[{"citation":{"apa":"Vladimirtsev, D. (2026). <i>Armadillo repeat only proteins are master regulators of plant cyclic-nucleotide gated channels</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20964\">https://doi.org/10.15479/AT-ISTA-20964</a>","mla":"Vladimirtsev, Dmitrii. <i>Armadillo Repeat Only Proteins Are Master Regulators of Plant Cyclic-Nucleotide Gated Channels</i>. Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20964\">10.15479/AT-ISTA-20964</a>.","ieee":"D. Vladimirtsev, “Armadillo repeat only proteins are master regulators of plant cyclic-nucleotide gated channels,” Institute of Science and Technology Austria, 2026.","ama":"Vladimirtsev D. Armadillo repeat only proteins are master regulators of plant cyclic-nucleotide gated channels. 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20964\">10.15479/AT-ISTA-20964</a>","chicago":"Vladimirtsev, Dmitrii. “Armadillo Repeat Only Proteins Are Master Regulators of Plant Cyclic-Nucleotide Gated Channels.” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-20964\">https://doi.org/10.15479/AT-ISTA-20964</a>.","ista":"Vladimirtsev D. 2026. Armadillo repeat only proteins are master regulators of plant cyclic-nucleotide gated channels. Institute of Science and Technology Austria.","short":"D. Vladimirtsev, Armadillo Repeat Only Proteins Are Master Regulators of Plant Cyclic-Nucleotide Gated Channels, Institute of Science and Technology Austria, 2026."},"month":"01","date_created":"2026-01-09T09:22:48Z","project":[{"name":"Cyclic nucleotides as second messengers in plants","_id":"8f347782-16d5-11f0-9cad-8c19706ee739","grant_number":"101142681"}],"status":"public","doi":"10.15479/AT-ISTA-20964","OA_place":"publisher","language":[{"iso":"eng"}],"degree_awarded":"MS","article_processing_charge":"No","_id":"20964","ddc":["570"],"supervisor":[{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří"}],"has_accepted_license":"1","year":"2026","title":"Armadillo repeat only proteins are master regulators of plant cyclic-nucleotide gated channels","publisher":"Institute of Science and Technology Austria","alternative_title":["ISTA Master’s Thesis"],"file":[{"relation":"main_file","date_updated":"2026-01-21T14:12:13Z","embargo_to":"open_access","date_created":"2026-01-21T14:12:13Z","checksum":"812857b2fbe3f6113bef22fd04bccd3e","creator":"dvladimi","file_id":"21033","embargo":"2027-01-01","content_type":"application/pdf","access_level":"closed","file_size":2867531,"file_name":"2026_Vladimirtsev_Dmitrii_Thesis.pdf"},{"date_updated":"2026-01-28T12:38:19Z","relation":"source_file","date_created":"2026-01-21T14:41:58Z","creator":"dvladimi","checksum":"2b969f97f8d7461bea3d255f48c2219c","file_id":"21034","content_type":"application/x-zip-compressed","file_name":"Source Files.zip","file_size":25023066,"access_level":"closed"}],"publication_status":"published","date_published":"2026-01-14T00:00:00Z","type":"dissertation","page":"22","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"file_date_updated":"2026-01-28T12:38:19Z","day":"14","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"20982"}]},"date_updated":"2026-04-07T11:41:44Z","corr_author":"1","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","author":[{"last_name":"Vladimirtsev","id":"60466724-5355-11ee-ae5a-fa55e8f99c3d","first_name":"Dmitrii","full_name":"Vladimirtsev, Dmitrii"}],"publication_identifier":{"issn":["2791-4585"]},"oa_version":"Published Version"},{"year":"2026","scopus_import":"1","pmid":1,"abstract":[{"lang":"eng","text":"Small amounts of stress are thought to have beneficial effects. A new study reports a mechanism by which the psychedelic drug, psilocybin, causes acute release of stress hormones, despite its known long-term anti-anxiety effects."}],"title":"Neuroscience: What doesn’t kill you makes you stronger","publisher":"Elsevier","doi":"10.1016/j.cub.2025.11.056","volume":36,"language":[{"iso":"eng"}],"month":"01","citation":{"apa":"Kücükdereli, H., &#38; Douglass, A. M. (2026). Neuroscience: What doesn’t kill you makes you stronger. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2025.11.056\">https://doi.org/10.1016/j.cub.2025.11.056</a>","ama":"Kücükdereli H, Douglass AM. Neuroscience: What doesn’t kill you makes you stronger. <i>Current Biology</i>. 2026;36(1):R27-R29. doi:<a href=\"https://doi.org/10.1016/j.cub.2025.11.056\">10.1016/j.cub.2025.11.056</a>","mla":"Kücükdereli, Hakan, and Amelia M. Douglass. “Neuroscience: What Doesn’t Kill You Makes You Stronger.” <i>Current Biology</i>, vol. 36, no. 1, Elsevier, 2026, pp. R27–29, doi:<a href=\"https://doi.org/10.1016/j.cub.2025.11.056\">10.1016/j.cub.2025.11.056</a>.","ieee":"H. Kücükdereli and A. M. Douglass, “Neuroscience: What doesn’t kill you makes you stronger,” <i>Current Biology</i>, vol. 36, no. 1. Elsevier, pp. R27–R29, 2026.","ista":"Kücükdereli H, Douglass AM. 2026. Neuroscience: What doesn’t kill you makes you stronger. Current Biology. 36(1), R27–R29.","chicago":"Kücükdereli, Hakan, and Amelia M. Douglass. “Neuroscience: What Doesn’t Kill You Makes You Stronger.” <i>Current Biology</i>. Elsevier, 2026. <a href=\"https://doi.org/10.1016/j.cub.2025.11.056\">https://doi.org/10.1016/j.cub.2025.11.056</a>.","short":"H. Kücükdereli, A.M. Douglass, Current Biology 36 (2026) R27–R29."},"issue":"1","status":"public","date_created":"2026-01-11T23:01:33Z","OA_type":"closed access","external_id":{"pmid":["41494523"]},"quality_controlled":"1","_id":"20972","article_processing_charge":"No","date_updated":"2026-01-12T10:09:13Z","corr_author":"1","publication":"Current Biology","oa_version":"None","article_type":"letter_note","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"last_name":"Kücükdereli","id":"5d5f6ea4-ef9e-11f0-a10a-85e12a3552af","first_name":"Hakan","full_name":"Kücükdereli, Hakan"},{"orcid":"0000-0001-5398-6473","last_name":"Douglass","id":"de5f6fda-80fb-11ef-996f-a8c4ecd8e289","full_name":"Douglass, Amelia May Barnett","first_name":"Amelia May Barnett"}],"publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"intvolume":"        36","department":[{"_id":"AmDo"},{"_id":"SiHi"}],"page":"R27-R29","type":"journal_article","day":"05","date_published":"2026-01-05T00:00:00Z"},{"article_number":"staf2219","article_type":"original","arxiv":1,"oa_version":"Published Version","author":[{"last_name":"Kist","first_name":"Timo","full_name":"Kist, Timo"},{"full_name":"Hennawi, Joseph F.","first_name":"Joseph F.","last_name":"Hennawi"},{"first_name":"Frederick B.","full_name":"Davies, Frederick B.","last_name":"Davies"},{"full_name":"Bañados, Eduardo","first_name":"Eduardo","last_name":"Bañados"},{"full_name":"Bosman, Sarah E.I.","first_name":"Sarah E.I.","last_name":"Bosman"},{"first_name":"Zheng","full_name":"Cai, Zheng","last_name":"Cai"},{"last_name":"Eilers","full_name":"Eilers, Anna Christina","first_name":"Anna Christina"},{"last_name":"Fan","full_name":"Fan, Xiaohui","first_name":"Xiaohui"},{"first_name":"Zoltán","full_name":"Haiman, Zoltán","id":"7c006e8c-cc0d-11ee-8322-cb904ef76f36","last_name":"Haiman","orcid":"0000-0003-3633-5403"},{"last_name":"Jun","first_name":"Hyunsung D.","full_name":"Jun, Hyunsung D."},{"full_name":"Liu, Yichen","first_name":"Yichen","last_name":"Liu"},{"first_name":"Jinyi","full_name":"Yang, Jinyi","last_name":"Yang"},{"first_name":"Feige","full_name":"Wang, Feige","last_name":"Wang"}],"publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We acknowledge helpful conversations with the ENIGMA group at UC Santa Barbara and Leiden University. This work is based on observations made with the NASA/ESA/CSA JWST. The data were obtained from the Mikulski Archive for Space Telescopes at the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS 5-03127 for JWST. These observations are associated with programmes #1219 and #1764. This work made use of numpy (C. R. Harris et al. 2020), scipy (P. Virtanen et al. 2020), jax (J. Bradbury et al. 2018), numpyro (E. Bingham et al. 2018; D. Phan, N. Pradhan & M. Jankowiak 2019), sklearn (F. Pedregosa et al. 2011), astropy (Astropy Collaboration 2013, 2018, 2022), PypeIt (J. Prochaska et al. 2020), skycalc_ipy (K. Leschinski 2021), h5py (A. Collette 2013), matplotlib (J. D. Hunter 2007), corner.py (D. Foreman-Mackey 2016), and IPython (F. Pérez & B. E. Granger 2007). TK and JFH acknowledge support from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement no. 885301). JFH acknowledges support from NSF grant no. 2307180. SEIB was supported by the Deutsche Forschungsgemeinschaft (DFG) under Emmy Noether grant number BO 5771/1-1. FW acknowledges support from NSF award AST-2513040.","date_updated":"2026-01-12T09:45:54Z","publication":"Monthly Notices of the Royal Astronomical Society","file_date_updated":"2026-01-12T09:43:07Z","day":"01","PlanS_conform":"1","department":[{"_id":"ZoHa"}],"type":"journal_article","date_published":"2026-01-01T00:00:00Z","DOAJ_listed":"1","publication_status":"published","file":[{"file_size":2174272,"access_level":"open_access","file_name":"2026_MonthNoticesRAS_Kist.pdf","creator":"dernst","checksum":"68f04ab0fdcee4f12341d116c5f794cd","content_type":"application/pdf","file_id":"20979","date_created":"2026-01-12T09:43:07Z","success":1,"relation":"main_file","date_updated":"2026-01-12T09:43:07Z"}],"intvolume":"       545","abstract":[{"lang":"eng","text":"Thus far, Lyman-α damping wings towards quasars have been used to probe the global ionization state of the foreground intergalactic medium (IGM). A new parametrization has demonstrated that the damping wing signature also carries local information about the distribution of neutral hydrogen (H I) in front of the quasar before it started shining. Leveraging a recently introduced Bayesian JAX-based Hamiltonian Monte Carlo inference framework, we derive constraints on the Lorentzian-weighted H I column density NDW H I , the quasar’s distance rpatch to the first neutral patch, and its lifetime tQ based on James Webb Space\r\nTelescope (JWST) Near Infrared Spectrograph (NIRSpec) spectra of the two z ∼ 7.5 quasars J1007+2115 and J1342+0928. After folding in model-dependent topology information, we find that J1007+2115 (and J1342+0928) is most likely to reside in a (xH1)= 0.32+0.22 −0.20 (0.58+0.23 −0.23) neutral IGM while shining for a remarkably short lifetime of log10 tQ/yr = 4.14+0.74 −0.18 (an intermediate lifetime of 5.64+0.25 −0.43) along a sightline with log10 NDW\r\nH I /cm−2 = 19.70+0.35 −0.86 (20.24+0.25 −0.22) and rpatch = 28.9+54.0 −14.4 cMpc\r\n(10.9+5.6−5.9 cMpc). In light of the potential presence of local absorbers in the foreground of J1342+0928 as has been recently suggested, we also demonstrate how the Lorentzian-weighted column density NDW H I provides a natural means for quantifying their contribution to the observed damping wing signal."}],"publisher":"Oxford University Press","title":"First constraints on the local ionization topology in front of two quasars at z ∼ 7.5","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"year":"2026","has_accepted_license":"1","scopus_import":"1","license":"https://creativecommons.org/licenses/by/4.0/","oa":1,"external_id":{"arxiv":["2508.21818"]},"OA_type":"gold","ddc":["520"],"article_processing_charge":"Yes","_id":"20974","quality_controlled":"1","volume":545,"language":[{"iso":"eng"}],"OA_place":"publisher","doi":"10.1093/mnras/staf2219","status":"public","date_created":"2026-01-11T23:01:34Z","month":"01","citation":{"chicago":"Kist, Timo, Joseph F. Hennawi, Frederick B. Davies, Eduardo Bañados, Sarah E.I. Bosman, Zheng Cai, Anna Christina Eilers, et al. “First Constraints on the Local Ionization Topology in Front of Two Quasars at z ∼ 7.5.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2026. <a href=\"https://doi.org/10.1093/mnras/staf2219\">https://doi.org/10.1093/mnras/staf2219</a>.","ista":"Kist T, Hennawi JF, Davies FB, Bañados E, Bosman SEI, Cai Z, Eilers AC, Fan X, Haiman Z, Jun HD, Liu Y, Yang J, Wang F. 2026. First constraints on the local ionization topology in front of two quasars at z ∼ 7.5. Monthly Notices of the Royal Astronomical Society. 545(3), staf2219.","short":"T. Kist, J.F. Hennawi, F.B. Davies, E. Bañados, S.E.I. Bosman, Z. Cai, A.C. Eilers, X. Fan, Z. Haiman, H.D. Jun, Y. Liu, J. Yang, F. Wang, Monthly Notices of the Royal Astronomical Society 545 (2026).","apa":"Kist, T., Hennawi, J. F., Davies, F. B., Bañados, E., Bosman, S. E. I., Cai, Z., … Wang, F. (2026). First constraints on the local ionization topology in front of two quasars at z ∼ 7.5. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/staf2219\">https://doi.org/10.1093/mnras/staf2219</a>","ama":"Kist T, Hennawi JF, Davies FB, et al. First constraints on the local ionization topology in front of two quasars at z ∼ 7.5. <i>Monthly Notices of the Royal Astronomical Society</i>. 2026;545(3). doi:<a href=\"https://doi.org/10.1093/mnras/staf2219\">10.1093/mnras/staf2219</a>","mla":"Kist, Timo, et al. “First Constraints on the Local Ionization Topology in Front of Two Quasars at z ∼ 7.5.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 545, no. 3, staf2219, Oxford University Press, 2026, doi:<a href=\"https://doi.org/10.1093/mnras/staf2219\">10.1093/mnras/staf2219</a>.","ieee":"T. Kist <i>et al.</i>, “First constraints on the local ionization topology in front of two quasars at z ∼ 7.5,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 545, no. 3. Oxford University Press, 2026."