[{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"end_date":"2026-01-13","name":"CPP: Conference on Certified Programs and Proofs","start_date":"2026-01-12","location":"Rennes, France"},"date_created":"2026-02-01T23:01:43Z","acknowledgement":"We thank the anonymous reviewers for their insightful suggestions. This research is supported in part by generous awards from Android Security’s ASPIRE program and from Google Research. The third author is supported, in part, by ERC grant COCONUT (grant no. 101171349), funded by the European Union. Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union or the European Research Council Executive Agency. Neither the European Union nor the granting authority can be held responsible for them.","doi":"10.1145/3779031.3779110","year":"2026","publication_identifier":{"isbn":["9798400723414"]},"publication_status":"published","type":"conference","title":"A recipe for modular verification of generic tree traversals","language":[{"iso":"eng"}],"oa_version":"Published Version","author":[{"first_name":"Laila","last_name":"Elbeheiry","full_name":"Elbeheiry, Laila"},{"full_name":"Sammler, Michael Joachim","last_name":"Sammler","first_name":"Michael Joachim","id":"510d3901-2a03-11ee-914d-d9ae9011f0a7"},{"first_name":"Robbert","full_name":"Krebbers, Robbert","last_name":"Krebbers"},{"full_name":"Dreyer, Derek","last_name":"Dreyer","first_name":"Derek"},{"last_name":"Garg","full_name":"Garg, Deepak","first_name":"Deepak"}],"day":"08","publication":"Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs","date_published":"2026-01-08T00:00:00Z","file":[{"checksum":"7df99991493e907d83a197151f378e3e","file_id":"21225","file_name":"2026_CPP_Elbeheiry.pdf","relation":"main_file","access_level":"open_access","creator":"dernst","date_updated":"2026-02-16T08:40:29Z","content_type":"application/pdf","date_created":"2026-02-16T08:40:29Z","success":1,"file_size":811872}],"abstract":[{"text":"Data structures based on trees and tree traversals are ubiquitous in computer systems. Many low-level programs, including some implementations of critical systems like page tables and the web browser DOM, rely on generic tree-traversal functions that traverse tree nodes in a pre-determined order, applying a client-provided operation to each visited node. Developing a general approach to specifying and verifying such traversals is tricky since the client-provided per-node operation can be stateful and may potentially depend on or modify the structure of the tree being traversed.\r\nIn this paper, we present a recipe for (semi-)automated verification of such generic, stateful tree traversals. Our recipe is (a) general: it applies to a range of tree traversals, in particular, pre-, post- and in-order depth-first traversals; (b) modular: parts of a traversal’s proof can be reused in verifying other similar traversals; (c) expressive: using the specification of a tree traversal, we can verify clients that use the traversal in a variety of different ways; and (d) automatable: many proof obligations can be discharged automatically.\r\nAt the heart of our recipe is a novel use of tree zippers to represent a logical abstraction of the tree traversal state, and zipper transitions as an abstraction of traversal steps. We realize our recipe in the RefinedC framework in Rocq, which allows us to verify a number of different tree traversals and their clients written in C.","lang":"eng"}],"oa":1,"date_updated":"2026-02-16T08:43:24Z","status":"public","_id":"21133","scopus_import":"1","ddc":["000"],"file_date_updated":"2026-02-16T08:40:29Z","department":[{"_id":"MiSa"}],"OA_type":"gold","quality_controlled":"1","has_accepted_license":"1","citation":{"ama":"Elbeheiry L, Sammler MJ, Krebbers R, Dreyer D, Garg D. A recipe for modular verification of generic tree traversals. In: <i>Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs</i>. Association for Computing Machinery; 2026:339-352. doi:<a href=\"https://doi.org/10.1145/3779031.3779110\">10.1145/3779031.3779110</a>","chicago":"Elbeheiry, Laila, Michael Joachim Sammler, Robbert Krebbers, Derek Dreyer, and Deepak Garg. “A Recipe for Modular Verification of Generic Tree Traversals.” In <i>Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs</i>, 