics and alpha shapes,” <i>Algorithmica</i>, vol. 85. Springer Nature, pp. 277–295, 2023.","apa":"Edelsbrunner, H., &#38; Osang, G. F. (2023). A simple algorithm for higher-order Delaunay mosaics and alpha shapes. <i>Algorithmica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00453-022-01027-6\">https://doi.org/10.1007/s00453-022-01027-6</a>","short":"H. Edelsbrunner, G.F. Osang, Algorithmica 85 (2023) 277–295.","chicago":"Edelsbrunner, Herbert, and Georg F Osang. “A Simple Algorithm for Higher-Order Delaunay Mosaics and Alpha Shapes.” <i>Algorithmica</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00453-022-01027-6\">https://doi.org/10.1007/s00453-022-01027-6</a>.","ista":"Edelsbrunner H, Osang GF. 2023. A simple algorithm for higher-order Delaunay mosaics and alpha shapes. Algorithmica. 85, 277–295.","ama":"Edelsbrunner H, Osang GF. A simple algorithm for higher-order Delaunay mosaics and alpha shapes. <i>Algorithmica</i>. 2023;85:277-295. doi:<a href=\"https://doi.org/10.1007/s00453-022-01027-6\">10.1007/s00453-022-01027-6</a>"},"license":"https://creativecommons.org/licenses/by/4.0/","publisher":"Springer Nature","quality_controlled":"1","oa_version":"Published Version","corr_author":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"date_updated":"2025-04-23T08:46:48Z","language":[{"iso":"eng"}]},{"oa":1,"citation":{"short":"Z. Zhao, I. Vercellino, J. Knoppová, R. Sobotka, J.W. Murray, P.J. Nixon, L.A. Sazanov, J. Komenda, Nature Communications 14 (2023).","apa":"Zhao, Z., Vercellino, I., Knoppová, J., Sobotka, R., Murray, J. W., Nixon, P. J., … Komenda, J. (2023). The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-40388-6\">https://doi.org/10.1038/s41467-023-40388-6</a>","ama":"Zhao Z, Vercellino I, Knoppová J, et al. The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-40388-6\">10.1038/s41467-023-40388-6</a>","ista":"Zhao Z, Vercellino I, Knoppová J, Sobotka R, Murray JW, Nixon PJ, Sazanov LA, Komenda J. 2023. The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis. Nature Communications. 14, 4681.","chicago":"Zhao, Ziyu, Irene Vercellino, Jana Knoppová, Roman Sobotka, James W. Murray, Peter J. Nixon, Leonid A Sazanov, and Josef Komenda. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem II Biogenesis.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-40388-6\">https://doi.org/10.1038/s41467-023-40388-6</a>.","mla":"Zhao, Ziyu, et al. “The Ycf48 Accessory Factor Occupies the Site of the Oxygen-Evolving Manganese Cluster during Photosystem II Biogenesis.” <i>Nature Communications</i>, vol. 14, 4681, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-40388-6\">10.1038/s41467-023-40388-6</a>.","ieee":"Z. Zhao <i>et al.</i>, “The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023."},"type":"journal_article","month":"08","_id":"14040","abstract":[{"text":"Robust oxygenic photosynthesis requires a suite of accessory factors to ensure efficient assembly and repair of the oxygen-evolving photosystem two (PSII) complex. The highly conserved Ycf48 assembly factor binds to the newly synthesized D1 reaction center polypeptide and promotes the initial steps of PSII assembly, but its binding site is unclear. Here we use cryo-electron microscopy to determine the structure of a cyanobacterial PSII D1/D2 reaction center assembly complex with Ycf48 attached. Ycf48, a 7-bladed beta propeller, binds to the amino-acid residues of D1 that ultimately ligate the water-oxidising Mn4CaO5 cluster, thereby preventing the premature binding of Mn2+ and Ca2+ ions and protecting the site from damage. Interactions with D2 help explain how Ycf48 promotes assembly of the D1/D2 complex. Overall, our work provides valuable insights into the early stages of PSII assembly and the structural changes that create the binding site for the Mn4CaO5 cluster.","lang":"eng"}],"language":[{"iso":"eng"}],"date_updated":"2025-04-23T13:05:33Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"quality_controlled":"1","publisher":"Springer Nature","corr_author":"1","oa_version":"Published Version","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"ScienComp"}],"publication":"Nature Communications","year":"2023","scopus_import":"1","pmid":1,"volume":14,"ddc":["570"],"doi":"10.1038/s41467-023-40388-6","acknowledgement":"P.J.N. and J.W.M. are grateful for the support of the Biotechnology & Biological Sciences Research Council (awards BB/L003260/1 and BB/P00931X/1). J. Knoppová, R.S. and J. Komenda were supported by the Czech Science Foundation (project 19-29225X) and by ERC project Photoredesign (no. 854126) and L.A.S. was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Electron Microscopy Facility (EMF), the Life Science Facility (LSF) and the IST high-performance computing cluster.","intvolume":"        14","author":[{"full_name":"Zhao, Ziyu","first_name":"Ziyu","last_name":"Zhao"},{"first_name":"Irene","full_name":"Vercellino, Irene","id":"3ED6AF16-F248-11E8-B48F-1D18A9856A87","last_name":"Vercellino","orcid":"0000-0001-5618-3449"},{"last_name":"Knoppová","full_name":"Knoppová, Jana","first_name":"Jana"},{"first_name":"Roman","full_name":"Sobotka, Roman","last_name":"Sobotka"},{"last_name":"Murray","full_name":"Murray, James W.","first_name":"James W."},{"last_name":"Nixon","full_name":"Nixon, Peter J.","first_name":"Peter J."},{"orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","last_name":"Sazanov","full_name":"Sazanov, Leonid A","first_name":"Leonid A"},{"last_name":"Komenda","first_name":"Josef","full_name":"Komenda, Josef"}],"article_number":"4681","title":"The Ycf48 accessory factor occupies the site of the oxygen-evolving manganese cluster during photosystem II biogenesis","date_created":"2023-08-13T22:01:13Z","file":[{"creator":"dernst","date_created":"2023-08-14T07:01:12Z","file_size":2315325,"relation":"main_file","date_updated":"2023-08-14T07:01:12Z","checksum":"3b9043df3d51c300f9be95eac3ff9d0b","content_type":"application/pdf","success":1,"access_level":"open_access","file_id":"14044","file_name":"2023_NatureComm_Zhao.pdf"}],"date_published":"2023-08-04T00:00:00Z","article_type":"original","file_date_updated":"2023-08-14T07:01:12Z","external_id":{"isi":["001042606700004"],"pmid":["37542031"]},"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","department":[{"_id":"LeSa"}],"publication_identifier":{"eissn":["2041-1723"]},"day":"04","status":"public","isi":1,"has_accepted_license":"1"},{"year":"2023","publication":"Nature Communications","scopus_import":"1","pmid":1,"volume":14,"ddc":["570"],"acknowledgement":"We thank Kayla Templeton and Peter Turcanu for technical assistance, Michelle Salemi for assistance with LC-MS data acquisition and analysis, Dr. Belvin Gong for advice on monoclonal antibody generation, Drs. Maria Casas Prat and Eamonn Dickson for assistance with super-resolution TIRF microscopy, Dr. Oscar Cerda for assistance with the design of TAT-FFAT peptides, Dr. Fernando Santana for helpful discussions, and Dr. Jodi Nunnari for a careful reading of our manuscript. We also thank Dr. Alan Howe, Dr. Sohum Mehta, and Dr. Jin Zhang for providing plasmids used in this study. This project was funded by NIH Grants R01NS114210 and R21NS101648 (J.S.T.), and F32NS108519 (N.C.V.).","doi":"10.1038/s41467-023-40930-6","intvolume":"        14","date_created":"2023-09-03T22:01:14Z","title":"Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling","author":[{"first_name":"Nicholas C.","full_name":"Vierra, Nicholas C.","last_name":"Vierra"},{"last_name":"Ribeiro-Silva","full_name":"Ribeiro-Silva, Luisa","first_name":"Luisa"},{"last_name":"Kirmiz","full_name":"Kirmiz, Michael","first_name":"Michael"},{"last_name":"Van Der List","full_name":"Van Der List, Deborah","first_name":"Deborah"},{"first_name":"Pradeep","full_name":"Bhandari, Pradeep","id":"45EDD1BC-F248-11E8-B48F-1D18A9856A87","last_name":"Bhandari","orcid":"0000-0003-0863-4481"},{"last_name":"Mack","first_name":"Olivia A.","full_name":"Mack, Olivia A."},{"first_name":"James","full_name":"Carroll, James","last_name":"Carroll"},{"last_name":"Le Monnier","id":"3B59276A-F248-11E8-B48F-1D18A9856A87","full_name":"Le Monnier, Elodie","first_name":"Elodie"},{"last_name":"Aicher","first_name":"Sue A.","full_name":"Aicher, Sue A."},{"id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","last_name":"Shigemoto","orcid":"0000-0001-8761-9444","first_name":"Ryuichi","full_name":"Shigemoto, Ryuichi"},{"first_name":"James S.","full_name":"Trimmer, James S.","last_name":"Trimmer"}],"article_number":"5231","file":[{"checksum":"6ab8aab4e957f626a09a1c73db3388fb","content_type":"application/pdf","access_level":"open_access","success":1,"file_id":"14270","date_updated":"2023-09-06T06:50:07Z","relation":"main_file","file_name":"2023_NatureComm_Vierra.pdf","date_created":"2023-09-06T06:50:07Z","creator":"dernst","file_size":9412549}],"date_published":"2023-08-26T00:00:00Z","article_type":"original","file_date_updated":"2023-09-06T06:50:07Z","external_id":{"pmid":["37633939"],"isi":["001064563400013"]},"publication_status":"published","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"Yes","department":[{"_id":"RySh"}],"day":"26","publication_identifier":{"eissn":["2041-1723"]},"isi":1,"has_accepted_license":"1","status":"public","oa":1,"type":"journal_article","citation":{"mla":"Vierra, Nicholas C., et al. “Neuronal ER-Plasma Membrane Junctions Couple Excitation to Ca2+-Activated PKA Signaling.” <i>Nature Communications</i>, vol. 14, 5231, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1038/s41467-023-40930-6\">10.1038/s41467-023-40930-6</a>.","ieee":"N. C. Vierra <i>et al.</i>, “Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling,” <i>Nature Communications</i>, vol. 14. Springer Nature, 2023.","ama":"Vierra NC, Ribeiro-Silva L, Kirmiz M, et al. Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling. <i>Nature Communications</i>. 2023;14. doi:<a href=\"https://doi.org/10.1038/s41467-023-40930-6\">10.1038/s41467-023-40930-6</a>","chicago":"Vierra, Nicholas C., Luisa Ribeiro-Silva, Michael Kirmiz, Deborah Van Der List, Pradeep Bhandari, Olivia A. Mack, James Carroll, et al. “Neuronal ER-Plasma Membrane Junctions Couple Excitation to Ca2+-Activated PKA Signaling.” <i>Nature Communications</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41467-023-40930-6\">https://doi.org/10.1038/s41467-023-40930-6</a>.","ista":"Vierra NC, Ribeiro-Silva L, Kirmiz M, Van Der List D, Bhandari P, Mack OA, Carroll J, Le Monnier E, Aicher SA, Shigemoto R, Trimmer JS. 2023. Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling. Nature Communications. 14, 5231.","short":"N.C. Vierra, L. Ribeiro-Silva, M. Kirmiz, D. Van Der List, P. Bhandari, O.A. Mack, J. Carroll, E. Le Monnier, S.A. Aicher, R. Shigemoto, J.S. Trimmer, Nature Communications 14 (2023).","apa":"Vierra, N. C., Ribeiro-Silva, L., Kirmiz, M., Van Der List, D., Bhandari, P., Mack, O. A., … Trimmer, J. S. (2023). Neuronal ER-plasma membrane junctions couple excitation to Ca2+-activated PKA signaling. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-40930-6\">https://doi.org/10.1038/s41467-023-40930-6</a>"},"month":"08","_id":"14253","abstract":[{"text":"Junctions between the endoplasmic reticulum (ER) and the plasma membrane (PM) are specialized membrane contacts ubiquitous in eukaryotic cells. Concentration of intracellular signaling machinery near ER-PM junctions allows these domains to serve critical roles in lipid and Ca2+ signaling and homeostasis. Subcellular compartmentalization of protein kinase A (PKA) signaling also regulates essential cellular functions, however, no specific association between PKA and ER-PM junctional domains is known. Here, we show that in brain neurons type I PKA is directed to Kv2.1 channel-dependent ER-PM junctional domains via SPHKAP, a type I PKA-specific anchoring protein. SPHKAP association with type I PKA regulatory subunit RI and ER-resident VAP proteins results in the concentration of type I PKA between stacked ER cisternae associated with ER-PM junctions. This ER-associated PKA signalosome enables reciprocal regulation between PKA and Ca2+ signaling machinery to support Ca2+ influx and excitation-transcription coupling. These data reveal that neuronal ER-PM junctions support a receptor-independent form of PKA signaling driven by membrane depolarization and intracellular Ca2+, allowing conversion of information encoded in electrical signals into biochemical changes universally recognized throughout the cell.","lang":"eng"}],"language":[{"iso":"eng"}],"date_updated":"2025-09-09T12:50:49Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"quality_controlled":"1","publisher":"Springer Nature","oa_version":"Published Version"},{"month":"07","type":"journal_article","citation":{"mla":"Anastos, Michael, et al. “Splitting Matchings and the Ryser-Brualdi-Stein Conjecture for Multisets.” <i>Electronic Journal of Combinatorics</i>, vol. 30, no. 3, P3.10, Electronic Journal of Combinatorics, 2023, doi:<a href=\"https://doi.org/10.37236/11714\">10.37236/11714</a>.","ieee":"M. Anastos, D. Fabian, A. Müyesser, and T. Szabó, “Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets,” <i>Electronic Journal of Combinatorics</i>, vol. 30, no. 3. Electronic Journal of Combinatorics, 2023.","ama":"Anastos M, Fabian D, Müyesser A, Szabó T. Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. <i>Electronic Journal of Combinatorics</i>. 2023;30(3). doi:<a href=\"https://doi.org/10.37236/11714\">10.37236/11714</a>","ista":"Anastos M, Fabian D, Müyesser A, Szabó T. 2023. Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. Electronic Journal of Combinatorics. 30(3), P3.10.","chicago":"Anastos, Michael, David Fabian, Alp Müyesser, and Tibor Szabó. “Splitting Matchings and the Ryser-Brualdi-Stein Conjecture for Multisets.” <i>Electronic Journal of Combinatorics</i>. Electronic Journal of Combinatorics, 2023. <a href=\"https://doi.org/10.37236/11714\">https://doi.org/10.37236/11714</a>.","short":"M. Anastos, D. Fabian, A. Müyesser, T. Szabó, Electronic Journal of Combinatorics 30 (2023).","apa":"Anastos, M., Fabian, D., Müyesser, A., &#38; Szabó, T. (2023). Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets. <i>Electronic Journal of Combinatorics</i>. Electronic Journal of Combinatorics. <a href=\"https://doi.org/10.37236/11714\">https://doi.org/10.37236/11714</a>"},"oa":1,"abstract":[{"lang":"eng","text":"We study multigraphs whose edge-sets are the union of three perfect matchings, M1, M2, and M3. Given such a graph G and any a1; a2; a3 2 N with a1 +a2 +a3 6 n - 2, we show there exists a matching M of G with jM \\ Mij = ai for each i 2 f1; 2; 3g. The bound n - 2 in the theorem is best possible in general. We conjecture however that if G is bipartite, the same result holds with n - 2 replaced by n - 1. We give a construction that shows such a result would be tight. We\r\nalso make a conjecture generalising the Ryser-Brualdi-Stein conjecture with colour\r\nmultiplicities."}],"_id":"14319","license":"https://creativecommons.org/licenses/by-nd/4.0/","arxiv":1,"date_updated":"2025-09-09T12:54:51Z","language":[{"iso":"eng"}],"tmp":{"short":"CC BY-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nd/4.0/legalcode","name":"Creative Commons Attribution-NoDerivatives 4.0 International (CC BY-ND 4.0)","image":"/image/cc_by_nd.png"},"oa_version":"Published Version","quality_controlled":"1","publisher":"Electronic Journal of Combinatorics","file":[{"creator":"dernst","date_created":"2023-09-15T08:02:09Z","file_size":247917,"relation":"main_file","date_updated":"2023-09-15T08:02:09Z","file_id":"14338","success":1,"access_level":"open_access","content_type":"application/pdf","checksum":"52c46c8cb329f9aaee9ade01525f317b","file_name":"2023_elecJournCombinatorics_Anastos.pdf"}],"issue":"3","ec_funded":1,"date_created":"2023-09-10T22:01:12Z","article_number":"P3.10","title":"Splitting matchings and the Ryser-Brualdi-Stein conjecture for multisets","author":[{"first_name":"Michael","full_name":"Anastos, Michael","last_name":"Anastos","id":"0b2a4358-bb35-11ec-b7b9-e3279b593dbb"},{"full_name":"Fabian, David","first_name":"David","last_name":"Fabian"},{"last_name":"Müyesser","first_name":"Alp","full_name":"Müyesser, Alp"},{"first_name":"Tibor","full_name":"Szabó, Tibor","last_name":"Szabó"}],"article_type":"original","project":[{"grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020"}],"date_published":"2023-07-28T00:00:00Z","volume":30,"publication":"Electronic Journal of Combinatorics","year":"2023","scopus_import":"1","intvolume":"        30","ddc":["510"],"acknowledgement":"Anastos has received funding from the European Union’s Horizon 2020 research and in-novation programme under the Marie Sk lodowska-Curie grant agreement No 101034413.Fabian’s research is supported by the Deutsche Forschungsgemeinschaft (DFG, GermanResearch Foundation) Graduiertenkolleg “Facets of Complexity” (GRK 2434).","doi":"10.37236/11714","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"Yes","department":[{"_id":"MaKw"}],"external_id":{"isi":["001042382200001"],"arxiv":["2212.03100"]},"publication_status":"published","status":"public","has_accepted_license":"1","isi":1,"day":"28","publication_identifier":{"eissn":["1077-8926"]},"file_date_updated":"2023-09-15T08:02:09Z"},{"file_date_updated":"2024-01-30T14:33:31Z","external_id":{"isi":["001071403800001"],"pmid":["37752598"]},"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"Yes","department":[{"_id":"SaSi"}],"day":"26","publication_identifier":{"eissn":["1750-1326"]},"isi":1,"status":"public","has_accepted_license":"1","publication":"Molecular Neurodegeneration","year":"2023","scopus_import":"1","pmid":1,"volume":18,"ddc":["570"],"acknowledgement":"The authors would like to thank Mr. Joel Dietz for management of the mouse colony and helpful advice for conducting quantitative PCR studies and Mr. Santoshi Kinoshita at the Translational Research Initiative in Pathology laboratory at the University of Wisconsin-Madison for cutting sections analyzed in this study.\r\nThis work was supported by National Eye Institute grants R01 EY030123 (RWN), R01 EY018606 (RTL), P30 EY016665 (Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison), T32 EY027721 (RJD) and F31 EY030739 (OJM). Additional funding was provided by the BrightFocus Foundation (RWN) and unrestricted grants from Research to Prevent Blindness, Inc to the Department of Ophthalmology and Visual Sciences (University of Wisconsin-Madison) and to the Department of Ophthalmology (University of Rochester).","doi":"10.1186/s13024-023-00659-8","intvolume":"        18","date_created":"2023-10-08T22:01:15Z","author":[{"orcid":"0000-0001-9642-1085","last_name":"Maes","id":"3838F452-F248-11E8-B48F-1D18A9856A87","full_name":"Maes, Margaret E","first_name":"Margaret E"},{"first_name":"Ryan J.","full_name":"Donahue, Ryan J.","last_name":"Donahue"},{"last_name":"Schlamp","full_name":"Schlamp, Cassandra L.","first_name":"Cassandra L."},{"first_name":"Olivia J.","full_name":"Marola, Olivia J.","last_name":"Marola"},{"last_name":"Libby","first_name":"Richard T.","full_name":"Libby, Richard T."},{"last_name":"Nickells","first_name":"Robert W.","full_name":"Nickells, Robert W."}],"title":"BAX activation in mouse retinal ganglion cells occurs in two temporally and mechanistically distinct steps","article_number":"67","file":[{"file_name":"2023_MolecularNeurodegeneration_Maes.pdf","content_type":"application/pdf","checksum":"3aa218ddea4a082d8fd5e196ae55ca06","success":1,"access_level":"open_access","file_id":"14917","date_updated":"2024-01-30T14:33:31Z","relation":"main_file","file_size":11568350,"date_created":"2024-01-30T14:33:31Z","creator":"dernst"}],"date_published":"2023-09-26T00:00:00Z","article_type":"original","date_updated":"2025-04-23T13:09:05Z","language":[{"iso":"eng"}],"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"quality_controlled":"1","publisher":"Springer Nature","oa_version":"Published Version","oa":1,"citation":{"ieee":"M. E. Maes, R. J. Donahue, C. L. Schlamp, O. J. Marola, R. T. Libby, and R. W. Nickells, “BAX activation in mouse retinal ganglion cells occurs in two temporally and mechanistically distinct steps,” <i>Molecular Neurodegeneration</i>, vol. 18. Springer Nature, 2023.","mla":"Maes, Margaret E., et al. “BAX Activation in Mouse Retinal Ganglion Cells Occurs in Two Temporally and Mechanistically Distinct Steps.” <i>Molecular Neurodegeneration</i>, vol. 18, 67, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1186/s13024-023-00659-8\">10.1186/s13024-023-00659-8</a>.","short":"M.E. Maes, R.J. Donahue, C.L. Schlamp, O.J. Marola, R.T. Libby, R.W. Nickells, Molecular Neurodegeneration 18 (2023).","apa":"Maes, M. E., Donahue, R. J., Schlamp, C. L., Marola, O. J., Libby, R. T., &#38; Nickells, R. W. (2023). BAX activation in mouse retinal ganglion cells occurs in two temporally and mechanistically distinct steps. <i>Molecular Neurodegeneration</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s13024-023-00659-8\">https://doi.org/10.1186/s13024-023-00659-8</a>","ista":"Maes ME, Donahue RJ, Schlamp CL, Marola OJ, Libby RT, Nickells RW. 2023. BAX activation in mouse retinal ganglion cells occurs in two temporally and mechanistically distinct steps. Molecular Neurodegeneration. 18, 67.","chicago":"Maes, Margaret E, Ryan J. Donahue, Cassandra L. Schlamp, Olivia J. Marola, Richard T. Libby, and Robert W. Nickells. “BAX Activation in Mouse Retinal Ganglion Cells Occurs in Two Temporally and Mechanistically Distinct Steps.” <i>Molecular Neurodegeneration</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1186/s13024-023-00659-8\">https://doi.org/10.1186/s13024-023-00659-8</a>.","ama":"Maes ME, Donahue RJ, Schlamp CL, Marola OJ, Libby RT, Nickells RW. BAX activation in mouse retinal ganglion cells occurs in two temporally and mechanistically distinct steps. <i>Molecular Neurodegeneration</i>. 2023;18. doi:<a href=\"https://doi.org/10.1186/s13024-023-00659-8\">10.1186/s13024-023-00659-8</a>"},"month":"09","type":"journal_article","_id":"14401","abstract":[{"text":"Background: \r\nPro-apoptotic BAX is a central mediator of retinal ganglion cell (RGC) death after optic nerve damage. BAX activation occurs in two stages including translocation of latent BAX to the mitochondrial outer membrane (MOM) and then permeabilization of the MOM to facilitate the release of apoptotic signaling molecules. As a critical component of RGC death, BAX is an attractive target for neuroprotective therapies and an understanding of the kinetics of BAX activation and the mechanisms controlling the two stages of this process in RGCs is potentially valuable in informing the development of a neuroprotective strategy.\r\nMethods:\r\nThe kinetics of BAX translocation were assessed by both static and live-cell imaging of a GFP-BAX fusion protein introduced into RGCs using AAV2-mediated gene transfer in mice. Activation of BAX was achieved using an acute optic nerve crush (ONC) protocol. Live-cell imaging of GFP-BAX was achieved using explants of mouse retina harvested 7 days after ONC. Kinetics of translocation in RGCs were compared to GFP-BAX translocation in 661W tissue culture cells. Permeabilization of GFP-BAX was assessed by staining with the 6A7 monoclonal antibody, which recognizes a conformational change in this protein after MOM insertion. Assessment of individual kinases associated with both stages of activation was made using small molecule inhibitors injected into the vitreous either independently or in concert with ONC surgery. The contribution of the Dual Leucine Zipper-JUN-N-Terminal Kinase cascade was evaluated using mice with a double conditional knock-out of both Mkk4 and Mkk7.\r\nResults:\r\nONC induces the translocation of GFP-BAX in RGCs at a slower rate and with less intracellular synchronicity than 661W cells, but exhibits less variability among mitochondrial foci within a single cell. GFP-BAX was also found to translocate in all compartments of an RGC including the dendritic arbor and axon. Approximately 6% of translocating RGCs exhibited retrotranslocation of BAX immediately following translocation. Unlike tissue culture cells, which exhibit simultaneous translocation and permeabilization, RGCs exhibited a significant delay between these two stages, similar to detached cells undergoing anoikis. Translocation, with minimal permeabilization could be induced in a subset of RGCs using an inhibitor of Focal Adhesion Kinase (PF573228). Permeabilization after ONC, in a majority of RGCs, could be inhibited with a broad spectrum kinase inhibitor (sunitinib) or a selective inhibitor for p38/MAPK14 (SB203580). Intervention of DLK-JNK axis signaling abrogated GFP-BAX translocation after ONC.\r\nConclusions:\r\nA comparison between BAX activation kinetics in tissue culture cells and in cells of a complex tissue environment shows distinct differences indicating that caution should be used when translating findings from one condition to the other. RGCs exhibit both a delay between translocation and permeabilization and the ability for translocated BAX to be retrotranslocated, suggesting several stages at which intervention of the activation process could be exploited in the design of a therapeutic strategy.","lang":"eng"}]},{"volume":282,"publication":"5th Conference on Advances in Financial Technologies","year":"2023","scopus_import":"1","intvolume":"       282","ddc":["000"],"doi":"10.4230/LIPIcs.AFT.2023.7","acknowledgement":"Work done when all the authors were at Novi Research, Meta.","file":[{"file_size":793495,"creator":"dernst","date_created":"2023-11-13T08:44:34Z","file_name":"2023_LIPIcs_Beaver.pdf","date_updated":"2023-11-13T08:44:34Z","relation":"main_file","access_level":"open_access","success":1,"file_id":"14521","checksum":"c1f98831cb5149d6c030c41999e6e960","content_type":"application/pdf"}],"article_number":"7","author":[{"full_name":"Beaver, Donald","first_name":"Donald","last_name":"Beaver"},{"last_name":"Kelkar","first_name":"Mahimna","full_name":"Kelkar, Mahimna"},{"first_name":"Kevin","full_name":"Lewi, Kevin","last_name":"Lewi"},{"first_name":"Valeria","full_name":"Nikolaenko, Valeria","last_name":"Nikolaenko"},{"full_name":"Sonnino, Alberto","first_name":"Alberto","last_name":"Sonnino"},{"full_name":"Chalkias, Konstantinos","first_name":"Konstantinos","last_name":"Chalkias"},{"id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30","last_name":"Kokoris Kogias","full_name":"Kokoris Kogias, Eleftherios","first_name":"Eleftherios"},{"full_name":"Naurois, Ladi De","first_name":"Ladi De","last_name":"Naurois"},{"full_name":"Roy, Arnab","first_name":"Arnab","last_name":"Roy"}],"title":"STROBE: Streaming Threshold Random Beacons","date_created":"2023-11-12T23:00:55Z","date_published":"2023-10-01T00:00:00Z","file_date_updated":"2023-11-13T08:44:34Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"ElKo"}],"article_processing_charge":"Yes","publication_status":"published","has_accepted_license":"1","status":"public","main_file_link":[{"open_access":"1","url":"https://eprint.iacr.org/2021/1643"}],"alternative_title":["LIPIcs"],"publication_identifier":{"issn":["1868-8969"],"isbn":["9783959773034"]},"day":"01","type":"conference","citation":{"mla":"Beaver, Donald, et al. “STROBE: Streaming Threshold Random Beacons.” <i>5th Conference on Advances in Financial Technologies</i>, vol. 282, 7, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023, doi:<a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">10.4230/LIPIcs.AFT.2023.7</a>.","ieee":"D. Beaver <i>et al.