},"issue":"3"},{"publisher":"Society for Industrial & Applied Mathematics","title":"Computing a connection matrix and persistence efficiently from a morse decomposition","abstract":[{"lang":"eng","text":"Morse decompositions partition the flows in a vector field into equivalent structures. Given such a decomposition, one can define a further summary of its flow structure by what is called a connection matrix. These matrices, a generalization of Morse boundary operators from classical Morse theory, capture the connections made by the flows among the critical structures—such as attractors, repellers, and orbits—in a vector field. Recently, in the context of combinatorial dynamics, an efficient persistence-like algorithm to compute connection matrices has been proposed in Dey, Lipiński, Mrozek, and Slechta [SIAM J. Appl. Dyn. Syst., 23 (2024), pp. 81–97]. We show that, actually, the classical persistence algorithm with exhaustive reduction retrieves connection matrices, both simplifying the algorithm of Dey et al. and bringing the theory of persistence closer to combinatorial dynamical systems. We supplement this main result with an observation: the concept of persistence as defined for scalar fields naturally adapts to Morse decompositions whose Morse sets are filtered with a Lyapunov function. We conclude by presenting preliminary experimental results."}],"scopus_import":"1","ec_funded":1,"year":"2026","ddc":["510"],"_id":"20980","quality_controlled":"1","article_processing_charge":"No","oa":1,"external_id":{"arxiv":["2502.19369"]},"OA_type":"green","date_created":"2026-01-12T11:17:06Z","project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413","call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program"}],"status":"public","citation":{"ieee":"T. K. Dey, A. Haas, and M. Lipiński, “Computing a connection matrix and persistence efficiently from a morse decomposition,” <i>SIAM Journal on Applied Dynamical Systems</i>, vol. 25, no. 1. Society for Industrial &#38; Applied Mathematics, pp. 108–130, 2026.","mla":"Dey, Tamal K., et al. “Computing a Connection Matrix and Persistence Efficiently from a Morse Decomposition.” <i>SIAM Journal on Applied Dynamical Systems</i>, vol. 25, no. 1, Society for Industrial &#38; Applied Mathematics, 2026, pp. 108–30, doi:<a href=\"https://doi.org/10.1137/25m1739406\">10.1137/25m1739406</a>.","ama":"Dey TK, Haas A, Lipiński M. Computing a connection matrix and persistence efficiently from a morse decomposition. <i>SIAM Journal on Applied Dynamical Systems</i>. 2026;25(1):108-130. doi:<a href=\"https://doi.org/10.1137/25m1739406\">10.1137/25m1739406</a>","apa":"Dey, T. K., Haas, A., &#38; Lipiński, M. (2026). Computing a connection matrix and persistence efficiently from a morse decomposition. <i>SIAM Journal on Applied Dynamical Systems</i>. Society for Industrial &#38; Applied Mathematics. <a href=\"https://doi.org/10.1137/25m1739406\">https://doi.org/10.1137/25m1739406</a>","short":"T.K. Dey, A. Haas, M. Lipiński, SIAM Journal on Applied Dynamical Systems 25 (2026) 108–130.","chicago":"Dey, Tamal K., Andrew Haas, and Michał Lipiński. “Computing a Connection Matrix and Persistence Efficiently from a Morse Decomposition.” <i>SIAM Journal on Applied Dynamical Systems</i>. Society for Industrial &#38; Applied Mathematics, 2026. <a href=\"https://doi.org/10.1137/25m1739406\">https://doi.org/10.1137/25m1739406</a>.","ista":"Dey TK, Haas A, Lipiński M. 2026. Computing a connection matrix and persistence efficiently from a morse decomposition. SIAM Journal on Applied Dynamical Systems. 25(1), 108–130."},"issue":"1","month":"01","language":[{"iso":"eng"}],"volume":25,"doi":"10.1137/25m1739406","OA_place":"repository","author":[{"first_name":"Tamal K.","full_name":"Dey, Tamal K.","last_name":"Dey"},{"first_name":"Andrew","full_name":"Haas, Andrew","last_name":"Haas"},{"id":"dfffb474-4317-11ee-8f5c-fe3fc95a425e","last_name":"Lipiński","orcid":"0000-0001-9789-9750","first_name":"Michał","full_name":"Lipiński, Michał"}],"publication_identifier":{"issn":["1536-0040"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","oa_version":"Preprint","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2502.19369","open_access":"1"}],"arxiv":1,"publication":"SIAM Journal on Applied Dynamical Systems","date_updated":"2026-01-20T07:40:39Z","acknowledgement":"This research was supported by NSF grants DMS-2301360 and CCF-2437030 as well as from the European Union's Horizon 2020 research and innovation programme under Marie Sk\\lodowska-Curie grant 101034413.\r\n","date_published":"2026-01-01T00:00:00Z","day":"01","type":"journal_article","page":"108-130","department":[{"_id":"HeEd"}],"publication_status":"published","intvolume":"        25"},{"oa_version":"Published Version","author":[{"last_name":"Garcia Castillo","id":"ae681a14-dc74-11ea-a0a7-c6ef18161701","full_name":"Garcia Castillo, Diego Fernando","first_name":"Diego Fernando"}],"publication_identifier":{"isbn":["978-3-99078-077-0"],"issn":["2663-337X"]},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","corr_author":"1","acknowledgement":"I acknowledge the funding agencies 1Norwegian Research Council RCN project 315287.\r\n2The FIASCO project \"Illuminating range shifts through evolutionary FIASCO: contrasting\r\nFaIling And Successful ColOnizations in replicated wild populations\", funded by the\r\nEuropean Union - Next Generation EU (Piano Nazionale di Ripresa e Resilienza - MUR\r\ncode: P202229JBC, CUP: C53D23007100001). 3Ecotypic formation in Littorina saxatilis\r\nin the Western Atlantic and comparisons across the North Atlantic. University of\r\nGothenburg Research Travel Grant, Tjarno Marine Laboratory, Sweden. $3023 (2018).\r\n4JIN project (Young Researchers, Spanish Ministry of Science, RTI2018-101274-J-I00)","date_updated":"2026-04-16T12:20:37Z","related_material":{"record":[{"status":"public","id":"18498","relation":"research_data"},{"relation":"part_of_dissertation","status":"public","id":"18491"}]},"day":"16","file_date_updated":"2026-01-16T13:08:59Z","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"type":"dissertation","page":"199","date_published":"2026-01-16T00:00:00Z","publication_status":"published","file":[{"file_name":"2026_Garcia_Diego_Thesis.docx","file_size":22456421,"access_level":"closed","creator":"dgarciac","checksum":"841f1bc073d667125729b2a017f8c37a","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"20996","date_created":"2026-01-16T12:25:13Z","date_updated":"2026-01-16T12:25:13Z","relation":"source_file"},{"success":1,"date_created":"2026-01-16T12:25:13Z","relation":"main_file","date_updated":"2026-01-16T12:25:13Z","file_size":9556719,"access_level":"open_access","file_name":"2026_Garcia_Diego_Thesis.pdf","checksum":"a1f33d4f183ce7072eee42a6ccf5340b","creator":"dgarciac","content_type":"application/pdf","file_id":"20997"},{"access_level":"closed","file_size":54491433,"file_name":"2026_DiegoGarcia_LittorinaDB Source Code and Protocols.rar","content_type":"application/x-compressed","file_id":"20998","description":"Source code of the PostgreSQL database, front-end and back-end of the LittorinaDB web application developed as a product of the 4th chapter of the thesis.","checksum":"98a80691067174c30fe53f38ce7344e6","creator":"dgarciac","date_created":"2026-01-16T13:08:14Z","relation":"supplementary_material","date_updated":"2026-01-16T13:08:14Z"},{"date_updated":"2026-01-16T13:08:14Z","relation":"supplementary_material","date_created":"2026-01-16T13:08:14Z","file_id":"20999","content_type":"application/x-compressed","checksum":"99a3cab2fa36666b9a92eefc27d586da","creator":"dgarciac","file_name":"2026_DiegoGarcia_Thesis-Supplementary_Material.rar","file_size":7982811,"access_level":"open_access"},{"date_created":"2026-01-16T13:08:59Z","relation":"supplementary_material","date_updated":"2026-01-16T13:08:59Z","access_level":"open_access","file_size":732,"file_name":"README.txt","creator":"dgarciac","checksum":"255fdf56b2932c46bf27c63aa6106a4f","file_id":"21000","content_type":"text/plain"}],"alternative_title":["ISTA Thesis"],"abstract":[{"text":"Rapid local adaptation to new environments is critical for species persistence, especially in introduced populations. The evolutionary success of these populations is fundamentally dictated by the organization of genetic variation—the genomic architecture—in the face of severe demographic constraints, such as the founder effects and genetic bottlenecks that frequently accompany colonization. A central question in evolutionary biology is whether rapid adaptation relies on major-effect loci, such as chromosomal inversions, or on many small-effect loci dispersed across the genome. Furthermore, the genomic architecture strongly influences the extent to which evolutionary outcomes are predictable. Using introduced populations of the marine snail, Littorina saxatilis, as a model, this thesis investigates how genetic variation and genomic structure drive adaptation following introduction. We employed a population genomics approach on experimentally and accidentally introduced populations to dissect the specific genomic features that underpin divergence in newly colonized environments.\r\n\r\nIn Chapter 2, we tested the predictability of local adaptation through an uncommon 30-year transplant experiment in nature. By distinguishing allele and chromosomal inversion frequency changes from neutral expectations, we found that evolutionary change was highly predictable at the macro-scale (phenotypes and chromosomal inversions), but less robust at the level of individual collinear loci. This result demonstrates that evolution can be predictable when a population possesses sufficient standing genetic variation (SGV), with chromosomal inversions acting as key integrated units that facilitate a rapid response to selection. Building on this, Chapter 3 applied whole-genome sequencing to three accidentally introduced populations (Venice, San Francisco, and Redwood City) to investigate their likely source and genomic patterns of divergence. We identified genomic regions of remarkable divergence potentially associated with local adaptation, and likely fuelled by SGV, while explicitly acknowledging the difficulty in disentangling selection signals from the genome-wide effects of demographic processes. Furthermore, we found that the divergence patterns relied extensively on the collinear genome in these introduced populations, and less clearly on the chromosomal inversions. This observation contrasts with local adaptation observed in the experimental system that relied on both collinear loci and highly selected chromosomal inversions, highlighting how demographic history and genomic architecture influence the detectable signature of local adaptation.\r\n\r\nA major limitation to conducting large-scale comparative evolutionary studies is the lack of data standardization, which prevents the integration of community knowledge and high-resolution environmental and genetic data. Chapter 4 addresses this by developing a community database for the Littorina system. This platform implements standardized protocols for the integration of diverse phenotypic and environmental data from multiple Littorina species. Likewise, the platform also centralizes the availability of associated genomic data through links to external repositories. This database represents a crucial tool to test complex, large-scale evolutionary hypotheses.\r\n\r\nCollectively, this thesis strongly reinforces the fundamental importance of SGV as the raw material for successful local adaptation, a conclusion supported by evidence in both experimental and accidental introductions. Furthermore, this work highlights the critical role of the genomic architecture—specifically chromosomal inversions—in driving the predictability and effectiveness of adaptive responses. Our findings underscore how the interplay between SGV and genomic architecture dictates the trajectory and detectability of evolution in colonizing populations, while simultaneously providing a necessary tool to advance comparative evolutionary genomics in emerging model organisms.","lang":"eng"}],"publisher":"Institute of Science and Technology Austria","title":"The genomic architecture of local adaptation in introduced populations","tmp":{"short":"CC BY-NC-SA (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","image":"/images/cc_by_nc_sa.png","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)"},"year":"2026","has_accepted_license":"1","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","oa":1,"supervisor":[{"first_name":"Nicholas H","full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","last_name":"Barton"},{"full_name":"Westram, Anja M","first_name":"Anja M","last_name":"Westram","orcid":"0000-0003-1050-4969","id":"3C147470-F248-11E8-B48F-1D18A9856A87"}],"ddc":["576"],"_id":"20991","article_processing_charge":"No","degree_awarded":"PhD","language":[{"iso":"eng"}],"OA_place":"publisher","doi":"10.15479/AT-ISTA-20991","status":"public","date_created":"2026-01-16T09:47:59Z","month":"01","citation":{"ama":"Garcia Castillo DF. The genomic architecture of local adaptation in introduced populations. 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20991\">10.15479/AT-ISTA-20991</a>","mla":"Garcia Castillo, Diego Fernando. <i>The Genomic Architecture of Local Adaptation in Introduced Populations</i>. Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20991\">10.15479/AT-ISTA-20991</a>.","ieee":"D. F. Garcia Castillo, “The genomic architecture of local adaptation in introduced populations,” Institute of Science and Technology Austria, 2026.","apa":"Garcia Castillo, D. F. (2026). <i>The genomic architecture of local adaptation in introduced populations</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20991\">https://doi.org/10.15479/AT-ISTA-20991</a>","short":"D.F. Garcia Castillo, The Genomic Architecture of Local Adaptation in Introduced Populations, Institute of Science and Technology Austria, 2026.","ista":"Garcia Castillo DF. 2026. The genomic architecture of local adaptation in introduced populations. Institute of Science and Technology Austria.","chicago":"Garcia Castillo, Diego Fernando. “The Genomic Architecture of Local Adaptation in Introduced Populations.” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-20991\">https://doi.org/10.15479/AT-ISTA-20991</a>."}},{"publication":"ACS Energy Letters","date_updated":"2026-01-19T08:43:21Z","acknowledgement":"This publication has emanated from research conducted with the financial support of Taighde Éireann-Research Ireland under Grant number 22/FFP-P/11591. C.F. and M.I. would like to acknowledge the financial support of ISTA and the Werner Siemens Foundation. N.N.P. acknowledges the financial support of AMBER under grant number 12/rc/2278_p2.","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Niraj Nitish","full_name":"Patil, Niraj Nitish","last_name":"Patil"},{"full_name":"Wu, Ruiqi","first_name":"Ruiqi","last_name":"Wu"},{"full_name":"Fiedler, Christine","first_name":"Christine","id":"bd3fceba-dc74-11ea-a0a7-c17f71817366","last_name":"Fiedler"},{"last_name":"Kapuria","first_name":"Nilotpal","full_name":"Kapuria, Nilotpal"},{"last_name":"Nan","first_name":"Bingfei","full_name":"Nan, Bingfei"},{"last_name":"Navita","orcid":"0000-0001-7408-8197","id":"6ebe278d-ba0b-11ee-8184-f34cdc671de4","first_name":"Navita","full_name":"Navita, Navita"},{"last_name":"Cabot","full_name":"Cabot, Andreu","first_name":"Andreu"},{"first_name":"Maria","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843","last_name":"Ibáñez","id":"43C61214-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Ryan","full_name":"Ryan, Kevin M.","first_name":"Kevin M."},{"last_name":"Ganose","full_name":"Ganose, Alex M.","first_name":"Alex M."},{"last_name":"Singh","first_name":"Shalini","full_name":"Singh, Shalini"}],"publication_identifier":{"eissn":["2380-8195"]},"oa_version":"None","article_type":"letter_note","intvolume":"        11","publication_status":"published","date_published":"2026-01-09T00:00:00Z","page":"481-488","type":"journal_article","department":[{"_id":"MaIb"},{"_id":"GradSch"}],"day":"09","scopus_import":"1","year":"2026","title":"Layered alkali-copper selenides: Deciphering thermoelectric properties and reaction pathways for nanostructuring β-CsCu5Se3","publisher":"American Chemical Society","abstract":[{"lang":"eng","text":"Copper chalcogenides offer high charge mobility and low lattice thermal conductivity but suffer from structural instability due to dynamic Cu+ migration. Here, we report a colloidal hot-injection synthesis of ternary cesium copper selenide (CsCu5Se3) nanocrystals (NCs), achieving precise control over phase, size, and morphology through tailored precursor-ligand modulation. This strategy enabled systematic exploration of stable and metastable Cs–Cu–Se phases and mechanistic investigation of nucleation and growth, providing insight into phase modulation and dimensional control at the nanoscale. CsCu5Se3 NCs exhibit low lattice thermal conductivity (∼0.5 Wm–1K–1) and an experimental zT of 0.27 at 718 K. Complementary first-principles calculations, consistent with experimental electronic and optical responses, predict a zT of 1.05 at 1000 K. These findings elucidate the formation dynamics of CsCu5Se3 and establish ABZ (A = alkali, B = metal, Z = chalcogen) NCs as tunable platforms for advanced functional applications."}],"citation":{"short":"N.N. Patil, R. Wu, C. Fiedler, N. Kapuria, B. Nan, N. Jakhar, A. Cabot, M. Ibáñez, K.M. Ryan, A.M. Ganose, S. Singh, ACS Energy Letters 11 (2026) 481–488.","chicago":"Patil, Niraj Nitish, Ruiqi Wu, Christine Fiedler, Nilotpal Kapuria, Bingfei Nan, Navita Jakhar, Andreu Cabot, et al. “Layered Alkali-Copper Selenides: Deciphering Thermoelectric Properties and Reaction Pathways for Nanostructuring β-CsCu5Se3.” <i>ACS Energy Letters</i>. American Chemical Society, 2026. <a href=\"https://doi.org/10.1021/acsenergylett.5c02909\">https://doi.org/10.1021/acsenergylett.5c02909</a>.","ista":"Patil NN, Wu R, Fiedler C, Kapuria N, Nan B, Jakhar N, Cabot A, Ibáñez M, Ryan KM, Ganose AM, Singh S. 2026. Layered alkali-copper selenides: Deciphering thermoelectric properties and reaction pathways for nanostructuring β-CsCu5Se3. ACS Energy Letters. 11(1), 481–488.","ieee":"N. N. Patil <i>et al.</i>, “Layered alkali-copper selenides: Deciphering thermoelectric properties and reaction pathways for nanostructuring β-CsCu5Se3,” <i>ACS Energy Letters</i>, vol. 11, no. 1. American Chemical Society, pp. 481–488, 2026.","mla":"Patil, Niraj Nitish, et al. “Layered Alkali-Copper Selenides: Deciphering Thermoelectric Properties and Reaction Pathways for Nanostructuring β-CsCu5Se3.” <i>ACS Energy Letters</i>, vol. 11, no. 1, American Chemical Society, 2026, pp. 481–88, doi:<a href=\"https://doi.org/10.1021/acsenergylett.5c02909\">10.1021/acsenergylett.5c02909</a>.","ama":"Patil NN, Wu R, Fiedler C, et al. Layered alkali-copper selenides: Deciphering thermoelectric properties and reaction pathways for nanostructuring β-CsCu5Se3. <i>ACS Energy Letters</i>. 2026;11(1):481-488. doi:<a href=\"https://doi.org/10.1021/acsenergylett.5c02909\">10.1021/acsenergylett.5c02909</a>","apa":"Patil, N. N., Wu, R., Fiedler, C., Kapuria, N., Nan, B., Jakhar, N., … Singh, S. (2026). Layered alkali-copper selenides: Deciphering thermoelectric properties and reaction pathways for nanostructuring β-CsCu5Se3. <i>ACS Energy Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsenergylett.5c02909\">https://doi.org/10.1021/acsenergylett.5c02909</a>"},"issue":"1","month":"01","project":[{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"date_created":"2026-01-18T23:02:43Z","status":"public","doi":"10.1021/acsenergylett.5c02909","language":[{"iso":"eng"}],"volume":11,"_id":"21001","article_processing_charge":"No","quality_controlled":"1","OA_type":"closed access"},{"has_accepted_license":"1","year":"2026","scopus_import":"1","abstract":[{"text":"C(sp2)–heteroatom couplings operating via NiI/NiIII catalysis have emerged as an alternative to canonical Pd0/PdII systems that require complex ligand architectures. Despite intensive research efforts during the past decade, catalytic methods employing this approach are still mostly confined to activated starting materials and require high catalyst loadings due to the low catalytic activity of NiI and undesired catalyst deactivation events. This article highlights recent advances in the field toward solving these long-standing challenges. We survey strategies that streamline the generation of catalytically competent NiI species from bench-stable NiII precatalysts, and discuss mechanistic studies that shed light on deactivation pathways and the rate-determining oxidative addition of aryl halides. In the final section, we highlight recently developed synthetic methodologies, which provide evidence that limitations can indeed be addressed by working at elevated temperatures, employing alternative electrophiles, harnessing the benefits of additives, or fine-tuning the metal’s reactivity through the ligand field.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Advances in NiI/NiIII-catalyzed C(sp2)–heteroatom cross-couplings","publisher":"American Chemical Society","OA_place":"publisher","doi":"10.1021/acscatal.5c07964","volume":16,"language":[{"iso":"eng"}],"month":"01","citation":{"ieee":"A. Bena and B. Pieber, “Advances in NiI/NiIII-catalyzed C(sp2)–heteroatom cross-couplings,” <i>ACS Catalysis</i>, vol. 16, no. 2. American Chemical Society, pp. 866–881, 2026.","mla":"Bena, Aleksander, and Bartholomäus Pieber. “Advances in NiI/NiIII-Catalyzed C(Sp2)–Heteroatom Cross-Couplings.” <i>ACS Catalysis</i>, vol. 16, no. 2, American Chemical Society, 2026, pp. 866–81, doi:<a href=\"https://doi.org/10.1021/acscatal.5c07964\">10.1021/acscatal.5c07964</a>.","ama":"Bena A, Pieber B. Advances in NiI/NiIII-catalyzed C(sp2)–heteroatom cross-couplings. <i>ACS Catalysis</i>. 2026;16(2):866-881. doi:<a href=\"https://doi.org/10.1021/acscatal.5c07964\">10.1021/acscatal.5c07964</a>","apa":"Bena, A., &#38; Pieber, B. (2026). Advances in NiI/NiIII-catalyzed C(sp2)–heteroatom cross-couplings. <i>ACS Catalysis</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acscatal.5c07964\">https://doi.org/10.1021/acscatal.5c07964</a>","short":"A. Bena, B. Pieber, ACS Catalysis 16 (2026) 866–881.","ista":"Bena A, Pieber B. 2026. Advances in NiI/NiIII-catalyzed C(sp2)–heteroatom cross-couplings. ACS Catalysis. 16(2), 866–881.","chicago":"Bena, Aleksander, and Bartholomäus Pieber. “Advances in NiI/NiIII-Catalyzed C(Sp2)–Heteroatom Cross-Couplings.” <i>ACS Catalysis</i>. American Chemical Society, 2026. <a href=\"https://doi.org/10.1021/acscatal.5c07964\">https://doi.org/10.1021/acscatal.5c07964</a>."},"issue":"2","status":"public","project":[{"name":"Photoactive ligands for transformative nickel catalysis","_id":"8f1d607d-16d5-11f0-9cad-ab453295ba5e","grant_number":"PAT 1250924"}],"date_created":"2026-01-20T10:04:57Z","OA_type":"hybrid","oa":1,"quality_controlled":"1","_id":"21008","article_processing_charge":"Yes (via OA deal)","ddc":["540"],"acknowledgement":"We gratefully acknowledge the Institute of Science and Technology Austria for generous financial support. B.P. acknowledges the Austrian Science Fund (PAT 1250924) for funding.","date_updated":"2026-01-21T09:15:16Z","corr_author":"1","publication":"ACS Catalysis","oa_version":"Published Version","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Aleksander","full_name":"Bena, Aleksander","last_name":"Bena","id":"4197c39e-e8ec-11ed-86cb-afed934cd664"},{"id":"93e5e5b2-0da6-11ed-8a41-af589a024726","last_name":"Pieber","orcid":"0000-0001-8689-388X","full_name":"Pieber, Bartholomäus","first_name":"Bartholomäus"}],"publication_identifier":{"eissn":["2155-5435"]},"file":[{"date_created":"2026-01-21T09:12:10Z","success":1,"date_updated":"2026-01-21T09:12:10Z","relation":"main_file","file_name":"2026_ACSCatalysis_Bena.pdf","access_level":"open_access","file_size":3797064,"creator":"dernst","checksum":"05743d6d7b4bae37aad1a91471123032","file_id":"21030","content_type":"application/pdf"}],"intvolume":"        16","publication_status":"published","department":[{"_id":"BaPi"},{"_id":"GradSch"}],"page":"866-881","type":"journal_article","file_date_updated":"2026-01-21T09:12:10Z","day":"16","PlanS_conform":"1","date_published":"2026-01-16T00:00:00Z"},{"_id":"21012","article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","ddc":["000"],"OA_type":"hybrid","oa":1,"citation":{"short":"C. Barrett, T.A. Henzinger, S.A. Seshia, Communications of the ACM 69 (2026) 66–75.","chicago":"Barrett, Clark, Thomas A Henzinger, and Sanjit A. Seshia. “Certificates in AI: Learn but Verify.” <i>Communications of the ACM</i>. Association for Computing Machinery, 2026. <a href=\"https://doi.org/10.1145/3737447\">https://doi.org/10.1145/3737447</a>.","ista":"Barrett C, Henzinger TA, Seshia SA. 2026. Certificates in AI: Learn but verify. Communications of the ACM. 69(1), 66–75.","ama":"Barrett C, Henzinger TA, Seshia SA. Certificates in AI: Learn but verify. <i>Communications of the ACM</i>. 2026;69(1):66-75. doi:<a href=\"https://doi.org/10.1145/3737447\">10.1145/3737447</a>","mla":"Barrett, Clark, et al. “Certificates in AI: Learn but Verify.” <i>Communications of the ACM</i>, vol. 69, no. 1, Association for Computing Machinery, 2026, pp. 66–75, doi:<a href=\"https://doi.org/10.1145/3737447\">10.1145/3737447</a>.","ieee":"C. Barrett, T. A. Henzinger, and S. A. Seshia, “Certificates in AI: Learn but verify,” <i>Communications of the ACM</i>, vol. 69, no. 1. Association for Computing Machinery, pp. 66–75, 2026.","apa":"Barrett, C., Henzinger, T. A., &#38; Seshia, S. A. (2026). Certificates in AI: Learn but verify. <i>Communications of the ACM</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3737447\">https://doi.org/10.1145/3737447</a>"},"issue":"1","month":"01","project":[{"_id":"62781420-2b32-11ec-9570-8d9b63373d4d","call_identifier":"H2020","grant_number":"101020093","name":"Vigilant Algorithmic Monitoring of Software"}],"date_created":"2026-01-20T10:08:21Z","status":"public","OA_place":"publisher","doi":"10.1145/3737447","language":[{"iso":"eng"}],"volume":69,"title":"Certificates in AI: Learn but verify","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"publisher":"Association for Computing Machinery","abstract":[{"text":"In certifiable machine learning, AI systems produce not only results but also verifiable certificates that the results can be trusted.","lang":"eng"}],"scopus_import":"1","year":"2026","has_accepted_license":"1","ec_funded":1,"date_published":"2026-01-01T00:00:00Z","type":"journal_article","page":"66-75","department":[{"_id":"ToHe"}],"PlanS_conform":"1","day":"01","file_date_updated":"2026-01-21T08:52:07Z","intvolume":"        69","file":[{"date_updated":"2026-01-21T08:52:07Z","relation":"main_file","success":1,"date_created":"2026-01-21T08:52:07Z","creator":"dernst","checksum":"d909a9091c254b2d18ba014124663f69","content_type":"application/pdf","file_id":"21028","file_name":"2026_CommACM_Barrett.pdf","access_level":"open_access","file_size":2623108}],"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"last_name":"Barrett","first_name":"Clark","full_name":"Barrett, Clark"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2985-7724","last_name":"Henzinger","full_name":"Henzinger, Thomas A","first_name":"Thomas A"},{"last_name":"Seshia","full_name":"Seshia, Sanjit A.","first_name":"Sanjit A."