339–52. Association for Computing Machinery, 2026. <a href=\"https://doi.org/10.1145/3779031.3779110\">https://doi.org/10.1145/3779031.3779110</a>.","ieee":"L. Elbeheiry, M. J. Sammler, R. Krebbers, D. Dreyer, and D. Garg, “A recipe for modular verification of generic tree traversals,” in <i>Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs</i>, Rennes, France, 2026, pp. 339–352.","mla":"Elbeheiry, Laila, et al. “A Recipe for Modular Verification of Generic Tree Traversals.” <i>Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs</i>, Association for Computing Machinery, 2026, pp. 339–52, doi:<a href=\"https://doi.org/10.1145/3779031.3779110\">10.1145/3779031.3779110</a>.","apa":"Elbeheiry, L., Sammler, M. J., Krebbers, R., Dreyer, D., &#38; Garg, D. (2026). A recipe for modular verification of generic tree traversals. In <i>Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs</i> (pp. 339–352). Rennes, France: Association for Computing Machinery. <a href=\"https://doi.org/10.1145/3779031.3779110\">https://doi.org/10.1145/3779031.3779110</a>","short":"L. Elbeheiry, M.J. Sammler, R. Krebbers, D. Dreyer, D. Garg, in:, Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs, Association for Computing Machinery, 2026, pp. 339–352.","ista":"Elbeheiry L, Sammler MJ, Krebbers R, Dreyer D, Garg D. 2026. A recipe for modular verification of generic tree traversals. Proceedings of the 15th ACM SIGPLAN International Conference on Certified Programs and Proofs. CPP: Conference on Certified Programs and Proofs, 339–352."},"page":"339-352","article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"OA_place":"publisher","month":"01","publisher":"Association for Computing Machinery"},{"related_material":{"record":[{"id":"21651","relation":"dissertation_contains","status":"public"}]},"oa":1,"date_updated":"2026-04-15T08:45:18Z","status":"public","_id":"21134","corr_author":"1","scopus_import":"1","arxiv":1,"department":[{"_id":"KrPi"}],"OA_type":"green","volume":15752,"quality_controlled":"1","citation":{"chicago":"Baig, Mirza Ahad, and Krzysztof Z Pietrzak. “On the (in)Security of Proofs-of-Space Based Longest-Chain Blockchains.” In <i>29th International Conference on Financial Cryptography and Data Security</i>, 15752:127–42. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/978-3-032-07035-7_8\">https://doi.org/10.1007/978-3-032-07035-7_8</a>.","ama":"Baig MA, Pietrzak KZ. On the (in)security of Proofs-of-space based longest-chain blockchains. In: <i>29th International Conference on Financial Cryptography and Data Security</i>. Vol 15752. Springer Nature; 2026:127-142. doi:<a href=\"https://doi.org/10.1007/978-3-032-07035-7_8\">10.1007/978-3-032-07035-7_8</a>","ieee":"M. A. Baig and K. Z. Pietrzak, “On the (in)security of Proofs-of-space based longest-chain blockchains,” in <i>29th International Conference on Financial Cryptography and Data Security</i>, Miyakojima, Japan, 2026, vol. 15752, pp. 127–142.","apa":"Baig, M. A., &#38; Pietrzak, K. Z. (2026). On the (in)security of Proofs-of-space based longest-chain blockchains. In <i>29th International Conference on Financial Cryptography and Data Security</i> (Vol. 15752, pp. 127–142). Miyakojima, Japan: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-032-07035-7_8\">https://doi.org/10.1007/978-3-032-07035-7_8</a>","mla":"Baig, Mirza Ahad, and Krzysztof Z. Pietrzak. “On the (in)Security of Proofs-of-Space Based Longest-Chain Blockchains.” <i>29th International Conference on Financial Cryptography and Data Security</i>, vol. 15752, Springer Nature, 2026, pp. 127–42, doi:<a href=\"https://doi.org/10.1007/978-3-032-07035-7_8\">10.1007/978-3-032-07035-7_8</a>.","short":"M.A. Baig, K.Z. Pietrzak, in:, 29th International Conference on Financial Cryptography and Data Security, Springer Nature, 2026, pp. 127–142.","ista":"Baig MA, Pietrzak KZ. 2026. On the (in)security of Proofs-of-space based longest-chain blockchains. 29th International Conference on Financial Cryptography and Data Security. FC: Financial Cryptography and Data Security, LNCS, vol. 15752, 127–142."