</i>, “STROBE: Streaming Threshold Random Beacons,” in <i>5th Conference on Advances in Financial Technologies</i>, Princeton, NJ, United States, 2023, vol. 282.","short":"D. Beaver, M. Kelkar, K. Lewi, V. Nikolaenko, A. Sonnino, K. Chalkias, E. Kokoris Kogias, L.D. Naurois, A. Roy, in:, 5th Conference on Advances in Financial Technologies, Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023.","apa":"Beaver, D., Kelkar, M., Lewi, K., Nikolaenko, V., Sonnino, A., Chalkias, K., … Roy, A. (2023). STROBE: Streaming Threshold Random Beacons. In <i>5th Conference on Advances in Financial Technologies</i> (Vol. 282). Princeton, NJ, United States: Schloss Dagstuhl - Leibniz-Zentrum für Informatik. <a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">https://doi.org/10.4230/LIPIcs.AFT.2023.7</a>","ama":"Beaver D, Kelkar M, Lewi K, et al. STROBE: Streaming Threshold Random Beacons. In: <i>5th Conference on Advances in Financial Technologies</i>. Vol 282. Schloss Dagstuhl - Leibniz-Zentrum für Informatik; 2023. doi:<a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">10.4230/LIPIcs.AFT.2023.7</a>","ista":"Beaver D, Kelkar M, Lewi K, Nikolaenko V, Sonnino A, Chalkias K, Kokoris Kogias E, Naurois LD, Roy A. 2023. STROBE: Streaming Threshold Random Beacons. 5th Conference on Advances in Financial Technologies. AFT: Conference on Advances in Financial Technologies, LIPIcs, vol. 282, 7.","chicago":"Beaver, Donald, Mahimna Kelkar, Kevin Lewi, Valeria Nikolaenko, Alberto Sonnino, Konstantinos Chalkias, Eleftherios Kokoris Kogias, Ladi De Naurois, and Arnab Roy. “STROBE: Streaming Threshold Random Beacons.” In <i>5th Conference on Advances in Financial Technologies</i>, Vol. 282. Schloss Dagstuhl - Leibniz-Zentrum für Informatik, 2023. <a href=\"https://doi.org/10.4230/LIPIcs.AFT.2023.7\">https://doi.org/10.4230/LIPIcs.AFT.2023.7</a>."},"month":"10","oa":1,"conference":{"end_date":"2023-10-25","name":"AFT: Conference on Advances in Financial Technologies","start_date":"2023-10-23","location":"Princeton, NJ, United States"},"abstract":[{"text":"We revisit decentralized random beacons with a focus on practical distributed applications. Decentralized random beacons (Beaver and So, Eurocrypt'93) provide the functionality for n parties to generate an unpredictable sequence of bits in a way that cannot be biased, which is useful for any decentralized protocol requiring trusted randomness. Existing beacon constructions are highly inefficient in practical settings where protocol parties need to rejoin after crashes or disconnections, and more significantly where smart contracts may rely on arbitrary index points in high-volume streams. For this, we introduce a new notion of history-generating decentralized random beacons (HGDRBs). Roughly, the history-generation property of HGDRBs allows for previous beacon outputs to be efficiently generated knowing only the current value and the public key. At application layers, history-generation supports registering a sparser set of on-chain values if desired, so that apps like lotteries can utilize on-chain values without incurring high-frequency costs, enjoying all the benefits of DRBs implemented off-chain or with decoupled, special-purpose chains. Unlike rollups, HG is tailored specifically to recovering and verifying pseudorandom bit sequences and thus enjoys unique optimizations investigated in this work. We introduce STROBE: an efficient HGDRB construction which generalizes the original squaring-based RSA approach of Beaver and So. STROBE enjoys several useful properties that make it suited for practical applications that use beacons: 1) history-generating: it can regenerate and verify high-throughput beacon streams, supporting sparse (thus cost-effective) ledger entries; 2) concisely self-verifying: NIZK-free, with state and validation employing a single ring element; 3) eco-friendly: stake-based rather than work based; 4) unbounded: refresh-free, addressing limitations of Beaver and So; 5) delay-free: results are immediately available. 6) storage-efficient: the last beacon suffices to derive all past outputs, thus O(1) storage requirements for nodes serving the whole history.","lang":"eng"}],"_id":"14516","language":[{"iso":"eng"}],"date_updated":"2024-10-09T21:07:17Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"corr_author":"1","oa_version":"Published Version","quality_controlled":"1","publisher":"Schloss Dagstuhl - Leibniz-Zentrum für Informatik"},{"language":[{"iso":"eng"}],"date_updated":"2025-09-09T14:04:14Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"quality_controlled":"1","publisher":"TU Vienna Academic Press","corr_author":"1","oa_version":"Published Version","oa":1,"page":"122-131","conference":{"location":"Ames, IA, United States","end_date":"2023-10-27","start_date":"2023-10-25","name":"FMCAD: Formal Methods in Computer-Aided Design"},"month":"10","citation":{"mla":"Pastva, Samuel, and Thomas A. Henzinger. “Binary Decision Diagrams on Modern Hardware.” <i>Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design</i>, TU Vienna Academic Press, 2023, pp. 122–31, doi:<a href=\"https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20\">10.34727/2023/isbn.978-3-85448-060-0_20</a>.","ieee":"S. Pastva and T. A. Henzinger, “Binary decision diagrams on modern hardware,” in <i>Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design</i>, Ames, IA, United States, 2023, pp. 122–131.","ama":"Pastva S, Henzinger TA. Binary decision diagrams on modern hardware. In: <i>Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design</i>. TU Vienna Academic Press; 2023:122-131. doi:<a href=\"https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20\">10.34727/2023/isbn.978-3-85448-060-0_20</a>","ista":"Pastva S, Henzinger TA. 2023. Binary decision diagrams on modern hardware. Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design. FMCAD: Formal Methods in Computer-Aided Design, 122–131.","chicago":"Pastva, Samuel, and Thomas A Henzinger. “Binary Decision Diagrams on Modern Hardware.” In <i>Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design</i>, 122–31. TU Vienna Academic Press, 2023. <a href=\"https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20\">https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20</a>.","short":"S. Pastva, T.A. Henzinger, in:, Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design, TU Vienna Academic Press, 2023, pp. 122–131.","apa":"Pastva, S., &#38; Henzinger, T. A. (2023). Binary decision diagrams on modern hardware. In <i>Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design</i> (pp. 122–131). Ames, IA, United States: TU Vienna Academic Press. <a href=\"https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20\">https://doi.org/10.34727/2023/isbn.978-3-85448-060-0_20</a>"},"type":"conference","_id":"14718","abstract":[{"text":"Binary decision diagrams (BDDs) are one of the fundamental data structures in formal methods and computer science in general. However, the performance of BDD-based algorithms greatly depends on memory latency due to the reliance on large hash tables and thus, by extension, on the speed of random memory access. This hinders the full utilisation of resources available on modern CPUs, since the absolute memory latency has not improved significantly for at least a decade. In this paper, we explore several implementation techniques that improve the performance of BDD manipulation either through enhanced memory locality or by partially eliminating random memory access. On a benchmark suite of 600+ BDDs derived from real-world applications, we demonstrate runtime that is comparable or better than parallelising the same operations on eight CPU cores. ","lang":"eng"}],"file_date_updated":"2024-01-02T08:14:23Z","external_id":{"isi":["001504402400020"]},"publication_status":"published","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"No","department":[{"_id":"ToHe"}],"day":"01","publication_identifier":{"isbn":["9783854480600"]},"has_accepted_license":"1","status":"public","isi":1,"year":"2023","publication":"Proceedings of the 23rd Conference on Formal Methods in Computer-Aided Design","scopus_import":"1","ddc":["000"],"acknowledgement":"This work was supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101034413 and the\r\n“VAMOS” grant ERC-2020-AdG 101020093.","doi":"10.34727/2023/isbn.978-3-85448-060-0_20","ec_funded":1,"date_created":"2023-12-31T23:01:03Z","title":"Binary decision diagrams on modern hardware","author":[{"orcid":"0000-0003-1993-0331","last_name":"Pastva","id":"07c5ea74-f61c-11ec-a664-aa7c5d957b2b","full_name":"Pastva, Samuel","first_name":"Samuel"},{"full_name":"Henzinger, Thomas A","first_name":"Thomas A","orcid":"0000-0002-2985-7724","last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87"}],"file":[{"file_size":524321,"creator":"dernst","date_created":"2024-01-02T08:14:23Z","file_name":"2023_FMCAD_Pastva.pdf","relation":"main_file","date_updated":"2024-01-02T08:14:23Z","checksum":"818d6e13dd508f3a04f0941081022e5d","content_type":"application/pdf","access_level":"open_access","file_id":"14721","success":1}],"date_published":"2023-10-01T00:00:00Z","project":[{"call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"},{"grant_number":"101020093","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","name":"Vigilant Algorithmic Monitoring of Software","call_identifier":"H2020"}]},{"acknowledged_ssus":[{"_id":"LifeSc"}],"corr_author":"1","oa_version":"Published Version","quality_controlled":"1","publisher":"Springer Nature","date_updated":"2025-04-14T07:47:53Z","language":[{"iso":"eng"}],"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"abstract":[{"lang":"eng","text":"Treating sick group members is a hallmark of collective disease defence in vertebrates and invertebrates alike. Despite substantial effects on pathogen fitness and epidemiology, it is still largely unknown how pathogens react to the selection pressure imposed by care intervention. Using social insects and pathogenic fungi, we here performed a serial passage experiment in the presence or absence of colony members, which provide social immunity by grooming off infectious spores from exposed individuals. We found specific effects on pathogen diversity, virulence and transmission. Under selection of social immunity, pathogens invested into higher spore production, but spores were less virulent. Notably, they also elicited a lower grooming response in colony members, compared with spores from the individual host selection lines. Chemical spore analysis suggested that the spores from social selection lines escaped the caregivers’ detection by containing lower levels of ergosterol, a key fungal membrane component. Experimental application of chemically pure ergosterol indeed induced sanitary grooming, supporting its role as a microbe-associated cue triggering host social immunity against fungal pathogens. By reducing this detection cue, pathogens were able to evade the otherwise very effective collective disease defences of their social hosts."}],"_id":"12543","month":"03","type":"journal_article","related_material":{"link":[{"url":"https://ista.ac.at/en/news/how-sneaky-germs-hide-from-ants/","description":"News on ISTA website","relation":"press_release"}]},"citation":{"apa":"Stock, M., Milutinovic, B., Hönigsberger, M., Grasse, A. V., Wiesenhofer, F., Kampleitner, N., … Cremer, S. (2023). Pathogen evasion of social immunity. <i>Nature Ecology and Evolution</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41559-023-01981-6\">https://doi.org/10.1038/s41559-023-01981-6</a>","short":"M. Stock, B. Milutinovic, M. Hönigsberger, A.V. Grasse, F. Wiesenhofer, N. Kampleitner, M. Narasimhan, T. Schmitt, S. Cremer, Nature Ecology and Evolution 7 (2023) 450–460.","ama":"Stock M, Milutinovic B, Hönigsberger M, et al. Pathogen evasion of social immunity. <i>Nature Ecology and Evolution</i>. 2023;7:450-460. doi:<a href=\"https://doi.org/10.1038/s41559-023-01981-6\">10.1038/s41559-023-01981-6</a>","ista":"Stock M, Milutinovic B, Hönigsberger M, Grasse AV, Wiesenhofer F, Kampleitner N, Narasimhan M, Schmitt T, Cremer S. 2023. Pathogen evasion of social immunity. Nature Ecology and Evolution. 7, 450–460.","chicago":"Stock, Miriam, Barbara Milutinovic, Michaela Hönigsberger, Anna V Grasse, Florian Wiesenhofer, Niklas Kampleitner, Madhumitha Narasimhan, Thomas Schmitt, and Sylvia Cremer. “Pathogen Evasion of Social Immunity.” <i>Nature Ecology and Evolution</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41559-023-01981-6\">https://doi.org/10.1038/s41559-023-01981-6</a>.","ieee":"M. Stock <i>et al.</i>, “Pathogen evasion of social immunity,” <i>Nature Ecology and Evolution</i>, vol. 7. Springer Nature, pp. 450–460, 2023.","mla":"Stock, Miriam, et al. “Pathogen Evasion of Social Immunity.” <i>Nature Ecology and Evolution</i>, vol. 7, Springer Nature, 2023, pp. 450–60, doi:<a href=\"https://doi.org/10.1038/s41559-023-01981-6\">10.1038/s41559-023-01981-6</a>."