}],"publication_identifier":{"issn":["0001-0782"],"eissn":["1557-7317"]},"oa_version":"Published Version","article_type":"original","publication":"Communications of the ACM","date_updated":"2026-01-21T08:55:24Z","acknowledgement":"T.A.H. thanks Đorde Žikelic for many stimulating discussions about CML. This work was supported in part by NSFCPS Frontier Grant 1545126, by a BAIR Commons project, by the Berkeley iCy-Phy Center, by the Stanford Center for Automated Reasoning, and by the ERC Advanced Grant 101020093.","corr_author":"1"},{"oa_version":"Published Version","article_type":"original","article_number":"e2024MS004576","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"BIDYUT B","full_name":"GOSWAMI, BIDYUT B","last_name":"GOSWAMI","orcid":"0000-0001-8602-3083","id":"3a4ac09c-6d61-11ec-bf66-884cde66b64b"},{"first_name":"Ziyin","full_name":"Lu, Ziyin","id":"a6e549c6-8972-11ed-ae7b-a336d97ac043","last_name":"Lu","orcid":"0009-0008-5320-7730"},{"first_name":"Caroline J","full_name":"Muller, Caroline J","last_name":"Muller","orcid":"0000-0001-5836-5350","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b"}],"publication_identifier":{"eissn":["1942-2466"]},"date_updated":"2026-01-21T08:41:19Z","acknowledgement":"The authors gratefully acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (Project CLUSTER, Grant Agreement No. 805041). This research was supported by the Scientific Service Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp). We are grateful to three anonymous reviewer(s) for their insightful suggestions that have improved the quality of our manuscript. Open Access funding provided by Institute of Science and Technology Austria/KEMÖ.","corr_author":"1","acknowledged_ssus":[{"_id":"ScienComp"}],"publication":"Journal of Advances in Modeling Earth Systems","type":"journal_article","department":[{"_id":"CaMu"},{"_id":"BjHo"},{"_id":"GradSch"}],"PlanS_conform":"1","day":"12","file_date_updated":"2026-01-21T08:39:01Z","date_published":"2026-01-12T00:00:00Z","DOAJ_listed":"1","intvolume":"        18","file":[{"relation":"main_file","date_updated":"2026-01-21T08:39:01Z","date_created":"2026-01-21T08:39:01Z","success":1,"file_id":"21027","content_type":"application/pdf","creator":"dernst","checksum":"6ea369e3b46bea58efab4f38b6c671a7","access_level":"open_access","file_size":19509786,"file_name":"2026_JAMES_Goswami.pdf"}],"publication_status":"published","abstract":[{"text":"We have addressed convective self‐aggregation (CSA) in steady and oscillating sea surface temperature (SST) and solar radiation (SOLIN) cloud‐resolving model simulations in a non‐rotating radiative‐convective equilibrium (RCE) framework. Our experiment designs are motivated by land‐ocean heterogeneity of atmospheric convection. The steady and oscillating forcings are idealizations of ocean and land conditions, respectively, based on their differences in heat capacities. In both kinds of simulations, the diurnal mean SST and SOLIN are the same, and both SST and SOLIN are only varied in time (i.e., they are spatially homogeneous at any given time). We find that diurnally oscillating forcing accelerates CSA. Stronger long‐wave cooling in dry regions at night and during the warm SST phase (late afternoon) both allow the long‐wave feedback, known to favor aggregation, to intensify compared to steady forcing simulations. In addition to the long‐wave, reduced short‐wave warming in dry regions (during the day) further enhances radiative cooling there compared to moist regions. Overall, the radiative cooling is enhanced in dry regions compared to neighboring moist convective regions. A dry subsidence is driven by this net radiative (short‐wave plus long‐wave) cooling, consistent with earlier work on CSA. Stronger radiative cooling allows stronger subsidence which allows low‐level circulation to more efficiently transport moisture and energy up‐gradient, driving convection to aggregate faster. We also note a sensitivity of our experimental setup to initial conditions, more so at warmer SST. This stochastic behavior might be critical in reconciling the differences of opinion regarding the response of convection aggregation to oscillating SST forcing.","lang":"eng"}],"tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"title":"Convective self‐aggregation in diurnally oscillating sea surface temperature and solar forcing experiments","publisher":"Wiley","scopus_import":"1","ec_funded":1,"year":"2026","has_accepted_license":"1","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","OA_type":"gold","oa":1,"_id":"21013","quality_controlled":"1","article_processing_charge":"Yes","ddc":["550"],"doi":"10.1029/2024ms004576","OA_place":"publisher","language":[{"iso":"eng"}],"volume":18,"citation":{"ieee":"B. B. GOSWAMI, Z. Lu, and C. J. Muller, “Convective self‐aggregation in diurnally oscillating sea surface temperature and solar forcing experiments,” <i>Journal of Advances in Modeling Earth Systems</i>, vol. 18, no. 1. Wiley, 2026.","mla":"GOSWAMI, BIDYUT B., et al. “Convective Self‐aggregation in Diurnally Oscillating Sea Surface Temperature and Solar Forcing Experiments.” <i>Journal of Advances in Modeling Earth Systems</i>, vol. 18, no. 1, e2024MS004576, Wiley, 2026, doi:<a href=\"https://doi.org/10.1029/2024ms004576\">10.1029/2024ms004576</a>.","ama":"GOSWAMI BB, Lu Z, Muller CJ. Convective self‐aggregation in diurnally oscillating sea surface temperature and solar forcing experiments. <i>Journal of Advances in Modeling Earth Systems</i>. 2026;18(1). doi:<a href=\"https://doi.org/10.1029/2024ms004576\">10.1029/2024ms004576</a>","apa":"GOSWAMI, B. B., Lu, Z., &#38; Muller, C. J. (2026). Convective self‐aggregation in diurnally oscillating sea surface temperature and solar forcing experiments. <i>Journal of Advances in Modeling Earth Systems</i>. Wiley. <a href=\"https://doi.org/10.1029/2024ms004576\">https://doi.org/10.1029/2024ms004576</a>","short":"B.B. GOSWAMI, Z. Lu, C.J. Muller, Journal of Advances in Modeling Earth Systems 18 (2026).","chicago":"GOSWAMI, BIDYUT B, Ziyin Lu, and Caroline J Muller. “Convective Self‐aggregation in Diurnally Oscillating Sea Surface Temperature and Solar Forcing Experiments.” <i>Journal of Advances in Modeling Earth Systems</i>. Wiley, 2026. <a href=\"https://doi.org/10.1029/2024ms004576\">https://doi.org/10.1029/2024ms004576</a>.","ista":"GOSWAMI BB, Lu Z, Muller CJ. 2026. Convective self‐aggregation in diurnally oscillating sea surface temperature and solar forcing experiments. Journal of Advances in Modeling Earth Systems. 18(1), e2024MS004576."},"issue":"1","month":"01","date_created":"2026-01-20T10:08:54Z","project":[{"_id":"629205d8-2b32-11ec-9570-e1356ff73576","call_identifier":"H2020","grant_number":"805041","name":"Organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate"}],"status":"public"},{"citation":{"short":"N. Mishra, Y.I. Li, E.B. Hannezo, C.-P.J. Heisenberg, Nature Physics 22 (2026) 139–150.","chicago":"Mishra, Nikhil, Yuting I Li, Edouard B Hannezo, and Carl-Philipp J Heisenberg. “Geometry-Driven Asymmetric Cell Divisions Pattern Cell Cycles and Zygotic Genome Activation in the Zebrafish Embryo.” <i>Nature Physics</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41567-025-03122-1\">https://doi.org/10.1038/s41567-025-03122-1</a>.","ista":"Mishra N, Li YI, Hannezo EB, Heisenberg C-PJ. 2026. Geometry-driven asymmetric cell divisions pattern cell cycles and zygotic genome activation in the zebrafish embryo. Nature Physics. 22, 139–150.","ama":"Mishra N, Li YI, Hannezo EB, Heisenberg C-PJ. Geometry-driven asymmetric cell divisions pattern cell cycles and zygotic genome activation in the zebrafish embryo. <i>Nature Physics</i>. 2026;22:139-150. doi:<a href=\"https://doi.org/10.1038/s41567-025-03122-1\">10.1038/s41567-025-03122-1</a>","mla":"Mishra, Nikhil, et al. “Geometry-Driven Asymmetric Cell Divisions Pattern Cell Cycles and Zygotic Genome Activation in the Zebrafish Embryo.” <i>Nature Physics</i>, vol. 22, Springer Nature, 2026, pp. 139–50, doi:<a href=\"https://doi.org/10.1038/s41567-025-03122-1\">10.1038/s41567-025-03122-1</a>.","ieee":"N. Mishra, Y. I. Li, E. B. Hannezo, and C.-P. J. Heisenberg, “Geometry-driven asymmetric cell divisions pattern cell cycles and zygotic genome activation in the zebrafish embryo,” <i>Nature Physics</i>, vol. 22. Springer Nature, pp. 139–150, 2026.","apa":"Mishra, N., Li, Y. I., Hannezo, E. B., &#38; Heisenberg, C.-P. J. (2026). Geometry-driven asymmetric cell divisions pattern cell cycles and zygotic genome activation in the zebrafish embryo. <i>Nature Physics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41567-025-03122-1\">https://doi.org/10.1038/s41567-025-03122-1</a>"},"month":"01","date_created":"2026-01-20T10:12:19Z","project":[{"name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020"},{"name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020","grant_number":"101034413"},{"_id":"917c023a-16d5-11f0-9cad-eb5cafc52090","name":"Cytoplasmic self-organization into cell-like compartments as a common guiding principle in early animal development"}],"status":"public","doi":"10.1038/s41567-025-03122-1","OA_place":"publisher","language":[{"iso":"eng"}],"volume":22,"quality_controlled":"1","_id":"21015","article_processing_charge":"Yes (via OA deal)","ddc":["570"],"OA_type":"hybrid","external_id":{"oaworkid":["W7118187193"]},"oaworkid":1,"oa":1,"scopus_import":"1","year":"2026","has_accepted_license":"1","ec_funded":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Geometry-driven asymmetric cell divisions pattern cell cycles and zygotic genome activation in the zebrafish embryo","publisher":"Springer Nature","abstract":[{"text":"Early embryo geometry is one of the most invariant species-specific traits, yet its role in ensuring developmental reproducibility and robustness remains underexplored. Here we show that in zebrafish, the geometry of the fertilized egg—specifically its curvature and volume—serves as a critical initial condition triggering a cascade of events that influence development. The embryo geometry guides patterned asymmetric cell divisions in the blastoderm, generating radial gradients of cell volume and nucleocytoplasmic ratio. These gradients generate mitotic phase waves, with the nucleocytoplasmic ratio determining individual cell cycle periods independently of other cells. We demonstrate that reducing cell autonomy reshapes these waves, emphasizing the instructive role of geometry-derived volume patterns in setting the intrinsic period of the cell cycle oscillator. In addition to organizing cell cycles, early embryo geometry spatially patterns zygotic genome activation at the midblastula transition, a key step in establishing embryonic autonomy. Disrupting the embryo shape alters the zygotic genome activation pattern and causes ectopic germ layer specification, underscoring the developmental significance of geometry. Together, our findings reveal a symmetry-breaking function of early embryo geometry in coordinating cell cycle and transcriptional patterning.","lang":"eng"}],"intvolume":"        22","file":[{"checksum":"0ab7ac2fbcb61a364dba57152db64ed7","creator":"dernst","file_id":"21026","content_type":"application/pdf","file_name":"2026_NaturePhysics_Mishra.pdf","access_level":"open_access","file_size":7335694,"date_updated":"2026-01-21T08:21:11Z","relation":"main_file","date_created":"2026-01-21T08:21:11Z","success":1}],"publication_status":"published","date_published":"2026-01-05T00:00:00Z","page":"139-150","type":"journal_article","department":[{"_id":"EdHa"},{"_id":"CaHe"}],"PlanS_conform":"1","day":"05","file_date_updated":"2026-01-21T08:21:11Z","acknowledged_ssus":[{"_id":"PreCl"},{"_id":"Bio"},{"_id":"ScienComp"},{"_id":"LifeSc"}],"publication":"Nature Physics","related_material":{"link":[{"relation":"research_data","url":"https://ista.ac.at/en/news/geometry-shapes-life/","description":"News on ISTA website"}]},"date_updated":"2026-04-28T12:55:30Z","acknowledgement":"We thank N. Petridou (EMBL) for sharing results before publication. N.M. was supported by funding from the European Union’s Horizon 2020 programme under the Marie Skłodowska-Curie COFUND Actions ISTplus grant agreement number 754411. Y.I.L. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement number 101034413. The research was supported by funding to C.