},"page":"127-142","article_processing_charge":"No","OA_place":"repository","month":"01","intvolume":"     15752","publisher":"Springer Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"location":"Miyakojima, Japan","name":"FC: Financial Cryptography and Data Security","start_date":"2025-04-14","end_date":"2025-04-18"},"date_created":"2026-02-01T23:01:43Z","alternative_title":["LNCS"],"acknowledgement":"This research was funded in whole or in part by the Austrian Science Fund (FWF) 10.55776/F85.","doi":"10.1007/978-3-032-07035-7_8","publication_identifier":{"eissn":["1611-3349"],"issn":["0302-9743"],"isbn":["9783032070340"]},"year":"2026","publication_status":"published","project":[{"name":"Security and Privacy by Design for Complex Systems","grant_number":"F8509","_id":"34a34d57-11ca-11ed-8bc3-a2688a8724e1"}],"title":"On the (in)security of Proofs-of-space based longest-chain blockchains","type":"conference","language":[{"iso":"eng"}],"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2505.14891"}],"author":[{"first_name":"Mirza Ahad","id":"3EDE6DE4-AA5A-11E9-986D-341CE6697425","full_name":"Baig, Mirza Ahad","last_name":"Baig"},{"orcid":"0000-0002-9139-1654","last_name":"Pietrzak","full_name":"Pietrzak, Krzysztof Z","id":"3E04A7AA-F248-11E8-B48F-1D18A9856A87","first_name":"Krzysztof Z"}],"day":"01","publication":"29th International Conference on Financial Cryptography and Data Security","external_id":{"arxiv":["2505.14891"]},"date_published":"2026-01-01T00:00:00Z","abstract":[{"text":"The Nakamoto consensus protocol underlying the Bitcoin blockchain uses proof of work as a voting mechanism. Honest miners who contribute hashing power towards securing the chain try to extend the longest chain they are aware of. Despite its simplicity, Nakamoto consensus achieves meaningful security guarantees assuming that at any point in time, a majority of the hashing power is controlled by honest parties. This also holds under “resource variability”, i.e., if the total hashing power varies greatly over time.\r\nProofs of space (PoSpace) have been suggested as a more sustainable replacement for proofs of work. Unfortunately, no construction of a “longest-chain” blockchain based on PoSpace, that is secure under dynamic availability, is known. In this work, we prove that without additional assumptions no such protocol exists. We exactly quantify this impossibility result by proving a bound on the length of the fork required for double spending as a function of the adversarial capabilities. This bound holds for any chain selection rule, and we also show a chain selection rule (albeit a very strange one) that almost matches this bound.\r\nThe Nakamoto consensus protocol underlying the Bitcoin blockchain uses proof of work as a voting mechanism. Honest miners who contribute hashing power towards securing the chain try to extend the longest chain they are aware of. Despite its simplicity, Nakamoto consensus achieves meaningful security guarantees assuming that at any point in time, a majority of the hashing power is controlled by honest parties. This also holds under “resource variability”, i.e., if the total hashing power varies greatly over time.\r\n\r\nProofs of space (PoSpace) have been suggested as a more sustainable replacement for proofs of work. Unfortunately, no construction of a “longest-chain” blockchain based on PoSpace, that is secure under dynamic availability, is known. In this work, we prove that without additional assumptions no such protocol exists. We exactly quantify this impossibility result by proving a bound on the length of the fork required for double spending as a function of the adversarial capabilities. This bound holds for any chain selection rule, and we also show a chain selection rule (albeit a very strange one) that almost matches this bound.\r\n\r\nConcretely, we consider a security game in which the honest parties at any point control 0 > 1\r\n times more space than the adversary. The adversary can change the honest space by a factor 1+- E with every block (dynamic availability), and “replotting” the space (which allows answering two challenges using the same space) takes as much time as p blocks.\r\nWe prove that no matter what chain selection rule is used, in this game the adversary can create a fork of length o^2 . p/E that will be picked as the winner by the chain selection rule.