},"oa":1,"page":"450-460","has_accepted_license":"1","isi":1,"status":"public","day":"01","publication_identifier":{"eissn":["2397-334X"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","department":[{"_id":"SyCr"},{"_id":"LifeSc"},{"_id":"JiFr"}],"external_id":{"pmid":["36732670"],"isi":["000924572800001"]},"publication_status":"published","file_date_updated":"2023-08-16T11:54:59Z","article_type":"original","project":[{"_id":"2649B4DE-B435-11E9-9278-68D0E5697425","grant_number":"771402","name":"Epidemics in ant societies on a chip","call_identifier":"H2020"},{"name":"Host-Parasite Coevolution","grant_number":"CR-118/3-1","_id":"25DAF0B2-B435-11E9-9278-68D0E5697425"}],"date_published":"2023-03-01T00:00:00Z","file":[{"file_name":"2023_NatureEcoEvo_Stock.pdf","relation":"main_file","date_updated":"2023-08-16T11:54:59Z","access_level":"open_access","file_id":"14069","success":1,"checksum":"8244f4650a0e7aeea488d1bcd4a31702","content_type":"application/pdf","file_size":1600499,"creator":"dernst","date_created":"2023-08-16T11:54:59Z"}],"ec_funded":1,"title":"Pathogen evasion of social immunity","author":[{"id":"42462816-F248-11E8-B48F-1D18A9856A87","last_name":"Stock","first_name":"Miriam","full_name":"Stock, Miriam"},{"orcid":"0000-0002-8214-4758","last_name":"Milutinovic","id":"2CDC32B8-F248-11E8-B48F-1D18A9856A87","full_name":"Milutinovic, Barbara","first_name":"Barbara"},{"id":"953894f3-25bd-11ec-8556-f70a9d38ef60","last_name":"Hönigsberger","full_name":"Hönigsberger, Michaela","first_name":"Michaela"},{"id":"406F989C-F248-11E8-B48F-1D18A9856A87","last_name":"Grasse","first_name":"Anna V","full_name":"Grasse, Anna V"},{"id":"39523C54-F248-11E8-B48F-1D18A9856A87","last_name":"Wiesenhofer","first_name":"Florian","full_name":"Wiesenhofer, Florian"},{"id":"2AC57FAC-F248-11E8-B48F-1D18A9856A87","last_name":"Kampleitner","first_name":"Niklas","full_name":"Kampleitner, Niklas"},{"orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","last_name":"Narasimhan","full_name":"Narasimhan, Madhumitha","first_name":"Madhumitha"},{"last_name":"Schmitt","full_name":"Schmitt, Thomas","first_name":"Thomas"},{"orcid":"0000-0002-2193-3868","last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","full_name":"Cremer, Sylvia","first_name":"Sylvia"}],"date_created":"2023-02-12T23:00:59Z","intvolume":"         7","ddc":["570"],"acknowledgement":"We thank B. M. Steinwender, N. V. Meyling and J. Eilenberg for the fungal strains; J. Anaya-Rojas for statistical advice; the Social Immunity team at ISTA for ant collection and experimental help, in particular H. Leitner, and the ISTA Lab Support Facility for general laboratory support; D. Ebert, H. Schulenburg and J. Heinze for continued project discussion; and M. Sixt, R. Roemhild and the Social Immunity team for comments on the manuscript. The study was funded by the German Research Foundation (CR118/3-1) within the Framework of the Priority Program SPP 1399, and the European Research Council (ERC) under the European Union’s Horizon 2020 Research and Innovation Programme (No. 771402; EPIDEMICSonCHIP), both to S.C.","doi":"10.1038/s41559-023-01981-6","volume":7,"year":"2023","publication":"Nature Ecology and Evolution","scopus_import":"1","pmid":1},{"volume":2633,"publication":"DNA Manipulation and Analysis","year":"2023","pmid":1,"scopus_import":"1","intvolume":"      2633","doi":"10.1007/978-1-0716-3004-4_3","author":[{"first_name":"Sandra","full_name":"Arroyo-Urea, Sandra","last_name":"Arroyo-Urea"},{"orcid":"0000-0002-8698-3823","last_name":"Watson","id":"63836096-4690-11EA-BD4E-32803DDC885E","full_name":"Watson, Jake","first_name":"Jake"},{"last_name":"García-Nafría","first_name":"Javier","full_name":"García-Nafría, Javier"}],"date_created":"2023-03-12T23:01:02Z","title":"Molecular Cloning Using In Vivo DNA Assembly","place":"New York, NY, United States","date_published":"2023-03-01T00:00:00Z","OA_type":"green","article_processing_charge":"No","department":[{"_id":"PeJo"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"pmid":["36853454"]},"series_title":"MIMB","publication_status":"published","main_file_link":[{"url":"https://zaguan.unizar.es/record/125930/files/texto_completo.pdf","open_access":"1"}],"status":"public","alternative_title":["Methods in Molecular Biology"],"publication_identifier":{"issn":["1064-3745"],"eissn":["1940-6029"],"eisbn":["978-1-0716-3004-4"],"isbn":["978-1-0716-3003-7"]},"day":"01","OA_place":"repository","type":"book_chapter","month":"03","citation":{"short":"S. Arroyo-Urea, J. Watson, J. García-Nafría, in:, G. Scarlett (Ed.), DNA Manipulation and Analysis, Springer Nature, New York, NY, United States, 2023, pp. 33–44.","apa":"Arroyo-Urea, S., Watson, J., &#38; García-Nafría, J. (2023). Molecular Cloning Using In Vivo DNA Assembly. In G. Scarlett (Ed.), <i>DNA Manipulation and Analysis</i> (Vol. 2633, pp. 33–44). New York, NY, United States: Springer Nature. <a href=\"https://doi.org/10.1007/978-1-0716-3004-4_3\">https://doi.org/10.1007/978-1-0716-3004-4_3</a>","ama":"Arroyo-Urea S, Watson J, García-Nafría J. Molecular Cloning Using In Vivo DNA Assembly. In: Scarlett G, ed. <i>DNA Manipulation and Analysis</i>. Vol 2633. MIMB. New York, NY, United States: Springer Nature; 2023:33-44. doi:<a href=\"https://doi.org/10.1007/978-1-0716-3004-4_3\">10.1007/978-1-0716-3004-4_3</a>","chicago":"Arroyo-Urea, Sandra, Jake Watson, and Javier García-Nafría. “Molecular Cloning Using In Vivo DNA Assembly.” In <i>DNA Manipulation and Analysis</i>, edited by Garry Scarlett, 2633:33–44. MIMB. New York, NY, United States: Springer Nature, 2023. <a href=\"https://doi.org/10.1007/978-1-0716-3004-4_3\">https://doi.org/10.1007/978-1-0716-3004-4_3</a>.","ista":"Arroyo-Urea S, Watson J, García-Nafría J. 2023.Molecular Cloning Using In Vivo DNA Assembly. In: DNA Manipulation and Analysis. Methods in Molecular Biology, vol. 2633, 33–44.","ieee":"S. Arroyo-Urea, J. Watson, and J. García-Nafría, “Molecular Cloning Using In Vivo DNA Assembly,” in <i>DNA Manipulation and Analysis</i>, vol. 2633, G. Scarlett, Ed. New York, NY, United States: Springer Nature, 2023, pp. 33–44.","mla":"Arroyo-Urea, Sandra, et al. “Molecular Cloning Using In Vivo DNA Assembly.” <i>DNA Manipulation and Analysis</i>, edited by Garry Scarlett, vol. 2633, Springer Nature, 2023, pp. 33–44, doi:<a href=\"https://doi.org/10.1007/978-1-0716-3004-4_3\">10.1007/978-1-0716-3004-4_3</a>."},"oa":1,"editor":[{"full_name":"Scarlett, Garry","first_name":"Garry","last_name":"Scarlett"}],"page":"33-44","abstract":[{"lang":"eng","text":"Here we describe the in vivo DNA assembly approach, where molecular cloning procedures are performed using an E. coli recA-independent recombination pathway, which assembles linear fragments of DNA with short homologous termini. This pathway is present in all standard laboratory E. coli strains and, by bypassing the need for in vitro DNA assembly, allows simplified molecular cloning to be performed without the plasmid instability issues associated with specialized recombination-cloning bacterial strains. The methodology requires specific primer design and can perform all standard plasmid modifications (insertions, deletions, mutagenesis, and sub-cloning) in a rapid, simple, and cost-efficient manner, as it does not require commercial kits or specialized bacterial strains. Additionally, this approach can be used to perform complex procedures such as multiple modifications to a plasmid, as up to 6 linear fragments can be assembled in vivo by this recombination pathway. Procedures generally require less than 3 h, involving PCR amplification, DpnI digestion of template DNA, and transformation, upon which circular plasmids are assembled. In this chapter we describe the requirements, procedure, and potential pitfalls when using this technique, as well as protocol variations to overcome the most common issues."}],"_id":"12720","date_updated":"2025-06-25T05:56:45Z","language":[{"iso":"eng"}],"oa_version":"Submitted Version","quality_controlled":"1","publisher":"Springer Nature"},{"publication_identifier":{"issn":["0020-1669"],"eissn":["1520-510X"]},"day":"08","main_file_link":[{"open_access":"1","url":"https://uvadoc.uva.es/handle/10324/59798"}],"isi":1,"status":"public","external_id":{"pmid":["36883367"],"isi":["000956110300001"]},"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"StFr"}],"article_processing_charge":"No","OA_type":"green","date_published":"2023-03-08T00:00:00Z","article_type":"original","author":[{"last_name":"García-Romero","full_name":"García-Romero, Álvaro","first_name":"Álvaro"},{"full_name":"Waters, Jessica E.","first_name":"Jessica E.","last_name":"Waters"},{"full_name":"Jethwa, Rajesh B","first_name":"Rajesh B","orcid":"0000-0002-0404-4356","last_name":"Jethwa","id":"4cc538d5-803f-11ed-ab7e-8139573aad8f"},{"last_name":"Bond","full_name":"Bond, Andrew D.","first_name":"Andrew D."},{"full_name":"Colebatch, Annie L.","first_name":"Annie L.","last_name":"Colebatch"},{"first_name":"Raúl","full_name":"García-Rodríguez, Raúl","last_name":"García-Rodríguez"},{"last_name":"Wright","full_name":"Wright, Dominic S.","first_name":"Dominic S."}],"title":"Highly adaptive nature of group 15 tris(quinolyl) ligands─studies with coinage metals","date_created":"2023-03-19T23:00:59Z","issue":"11","doi":"10.1021/acs.inorgchem.3c00057","acknowledgement":"The authors thank the Walters-Kundert Studentship of Selwyn College (scholarship for J.E.W.), the Leverhulme Trust (R.G.-R. and D.S.W., grant RPG-2017-146), the Australian Research Council (A.L.C., DE200100450), the Spanish Ministry of Science and Innovation (MCI) and the Spanish Ministry of Science, Innovation and Universities (MCIU) (R.G.-R., PID2021-124691NB-I00, funded by MCIN/AEI/10.13039/501100011033/FEDER, UE and PGC2018-096880-A-I00, MCIU/AEI/FEDER), The University of Valladolid and Santander Bank (Fellowship for A.G.-R.), and the U.K. EPSRC and The Royal Dutch Shell plc. (I-Case award for R.B.J., EP/R511870/1) for financial support. Calculations were carried out on an in-house Odyssey HPC cluster (Cambridge), and the authors are grateful for the calculation time used.","intvolume":"        62","publication":"Inorganic Chemistry","year":"2023","pmid":1,"scopus_import":"1","volume":62,"quality_controlled":"1","publisher":"American Chemical Society","oa_version":"Submitted Version","language":[{"iso":"eng"}],"date_updated":"2025-04-24T11:32:09Z","_id":"12737","abstract":[{"text":"The substitution of heavier, more metallic atoms into classical organic ligand frameworks provides an important strategy for tuning ligand properties, such as ligand bite and donor character, and is the basis for the emerging area of main-group supramolecular chemistry. In this paper, we explore two new ligands [E(2-Me-8-qy)3] [E = Sb (1), Bi (2); qy = quinolyl], allowing a fundamental comparison of their coordination behavior with classical tris(2-pyridyl) ligands of the type [E′(2-py)3] (E = a range of bridgehead atoms and groups, py = pyridyl). A range of new coordination modes to Cu+, Ag+, and Au+ is seen for 1 and 2, in the absence of steric constraints at the bridgehead and with their more remote N-donor atoms. A particular feature is the adaptive nature of these new ligands, with the ability to adjust coordination mode in response to the hard–soft character of coordinated metal ions, influenced also by the character of the bridgehead atom (Sb or Bi). These features can be seen in a comparison between [Cu2{Sb(2-Me-8-qy)3}2](PF6)2 (1·CuPF6) and [Cu{Bi(2-Me-8-qy)3}](PF6) (2·CuPF6), the first containing a dimeric cation in which 1 adopts an unprecedented intramolecular N,N,Sb-coordination mode while in the second, 2 adopts an unusual N,N,(π-)C coordination mode. In contrast, the previously reported analogous ligands [E(6-Me-2-py)3] (E = Sb, Bi; 2-py = 2-pyridyl) show a tris-chelating mode in their complexes with CuPF6, which is typical for the extensive tris(2-pyridyl) family with a range of metals. The greater polarity of the Bi–C bond in 2 results in ligand transfer reactions with Au(I). Although this reactivity is not in itself unusual, the characterization of several products by single-crystal X-ray diffraction provides snapshots of the ligand transfer reaction involved, with one of the products (the bimetallic complex [(BiCl){ClAu2(2-Me-8-qy)3}] (8)) containing a Au2Bi core in which the shortest Au → Bi donor–acceptor bond to date is observed.","lang":"eng"}],"oa":1,"page":"4625-4636","month":"03","type":"journal_article","citation":{"mla":"García-Romero, Álvaro, et al. “Highly Adaptive Nature of Group 15 Tris(Quinolyl) Ligands─studies with Coinage Metals.” <i>Inorganic Chemistry</i>, vol. 62, no. 11, American Chemical Society, 2023, pp. 4625–36, doi:<a href=\"https://doi.org/10.1021/acs.inorgchem.3c00057\">10.1021/acs.inorgchem.3c00057</a>.","ieee":"Á. García-Romero <i>et al.</i>, “Highly adaptive nature of group 15 tris(quinolyl) ligands─studies with coinage metals,” <i>Inorganic Chemistry</i>, vol. 62, no. 11. American Chemical Society, pp. 4625–4636, 2023.","ama":"García-Romero Á, Waters JE, Jethwa RB, et al. Highly adaptive nature of group 15 tris(quinolyl) ligands─studies with coinage metals. <i>Inorganic Chemistry</i>. 2023;62(11):4625-4636. doi:<a href=\"https://doi.org/10.1021/acs.inorgchem.3c00057\">10.1021/acs.inorgchem.3c00057</a>","chicago":"García-Romero, Álvaro, Jessica E. Waters, Rajesh B Jethwa, Andrew D. Bond, Annie L. Colebatch, Raúl García-Rodríguez, and Dominic S. Wright. “Highly Adaptive Nature of Group 15 Tris(Quinolyl) Ligands─studies with Coinage Metals.” <i>Inorganic Chemistry</i>. American Chemical Society, 2023. <a href=\"https://doi.org/10.1021/acs.inorgchem.3c00057\">https://doi.org/10.1021/acs.inorgchem.3c00057</a>.","ista":"García-Romero Á, Waters JE, Jethwa RB, Bond AD, Colebatch AL, García-Rodríguez R, Wright DS. 2023. Highly adaptive nature of group 15 tris(quinolyl) ligands─studies with coinage metals. Inorganic Chemistry. 62(11), 4625–4636.","short":"Á. García-Romero, J.E. Waters, R.B. Jethwa, A.D. Bond, A.L. Colebatch, R. García-Rodríguez, D.S. Wright, Inorganic Chemistry 62 (2023) 4625–4636.","apa":"García-Romero, Á., Waters, J. E., Jethwa, R. B., Bond, A. D., Colebatch, A. L., García-Rodríguez, R., &#38; Wright, D. S. (2023). Highly adaptive nature of group 15 tris(quinolyl) ligands─studies with coinage metals. <i>Inorganic Chemistry</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.inorgchem.3c00057\">https://doi.org/10.1021/acs.inorgchem.3c00057</a>"},"OA_place":"repository"},{"file_date_updated":"2023-11-14T13:12:12Z","external_id":{"arxiv":["2106.13185"],"isi":["001024369000001"]},"publication_status":"published","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"RoSe"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","publication_identifier":{"issn":["0003-9527"],"eissn":["1432-0673"]},"has_accepted_license":"1","status":"public","isi":1,"year":"2023","publication":"Archive for Rational Mechanics and Analysis","scopus_import":"1","volume":247,"ddc":["510"],"doi":"10.1007/s00205-023-01893-6","acknowledgement":"RS was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation programme (Grant Agreement No. 694227). MP acknowledges financial support from the European Research Council under the European Union’s Horizon 2020 research and innovation programme (ERC StG MaMBoQ, Grant Agreement No. 802901). BS acknowledges financial support from the NCCR SwissMAP, from the Swiss National Science Foundation through the Grant “Dynamical and energetic properties of Bose-Einstein condensates” and from the European Research Council through the ERC AdG CLaQS (Grant Agreement No. 834782). NB and MP were supported by Gruppo Nazionale per la Fisica Matematica (GNFM) of Italy. NB was supported by the European Research Council’s Starting Grant FERMIMATH (Grant Agreement No. 101040991).