-P.H. from the NOMIS Foundation, Project ID 1.844. We would like to thank past and present members of the Heisenberg and Hannezo groups for discussions, particularly S. Shamipour, V. Doddihal, M. Jovic, N. Hino, F. N. Arslan, R. Kobylinska and C. Camelo for feedback on the draft manuscript. This research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria through resources provided by the Aquatics Facility, Imaging & Optics Facility (IOF), Scientific Computing (SciComp) facility and Lab Support Facility (LSF). Open access funding provided by Institute of Science and Technology (IST Austria).","corr_author":"1","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publication_identifier":{"issn":["1745-2473"],"eissn":["1745-2481"],"issnl":[" 1745-2473"]},"author":[{"full_name":"Mishra, Nikhil","first_name":"Nikhil","id":"C4D70E82-1081-11EA-B3ED-9A4C3DDC885E","last_name":"Mishra","orcid":"0000-0002-6425-5788"},{"last_name":"Li","id":"ee7a5ca8-8b71-11ed-b662-b3341c05b7eb","first_name":"Yuting I","full_name":"Li, Yuting I"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","last_name":"Hannezo","orcid":"0000-0001-6005-1561","first_name":"Edouard B","full_name":"Hannezo, Edouard B"},{"first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","orcid":"0000-0002-0912-4566"}],"oa_version":"Published Version","article_type":"original"},{"publication":"La Matematica","date_updated":"2026-01-21T07:48:28Z","acknowledgement":"This work has been supported by the Project Conviviality (ANR-23-CE40–0003) of the French National Research Agency. G.B. has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413. The authors thank a referee for a careful reading and suggestions which result in a significant improvement of the manuscript. Open access funding provided by Institute of Science and Technology (IST Austria). The work of GB has received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No 101034413. This work has been supported by the Project Conviviality (ANR-23-CE40–0003) of the French National Research Agency.","corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"full_name":"Brigati, Giovanni","first_name":"Giovanni","id":"63ff57e8-1fbb-11ee-88f2-f558ffc59cf1","last_name":"Brigati"},{"last_name":"Dolbeault","first_name":"Jean","full_name":"Dolbeault, Jean"},{"last_name":"Simonov","first_name":"Nikita","full_name":"Simonov, Nikita"}],"publication_identifier":{"issn":["2730-9657"]},"arxiv":1,"oa_version":"Published Version","article_number":"5","article_type":"original","intvolume":"         5","file":[{"date_updated":"2026-01-21T07:45:03Z","relation":"main_file","success":1,"date_created":"2026-01-21T07:45:03Z","creator":"dernst","checksum":"0702d8397f216555b1d5286e5d77f09c","content_type":"application/pdf","file_id":"21025","file_name":"2026_LaMatematica_Brigati.pdf","file_size":4992025,"access_level":"open_access"}],"publication_status":"published","date_published":"2026-01-08T00:00:00Z","type":"journal_article","department":[{"_id":"JaMa"}],"PlanS_conform":"1","file_date_updated":"2026-01-21T07:45:03Z","day":"08","scopus_import":"1","year":"2026","has_accepted_license":"1","ec_funded":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Logarithmic Sobolev Inequalities: A review on stability and instability results","publisher":"Springer Nature","abstract":[{"lang":"eng","text":"In this paper, we review recent results on stability and instability in logarithmic Sobolev inequalities, with a particular emphasis on strong norms. We consider several versions of these inequalities on the Euclidean space, for the Lebesgue and the Gaussian measures, and discuss their differences in terms of moments and stability. We give new and direct proofs, as well as examples and discuss the stability of a logarithmic uncertainty principle. Although we do not cover all aspects of the topic, we hope to contribute to establishing the state of the art."}],"citation":{"short":"G. Brigati, J. Dolbeault, N. Simonov, La Matematica 5 (2026).","chicago":"Brigati, Giovanni, Jean Dolbeault, and Nikita Simonov. “Logarithmic Sobolev Inequalities: A Review on Stability and Instability Results.” <i>La Matematica</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/s44007-025-00180-y\">https://doi.org/10.1007/s44007-025-00180-y</a>.","ista":"Brigati G, Dolbeault J, Simonov N. 2026. Logarithmic Sobolev Inequalities: A review on stability and instability results. La Matematica. 5, 5.","ama":"Brigati G, Dolbeault J, Simonov N. Logarithmic Sobolev Inequalities: A review on stability and instability results. <i>La Matematica</i>. 2026;5. doi:<a href=\"https://doi.org/10.1007/s44007-025-00180-y\">10.1007/s44007-025-00180-y</a>","mla":"Brigati, Giovanni, et al. “Logarithmic Sobolev Inequalities: A Review on Stability and Instability Results.” <i>La Matematica</i>, vol. 5, 5, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1007/s44007-025-00180-y\">10.1007/s44007-025-00180-y</a>.","ieee":"G. Brigati, J. Dolbeault, and N. Simonov, “Logarithmic Sobolev Inequalities: A review on stability and instability results,” <i>La Matematica</i>, vol. 5. Springer Nature, 2026.","apa":"Brigati, G., Dolbeault, J., &#38; Simonov, N. (2026). Logarithmic Sobolev Inequalities: A review on stability and instability results. <i>La Matematica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s44007-025-00180-y\">https://doi.org/10.1007/s44007-025-00180-y</a>"},"month":"01","project":[{"name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"}],"date_created":"2026-01-20T10:14:55Z","status":"public","doi":"10.1007/s44007-025-00180-y","OA_place":"publisher","language":[{"iso":"eng"}],"volume":5,"article_processing_charge":"Yes (via OA deal)","_id":"21018","quality_controlled":"1","ddc":["510"],"external_id":{"arxiv":["2504.08658"]},"OA_type":"hybrid","oa":1},{"pmid":1,"scopus_import":"1","year":"2026","ec_funded":1,"has_accepted_license":"1","publisher":"Springer Nature","title":"No decrease of tropical convection in individual deep convective systems with global warming","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"abstract":[{"lang":"eng","text":"According to the scientific consensus, tropical convection must decrease with global warming. This decrease is manifested by a decrease of the mass transported in the upward branch of the atmospheric overturning circulation – the convective mass flux – and a connected decrease of high clouds in the tropics, with implications for climate sensitivity. By using kilometer-scale simulations in radiative-convective equilibrium and a convective tracking algorithm, we show that no such decrease occurs in storms when taken individually and that the mass transport per storm increases instead. Storms can achieve this result by aggregating more surface of the convective cores – the inner part of the storm doing the vertical transport – so that the decrease of tropical convection is actually explained by a decrease in the total number of storms. There is little variation of the mean pressure velocity in the cores of the storms, a robust finding of this study. This remarkable invariance of the mean pressure velocity points to an emerging property of convection that should receive more attention in future studies."}],"project":[{"name":"Organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate","grant_number":"805041","call_identifier":"H2020","_id":"629205d8-2b32-11ec-9570-e1356ff73576"}],"date_created":"2026-01-25T23:01:38Z","status":"public","citation":{"short":"M. Bolot, R. Roca, T. Fiolleau, C.J. Muller, Npj Climate and Atmospheric Science 9 (2026).","chicago":"Bolot, Maximilien, Rémy Roca, Thomas Fiolleau, and Caroline J Muller. “No Decrease of Tropical Convection in Individual Deep Convective Systems with Global Warming.” <i>Npj Climate and Atmospheric Science</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41612-025-01285-5\">https://doi.org/10.1038/s41612-025-01285-5</a>.","ista":"Bolot M, Roca R, Fiolleau T, Muller CJ. 2026. No decrease of tropical convection in individual deep convective systems with global warming. npj Climate and Atmospheric Science. 9, 14.","ieee":"M. Bolot, R. Roca, T. Fiolleau, and C. J. Muller, “No decrease of tropical convection in individual deep convective systems with global warming,” <i>npj Climate and Atmospheric Science</i>, vol. 9. Springer Nature, 2026.","mla":"Bolot, Maximilien, et al. “No Decrease of Tropical Convection in Individual Deep Convective Systems with Global Warming.” <i>Npj Climate and Atmospheric Science</i>, vol. 9, 14, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1038/s41612-025-01285-5\">10.1038/s41612-025-01285-5</a>.","ama":"Bolot M, Roca R, Fiolleau T, Muller CJ. No decrease of tropical convection in individual deep convective systems with global warming. <i>npj Climate and Atmospheric Science</i>. 2026;9. doi:<a href=\"https://doi.org/10.1038/s41612-025-01285-5\">10.1038/s41612-025-01285-5</a>","apa":"Bolot, M., Roca, R., Fiolleau, T., &#38; Muller, C. J. (2026). No decrease of tropical convection in individual deep convective systems with global warming. <i>Npj Climate and Atmospheric Science</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41612-025-01285-5\">https://doi.org/10.1038/s41612-025-01285-5</a>"},"month":"01","language":[{"iso":"eng"}],"volume":9,"doi":"10.1038/s41612-025-01285-5","OA_place":"publisher","ddc":["550"],"_id":"21035","quality_controlled":"1","article_processing_charge":"Yes","oa":1,"OA_type":"gold","external_id":{"pmid":["41550270"]},"publication":"npj Climate and Atmospheric Science","date_updated":"2026-02-12T08:41:09Z","acknowledgement":"We thank Sophie Cloché for her support with the handling of the various datasets. This study benefited from the IPSL mesocenter ESPRI facility which is supported by CNRS, UPMC, Labex L-IPSL, CNES and Ecole Polytechnique. The authors acknowledge the CNES and CNRS support under the Megha-Tropiques program. C.M. gratefully acknowledges funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Project CLUSTER, Grant Agreement No. 805041).","publication_identifier":{"eissn":["2397-3722"]},"author":[{"last_name":"Bolot","full_name":"Bolot, Maximilien","first_name":"Maximilien"},{"last_name":"Roca","first_name":"Rémy","full_name":"Roca, Rémy"},{"last_name":"Fiolleau","first_name":"Thomas","full_name":"Fiolleau, Thomas"},{"last_name":"Muller","orcid":"0000-0001-5836-5350","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","full_name":"Muller, Caroline J"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","article_number":"14","oa_version":"Published Version","publication_status":"published","intvolume":"         9","file":[{"file_name":"2026_njpClimateAtmScience_Bolot.pdf","file_size":511226,"access_level":"open_access","checksum":"c433bba3822b3c6c4a5260ad5e2429a0","creator":"dernst","content_type":"application/pdf","file_id":"21215","success":1,"date_created":"2026-02-12T08:39:27Z","date_updated":"2026-02-12T08:39:27Z","relation":"main_file"}],"DOAJ_listed":"1","date_published":"2026-01-15T00:00:00Z","day":"15","file_date_updated":"2026-02-12T08:39:27Z","type":"journal_article","department":[{"_id":"CaMu"}]},{"abstract":[{"text":"Little Red Dots (LRDs) are compact sources at z > 5 discovered through James Webb Space Telescope spectroscopy. Their spectra exhibit broad Balmer emission lines (>~1000 km s^−1), alongside absorption features and a pronounced Balmer break – evidence for a dense, neutral hydrogen medium, in which the n = 2 state is significantly populated. When interpreted as arising\r\nfrom active galactic nucleus broad-line regions, inferred black hole masses from local scaling relations exceed expectations given their stellar masses, challenging models of early black hole–galaxy co-evolution. However, radiative transfer effects in dense media may also impact the formation of hydrogen emission lines. We model three scattering processes shaping hydrogen\r\nline profiles: resonance scattering by hydrogen in the n = 2 state, Raman scattering of ultraviolet (UV) radiation by ground-state hydrogen, and Thomson scattering by free electrons. Using 3D Monte Carlo radiative transfer simulations, we examine their imprint on line shapes and ratios. Resonance scattering produces strong deviations from Case B flux ratios, clear differences\r\nbetween Hα and Hβ, and encodes gas kinematics in line profiles but cannot broaden Hβ due to conversion to Paα. While Raman scattering can yield broad wings, scattering of the UV continuum is disfavoured given the absence of strong full width at half-maximum variations across transitions. Raman scattering of higher Lyman-series emission can produce Hα/Hβ wing\r\nwidth ratios of  >~1.28, agreeing with observations. Thomson scattering can reproduce the observed >~ 1000 km s^−1 wings under plausible conditions – e.g. Te ∼ 10^4 K and Ne ∼ 10^24 cm^−2 – and lead to black hole mass overestimates by factors  10. Our results provide a framework for interpreting hydrogen lines in LRDs and similar systems.","lang":"eng"}],"title":"Impact of resonance, Raman, and Thomson scattering on hydrogen line formation in Little Red Dots","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"publisher":"Oxford University Press","year":"2026","has_accepted_license":"1","scopus_import":"1","OA_type":"gold","external_id":{"arxiv":["2508.08768"]},"oa":1,"_id":"21038","article_processing_charge":"Yes","quality_controlled":"1","ddc":["520"],"OA_place":"publisher","doi":"10.1093/mnras/staf2131","volume":545,"language":[{"iso":"eng"}],"month":"02","citation":{"chicago":"Chang, Seok Jun, Max Gronke, Jorryt J Matthee, and Charlotte Mason. “Impact of Resonance, Raman, and Thomson Scattering on Hydrogen Line Formation in Little Red Dots.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2026. <a href=\"https://doi.org/10.1093/mnras/staf2131\">https://doi.org/10.1093/mnras/staf2131</a>.","ista":"Chang SJ, Gronke M, Matthee JJ, Mason C. 2026. Impact of resonance, Raman, and Thomson scattering on hydrogen line formation in Little Red Dots. Monthly Notices of the Royal Astronomical Society. 545(4), staf2131.","short":"S.J. Chang, M. Gronke, J.J. Matthee, C. Mason, Monthly Notices of the Royal Astronomical Society 545 (2026).","apa":"Chang, S. J., Gronke, M., Matthee, J. J., &#38; Mason, C. (2026). Impact of resonance, Raman, and Thomson scattering on hydrogen line formation in Little Red Dots. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/staf2131\">https://doi.org/10.1093/mnras/staf2131</a>","ieee":"S. J. Chang, M. Gronke, J. J. Matthee, and C. Mason, “Impact of resonance, Raman, and Thomson scattering on hydrogen line formation in Little Red Dots,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 545, no. 4. Oxford University Press, 2026.","mla":"Chang, Seok Jun, et al. “Impact of Resonance, Raman, and Thomson Scattering on Hydrogen Line Formation in Little Red Dots.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 545, no. 4, staf2131, Oxford University Press, 2026, doi:<a href=\"https://doi.org/10.1093/mnras/staf2131\">10.1093/mnras/staf2131</a>.","ama":"Chang SJ, Gronke M, Matthee JJ, Mason C. Impact of resonance, Raman, and Thomson scattering on hydrogen line formation in Little Red Dots. <i>Monthly Notices of the Royal Astronomical Society</i>. 2026;545(4). doi:<a href=\"https://doi.org/10.1093/mnras/staf2131\">10.1093/mnras/staf2131</a>"},"issue":"4","status":"public","date_created":"2026-01-25T23:01:39Z","project":[{"_id":"bd9b2118-d553-11ed-ba76-db24564edfea","grant_number":"101076224","name":"Young galaxies as tracers and agents of cosmic reionization"}],"oa_version":"Published Version","arxiv":1,"article_number":"staf2131","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["0035-8711"],"eissn":["1365-2966"]},"author":[{"last_name":"Chang","full_name":"Chang, Seok Jun","first_name":"Seok Jun"},{"last_name":"Gronke","full_name":"Gronke, Max","first_name":"Max"},{"last_name":"Matthee","orcid":"0000-0003-2871-127X","id":"7439a258-f3c0-11ec-9501-9df22fe06720","first_name":"Jorryt J","full_name":"Matthee, Jorryt J"},{"first_name":"Charlotte","full_name":"Mason, Charlotte","last_name":"Mason"}],"acknowledgement":"The authorsthank the anonymousreferee for constructive comments, which improved the clarity of this paper. SJC acknowledges support from the ERC synergy grant 101166930 – RECAP. MG thanks the Max Planck Society for support through the Max Planck Research Group, and the European Union forsupport through ERC-2024-STG 101165038 (ReMMU). JM acknowledges funding by the European Union (ERC, AGENTS, 101076224). CAM acknowledges support\r\nby the European Union ERC grant RISES (101163035), Carlsberg Foundation (CF22-1322), and VILLUM FONDEN (37459). Computations were performed on HPC systems Freya and Orion at the Max Planck Computing and Data Facility.","date_updated":"2026-02-12T12:56:33Z","publication":"Monthly Notices of the Royal Astronomical Society","department":[{"_id":"JoMa"}],"type":"journal_article","file_date_updated":"2026-02-12T12:44:33Z","day":"01","PlanS_conform":"1","date_published":"2026-02-01T00:00:00Z","DOAJ_listed":"1","file":[{"date_created":"2026-02-12T12:44:33Z","success":1,"relation":"main_file","date_updated":"2026-02-12T12:44:33Z","file_size":5600366,"access_level":"open_access","file_name":"2026_MonthNoticesRAS_Chang.pdf","checksum":"52ba7d7b5b80af0c50f57e4c2acc3930","creator":"dernst","file_id":"21220","content_type":"application/pdf"}],"intvolume":"       545","publication_status":"published"},{"OA_place":"repository","doi":"10.1242/dev.205225","volume":153,"language":[{"iso":"eng"}],"month":"01","citation":{"ama":"Qian Q, NAGAI H, Sanaki Y, et al. Xrp1 drives damage-induced cellular plasticity of enteroendocrine cells in the adult Drosophila midgut. <i>Development</i>. 2026;153(2). doi:<a href=\"https://doi.org/10.1242/dev.205225\">10.1242/dev.205225</a>","mla":"Qian, Qingyin, et al. “Xrp1 Drives Damage-Induced Cellular Plasticity of Enteroendocrine Cells in the Adult Drosophila Midgut.” <i>Development</i>, vol. 153, no. 2, dev205225, The Company of Biologists, 2026, doi:<a href=\"https://doi.org/10.1242/dev.205225\">10.1242/dev.205225</a>.","ieee":"Q. Qian <i>et al.</i>, “Xrp1 drives damage-induced cellular plasticity of enteroendocrine cells in the adult Drosophila midgut,” <i>Development</i>, vol. 153, no. 2. The Company of Biologists, 2026.","apa":"Qian, Q., NAGAI, H., Sanaki, Y., Hayashi, M., Kimura, K., Nakajima, Y. I., &#38; Niwa, R. (2026). Xrp1 drives damage-induced cellular plasticity of enteroendocrine cells in the adult Drosophila midgut. <i>Development</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/dev.205225\">https://doi.org/10.1242/dev.205225</a>","short":"Q. Qian, H. NAGAI, Y. Sanaki, M. Hayashi, K. Kimura, Y.I. Nakajima, R. Niwa, Development 153 (2026).","chicago":"Qian, Qingyin, HIROKI NAGAI, Yuya Sanaki, Makoto Hayashi, Kenichi Kimura, Yu Ichiro Nakajima, and Ryusuke Niwa. “Xrp1 Drives Damage-Induced Cellular Plasticity of Enteroendocrine Cells in the Adult Drosophila Midgut.” <i>Development</i>. The Company of Biologists, 2026. <a href=\"https://doi.org/10.1242/dev.205225\">https://doi.org/10.1242/dev.205225</a>.","ista":"Qian Q, NAGAI H, Sanaki Y, Hayashi M, Kimura K, Nakajima YI, Niwa R. 2026. Xrp1 drives damage-induced cellular plasticity of enteroendocrine cells in the adult Drosophila midgut. Development. 153(2), dev205225."},"issue":"2","status":"public","date_created":"2026-01-25T23:01:39Z","OA_type":"green","external_id":{"pmid":["41392708"]},"oa":1,"_id":"21039","quality_controlled":"1","article_processing_charge":"No","year":"2026","scopus_import":"1","pmid":1,"abstract":[{"lang":"eng","text":"Cellular plasticity, the ability of a differentiated cell to adopt another phenotypic identity, is restricted under basal conditions, but can be elicited upon damage. However, the molecular mechanism enabling such plasticity remains largely unexplored. Here, we report damage-induced cellular plasticity of secretory enteroendocrine cells (EEs) in the adult Drosophila midgut. Ionizing radiation induces EE fate conversion and activates stress-responsive programs in EE lineages, accompanied by the induction of the stress-inducible transcription factor Xrp1 and the cytokine gene upd3. Xrp1 and upd3 are both necessary for radiation-induced EE plasticity. Under basal conditions, EE-specific Xrp1 overexpression triggers ectopic expression of progenitor-specific genes, which is necessary for Xrp1 to drive EE plasticity. Our work identifies Xrp1 as a crucial regulator that coordinates damage-induced signaling and transcriptional reprogramming, enabling the reactivation of cellular plasticity in differentiated cells."}],"title":"Xrp1 drives damage-induced cellular plasticity of enteroendocrine cells in the adult Drosophila midgut","publisher":"The Company of Biologists","intvolume":"       153","publication_status":"published","department":[{"_id":"XiFe"}],"type":"journal_article","day":"15","date_published":"2026-01-15T00:00:00Z","acknowledgement":"We thank Pierre Léopold, Tatsushi Igaki, Erik Storkebaum, Tobias Reiff, Masayuki Miura, Xiaohang Yang, Mikio Furuse, Bloomington Drosophila Stock Center and Developmental Studies Hybridoma Bank for providing us with fly stocks and reagents. We are also grateful to Hiromi Yanagisawa, Satoru Kobayashi, Md Al Amin Sheikh and Yaxuan Cui for allowing us to use their equipment, and to Allison Bardin, Pierre Léopold and Tadashi Uemura for helpful discussions.","date_updated":"2026-02-12T12:41:18Z","publication":"Development","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2025.07.05.662934"}],"oa_version":"Preprint","article_number":"dev205225","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["0950-1991"],"eissn":["1477-9129"]},"author":[{"last_name":"Qian","first_name":"Qingyin","full_name":"Qian, Qingyin"},{"id":"608df3e6-e2ab-11ed-8890-c9318cec7da4","last_name":"Nagai","orcid":"0000-0003-1671-9434","full_name":"Nagai, Hiroki","first_name":"Hiroki"},{"last_name":"Sanaki","full_name":"Sanaki, Yuya","first_name":"Yuya"},{"full_name":"Hayashi, Makoto","first_name":"Makoto","last_name":"Hayashi"},{"first_name":"Kenichi","full_name":"Kimura, Kenichi","last_name":"Kimura"},{"last_name":"Nakajima","full_name":"Nakajima, Yu Ichiro","first_name":"Yu Ichiro"},{"last_name":"Niwa","first_name":"Ryusuke","full_name":"Niwa, Ryusuke"}]},{"scopus_import":"1","year":"2026","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Formation during the first cycles of Li-rich layered oxide (LRLO) cathode materials consolidates the interphase and leads to structural changes that are decisive for long-term cyclability. However, the nature and effect of the changes are material-dependent and unknown for the important class of Co-free, Ni-poor LRLOs. Here, we analyze the processes during the tailored formation procedure of a typical class member, Li1.28Ni0.15Mn0.57O2, and demonstrate that it remarkably changes lattice composition and structure as a prerequisite for stable cycling. We combine electrochemistry, operando mass spectrometry, X-ray diffraction, and X-ray absorption spectroscopy with density functional theory simulations. Activation most prominently compresses the layer spacing along the c-axis and increases reversible structural breathing. The large capacity of ∼250 mAh g–1 originates from the Ni2+/Ni4+ and O2–/O– redox couples. Electron exchange during O-redox is smeared over the entire anionic sublattice rather than localized on specific oxygen atomic sites. This redox mechanism is reversible without detrimental oxygen evolution, avoiding continued degradation common in conventional LRLOs. Sequential Ni- and O-redox during activation irreversibly distorts the coordination of the redox-inactive Mn4+ centers. This structural evolution of the MnO6 octahedra appears to enable the superior electrochemical performance of this LRLO phase. These findings define an activation pathway for the important class of Co-free, Ni-poor LRLOs, offering potential guidance for the rational design of high-performance, more sustainable cathode materials."}],"title":"Structural rearrangements of a Cobalt-free Lithium-rich layered oxide cathode during formation","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"publisher":"American Chemical Society","doi":"10.1021/acsaem.5c03511","OA_place":"publisher","language":[{"iso":"eng"}],"volume":9,"issue":"1","citation":{"chicago":"Busato, Matteo, Mariarosaria Tuccillo, Arcangelo Celeste, Alessandro Tofoni, Laura Silvestri, Paola D’Angelo, Stefan Alexander Freunberger, and Sergio Brutti. “Structural Rearrangements of a Cobalt-Free Lithium-Rich Layered Oxide Cathode during Formation.” <i>ACS Applied Energy Materials</i>. American Chemical Society, 2026. <a href=\"https://doi.org/10.1021/acsaem.5c03511\">https://doi.org/10.1021/acsaem.5c03511</a>.","ista":"Busato M, Tuccillo M, Celeste A, Tofoni A, Silvestri L, D’Angelo P, Freunberger SA, Brutti S. 2026. Structural rearrangements of a Cobalt-free Lithium-rich layered oxide cathode during formation. ACS Applied Energy Materials. 9(1), 686–697.","short":"M. Busato, M. Tuccillo, A. Celeste, A. Tofoni, L. Silvestri, P. D’Angelo, S.A. Freunberger, S. Brutti, ACS Applied Energy Materials 9 (2026) 686–697.","apa":"Busato, M., Tuccillo, M., Celeste, A., Tofoni, A., Silvestri, L., D’Angelo, P., … Brutti, S. (2026). Structural rearrangements of a Cobalt-free Lithium-rich layered oxide cathode during formation. <i>ACS Applied Energy Materials</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsaem.5c03511\">https://doi.org/10.1021/acsaem.5c03511</a>","ama":"Busato M, Tuccillo M, Celeste A, et al. Structural rearrangements of a Cobalt-free Lithium-rich layered oxide cathode during formation. <i>ACS Applied Energy Materials</i>. 2026;9(1):686-697. doi:<a href=\"https://doi.org/10.1021/acsaem.5c03511\">10.1021/acsaem.5c03511</a>","mla":"Busato, Matteo, et al. “Structural Rearrangements of a Cobalt-Free Lithium-Rich Layered Oxide Cathode during Formation.” <i>ACS Applied Energy Materials</i>, vol. 9, no. 1, American Chemical Society, 2026, pp. 686–97, doi:<a href=\"https://doi.org/10.1021/acsaem.5c03511\">10.1021/acsaem.5c03511</a>.","ieee":"M. Busato <i>et al.</i>, “Structural rearrangements of a Cobalt-free Lithium-rich layered oxide cathode during formation,” <i>ACS Applied Energy Materials</i>, vol. 9, no. 1. American Chemical Society, pp. 686–697, 2026."