\r\nWe also provide an upper bound that matches the lower bound up to a factor o. There exists a chain selection rule (albeit a very strange one) which in the above game requires forks of length at least o . p/E\r\nOur results show the necessity of additional assumptions to create a secure PoSpace based longest-chain blockchain. The Chia network in addition to PoSpace uses a verifiable delay function. Our bounds show that an additional primitive like that is necessary.","lang":"eng"}]},{"article_processing_charge":"No","page":"257-267","citation":{"chicago":"Troidl, Jakob, Yiqing Liang, Johanna Beyer, Mojtaba Tavakoli, Johann G Danzl, Markus Hadwiger, Hanspeter Pfister, and James Tompkin. “Niiv: Interactive Self-Supervised Neural Implicit Isotropic Volume Reconstruction.” In <i>1st International Workshop on Efficient Medical Artificial Intelligence</i>, 16318:257–67. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/978-3-032-13961-0_26\">https://doi.org/10.1007/978-3-032-13961-0_26</a>.","ama":"Troidl J, Liang Y, Beyer J, et al. niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction. In: <i>1st International Workshop on Efficient Medical Artificial Intelligence</i>. Vol 16318. Springer Nature; 2026:257-267. doi:<a href=\"https://doi.org/10.1007/978-3-032-13961-0_26\">10.1007/978-3-032-13961-0_26</a>","ieee":"J. Troidl <i>et al.</i>, “niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction,” in <i>1st International Workshop on Efficient Medical Artificial Intelligence</i>, Daejeon, South Korea, 2026, vol. 16318, pp. 257–267.","apa":"Troidl, J., Liang, Y., Beyer, J., Tavakoli, M., Danzl, J. G., Hadwiger, M., … Tompkin, J. (2026). niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction. In <i>1st International Workshop on Efficient Medical Artificial Intelligence</i> (Vol. 16318, pp. 257–267). Daejeon, South Korea: Springer Nature. <a href=\"https://doi.org/10.1007/978-3-032-13961-0_26\">https://doi.org/10.1007/978-3-032-13961-0_26</a>","mla":"Troidl, Jakob, et al. “Niiv: Interactive Self-Supervised Neural Implicit Isotropic Volume Reconstruction.” <i>1st International Workshop on Efficient Medical Artificial Intelligence</i>, vol. 16318, Springer Nature, 2026, pp. 257–67, doi:<a href=\"https://doi.org/10.1007/978-3-032-13961-0_26\">10.1007/978-3-032-13961-0_26</a>.","ista":"Troidl J, Liang Y, Beyer J, Tavakoli M, Danzl JG, Hadwiger M, Pfister H, Tompkin J. 2026. niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction. 1st International Workshop on Efficient Medical Artificial Intelligence. EMA4MICCAI: Efficient Medical Artificial Intelligence, LNCS, vol. 16318, 257–267.","short":"J. Troidl, Y. Liang, J. Beyer, M. Tavakoli, J.G. Danzl, M. Hadwiger, H. Pfister, J. Tompkin, in:, 1st International Workshop on Efficient Medical Artificial Intelligence, Springer Nature, 2026, pp. 257–267."},"volume":16318,"quality_controlled":"1","OA_type":"green","publisher":"Springer Nature","intvolume":"     16318","month":"01","OA_place":"repository","date_updated":"2026-02-16T08:50:50Z","oa":1,"related_material":{"link":[{"relation":"software","url":"https://github.com/jakobtroidl/niiv-miccai"}]},"department":[{"_id":"JoDa"}],"scopus_import":"1","_id":"21135","status":"public","day":"03","author":[{"first_name":"Jakob","last_name":"Troidl","full_name":"Troidl, Jakob"},{"first_name":"Yiqing","last_name":"Liang","full_name":"Liang, Yiqing"},{"last_name":"Beyer","full_name":"Beyer, Johanna","first_name":"Johanna"},{"last_name":"Tavakoli","full_name":"Tavakoli, Mojtaba","id":"3A0A06F4-F248-11E8-B48F-1D18A9856A87","first_name":"Mojtaba","orcid":"0000-0002-7667-6854"},{"id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","first_name":"Johann G","last_name":"Danzl","full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973"},{"first_name":"Markus","last_name":"Hadwiger","full_name":"Hadwiger, Markus"},{"first_name":"Hanspeter","full_name":"Pfister, Hanspeter","last_name":"Pfister"},{"first_name":"James","full_name":"Tompkin, James","last_name":"Tompkin"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2024.09.07.611785"}],"oa_version":"Preprint","abstract":[{"text":"Three-dimensional (3D) microscopy data is often anisotropic with significantly lower resolution (up to 8x) along the z axis than along