\r\nOpen access funding provided by Università degli Studi di Milano within the CRUI-CARE Agreement.","intvolume":"       247","ec_funded":1,"article_number":"65","title":"Correlation energy of a weakly interacting Fermi gas with large interaction potential","author":[{"first_name":"Niels P","full_name":"Benedikter, Niels P","last_name":"Benedikter","id":"3DE6C32A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-1071-6091"},{"full_name":"Porta, Marcello","first_name":"Marcello","last_name":"Porta"},{"last_name":"Schlein","first_name":"Benjamin","full_name":"Schlein, Benjamin"},{"last_name":"Seiringer","id":"4AFD0470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6781-0521","first_name":"Robert","full_name":"Seiringer, Robert"}],"date_created":"2023-07-16T22:01:08Z","file":[{"file_size":851626,"date_created":"2023-11-14T13:12:12Z","creator":"dernst","file_name":"2023_ArchiveRationalMechAnalysis_Benedikter.pdf","checksum":"2b45828d854a253b14bf7aa196ec55e9","content_type":"application/pdf","file_id":"14535","access_level":"open_access","success":1,"relation":"main_file","date_updated":"2023-11-14T13:12:12Z"}],"issue":"4","date_published":"2023-08-01T00:00:00Z","article_type":"original","project":[{"_id":"25C6DC12-B435-11E9-9278-68D0E5697425","grant_number":"694227","name":"Analysis of quantum many-body systems","call_identifier":"H2020"}],"date_updated":"2025-04-14T07:26:58Z","language":[{"iso":"eng"}],"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"quality_controlled":"1","publisher":"Springer Nature","oa_version":"Published Version","arxiv":1,"oa":1,"month":"08","citation":{"mla":"Benedikter, Niels P., et al. “Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.” <i>Archive for Rational Mechanics and Analysis</i>, vol. 247, no. 4, 65, Springer Nature, 2023, doi:<a href=\"https://doi.org/10.1007/s00205-023-01893-6\">10.1007/s00205-023-01893-6</a>.","ieee":"N. P. Benedikter, M. Porta, B. Schlein, and R. Seiringer, “Correlation energy of a weakly interacting Fermi gas with large interaction potential,” <i>Archive for Rational Mechanics and Analysis</i>, vol. 247, no. 4. Springer Nature, 2023.","apa":"Benedikter, N. P., Porta, M., Schlein, B., &#38; Seiringer, R. (2023). Correlation energy of a weakly interacting Fermi gas with large interaction potential. <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00205-023-01893-6\">https://doi.org/10.1007/s00205-023-01893-6</a>","short":"N.P. Benedikter, M. Porta, B. Schlein, R. Seiringer, Archive for Rational Mechanics and Analysis 247 (2023).","chicago":"Benedikter, Niels P, Marcello Porta, Benjamin Schlein, and Robert Seiringer. “Correlation Energy of a Weakly Interacting Fermi Gas with Large Interaction Potential.” <i>Archive for Rational Mechanics and Analysis</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00205-023-01893-6\">https://doi.org/10.1007/s00205-023-01893-6</a>.","ista":"Benedikter NP, Porta M, Schlein B, Seiringer R. 2023. Correlation energy of a weakly interacting Fermi gas with large interaction potential. Archive for Rational Mechanics and Analysis. 247(4), 65.","ama":"Benedikter NP, Porta M, Schlein B, Seiringer R. Correlation energy of a weakly interacting Fermi gas with large interaction potential. <i>Archive for Rational Mechanics and Analysis</i>. 2023;247(4). doi:<a href=\"https://doi.org/10.1007/s00205-023-01893-6\">10.1007/s00205-023-01893-6</a>"},"type":"journal_article","_id":"13225","abstract":[{"text":"Recently the leading order of the correlation energy of a Fermi gas in a coupled mean-field and semiclassical scaling regime has been derived, under the assumption of an interaction potential with a small norm and with compact support in Fourier space. We generalize this result to large interaction potentials, requiring only |⋅|V^∈ℓ1(Z3). Our proof is based on approximate, collective bosonization in three dimensions. Significant improvements compared to recent work include stronger bounds on non-bosonizable terms and more efficient control on the bosonization of the kinetic energy.","lang":"eng"}]},{"acknowledgement":"The authors are grateful to Martijn Caspers for helpful comments on a preliminary version of this manuscript. M. V. was supported by the NWO Vidi grant VI.Vidi.192.018 ‘Non-commutative harmonic analysis and rigidity of operator algebras’. M. W. was funded by the Austrian Science Fund (FWF) under the Esprit Programme [ESP 156]. For the purpose of Open Access, the authors have applied a CC BY public copyright licence to any Author Accepted Manuscript (AAM) version arising from this submission. Open access funding provided by Austrian Science Fund (FWF).","doi":"10.1007/s00220-023-04795-6","ddc":["510"],"intvolume":"       403","scopus_import":"1","pmid":1,"year":"2023","publication":"Communications in Mathematical Physics","volume":403,"date_published":"2023-10-01T00:00:00Z","project":[{"grant_number":"ESP156_N","_id":"34c6ea2d-11ca-11ed-8bc3-c04f3c502833","name":"Gradient flow techniques for quantum Markov semigroups"}],"article_type":"original","date_created":"2023-07-30T22:01:03Z","title":"Derivations and KMS-symmetric quantum Markov semigroups","author":[{"full_name":"Vernooij, Matthijs","first_name":"Matthijs","last_name":"Vernooij"},{"orcid":"0000-0002-0519-4241","last_name":"Wirth","id":"88644358-0A0E-11EA-8FA5-49A33DDC885E","full_name":"Wirth, Melchior","first_name":"Melchior"}],"file":[{"file_size":481209,"date_created":"2024-01-30T12:15:11Z","creator":"dernst","file_name":"2023_CommMathPhysics_Vernooij.pdf","access_level":"open_access","file_id":"14905","success":1,"checksum":"cca204e81891270216a0c84eb8bcd398","content_type":"application/pdf","relation":"main_file","date_updated":"2024-01-30T12:15:11Z"}],"file_date_updated":"2024-01-30T12:15:11Z","publication_identifier":{"issn":["0010-3616"],"eissn":["1432-0916"]},"day":"01","has_accepted_license":"1","isi":1,"status":"public","publication_status":"published","external_id":{"pmid":["37766789"],"isi":["001033655400002"],"arxiv":["2303.15949"]},"article_processing_charge":"Yes (via OA deal)","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"JaMa"}],"arxiv":1,"_id":"13319","abstract":[{"lang":"eng","text":"We prove that the generator of the L2 implementation of a KMS-symmetric quantum Markov semigroup can be expressed as the square of a derivation with values in a Hilbert bimodule, extending earlier results by Cipriani and Sauvageot for tracially symmetric semigroups and the second-named author for GNS-symmetric semigroups. This result hinges on the introduction of a new completely positive map on the algebra of bounded operators on the GNS Hilbert space. This transformation maps symmetric Markov operators to symmetric Markov operators and is essential to obtain the required inner product on the Hilbert bimodule."}],"page":"381-416","oa":1,"month":"10","type":"journal_article","citation":{"apa":"Vernooij, M., &#38; Wirth, M. (2023). Derivations and KMS-symmetric quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00220-023-04795-6\">https://doi.org/10.1007/s00220-023-04795-6</a>","short":"M. Vernooij, M. Wirth, Communications in Mathematical Physics 403 (2023) 381–416.","ama":"Vernooij M, Wirth M. Derivations and KMS-symmetric quantum Markov semigroups. <i>Communications in Mathematical Physics</i>. 2023;403:381-416. doi:<a href=\"https://doi.org/10.1007/s00220-023-04795-6\">10.1007/s00220-023-04795-6</a>","chicago":"Vernooij, Matthijs, and Melchior Wirth. “Derivations and KMS-Symmetric Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s00220-023-04795-6\">https://doi.org/10.1007/s00220-023-04795-6</a>.","ista":"Vernooij M, Wirth M. 2023. Derivations and KMS-symmetric quantum Markov semigroups. Communications in Mathematical Physics. 403, 381–416.","ieee":"M. Vernooij and M. Wirth, “Derivations and KMS-symmetric quantum Markov semigroups,” <i>Communications in Mathematical Physics</i>, vol. 403. Springer Nature, pp. 381–416, 2023.","mla":"Vernooij, Matthijs, and Melchior Wirth. “Derivations and KMS-Symmetric Quantum Markov Semigroups.” <i>Communications in Mathematical Physics</i>, vol. 403, Springer Nature, 2023, pp. 381–416, doi:<a href=\"https://doi.org/10.1007/s00220-023-04795-6\">10.1007/s00220-023-04795-6</a>."},"publisher":"Springer Nature","quality_controlled":"1","oa_version":"Published Version","corr_author":"1","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"date_updated":"2025-04-23T13:10:45Z","language":[{"iso":"eng"}]},{"arxiv":1,"_id":"15173","abstract":[{"text":"We show that the number of linear spaces on a set of n points and the number of rank-3 matroids on a ground set of size n are both of the form (cn+o(n))n2/6, where c=e3√/2−3(1+3–√)/2. This is the final piece of the puzzle for enumerating fixed-rank matroids at this level of accuracy: the numbers of rank-1 and rank-2 matroids on a ground set of size n have exact representations in terms of well-known combinatorial functions, and it was recently proved by van der Hofstad, Pendavingh, and van der Pol that for constant r≥4 there are (e1−rn+o(n))nr−1/r! rank-r matroids on a ground set of size n. In our proof, we introduce a new approach for bounding the number of clique decompositions of a complete graph, using quasirandomness instead of the so-called entropy method that is common in this area.","lang":"eng"}],"page":"565-575","oa":1,"citation":{"apa":"Kwan, M. A., Sah, A., &#38; Sawhney, M. (2023). Enumerating matroids and linear spaces. <i>Comptes Rendus Mathematique</i>. Academie des Sciences. <a href=\"https://doi.org/10.5802/crmath.423\">https://doi.org/10.5802/crmath.423</a>","short":"M.A. Kwan, A. Sah, M. Sawhney, Comptes Rendus Mathematique 361 (2023) 565–575.","ama":"Kwan MA, Sah A, Sawhney M. Enumerating matroids and linear spaces. <i>Comptes Rendus Mathematique</i>. 2023;361(G2):565-575. doi:<a href=\"https://doi.org/10.5802/crmath.423\">10.5802/crmath.423</a>","chicago":"Kwan, Matthew Alan, Ashwin Sah, and Mehtaab Sawhney. “Enumerating Matroids and Linear Spaces.” <i>Comptes Rendus Mathematique</i>. Academie des Sciences, 2023. <a href=\"https://doi.org/10.5802/crmath.423\">https://doi.org/10.5802/crmath.423</a>.","ista":"Kwan MA, Sah A, Sawhney M. 2023. Enumerating matroids and linear spaces. Comptes Rendus Mathematique. 361(G2), 565–575.","mla":"Kwan, Matthew Alan, et al. “Enumerating Matroids and Linear Spaces.” <i>Comptes Rendus Mathematique</i>, vol. 361, no. G2, Academie des Sciences, 2023, pp. 565–75, doi:<a href=\"https://doi.org/10.5802/crmath.423\">10.5802/crmath.423</a>.","ieee":"M. A. Kwan, A. Sah, and M. Sawhney, “Enumerating matroids and linear spaces,” <i>Comptes Rendus Mathematique</i>, vol. 361, no. G2. Academie des Sciences, pp. 565–575, 2023."},"type":"journal_article","month":"02","publisher":"Academie des Sciences","quality_controlled":"1","oa_version":"Published Version","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"language":[{"iso":"eng"}],"date_updated":"2025-09-09T14:26:32Z","acknowledgement":"Sah and Sawhney were supported by NSF Graduate Research Fellowship Program DGE-1745302. Sah was supported by the PD Soros Fellowship.\r\nWe thank Michael Simkin for helpful comments on the manuscript. We thank Zach Hunter for\r\nseveral corrections.","doi":"10.5802/crmath.423","ddc":["510"],"intvolume":"       361","scopus_import":"1","publication":"Comptes Rendus Mathematique","year":"2023","volume":361,"date_published":"2023-02-01T00:00:00Z","article_type":"original","author":[{"full_name":"Kwan, Matthew Alan","first_name":"Matthew Alan","orcid":"0000-0002-4003-7567","last_name":"Kwan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3"},{"last_name":"Sah","first_name":"Ashwin","full_name":"Sah, Ashwin"},{"last_name":"Sawhney","full_name":"Sawhney, Mehtaab","first_name":"Mehtaab"}],"date_created":"2024-03-24T23:01:00Z","title":"Enumerating matroids and linear spaces","issue":"G2","file":[{"file_name":"2023_ComptesRendusMath_Kwan.pdf","relation":"main_file","date_updated":"2024-03-25T07:21:52Z","success":1,"access_level":"open_access","file_id":"15174","checksum":"d1d0e0a854a79ae95fb66d75d9117a68","content_type":"application/pdf","file_size":598097,"creator":"dernst","date_created":"2024-03-25T07:21:52Z"}],"file_date_updated":"2024-03-25T07:21:52Z","publication_identifier":{"eissn":["1778-3569"],"issn":["1631-073X"]},"day":"01","has_accepted_license":"1","status":"public","isi":1,"publication_status":"published","external_id":{"isi":["001167671400009"],"arxiv":["2112.03788"]},"department":[{"_id":"MaKw"}],"article_processing_charge":"Yes","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345"},{"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"language":[{"iso":"eng"}],"date_updated":"2024-04-02T07:01:46Z","oa_version":"Published Version","publisher":"American Astronomical Society","quality_controlled":"1","arxiv":1,"month":"08","type":"journal_article","citation":{"chicago":"Burdge, Kevin B., Kareem El-Badry, Saul Rappaport, Tin Long Sunny Wong, Evan B. Bauer, Lars Bildsten, Ilaria Caiazzo, et al. “Orbital Decay in an Accreting and Eclipsing 13.7 Minute Orbital Period Binary with a Luminous Donor.” <i>The Astrophysical Journal Letters</i>. American Astronomical Society, 2023. <a href=\"https://doi.org/10.3847/2041-8213/ace7cf\">https://doi.org/10.3847/2041-8213/ace7cf</a>.","ista":"Burdge KB, El-Badry K, Rappaport S, Sunny Wong TL, Bauer EB, Bildsten L, Caiazzo I, Chakrabarty D, Chickles E, Graham MJ, Kara E, Kulkarni SR, Marsh TR, Nynka M, Prince TA, Simcoe RA, van Roestel J, Vanderbosch Z, Bellm EC, Dekany RG, Drake AJ, Helou G, Masci FJ, Milburn J, Riddle R, Rusholme B, Smith R. 2023. Orbital decay in an accreting and eclipsing 13.7 minute orbital period binary with a luminous donor. The Astrophysical Journal Letters. 