},"month":"01","date_created":"2026-01-25T23:01:40Z","status":"public","OA_type":"hybrid","oa":1,"quality_controlled":"1","_id":"21040","article_processing_charge":"Yes (via OA deal)","ddc":["540"],"date_updated":"2026-02-12T14:04:04Z","acknowledgement":"Elettra-Sincrotrone Trieste S.C.p.A. and its staff are acknowledged for providing synchrotron radiation beamtime and laboratory facilities, in particular the MCX and XAFS beamlines, where the XRD and XAS experiments have been carried out, supported by the projects number: 20217082, 20205109, and 20195014. This study was carried out within the MOST─Sustainable Mobility Center and received funding from the European Union Next-Generation EU (PIANO NAZIONALE DI RIPRESA E RESILIENZA (PNRR)─MISSIONE 4 COMPONENTE 2, INVESTIMENTO 1.4─D.D. 1033 17/06/2022, CN00000023). Moreover, the contribution of S.B. and A.C. to this study was carried out within the NEST─Network for Energy Sustainable Transition and received funding from the European Union Next-Generation EU (PNRR─MISSIONE 4 COMPONENTE 2, INVESTIMENTO 1.3─D.D. 1561 11/10/2022, B53C22004070006). This manuscript reflects only the authors’ views and opinions, neither the European Union nor the European Commission can be considered responsible for them. Two of us, S.B. and S.A.F., would like to thank the Alistore ERI. L.S. received funds from the Ministry of Ecological Transition in the “Ricerca di Sistema Elettrico” framework. S.A.F. is indebted to ISTA for support. The Scientific Service Units of ISTA supported this research through resources provided by the Lab Support Facility and the Miba Machine Shop.","corr_author":"1","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"LifeSc"}],"publication":"ACS Applied Energy Materials","oa_version":"Published Version","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["2574-0962"]},"author":[{"last_name":"Busato","full_name":"Busato, Matteo","first_name":"Matteo"},{"last_name":"Tuccillo","first_name":"Mariarosaria","full_name":"Tuccillo, Mariarosaria"},{"last_name":"Celeste","first_name":"Arcangelo","full_name":"Celeste, Arcangelo"},{"first_name":"Alessandro","full_name":"Tofoni, Alessandro","last_name":"Tofoni"},{"first_name":"Laura","full_name":"Silvestri, Laura","last_name":"Silvestri"},{"first_name":"Paola","full_name":"D’Angelo, Paola","last_name":"D’Angelo"},{"orcid":"0000-0003-2902-5319","last_name":"Freunberger","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","first_name":"Stefan Alexander","full_name":"Freunberger, Stefan Alexander"},{"first_name":"Sergio","full_name":"Brutti, Sergio","last_name":"Brutti"}],"intvolume":"         9","file":[{"file_id":"21222","content_type":"application/pdf","checksum":"81272c19df41c696c1737168d3ea8c16","creator":"dernst","file_size":5977526,"access_level":"open_access","file_name":"2026_AppliedEnergyMaterials_Busato.pdf","relation":"main_file","date_updated":"2026-02-12T13:55:28Z","date_created":"2026-02-12T13:55:28Z","success":1}],"publication_status":"published","page":"686-697","type":"journal_article","department":[{"_id":"StFr"}],"PlanS_conform":"1","day":"12","file_date_updated":"2026-02-12T13:55:28Z","date_published":"2026-01-12T00:00:00Z"},{"scopus_import":"1","year":"2026","has_accepted_license":"1","title":"Endangered by the language but saved by the compiler: Robust safety via semantic back-translation","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"publisher":"Association for Computing Machinery","abstract":[{"text":"It is common for programmers to assemble their programs from a combination of trusted and untrusted components. In this context, a trusted program component is said to be robustly safe if it behaves safely when linked against arbitrary untrusted code. Prior work has shown how various encapsulation mechanisms (in both high- and low-level languages) can be used to protect code so that it is robustly safe, but none of the existing work has explored how robust safety can be achieved in a patently unsafe language like C.\r\nIn this paper, we show how to bring robust safety to a simple yet representative C-like language we call Rec. Although Rec (like C) is inherently ”dangerous” and thus not robustly safe, we can ”save” Rec programs via compilation to Cap, a CHERI-like capability machine. To formalize the benefits of such a hardening compiler, we develop Reckon, a separation logic for verifying robust safety of Rec programs. Reckon is not sound under Rec’s unsafe, C-like semantics, but it is sound when Rec programs are hardened via compilation and linked against untrusted code running on Cap. As a crucial step in proving soundness of Reckon, we introduce a novel technique of semantic back-translation, which we formalize by building on the DimSum framework for multi-language semantics. All our results are mechanized in the Rocq prover.","lang":"eng"}],"citation":{"ama":"Mück N, Georges AL, Dreyer D, Garg D, Sammler MJ. Endangered by the language but saved by the compiler: Robust safety via semantic back-translation. <i>Proceedings of the ACM on Programming Languages</i>. 2026;10:1153-1182. doi:<a href=\"https://doi.org/10.1145/3776682\">10.1145/3776682</a>","ieee":"N. Mück, A. L. Georges, D. Dreyer, D. Garg, and M. J. Sammler, “Endangered by the language but saved by the compiler: Robust safety via semantic back-translation,” <i>Proceedings of the ACM on Programming Languages</i>, vol. 10. Association for Computing Machinery, pp. 1153–1182, 2026.","mla":"Mück, Niklas, et al. “Endangered by the Language but Saved by the Compiler: Robust Safety via Semantic Back-Translation.” <i>Proceedings of the ACM on Programming Languages</i>, vol. 10, Association for Computing Machinery, 2026, pp. 1153–82, doi:<a href=\"https://doi.org/10.1145/3776682\">10.1145/3776682</a>.","apa":"Mück, N., Georges, A. L., Dreyer, D., Garg, D., &#38; Sammler, M. J. (2026). Endangered by the language but saved by the compiler: Robust safety via semantic back-translation. <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3776682\">https://doi.org/10.1145/3776682</a>","short":"N. Mück, A.L. Georges, D. Dreyer, D. Garg, M.J. Sammler, Proceedings of the ACM on Programming Languages 10 (2026) 1153–1182.","ista":"Mück N, Georges AL, Dreyer D, Garg D, Sammler MJ. 2026. Endangered by the language but saved by the compiler: Robust safety via semantic back-translation. Proceedings of the ACM on Programming Languages. 10, 1153–1182.","chicago":"Mück, Niklas, Aïna Linn Georges, Derek Dreyer, Deepak Garg, and Michael Joachim Sammler. “Endangered by the Language but Saved by the Compiler: Robust Safety via Semantic Back-Translation.” <i>Proceedings of the ACM on Programming Languages</i>. Association for Computing Machinery, 2026. <a href=\"https://doi.org/10.1145/3776682\">https://doi.org/10.1145/3776682</a>."},"month":"01","date_created":"2026-01-25T23:01:40Z","status":"public","doi":"10.1145/3776682","OA_place":"publisher","language":[{"iso":"eng"}],"volume":10,"_id":"21041","article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","ddc":["000"],"OA_type":"hybrid","oa":1,"publication":"Proceedings of the ACM on Programming Languages","date_updated":"2026-02-12T13:53:04Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["2475-1421"]},"author":[{"first_name":"Niklas","full_name":"Mück, Niklas","last_name":"Mück"},{"last_name":"Georges","full_name":"Georges, Aïna Linn","first_name":"Aïna Linn"},{"last_name":"Dreyer","full_name":"Dreyer, Derek","first_name":"Derek"},{"full_name":"Garg, Deepak","first_name":"Deepak","last_name":"Garg"},{"full_name":"Sammler, Michael Joachim","first_name":"Michael Joachim","last_name":"Sammler","id":"510d3901-2a03-11ee-914d-d9ae9011f0a7"}],"oa_version":"Published Version","article_type":"original","intvolume":"        10","file":[{"success":1,"date_created":"2026-02-12T13:51:03Z","relation":"main_file","date_updated":"2026-02-12T13:51:03Z","file_size":1058876,"access_level":"open_access","file_name":"2026_ProcACMProgrammingLanguages_Mueck.pdf","checksum":"79be391061efbf9542638996959ce11a","creator":"dernst","file_id":"21221","content_type":"application/pdf"}],"publication_status":"published","date_published":"2026-01-08T00:00:00Z","page":"1153-1182","type":"journal_article","department":[{"_id":"MiSa"}],"PlanS_conform":"1","file_date_updated":"2026-02-12T13:51:03Z","day":"08"},{"publication_status":"published","intvolume":"     15751","alternative_title":["LNCS"],"day":"01","type":"conference","page":"307-323","department":[{"_id":"KrPi"}],"date_published":"2026-01-01T00:00:00Z","corr_author":"1","date_updated":"2026-02-12T13:39:07Z","acknowledgement":"This work was supported by the Austrian Science Fund (FWF) SFB project SpyCoDe F8502 and the Vienna Science and Technology Fund (WWTF) project SCALE2 CT22-045.","publication":"29th International Conference on Financial Cryptography and Data Security","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2502.10074"}],"oa_version":"Preprint","arxiv":1,"author":[{"last_name":"Neiheiser","orcid":"0000-0001-7227-8309","id":"f09651b9-fec0-11ec-b5d8-934aff0e52a4","first_name":"Ray","full_name":"Neiheiser, Ray"},{"orcid":"0000-0002-8827-3382","last_name":"Kokoris Kogias","id":"f5983044-d7ef-11ea-ac6d-fd1430a26d30","first_name":"Eleftherios","full_name":"Kokoris Kogias, Eleftherios"}],"publication_identifier":{"eissn":["1611-3349"],"issn":["0302-9743"],"isbn":["9783032070234"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"volume":15751,"doi":"10.1007/978-3-032-07024-1_18","OA_place":"repository","project":[{"grant_number":"F8502","_id":"34a1b658-11ca-11ed-8bc3-c75229f0241e","name":"Interface Theory for Security and Privacy"},{"name":"SeCure, privAte, and interoperabLe layEr 2","_id":"7bdd2f70-9f16-11ee-852c-b7950bc6d277","grant_number":"ICT22-045"}],"date_created":"2026-01-25T23:01:40Z","status":"public","citation":{"apa":"Neiheiser, R., &#38; Kokoris Kogias, E. (2026). Anthemius: Efficient and modular block assembly for concurrent execution. In <i>29th International Conference on Financial Cryptography and Data Security</i> (Vol. 15751, pp. 307–323). Miyakojima, Japan: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-032-07024-1_18\">https://doi.org/10.1007/978-3-032-07024-1_18</a>","ieee":"R. Neiheiser and E. Kokoris Kogias, “Anthemius: Efficient and modular block assembly for concurrent execution,” in <i>29th International Conference on Financial Cryptography and Data Security</i>, Miyakojima, Japan, 2026, vol. 15751, pp. 307–323.","mla":"Neiheiser, Ray, and Eleftherios Kokoris Kogias. “Anthemius: Efficient and Modular Block Assembly for Concurrent Execution.” <i>29th International Conference on Financial Cryptography and Data Security</i>, vol. 15751, Springer Nature, 2026, pp. 307–23, doi:<a href=\"https://doi.org/10.1007/978-3-032-07024-1_18\">10.1007/978-3-032-07024-1_18</a>.","ama":"Neiheiser R, Kokoris Kogias E. Anthemius: Efficient and modular block assembly for concurrent execution. In: <i>29th International Conference on Financial Cryptography and Data Security</i>. Vol 15751. Springer Nature; 2026:307-323. doi:<a href=\"https://doi.org/10.1007/978-3-032-07024-1_18\">10.1007/978-3-032-07024-1_18</a>","ista":"Neiheiser R, Kokoris Kogias E. 2026. Anthemius: Efficient and modular block assembly for concurrent execution. 29th International Conference on Financial Cryptography and Data Security. FC: Financial Cryptography and Data Security, LNCS, vol. 15751, 307–323.","chicago":"Neiheiser, Ray, and Eleftherios Kokoris Kogias. “Anthemius: Efficient and Modular Block Assembly for Concurrent Execution.” In <i>29th International Conference on Financial Cryptography and Data Security</i>, 15751:307–23. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/978-3-032-07024-1_18\">https://doi.org/10.1007/978-3-032-07024-1_18</a>.","short":"R. Neiheiser, E. Kokoris Kogias, in:, 29th International Conference on Financial Cryptography and Data Security, Springer Nature, 2026, pp. 307–323."},"month":"01","oa":1,"external_id":{"arxiv":["2502.10074"]},"OA_type":"green","conference":{"name":"FC: Financial Cryptography and Data Security","start_date":"2025-04-14","end_date":"2025-04-18","location":"Miyakojima, Japan"},"_id":"21042","quality_controlled":"1","article_processing_charge":"No","scopus_import":"1","year":"2026","abstract":[{"text":"Many blockchains such as Ethereum execute all incoming transactions sequentially significantly limiting the potential throughput. A common approach to scale execution is parallel execution engines that fully utilize modern multi-core architectures. Parallel execution is then either done optimistically, by executing transactions in parallel and detecting conflicts on the fly, or guided, by requiring exhaustive client transaction hints and scheduling transactions accordingly.\r\n\r\nHowever, recent studies have shown that the performance of parallel execution engines depends on the nature of the underlying workload. In fact, in some cases, only a 60% speed-up compared to sequential execution could be obtained. This is the case, as transactions that access the same resources must be executed sequentially. For example, if 10% of the transactions in a block access the same resource, the execution cannot meaningfully scale beyond 10 cores. Therefore, a single popular application can bottleneck the execution and limit the potential throughput.\r\n\r\nIn this paper, we introduce Anthemius, a block construction algorithm that optimizes parallel transaction execution throughput. We evaluate Anthemius exhaustively under a range of workloads, and show that Anthemius enables the underlying parallel execution engine to process over twice as many transactions.","lang":"eng"}],"publisher":"Springer Nature","title":"Anthemius: Efficient and modular block assembly for concurrent execution"},{"_id":"21051","article_processing_charge":"No","date_published":"2026-01-02T00:00:00Z","department":[{"_id":"HeEd"}],"external_id":{"arxiv":["2504.11203"]},"type":"preprint","day":"02","oa":1,"month":"01","citation":{"ama":"Chambers E, Fillmore CD, Stephenson ER, Wintraecken M. Braiding vineyards. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/ARXIV.2504.11203\">10.48550/ARXIV.2504.11203</a>","ieee":"E.  Chambers, C. D. Fillmore, E. R. Stephenson, and M. Wintraecken, “Braiding vineyards,” <i>arXiv</i>. .","mla":"Chambers, Erin, et al. “Braiding Vineyards.” <i>ArXiv</i>, doi:<a href=\"https://doi.org/10.48550/ARXIV.2504.11203\">10.48550/ARXIV.2504.11203</a>.","apa":"Chambers, E., Fillmore, C. D., Stephenson, E. R., &#38; Wintraecken, M. (n.d.). Braiding vineyards. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/ARXIV.2504.11203\">https://doi.org/10.48550/ARXIV.2504.11203</a>","short":"E.  Chambers, C.D. Fillmore, E.R. Stephenson, M. Wintraecken, ArXiv (n.d.).","chicago":"Chambers, Erin, Christopher D Fillmore, Elizabeth R Stephenson, and Mathijs Wintraecken. “Braiding Vineyards.