953(1), L1.","ama":"Burdge KB, El-Badry K, Rappaport S, et al. Orbital decay in an accreting and eclipsing 13.7 minute orbital period binary with a luminous donor. <i>The Astrophysical Journal Letters</i>. 2023;953(1). doi:<a href=\"https://doi.org/10.3847/2041-8213/ace7cf\">10.3847/2041-8213/ace7cf</a>","short":"K.B. Burdge, K. El-Badry, S. Rappaport, T.L. Sunny Wong, E.B. Bauer, L. Bildsten, I. Caiazzo, D. Chakrabarty, E. Chickles, M.J. Graham, E. Kara, S.R. Kulkarni, T.R. Marsh, M. Nynka, T.A. Prince, R.A. Simcoe, J. van Roestel, Z. Vanderbosch, E.C. Bellm, R.G. Dekany, A.J. Drake, G. Helou, F.J. Masci, J. Milburn, R. Riddle, B. Rusholme, R. Smith, The Astrophysical Journal Letters 953 (2023).","apa":"Burdge, K. B., El-Badry, K., Rappaport, S., Sunny Wong, T. L., Bauer, E. B., Bildsten, L., … Smith, R. (2023). Orbital decay in an accreting and eclipsing 13.7 minute orbital period binary with a luminous donor. <i>The Astrophysical Journal Letters</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/2041-8213/ace7cf\">https://doi.org/10.3847/2041-8213/ace7cf</a>","ieee":"K. B. Burdge <i>et al.</i>, “Orbital decay in an accreting and eclipsing 13.7 minute orbital period binary with a luminous donor,” <i>The Astrophysical Journal Letters</i>, vol. 953, no. 1. American Astronomical Society, 2023.","mla":"Burdge, Kevin B., et al. “Orbital Decay in an Accreting and Eclipsing 13.7 Minute Orbital Period Binary with a Luminous Donor.” <i>The Astrophysical Journal Letters</i>, vol. 953, no. 1, L1, American Astronomical Society, 2023, doi:<a href=\"https://doi.org/10.3847/2041-8213/ace7cf\">10.3847/2041-8213/ace7cf</a>."},"oa":1,"abstract":[{"text":"We report the discovery of ZTF J0127+5258, a compact mass-transferring binary with an orbital period of 13.7 minutes. The system contains a white dwarf accretor, which likely originated as a post–common envelope carbon–oxygen (CO) white dwarf, and a warm donor (Teff,donor = 16,400 ± 1000 K). The donor probably formed during a common envelope phase between the CO white dwarf and an evolving giant that left behind a helium star or white dwarf in a close orbit with the CO white dwarf. We measure gravitational wave–driven orbital inspiral with ∼51σ significance, which yields a joint constraint on the component masses and mass transfer rate. While the accretion disk in the system is dominated by ionized helium emission, the donor exhibits a mixture of hydrogen and helium absorption lines. Phase-resolved spectroscopy yields a donor radial velocity semiamplitude of 771 ± 27 km s−1, and high-speed photometry reveals that the system is eclipsing. We detect a Chandra X-ray counterpart with LX ∼ 3 × 1031 erg s−1. Depending on the mass transfer rate, the system will likely either evolve into a stably mass-transferring helium cataclysmic variable, merge to become an R CrB star, or explode as a Type Ia supernova in the next million years. We predict that the Laser Space Interferometer Antenna (LISA) will detect the source with a signal-to-noise ratio of 24 ± 6 after 4 yr of observations. The system is the first LISA-loud mass-transferring binary with an intrinsically luminous donor, a class of sources that provide the opportunity to leverage the synergy between optical and infrared time domain surveys, X-ray facilities, and gravitational-wave observatories to probe general relativity, accretion physics, and binary evolution.","lang":"eng"}],"keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"_id":"15196","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","extern":"1","external_id":{"arxiv":["2303.13573"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.3847/2041-8213/ace7cf"}],"status":"public","publication_identifier":{"eissn":["2041-8213"],"issn":["2041-8205"]},"day":"08","volume":953,"scopus_import":"1","publication":"The Astrophysical Journal Letters","year":"2023","intvolume":"       953","doi":"10.3847/2041-8213/ace7cf","issue":"1","title":"Orbital decay in an accreting and eclipsing 13.7 minute orbital period binary with a luminous donor","date_created":"2024-03-26T09:47:22Z","article_number":"L1","author":[{"last_name":"Burdge","first_name":"Kevin B.","full_name":"Burdge, Kevin B."},{"last_name":"El-Badry","full_name":"El-Badry, Kareem","first_name":"Kareem"},{"first_name":"Saul","full_name":"Rappaport, Saul","last_name":"Rappaport"},{"first_name":"Tin Long","full_name":"Sunny Wong, Tin Long","last_name":"Sunny Wong"},{"last_name":"Bauer","full_name":"Bauer, Evan B.","first_name":"Evan B."},{"first_name":"Lars","full_name":"Bildsten, Lars","last_name":"Bildsten"},{"full_name":"Caiazzo, Ilaria","first_name":"Ilaria","orcid":"0000-0002-4770-5388","id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d","last_name":"Caiazzo"},{"first_name":"Deepto","full_name":"Chakrabarty, Deepto","last_name":"Chakrabarty"},{"full_name":"Chickles, Emma","first_name":"Emma","last_name":"Chickles"},{"last_name":"Graham","full_name":"Graham, Matthew J.","first_name":"Matthew J."},{"full_name":"Kara, Erin","first_name":"Erin","last_name":"Kara"},{"full_name":"Kulkarni, S. R.","first_name":"S. R.","last_name":"Kulkarni"},{"last_name":"Marsh","full_name":"Marsh, Thomas R.","first_name":"Thomas R."},{"last_name":"Nynka","full_name":"Nynka, Melania","first_name":"Melania"},{"first_name":"Thomas A.","full_name":"Prince, Thomas A.","last_name":"Prince"},{"last_name":"Simcoe","first_name":"Robert A.","full_name":"Simcoe, Robert A."},{"first_name":"Jan","full_name":"van Roestel, Jan","last_name":"van Roestel"},{"full_name":"Vanderbosch, Zach","first_name":"Zach","last_name":"Vanderbosch"},{"first_name":"Eric C.","full_name":"Bellm, Eric C.","last_name":"Bellm"},{"first_name":"Richard G.","full_name":"Dekany, Richard G.","last_name":"Dekany"},{"full_name":"Drake, Andrew J.","first_name":"Andrew J.","last_name":"Drake"},{"first_name":"George","full_name":"Helou, George","last_name":"Helou"},{"full_name":"Masci, Frank J.","first_name":"Frank J.","last_name":"Masci"},{"first_name":"Jennifer","full_name":"Milburn, Jennifer","last_name":"Milburn"},{"last_name":"Riddle","first_name":"Reed","full_name":"Riddle, Reed"},{"full_name":"Rusholme, Ben","first_name":"Ben","last_name":"Rusholme"},{"last_name":"Smith","first_name":"Roger","full_name":"Smith, Roger"}],"article_type":"original","date_published":"2023-08-08T00:00:00Z"},{"arxiv":1,"_id":"15202","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"abstract":[{"text":"Magnetars are the most strongly magnetized neutron stars, and one of the most promising targets for X-ray polarimetric measurements. We present here the first Imaging X-ray Polarimetry Explorer observation of the magnetar 1RXS J170849.0-400910, jointly analyzed with a new Swift observation and archival NICER data. The total (energy- and phase-integrated) emission in the 2–8 keV energy range is linerarly polarized, at a ∼35% level. The phase-averaged polarization signal shows a marked increase with energy, ranging from ∼20% at 2–3 keV up to ∼80% at 6–8 keV, while the polarization angle remains constant. This indicates that radiation is mostly polarized in a single direction. The spectrum is well reproduced by a combination of either two thermal (blackbody) components or a blackbody and a power law. Both the polarization degree and angle also show a variation with the spin phase, and the former is almost anticorrelated with the source counts in the 2–8 and 2–4 keV bands. We discuss the possible implications and interpretations, based on a joint analysis of the spectral, polarization, and pulsation properties of the source. A scenario in which the surface temperature is not homogeneous, with a hotter cap covered by a gaseous atmosphere and a warmer region in a condensed state, provides a satisfactory description of both the phase- and energy-dependent spectro-polarimetric data. The (comparatively) small size of the two emitting regions, required to explain the observed pulsations, does not allow to reach a robust conclusion about the presence of vacuum birefringence effects.","lang":"eng"}],"oa":1,"month":"02","citation":{"short":"S. Zane, R. Taverna, D. González–Caniulef, F. Muleri, R. Turolla, J. Heyl, K. Uchiyama, M. Ng, T. Tamagawa, I. Caiazzo, N. Di Lalla, H.L. Marshall, M. Bachetti, F. La Monaca, E. Gau, A. Di Marco, L. Baldini, M. Negro, N. Omodei, J. Rankin, G. Matt, G.G. Pavlov, T. Kitaguchi, H. Krawczynski, F. Kislat, R. Kelly, I. Agudo, L.A. Antonelli, W.H. Baumgartner, R. Bellazzini, S. Bianchi, S.D. Bongiorno, R. Bonino, A. Brez, N. Bucciantini, F. Capitanio, S. Castellano, E. Cavazzuti, C.-T. Chen, S. Ciprini, E. Costa, A. De Rosa, E. Del Monte, L. Di Gesu, I. Donnarumma, V. Doroshenko, M. Dovčiak, S.R. Ehlert, T. Enoto, Y. Evangelista, S. Fabiani, R. Ferrazzoli, J.A. Garcia, S. Gunji, K. Hayashida, W. Iwakiri, S.G. Jorstad, P. Kaaret, V. Karas, J.J. Kolodziejczak, L. Latronico, I. Liodakis, S. Maldera, A. Manfreda, F. Marin, A. Marinucci, A.P. Marscher, F. Massaro, I. Mitsuishi, T. Mizuno, C.-Y. Ng, S.L. O’Dell, C. Oppedisano, A. Papitto, A.L. Peirson, M. Perri, M. Pesce-Rollins, P.-O. Petrucci, M. Pilia, A. Possenti, J. Poutanen, S. Puccetti, B.D. Ramsey, A. Ratheesh, O.J. Roberts, R.W. Romani, C. Sgró, P. Slane, P. Soffitta, G. Spandre, D.A. Swartz, F. Tavecchio, Y. Tawara, A.F. Tennant, N.E. Thomas, F. Tombesi, A. Trois, S.S. Tsygankov, J. Vink, M.C. Weisskopf, K. Wu, F. Xie, The Astrophysical Journal Letters 944 (2023).","apa":"Zane, S., Taverna, R., González–Caniulef, D., Muleri, F., Turolla, R., Heyl, J., … Xie, F. (2023). A strong x-ray polarization signal from the magnetar 1RXS J170849.0-400910. <i>The Astrophysical Journal Letters</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/2041-8213/acb703\">https://doi.org/10.3847/2041-8213/acb703</a>","ista":"Zane S et al. 2023. A strong x-ray polarization signal from the magnetar 1RXS J170849.0-400910. The Astrophysical Journal Letters. 944(2), L27.","chicago":"Zane, Silvia, Roberto Taverna, Denis González–Caniulef, Fabio Muleri, Roberto Turolla, Jeremy Heyl, Keisuke Uchiyama, et al. “A Strong X-Ray Polarization Signal from the Magnetar 1RXS J170849.0-400910.” <i>The Astrophysical Journal Letters</i>. American Astronomical Society, 2023. <a href=\"https://doi.org/10.3847/2041-8213/acb703\">https://doi.org/10.3847/2041-8213/acb703</a>.","ama":"Zane S, Taverna R, González–Caniulef D, et al. A strong x-ray polarization signal from the magnetar 1RXS J170849.0-400910. <i>The Astrophysical Journal Letters</i>. 2023;944(2). doi:<a href=\"https://doi.org/10.3847/2041-8213/acb703\">10.3847/2041-8213/acb703</a>","mla":"Zane, Silvia, et al. “A Strong X-Ray Polarization Signal from the Magnetar 1RXS J170849.0-400910.” <i>The Astrophysical Journal Letters</i>, vol. 944, no. 2, L27, American Astronomical Society, 2023, doi:<a href=\"https://doi.org/10.3847/2041-8213/acb703\">10.3847/2041-8213/acb703</a>.","ieee":"S. Zane <i>et al.</i>, “A strong x-ray polarization signal from the magnetar 1RXS J170849.0-400910,” <i>The Astrophysical Journal Letters</i>, vol. 944, no. 2. American Astronomical Society, 2023."},"type":"journal_article","quality_controlled":"1","publisher":"American Astronomical Society","oa_version":"Published Version","language":[{"iso":"eng"}],"date_updated":"2024-04-02T07:15:41Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"doi":"10.3847/2041-8213/acb703","intvolume":"       944","year":"2023","publication":"The Astrophysical Journal Letters","scopus_import":"1","volume":944,"date_published":"2023-02-15T00:00:00Z","article_type":"original","author":[{"last_name":"Zane","first_name":"Silvia","full_name":"Zane, Silvia"},{"last_name":"Taverna","first_name":"Roberto","full_name":"Taverna, Roberto"},{"last_name":"González–Caniulef","first_name":"Denis","full_name":"González–Caniulef, Denis"},{"last_name":"Muleri","full_name":"Muleri, 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x-ray polarization signal from the magnetar 1RXS J170849.0-400910","date_created":"2024-03-26T09:50:12Z","issue":"2","day":"15","publication_identifier":{"issn":["2041-8205"],"eissn":["2041-8213"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.3847/2041-8213/acb703"}],"status":"public","external_id":{"arxiv":["2301.12919"]},"extern":"1","publication_status":"published","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"scopus_import":"1","publication":"The Astrophysical Journal Letters","year":"2023","volume":951,"doi":"10.3847/2041-8213/acc9c8","intvolume":"       951","article_number":"L5","title":"A SPectroscopic survey of biased halos in the reionization Era (ASPIRE): A first look at the rest-frame optical spectra of > 6.5 quasars using JWST","author":[{"last_name":"Yang","full_name":"Yang, Jinyi","first_name":"Jinyi"},{"full_name":"Wang, Feige","first_name":"Feige","last_name":"Wang"},{"first_name":"Xiaohui","full_name":"Fan, 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Alessandro","first_name":"Alessandro"},{"last_name":"Mazzucchelli","full_name":"Mazzucchelli, Chiara","first_name":"Chiara"},{"first_name":"Zhiwei","full_name":"Pan, Zhiwei","last_name":"Pan"},{"last_name":"Rojas-Ruiz","first_name":"Sofía","full_name":"Rojas-Ruiz, Sofía"},{"first_name":"Michael A.","full_name":"Strauss, Michael A.","last_name":"Strauss"},{"first_name":"Wei Leong","full_name":"Tee, Wei Leong","last_name":"Tee"},{"first_name":"Benny","full_name":"Trakhtenbrot, Benny","last_name":"Trakhtenbrot"},{"last_name":"Trebitsch","first_name":"Maxime","full_name":"Trebitsch, Maxime"},{"last_name":"Venemans","full_name":"Venemans, Bram","first_name":"Bram"},{"last_name":"Vestergaard","first_name":"Marianne","full_name":"Vestergaard, Marianne"},{"first_name":"Marta","full_name":"Volonteri, Marta","last_name":"Volonteri"},{"last_name":"Walter","first_name":"Fabian","full_name":"Walter, Fabian"},{"last_name":"Xie","full_name":"Xie, Zhang-Liang","first_name":"Zhang-Liang"},{"full_name":"Yue, Minghao","first_name":"Minghao","last_name":"Yue"},{"last_name":"Zhang","first_name":"Haowen","full_name":"Zhang, Haowen"},{"last_name":"Zhang","first_name":"Huanian","full_name":"Zhang, Huanian"},{"full_name":"Zou, Siwei","first_name":"Siwei","last_name":"Zou"}],"date_created":"2024-09-05T10:11:02Z","issue":"1","date_published":"2023-06-29T00:00:00Z","article_type":"original","publication_status":"published","extern":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"No","publication_identifier":{"issn":["2041-8205","2041-8213"]},"day":"29","main_file_link":[{"open_access":"1","url":"https://doi.org/10.3847/2041-8213/acc9c8"}],"status":"public","oa":1,"type":"journal_article","month":"06","citation":{"ieee":"J. Yang <i>et al.