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/ARXIV.2504.11203\">https://doi.org/10.48550/ARXIV.2504.11203</a>.","ista":"Chambers E, Fillmore CD, Stephenson ER, Wintraecken M. Braiding vineyards. arXiv, <a href=\"https://doi.org/10.48550/ARXIV.2504.11203\">10.48550/ARXIV.2504.11203</a>."},"status":"public","date_created":"2026-01-27T14:41:44Z","publication_status":"draft","doi":"10.48550/ARXIV.2504.11203","OA_place":"repository","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Braiding vineyards","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","author":[{"full_name":" Chambers, Erin","first_name":"Erin","last_name":" Chambers"},{"full_name":"Fillmore, Christopher D","first_name":"Christopher D","id":"35638A5C-AAC7-11E9-B0BF-5503E6697425","last_name":"Fillmore"},{"first_name":"Elizabeth R","full_name":"Stephenson, Elizabeth R","orcid":"0000-0002-6862-208X","last_name":"Stephenson","id":"2D04F932-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Wintraecken, Mathijs","first_name":"Mathijs","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7472-2220","last_name":"Wintraecken"}],"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2504.11203"}],"arxiv":1,"abstract":[{"lang":"eng","text":"In this work, we introduce and study what we believe is an intriguing and, to the best of our knowledge, previously unknown connection between two areas in computational topology, topological data analysis (TDA) and knot theory. Given a function from a topological space to $\\mathbb{R}$, TDA provides tools to simplify and study the importance of topological features: in particular, the $l^{th}$-dimensional persistence diagram encodes the $l$-homology in the sublevel set as the function value increases as a set of points in the plane. Given a continuous one-parameter family of such functions, we can combine the persistence diagrams into an object known as a vineyard, which track the evolution of points in the persistence diagram. If we further restrict that family of functions to be periodic, we identify the two ends of the vineyard, yielding a closed vineyard. This allows the study of monodromy, which in this context means that following the family of functions for a period permutes the set of points in a non-trivial way. In this work, given a link and value $l$, we construct a topological space and periodic family of functions such that the closed $l$-vineyard contains this link. This shows that vineyards are topologically as rich as one could possibly hope. Importantly, it has at least two immediate consequences: First, monodromy of any periodicity can occur in a $l$-vineyard, answering a variant of a question by [Arya et al 2024]. To exhibit this, we also reformulate monodromy in a more geometric way, which may be of interest in itself. Second, distinguishing vineyards is likely to be difficult given the known difficulty of knot and link recognition, which have strong connections to many NP-hard problems."}],"publication":"arXiv","related_material":{"record":[{"relation":"later_version","id":"21056","status":"public"},{"relation":"dissertation_contains","id":"21021","status":"public"}]},"year":"2026","date_updated":"2026-04-07T11:42:48Z","corr_author":"1"},{"year":"2026","abstract":[{"text":"In this work, we introduce and study what we believe is an intriguing, and, to the best of our knowledge, previously unknown connection between two fundamental areas in computational topology, namely topological data analysis (TDA) and knot theory. Given a function from a topological space to ℝ, TDA provides tools to simplify and study the importance of topological features: in particular, the 𝑙^𝑡⁢ℎ-dimensional persistence diagram encodes the topological changes (or 𝑙-homology) in the sublevel set as the function value increases into a set of points in the plane. Given a continuous one parameter family of such functions, we can combine the persistence diagrams into an object known as a vineyard, which tracks the evolution of points in the persistence diagram as the function changes. If we further restrict that family of functions to be periodic, we identify the two ends of the vineyard, yielding a closed vineyard. This allows the study of monodromy, which in this context means that following the family of functions for a period permutes the set of points in a non-trivial way. Recent work has studied monodromy in the directional persistent homology transform, demonstrating some interesting connections between an input shape and monodromy in the persistent homology transform for 0-dimensional homology embedded in ℝ^2.\r\nIn this work, given a link and a value 𝑙, we construct a topological space (based on the given link) and periodic family of functions on this space (based on the Euclidean distance function), such that the closed 𝑙-vineyard contains this link. This shows that vineyards are topologically as rich as one could possibly hope, suggesting many future directions of work. Importantly, it has at least two immediate consequences we explicitly point out:\r\n1.\tMonodromy of any periodicity can occur in a 𝑙-vineyard for any 𝑙. This answers a variant of a question by Arya and collaborators. To exhibit this as a consequence of our first main result we also reformulate monodromy in a more geometric way, which may be of interest in itself.\r\n2.\tTopologically distinguishing closed vineyards is likely to be difficult (from a complexity theory as well as from a practical perspective) because of the difficulty of knot and link recognition, which have strong connections to many NP-hard problems.","lang":"eng"}],"place":"Philadelphia, PA, United States","publisher":"Society for Industrial and Applied Mathematics","title":"Braiding Vineyards","language":[{"iso":"eng"}],"OA_place":"repository","doi":"10.1137/1.9781611978971.225","date_created":"2026-01-28T12:58:16Z","status":"public","citation":{"chicago":"Chambers, Erin W., Christopher D Fillmore, Elizabeth R Stephenson, and Mathijs Wintraecken. “Braiding Vineyards.” In <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, edited by Kasper Green Larsen and Barna Saha, 6240–63. Philadelphia, PA, United States: Society for Industrial and Applied Mathematics, 2026. <a href=\"https://doi.org/10.1137/1.9781611978971.225\">https://doi.org/10.1137/1.9781611978971.225</a>.","ista":"Chambers EW, Fillmore CD, Stephenson ER, Wintraecken M. 2026.Braiding Vineyards. In: Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms. , 6240–6263.","short":"E.W. Chambers, C.D. Fillmore, E.R. Stephenson, M. Wintraecken, in:, K. Green Larsen, B. Saha (Eds.), Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, Philadelphia, PA, United States, 2026, pp. 6240–6263.","apa":"Chambers, E. W., Fillmore, C. D., Stephenson, E. R., &#38; Wintraecken, M. (2026). Braiding Vineyards. In K. Green Larsen &#38; B. Saha (Eds.), <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i> (pp. 6240–6263). Philadelphia, PA, United States: Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/1.9781611978971.225\">https://doi.org/10.1137/1.9781611978971.225</a>","ama":"Chambers EW, Fillmore CD, Stephenson ER, Wintraecken M. Braiding Vineyards. In: Green Larsen K, Saha B, eds. <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>. Philadelphia, PA, United States: Society for Industrial and Applied Mathematics; 2026:6240-6263. doi:<a href=\"https://doi.org/10.1137/1.9781611978971.225\">10.1137/1.9781611978971.225</a>","mla":"Chambers, Erin W., et al. “Braiding Vineyards.” <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, edited by Kasper Green Larsen and Barna Saha, Society for Industrial and Applied Mathematics, 2026, pp. 6240–63, doi:<a href=\"https://doi.org/10.1137/1.9781611978971.225\">10.1137/1.9781611978971.225</a>.","ieee":"E. W. Chambers, C. D. Fillmore, E. R. Stephenson, and M. Wintraecken, “Braiding Vineyards,” in <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, K. Green Larsen and B. Saha, Eds. Philadelphia, PA, United States: Society for Industrial and Applied Mathematics, 2026, pp. 6240–6263."},"month":"01","oa":1,"external_id":{"arxiv":["2504.11203"]},"OA_type":"green","_id":"21056","quality_controlled":"1","article_processing_charge":"No","date_updated":"2026-02-16T08:06:23Z","acknowledgement":"We thank the reviewers for both SODA and ATMCS for their comments, whichimproved the exposition. We thank Kate Turner for discussion and Clément Maria for pointing out thatAlexander’s theorem was already (well) known. Mathijs Wintraecken would like to express his gratitude tothe administrative support he received from University of Notre Dame during his visit and from Sophie Honnoratand Stephanie Verdonck at Inria in general.This work has been supported by the ANR grant StratMesh, ANR-24-CE48-1899, by NSF award 2444309, andthe welcome package from IDEX of the Université Côte d’Azur, ANR-15-IDEX-01.","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"21051"}]},"publication":"Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms","oa_version":"Preprint","arxiv":1,"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2504.11203","open_access":"1"}],"publication_identifier":{"eisbn":["9781611978971"]},"author":[{"last_name":"Chambers","first_name":"Erin W.","full_name":"Chambers, Erin W."},{"last_name":"Fillmore","id":"35638A5C-AAC7-11E9-B0BF-5503E6697425","full_name":"Fillmore, Christopher D","first_name":"Christopher D"},{"first_name":"Elizabeth R","full_name":"Stephenson, Elizabeth R","last_name":"Stephenson","orcid":"0000-0002-6862-208X","id":"2D04F932-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Wintraecken","orcid":"0000-0002-7472-2220","id":"307CFBC8-F248-11E8-B48F-1D18A9856A87","first_name":"Mathijs","full_name":"Wintraecken, Mathijs"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","editor":[{"full_name":"Green Larsen, Kasper","first_name":"Kasper","last_name":"Green Larsen"},{"first_name":"Barna","full_name":"Saha, Barna","last_name":"Saha"}],"publication_status":"published","day":"07","type":"book_chapter","page":"6240-6263","department":[{"_id":"HeEd"}],"date_published":"2026-01-07T00:00:00Z"},{"publication_status":"accepted","date_published":"2026-02-11T00:00:00Z","department":[{"_id":"FrLo"}],"type":"conference","day":"11","publication":"The 14th International Conference on Learning Representations","date_updated":"2026-02-16T08:15:11Z","corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"first_name":"Francesco","full_name":"Montagna, Francesco","id":"353afc8e-19f4-11f0-9db9-811f1723c83f","last_name":"Montagna"}],"arxiv":1,"oa_version":"Published Version","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2510.13583","open_access":"1"}],"month":"02","citation":{"apa":"Montagna, F. (n.d.). On the identifiability of causal graphs with multiple environments. In <i>The 14th International Conference on Learning Representations</i>. Rio de Janeiro, Brazil: OpenReview.","ama":"Montagna F. On the identifiability of causal graphs with multiple environments. In: <i>The 14th International Conference on Learning Representations</i>. OpenReview.","ieee":"F. Montagna, “On the identifiability of causal graphs with multiple environments,” in <i>The 14th International Conference on Learning Representations</i>, Rio de Janeiro, Brazil.","mla":"Montagna, Francesco. “On the Identifiability of Causal Graphs with Multiple Environments.” <i>The 14th International Conference on Learning Representations</i>, OpenReview.","chicago":"Montagna, Francesco. “On the Identifiability of Causal Graphs with Multiple Environments.” In <i>The 14th International Conference on Learning Representations</i>. OpenReview, n.d.","ista":"Montagna F. On the identifiability of causal graphs with multiple environments. The 14th International Conference on Learning Representations. ICLR: International Conference on Learning Representations.","short":"F. Montagna, in:, The 14th International Conference on Learning Representations, OpenReview, n.d."},"status":"public","date_created":"2026-01-30T08:16:25Z","OA_place":"publisher","language":[{"iso":"eng"}],"article_processing_charge":"No","_id":"21113","ddc":["000"],"conference":{"name":"ICLR: International Conference on Learning Representations","start_date":"2026-04-23","end_date":"2026-04-27","location":"Rio de Janeiro, Brazil"},"external_id":{"arxiv":["2510.13583"]},"OA_type":"gold","oa":1,"has_accepted_license":"1","year":"2026","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"On the identifiability of causal graphs with multiple environments","publisher":"OpenReview","abstract":[{"lang":"eng","text":"Causal discovery from i.i.d. observational data is known to be generally ill-posed. We demonstrate that if we have access to the distribution induced by a structural causal model, and additional data from (in the best case) only two environments that sufficiently differ in the noise statistics, the unique causal graph is identifiable. Notably, this is the first result in the literature that guarantees the entire causal graph recovery with a constant number of environments and arbitrary nonlinear mechanisms. Our only constraint is the Gaussianity of the noise terms; however, we propose potential ways to relax this requirement. Of interest on its own, we expand on the well-known duality between independent component analysis (ICA) and causal discovery; recent advancements have shown that nonlinear ICA can be solved from multiple environments, at least as many as the number of sources: we show that the same can be achieved for causal discovery while having access to much less auxiliary information."}]}]