</i>, “A SPectroscopic survey of biased halos in the reionization Era (ASPIRE): A first look at the rest-frame optical spectra of &#62; 6.5 quasars using JWST,” <i>The Astrophysical Journal Letters</i>, vol. 951, no. 1. American Astronomical Society, 2023.","mla":"Yang, Jinyi, et al. “A SPectroscopic Survey of Biased Halos in the Reionization Era (ASPIRE): A First Look at the Rest-Frame Optical Spectra of &#62; 6.5 Quasars Using JWST.” <i>The Astrophysical Journal Letters</i>, vol. 951, no. 1, L5, American Astronomical Society, 2023, doi:<a href=\"https://doi.org/10.3847/2041-8213/acc9c8\">10.3847/2041-8213/acc9c8</a>.","ista":"Yang J, Wang F, Fan X, Hennawi JF, Barth AJ, Bañados E, Sun F, Liu W, Cai Z, Jiang L, Li Z, Onoue M, Schindler J-T, Shen Y, Wu Y, Bhowmick AK, Bieri R, Blecha L, Bosman S, Champagne JB, Colina L, Connor T, Costa T, Davies FB, Decarli R, De Rosa G, Drake AB, Egami E, Eilers A-C, Evans AE, Farina EP, Habouzit M, Haiman Z, Jin X, Jun HD, Kakiichi K, Khusanova Y, Kulkarni G, Loiacono F, Lupi A, Mazzucchelli C, Pan Z, Rojas-Ruiz S, Strauss MA, Tee WL, Trakhtenbrot B, Trebitsch M, Venemans B, Vestergaard M, Volonteri M, Walter F, Xie Z-L, Yue M, Zhang H, Zhang H, Zou S. 2023. A SPectroscopic survey of biased halos in the reionization Era (ASPIRE): A first look at the rest-frame optical spectra of &#62; 6.5 quasars using JWST. The Astrophysical Journal Letters. 951(1), L5.","chicago":"Yang, Jinyi, Feige Wang, Xiaohui Fan, Joseph F. Hennawi, Aaron J. Barth, Eduardo Bañados, Fengwu Sun, et al. “A SPectroscopic Survey of Biased Halos in the Reionization Era (ASPIRE): A First Look at the Rest-Frame Optical Spectra of &#62; 6.5 Quasars Using JWST.” <i>The Astrophysical Journal Letters</i>. American Astronomical Society, 2023. <a href=\"https://doi.org/10.3847/2041-8213/acc9c8\">https://doi.org/10.3847/2041-8213/acc9c8</a>.","ama":"Yang J, Wang F, Fan X, et al. A SPectroscopic survey of biased halos in the reionization Era (ASPIRE): A first look at the rest-frame optical spectra of &#62; 6.5 quasars using JWST. <i>The Astrophysical Journal Letters</i>. 2023;951(1). doi:<a href=\"https://doi.org/10.3847/2041-8213/acc9c8\">10.3847/2041-8213/acc9c8</a>","apa":"Yang, J., Wang, F., Fan, X., Hennawi, J. F., Barth, A. J., Bañados, E., … Zou, S. (2023). A SPectroscopic survey of biased halos in the reionization Era (ASPIRE): A first look at the rest-frame optical spectra of &#62; 6.5 quasars using JWST. <i>The Astrophysical Journal Letters</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/2041-8213/acc9c8\">https://doi.org/10.3847/2041-8213/acc9c8</a>","short":"J. Yang, F. Wang, X. Fan, J.F. Hennawi, A.J. Barth, E. Bañados, F. Sun, W. Liu, Z. Cai, L. Jiang, Z. Li, M. Onoue, J.-T. Schindler, Y. Shen, Y. Wu, A.K. Bhowmick, R. Bieri, L. Blecha, S. Bosman, J.B. Champagne, L. Colina, T. Connor, T. Costa, F.B. Davies, R. Decarli, G. De Rosa, A.B. Drake, E. Egami, A.-C. Eilers, A.E. Evans, E.P. Farina, M. Habouzit, Z. Haiman, X. Jin, H.D. Jun, K. Kakiichi, Y. Khusanova, G. Kulkarni, F. Loiacono, A. Lupi, C. Mazzucchelli, Z. Pan, S. Rojas-Ruiz, M.A. Strauss, W.L. Tee, B. Trakhtenbrot, M. Trebitsch, B. Venemans, M. Vestergaard, M. Volonteri, F. Walter, Z.-L. Xie, M. Yue, H. Zhang, H. Zhang, S. Zou, The Astrophysical Journal Letters 951 (2023)."},"_id":"17549","abstract":[{"lang":"eng","text":"Studies of rest-frame optical emission in quasars at z>6 have historically been limited by the wavelengths accessible by ground-based telescopes. The James Webb Space Telescope (JWST) now offers the opportunity to probe this emission deep into the reionization epoch. We report the observations of eight quasars at z>6.5 using the JWST/NIRCam Wide Field Slitless Spectroscopy, as a part of the ''A SPectroscopic survey of biased halos In the Reionization Era (ASPIRE)\" program. Our JWST spectra cover the quasars' emission between rest frame ∼ 4100 and 5100 Å. The profiles of these quasars' broad Hβ emission lines span a FWHM from 3000 to 6000 km s−1. The Hβ-based virial black hole (BH) masses, ranging from 0.6 to 2.1 billion solar masses, are generally consistent with their MgII-based BH masses. The new measurements based on the more reliable Hβ tracer thus confirm the existence of billion solar-mass BHs in the reionization epoch. In the observed [OIII] λλ4960,5008 doublets of these luminous quasars, broad components are more common than narrow core components (≤ 1200 km s−1), and only one quasar shows stronger narrow components than broad. Two quasars exhibit significantly broad and blueshifted [OIII] emission, thought to trace galactic-scale outflows, with median velocities of −610 km s−1 and −1430 km s−1 relative to the [CII] 158μm line. All eight quasars show strong optical FeII emission, and follow the Eigenvector 1 relations defined by low-redshift quasars. The entire ASPIRE program will eventually cover 25 quasars and provide a statistical sample for the studies of the BHs and quasar spectral properties."}],"date_updated":"2024-09-18T09:53:12Z","language":[{"iso":"eng"}],"publisher":"American Astronomical Society","quality_controlled":"1","oa_version":"Published Version"},{"status":"public","main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2211.14329","open_access":"1"}],"day":"28","publication_identifier":{"issn":["0028-0836","1476-4687"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"No","external_id":{"arxiv":["2211.14329"]},"extern":"1","publication_status":"published","article_type":"original","date_published":"2023-06-28T00:00:00Z","issue":"7977","date_created":"2024-09-05T11:28:21Z","author":[{"first_name":"Xuheng","full_name":"Ding, Xuheng","last_name":"Ding"},{"last_name":"Onoue","first_name":"Masafusa","full_name":"Onoue, Masafusa"},{"full_name":"Silverman, John D.","first_name":"John D.","last_name":"Silverman"},{"first_name":"Yoshiki","full_name":"Matsuoka, Yoshiki","last_name":"Matsuoka"},{"last_name":"Izumi","first_name":"Takuma","full_name":"Izumi, Takuma"},{"first_name":"Michael A.","full_name":"Strauss, Michael A.","last_name":"Strauss"},{"first_name":"Knud","full_name":"Jahnke, Knud","last_name":"Jahnke"},{"last_name":"Phillips","full_name":"Phillips, Camryn L.","first_name":"Camryn L."},{"first_name":"Junyao","full_name":"Li, Junyao","last_name":"Li"},{"full_name":"Volonteri, Marta","first_name":"Marta","last_name":"Volonteri"},{"full_name":"Haiman, Zoltán","first_name":"Zoltán","last_name":"Haiman","id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36"},{"full_name":"Andika, Irham Taufik","first_name":"Irham Taufik","last_name":"Andika"},{"full_name":"Aoki, Kentaro","first_name":"Kentaro","last_name":"Aoki"},{"last_name":"Baba","full_name":"Baba, Shunsuke","first_name":"Shunsuke"},{"last_name":"Bieri","full_name":"Bieri, Rebekka","first_name":"Rebekka"},{"full_name":"Bosman, Sarah E. I.","first_name":"Sarah E. I.","last_name":"Bosman"},{"full_name":"Bottrell, Connor","first_name":"Connor","last_name":"Bottrell"},{"first_name":"Anna-Christina","full_name":"Eilers, Anna-Christina","last_name":"Eilers"},{"last_name":"Fujimoto","full_name":"Fujimoto, Seiji","first_name":"Seiji"},{"last_name":"Habouzit","first_name":"Melanie","full_name":"Habouzit, Melanie"},{"last_name":"Imanishi","first_name":"Masatoshi","full_name":"Imanishi, Masatoshi"},{"full_name":"Inayoshi, Kohei","first_name":"Kohei","last_name":"Inayoshi"},{"last_name":"Iwasawa","full_name":"Iwasawa, Kazushi","first_name":"Kazushi"},{"last_name":"Kashikawa","full_name":"Kashikawa, Nobunari","first_name":"Nobunari"},{"last_name":"Kawaguchi","first_name":"Toshihiro","full_name":"Kawaguchi, Toshihiro"},{"full_name":"Kohno, Kotaro","first_name":"Kotaro","last_name":"Kohno"},{"last_name":"Lee","first_name":"Chien-Hsiu","full_name":"Lee, Chien-Hsiu"},{"full_name":"Lupi, Alessandro","first_name":"Alessandro","last_name":"Lupi"},{"last_name":"Lyu","full_name":"Lyu, Jianwei","first_name":"Jianwei"},{"last_name":"Nagao","first_name":"Tohru","full_name":"Nagao, Tohru"},{"last_name":"Overzier","full_name":"Overzier, Roderik","first_name":"Roderik"},{"first_name":"Jan-Torge","full_name":"Schindler, Jan-Torge","last_name":"Schindler"},{"last_name":"Schramm","first_name":"Malte","full_name":"Schramm, Malte"},{"first_name":"Kazuhiro","full_name":"Shimasaku, Kazuhiro","last_name":"Shimasaku"},{"last_name":"Toba","full_name":"Toba, Yoshiki","first_name":"Yoshiki"},{"first_name":"Benny","full_name":"Trakhtenbrot, Benny","last_name":"Trakhtenbrot"},{"full_name":"Trebitsch, Maxime","first_name":"Maxime","last_name":"Trebitsch"},{"last_name":"Treu","first_name":"Tommaso","full_name":"Treu, Tommaso"},{"last_name":"Umehata","first_name":"Hideki","full_name":"Umehata, Hideki"},{"first_name":"Bram P.","full_name":"Venemans, Bram P.","last_name":"Venemans"},{"first_name":"Marianne","full_name":"Vestergaard, Marianne","last_name":"Vestergaard"},{"last_name":"Walter","full_name":"Walter, Fabian","first_name":"Fabian"},{"last_name":"Wang","full_name":"Wang, Feige","first_name":"Feige"},{"full_name":"Yang, Jinyi","first_name":"Jinyi","last_name":"Yang"}],"title":"Detection of stellar light from quasar host galaxies at redshifts above 6","intvolume":"       621","doi":"10.1038/s41586-023-06345-5","volume":621,"year":"2023","publication":"Nature","scopus_import":"1","oa_version":"Preprint","quality_controlled":"1","publisher":"Springer Science and Business Media LLC","date_updated":"2024-09-18T12:19:50Z","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"The detection of starlight from the host galaxies of quasars during the reionization epoch (z > 6) has been elusive, even with deep Hubble Space Telescope observations1,2. The current highest redshift quasar host detected3, at z = 4.5, required the magnifying effect of a foreground lensing galaxy. Low-luminosity quasars4,5,6 from the Hyper Suprime-Cam Subaru Strategic Program (HSC-SSP)7 mitigate the challenge of detecting their underlying, previously undetected host galaxies. Here we report rest-frame optical images and spectroscopy of two HSC-SSP quasars at z > 6 with the JWST. Using near-infrared camera imaging at 3.6 and 1.5 μm and subtracting the light from the unresolved quasars, we find that the host galaxies are massive (stellar masses of 13 × and 3.4 × 1010 M☉, respectively), compact and disc-like. Near-infrared spectroscopy at medium resolution shows stellar absorption lines in the more massive quasar, confirming the detection of the host. Velocity-broadened gas in the vicinity of these quasars enables measurements of their black hole masses (1.4 × 109 and 2.0 × 108 M☉, respectively). Their location in the black hole mass–stellar mass plane is consistent with the distribution at low redshift, suggesting that the relation between black holes and their host galaxies was already in place less than a billion years after the Big Bang."}],"_id":"17558","citation":{"mla":"Ding, Xuheng, et al. “Detection of Stellar Light from Quasar Host Galaxies at Redshifts above 6.” <i>Nature</i>, vol. 621, no. 7977, Springer Science and Business Media LLC, 2023, pp. 51–55, doi:<a href=\"https://doi.org/10.1038/s41586-023-06345-5\">10.1038/s41586-023-06345-5</a>.","ieee":"X. Ding <i>et al.</i>, “Detection of stellar light from quasar host galaxies at redshifts above 6,” <i>Nature</i>, vol. 621, no. 7977. Springer Science and Business Media LLC, pp. 51–55, 2023.","short":"X. Ding, M. Onoue, J.D. Silverman, Y. Matsuoka, T. Izumi, M.A. Strauss, K. Jahnke, C.L. Phillips, J. Li, M. Volonteri, Z. Haiman, I.T. Andika, K. Aoki, S. Baba, R. Bieri, S.E.I. Bosman, C. Bottrell, A.-C. Eilers, S. Fujimoto, M. Habouzit, M. Imanishi, K. Inayoshi, K. Iwasawa, N. Kashikawa, T. Kawaguchi, K. Kohno, C.-H. Lee, A. Lupi, J. Lyu, T. Nagao, R. Overzier, J.-T. Schindler, M. Schramm, K. Shimasaku, Y. Toba, B. Trakhtenbrot, M. Trebitsch, T. Treu, H. Umehata, B.P. Venemans, M. Vestergaard, F. Walter, F. Wang, J. Yang, Nature 621 (2023) 51–55.","apa":"Ding, X., Onoue, M., Silverman, J. D., Matsuoka, Y., Izumi, T., Strauss, M. A., … Yang, J. (2023). Detection of stellar light from quasar host galaxies at redshifts above 6. <i>Nature</i>. Springer Science and Business Media LLC. <a href=\"https://doi.org/10.1038/s41586-023-06345-5\">https://doi.org/10.1038/s41586-023-06345-5</a>","ama":"Ding X, Onoue M, Silverman JD, et al. Detection of stellar light from quasar host galaxies at redshifts above 6. <i>Nature</i>. 2023;621(7977):51-55. doi:<a href=\"https://doi.org/10.1038/s41586-023-06345-5\">10.1038/s41586-023-06345-5</a>","chicago":"Ding, Xuheng, Masafusa Onoue, John D. Silverman, Yoshiki Matsuoka, Takuma Izumi, Michael A. Strauss, Knud Jahnke, et al. “Detection of Stellar Light from Quasar Host Galaxies at Redshifts above 6.” <i>Nature</i>. Springer Science and Business Media LLC, 2023. <a href=\"https://doi.org/10.1038/s41586-023-06345-5\">https://doi.org/10.1038/s41586-023-06345-5</a>.","ista":"Ding X, Onoue M, Silverman JD, Matsuoka Y, Izumi T, Strauss MA, Jahnke K, Phillips CL, Li J, Volonteri M, Haiman Z, Andika IT, Aoki K, Baba S, Bieri R, Bosman SEI, Bottrell C, Eilers A-C, Fujimoto S, Habouzit M, Imanishi M, Inayoshi K, Iwasawa K, Kashikawa N, Kawaguchi T, Kohno K, Lee C-H, Lupi A, Lyu J, Nagao T, Overzier R, Schindler J-T, Schramm M, Shimasaku K, Toba Y, Trakhtenbrot B, Trebitsch M, Treu T, Umehata H, Venemans BP, Vestergaard M, Walter F, Wang F, Yang J. 2023. Detection of stellar light from quasar host galaxies at redshifts above 6. Nature. 621(7977), 51–55."},"type":"journal_article","month":"06","oa":1,"page":"51-55","arxiv":1},{"type":"journal_article","citation":{"ama":"Dymond M, Kaluza V. Highly irregular separated nets. <i>Israel Journal of Mathematics</i>. 2023;253:501-554. doi:<a href=\"https://doi.org/10.1007/s11856-022-2448-6\">10.1007/s11856-022-2448-6</a>","chicago":"Dymond, Michael, and Vojtech Kaluza. “Highly Irregular Separated Nets.” <i>Israel Journal of Mathematics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1007/s11856-022-2448-6\">https://doi.org/10.1007/s11856-022-2448-6</a>.","ista":"Dymond M, Kaluza V. 2023. Highly irregular separated nets. Israel Journal of Mathematics. 253, 501–554.","apa":"Dymond, M., &#38; Kaluza, V. (2023). Highly irregular separated nets. <i>Israel Journal of Mathematics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s11856-022-2448-6\">https://doi.org/10.1007/s11856-022-2448-6</a>","short":"M. Dymond, V. Kaluza, Israel Journal of Mathematics 253 (2023) 501–554.","mla":"Dymond, Michael, and Vojtech Kaluza. “Highly Irregular Separated Nets.” <i>Israel Journal of Mathematics</i>, vol. 253, Springer Nature, 2023, pp. 501–54, doi:<a href=\"https://doi.org/10.1007/s11856-022-2448-6\">10.1007/s11856-022-2448-6</a>.","ieee":"M. Dymond and V. Kaluza, “Highly irregular separated nets,” <i>Israel Journal of Mathematics</i>, vol. 253. Springer Nature, pp. 501–554, 2023."},"month":"03","oa":1,"page":"501-554","abstract":[{"lang":"eng","text":"In 1998 Burago and Kleiner and (independently) McMullen gave examples of separated nets in Euclidean space which are non-bilipschitz equivalent to the integer lattice. We study weaker notions of equivalence of separated nets and demonstrate that such notions also give rise to distinct equivalence classes. Put differently, we find occurrences of particularly strong divergence of separated nets from the integer lattice. Our approach generalises that of Burago and Kleiner and McMullen which takes place largely in a continuous setting. Existence of irregular separated nets is verified via the existence of non-realisable density functions ρ:[0,1]d→(0,∞). In the present work we obtain stronger types of non-realisable densities."}],"_id":"9652","keyword":["Lipschitz","bilipschitz","bounded displacement","modulus of continuity","separated net","non-realisable density","Burago--Kleiner construction"],"arxiv":1,"date_updated":"2023-08-14T11:26:34Z","language":[{"iso":"eng"}],"oa_version":"Submitted Version","quality_controlled":"1","publisher":"Springer Nature","file":[{"creator":"vkaluza","date_created":"2021-07-14T07:41:50Z","file_size":900422,"relation":"main_file","date_updated":"2021-07-14T07:41:50Z","file_id":"9653","access_level":"open_access","content_type":"application/pdf","checksum":"6fa0a3207dd1d6467c309fd1bcc867d1","file_name":"separated_nets.pdf"}],"author":[{"last_name":"Dymond","first_name":"Michael","full_name":"Dymond, Michael"},{"first_name":"Vojtech","full_name":"Kaluza, Vojtech","last_name":"Kaluza","id":"21AE5134-9EAC-11EA-BEA2-D7BD3DDC885E","orcid":"0000-0002-2512-8698"}],"date_created":"2021-07-14T07:01:28Z","title":"Highly irregular separated nets","article_type":"original","date_published":"2023-03-01T00:00:00Z","volume":253,"publication":"Israel Journal of Mathematics","year":"2023","scopus_import":"1","intvolume":"       253","ddc":["515","516"],"doi":"10.1007/s11856-022-2448-6","acknowledgement":"This work was done while both authors were employed at the University of Innsbruck and enjoyed the full support of Austrian Science Fund (FWF): P 30902-N35.","article_processing_charge":"No","department":[{"_id":"UlWa"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","external_id":{"isi":["000904950300003"],"arxiv":["1903.05923"]},"publication_status":"published","status":"public","isi":1,"has_accepted_license":"1","publication_identifier":{"eissn":["1565-8511"]},"day":"01","file_date_updated":"2021-07-14T07:41:50Z"},{"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"language":[{"iso":"eng"}],"date_updated":"2026-04-07T13:25:34Z","publisher":"Oxford University Press","quality_controlled":"1","oa_version":"Published Version","corr_author":"1","acknowledged_ssus":[{"_id":"ScienComp"}],"oa":1,"type":"journal_article","related_material":{"record":[{"status":"public","id":"12933","relation":"research_data"},{"id":"14058","status":"public","relation":"dissertation_contains"}]},"citation":{"mla":"Puixeu Sala, Gemma, et al. “Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” <i>G3: Genes, Genomes, Genetics</i>, vol. 13, no. 8, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/g3journal/jkad121\">10.1093/g3journal/jkad121</a>.","ieee":"G. Puixeu Sala, A. Macon, and B. Vicoso, “Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster,” <i>G3: Genes, Genomes, Genetics</i>, vol. 13, no. 8. Oxford University Press, 2023.","apa":"Puixeu Sala, G., Macon, A., &#38; Vicoso, B. (2023). Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. <i>G3: Genes, Genomes, Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/g3journal/jkad121\">https://doi.org/10.1093/g3journal/jkad121</a>","short":"G. Puixeu Sala, A. Macon, B. Vicoso, G3: Genes, Genomes, Genetics 13 (2023).","chicago":"Puixeu Sala, Gemma, Ariana Macon, and Beatriz Vicoso. “Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” <i>G3: Genes, Genomes, Genetics</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/g3journal/jkad121\">https://doi.org/10.1093/g3journal/jkad121</a>.","ista":"Puixeu Sala G, Macon A, Vicoso B. 2023. Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. G3: Genes, Genomes, Genetics. 13(8).","ama":"Puixeu Sala G, Macon A, Vicoso B. Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. <i>G3: Genes, Genomes, Genetics</i>. 2023;13(8). doi:<a href=\"https://doi.org/10.1093/g3journal/jkad121\">10.1093/g3journal/jkad121</a>"},"month":"08","keyword":["Genetics (clinical)","Genetics","Molecular Biology"],"_id":"14077","abstract":[{"lang":"eng","text":"The regulatory architecture of gene expression is known to differ substantially between sexes in Drosophila, but most studies performed\r\nso far used whole-body data and only single crosses, which may have limited their scope to detect patterns that are robust across tissues\r\nand biological replicates. Here, we use allele-specific gene expression of parental and reciprocal hybrid crosses between 6 Drosophila\r\nmelanogaster inbred lines to quantify cis- and trans-regulatory variation in heads and gonads of both sexes separately across 3 replicate\r\ncrosses. Our results suggest that female and male heads, as well as ovaries, have a similar regulatory architecture. On the other hand,\r\ntestes display more and substantially different cis-regulatory effects, suggesting that sex differences in the regulatory architecture that\r\nhave been previously observed may largely derive from testis-specific effects. We also examine the difference in cis-regulatory variation\r\nof genes across different levels of sex bias in gonads and heads. Consistent with the idea that intersex correlations constrain expression\r\nand can lead to sexual antagonism, we find more cis variation in unbiased and moderately biased genes in heads. In ovaries, reduced cis\r\nvariation is observed for male-biased genes, suggesting that cis variants acting on these genes in males do not lead to changes in ovary\r\nexpression. Finally, we examine the dominance patterns of gene expression and find that sex- and tissue-specific patterns of inheritance\r\nas well as trans-regulatory variation are highly variable across biological crosses, although these were performed in highly controlled\r\nexperimental conditions. This highlights the importance of using various genetic backgrounds to infer generalizable patterns."}],"file_date_updated":"2023-11-07T09:00:19Z","publication_status":"published","external_id":{"isi":["001002997200001"],"pmid":["37259621"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"BeVi"},{"_id":"NiBa"},{"_id":"GradSch"}],"article_processing_charge":"Yes","publication_identifier":{"issn":["2160-1836"]},"day":"01","has_accepted_license":"1","status":"public","isi":1,"pmid":1,"scopus_import":"1","year":"2023","publication":"G3: Genes, Genomes, Genetics","volume":13,"doi":"10.1093/g3journal/jkad121","acknowledgement":"We thank members of the Vicoso Group for comments on the manuscript, the Scientific Computing Unit at ISTA for technical support, and 2 anonymous reviewers for useful feedback. GP is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (DOC 25817) and received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant (agreement no. 665385).","ddc":["570"],"intvolume":"        13","title":"Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster","author":[{"full_name":"Puixeu Sala, Gemma","first_name":"Gemma","orcid":"0000-0001-8330-1754","id":"33AB266C-F248-11E8-B48F-1D18A9856A87","last_name":"Puixeu Sala"},{"full_name":"Macon, Ariana","first_name":"Ariana","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","last_name":"Macon"},{"full_name":"Vicoso, Beatriz","first_name":"Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2023-08-18T06:52:14Z","ec_funded":1,"issue":"8","file":[{"file_size":845642,"date_created":"2023-11-07T09:00:19Z","creator":"dernst","file_name":"2023_G3_Puixeu.pdf","content_type":"application/pdf","checksum":"c62e29fc7c5efbf8356f4c60cab4a2d1","file_id":"14498","access_level":"open_access","success":1,"relation":"main_file","date_updated":"2023-11-07T09:00:19Z"}],"date_published":"2023-08-01T00:00:00Z","project":[{"grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"International IST Doctoral Program"},{"grant_number":"25817","_id":"9B9DFC9E-BA93-11EA-9121-9846C619BF3A","name":"Sexual conflict: resolution, constraints and biomedical implications"}],"article_type":"original"},{"scopus_import":"1","publication":"Discrete Mathematics","year":"2023","volume":346,"doi":"10.1016/j.disc.2023.113363","intvolume":"       346","title":"Erdős-Ko-Rado and Hilton-Milner theorems for two-forms","author":[{"first_name":"Grigory","full_name":"Ivanov, Grigory","id":"87744F66-5C6F-11EA-AFE0-D16B3DDC885E","last_name":"Ivanov","orcid":"0000-0002-5021-3982"},{"full_name":"Köse, Seyda","first_name":"Seyda","orcid":"0009-0008-0457-9730","id":"8ba3170d-dc85-11ea-9058-c4251c96a6eb","last_name":"Köse"}],"article_number":"113363","date_created":"2023-02-26T23:01:00Z","issue":"6","date_published":"2023-06-01T00:00:00Z","article_type":"letter_note","publication_status":"published","external_id":{"arxiv":["2201.10892"],"isi":["001189844500001"]},"article_processing_charge":"No","department":[{"_id":"UlWa"},{"_id":"GradSch"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_identifier":{"issn":["0012-365X"]},"day":"01","isi":1,"status":"public","main_file_link":[{"url":" https://doi.org/10.48550/arXiv.2201.10892","open_access":"1"}],"arxiv":1,"oa":1,"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"13331"}]},"month":"06","citation":{"mla":"Ivanov, Grigory, and Seyda Köse. “Erdős-Ko-Rado and Hilton-Milner Theorems for Two-Forms.” <i>Discrete Mathematics</i>, vol. 346, no. 6, 113363, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.disc.2023.113363\">10.1016/j.disc.2023.113363</a>.","ieee":"G. Ivanov and S. Köse, “Erdős-Ko-Rado and Hilton-Milner theorems for two-forms,” <i>Discrete Mathematics</i>, vol. 346, no. 6. Elsevier, 2023.","ista":"Ivanov G, Köse S. 2023. Erdős-Ko-Rado and Hilton-Milner theorems for two-forms. Discrete Mathematics. 346(6), 113363.","chicago":"Ivanov, Grigory, and Seyda Köse. “Erdős-Ko-Rado and Hilton-Milner Theorems for Two-Forms.” <i>Discrete Mathematics</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.disc.2023.113363\">https://doi.org/10.1016/j.disc.2023.113363</a>.","ama":"Ivanov G, Köse S. Erdős-Ko-Rado and Hilton-Milner theorems for two-forms. <i>Discrete Mathematics</i>. 2023;346(6). doi:<a href=\"https://doi.org/10.1016/j.disc.2023.113363\">10.1016/j.disc.2023.113363</a>","apa":"Ivanov, G., &#38; Köse, S. (2023). Erdős-Ko-Rado and Hilton-Milner theorems for two-forms. <i>Discrete Mathematics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.disc.2023.113363\">https://doi.org/10.1016/j.disc.2023.113363</a>","short":"G. Ivanov, S. Köse, Discrete Mathematics 346 (2023)."},"type":"journal_article","_id":"12680","abstract":[{"lang":"eng","text":"The celebrated Erdős–Ko–Rado theorem about the maximal size of an intersecting family of r-element subsets of  was extended to the setting of exterior algebra in [5, Theorem 2.3] and in [6, Theorem 1.4]. However, the equality case has not been settled yet. In this short note, we show that the extension of the Erdős–Ko–Rado theorem and the characterization of the equality case therein, as well as those of the Hilton–Milner theorem to the setting of exterior algebra in the simplest non-trivial case of two-forms follow from a folklore puzzle about possible arrangements of an intersecting family of lines."}],"language":[{"iso":"eng"}],"date_updated":"2026-04-07T13:29:28Z","publisher":"Elsevier","quality_controlled":"1","oa_version":"Preprint","corr_author":"1"}]