the xy axes. Computationally generating plausible isotropic resolution from anisotropic imaging data would benefit the visual analysis of large-scale volumes. This paper proposes niiv, a self-supervised method for isotropic reconstruction of 3D microscopy data that can quickly produce images at arbitrary output resolutions. The representation embeds a learned latent code within a neural field that describes the implicit higher-resolution isotropic image region. We use an attention-guided latent interpolation approach, which allows flexible information exchange over a local latent neighborhood. Under isotropic volume assumptions, we self-supervise this representation on low-/high-resolution lateral image pairs to reconstruct an isotropic volume from low-resolution axial images. We evaluate our method on simulated and real anisotropic electron (EM) and light microscopy (LM) data. Compared to diffusion-based baselines, niiv shows improved reconstruction quality (+1 dB PSNR) and is over three orders of magnitude faster (1,000x) to infer. Specifically, niiv reconstructs a 128^3 voxel volume in 2/10th of a second, renderable at varying (continuous) high resolutions for display. Our code is available at https://github.com/jakobtroidl/niiv-miccai.","lang":"eng"}],"date_published":"2026-01-03T00:00:00Z","publication":"1st International Workshop on Efficient Medical Artificial Intelligence","publication_identifier":{"eissn":["1611-3349"],"issn":["0302-9743"],"isbn":["9783032139603"]},"year":"2026","acknowledgement":"This work was supported by NIH grants 1U01NS132158 and R01HD104969. We thank the reviewers for their constructive feedback.","doi":"10.1007/978-3-032-13961-0_26","date_created":"2026-02-01T23:01:44Z","alternative_title":["LNCS"],"conference":{"location":"Daejeon, South Korea","name":"EMA4MICCAI: Efficient Medical Artificial Intelligence","start_date":"2025-09-23","end_date":"2025-09-23"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"type":"conference","title":"niiv: Interactive Self-supervised Neural Implicit Isotropic Volume Reconstruction","publication_status":"published"},{"tmp":{"name":"Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","short":"CC BY-SA (4.0)","image":"/images/cc_by_sa.png"},"article_processing_charge":"No","ec_funded":1,"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"ScienComp"},{"_id":"LifeSc"}],"citation":{"short":"S. Naik, (2026).","ista":"Naik S. 2026. Data associated with Keratins coordinate tissue spreading , Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT-ISTA-21137\">10.15479/AT-ISTA-21137</a>.","apa":"Naik, S. (2026). Data associated with Keratins coordinate tissue spreading . Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-21137\">https://doi.org/10.15479/AT-ISTA-21137</a>","mla":"Naik, Suyash. <i>Data Associated with Keratins Coordinate Tissue Spreading </i>. Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21137\">10.15479/AT-ISTA-21137</a>.","ieee":"S. Naik, “Data associated with Keratins coordinate tissue spreading .” Institute of Science and Technology Austria, 2026.","ama":"Naik S. Data associated with Keratins coordinate tissue spreading . 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21137\">10.15479/AT-ISTA-21137</a>","chicago":"Naik, Suyash. “Data Associated with Keratins Coordinate Tissue Spreading .” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-21137\">https://doi.org/10.15479/AT-ISTA-21137</a>."},"has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","month":"3","OA_place":"repository","date_updated":"2026-06-10T09:44:10Z","oa":1,"file_date_updated":"2026-03-24T07:21:43Z","department":[{"_id":"GradSch"},{"_id":"CaHe"},{"_id":"EdHa"}],"contributor":[{"last_name":"Keta","contributor_type":"researcher","first_name":"Yann-Edwin"},{"contributor_type":"supervisor","first_name":"Silke ","last_name":"Henkes"},{"orcid":"0000-0002-0912-4566","contributor_type":"supervisor","id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","last_name":"Heisenberg"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","contributor_type":"supervisor","first_name":"Edouard B","last_name":"Hannezo","orcid":"0000-0001-6005-1561"}],"status":"public","_id":"21137","corr_author":"1","author":[{"last_name":"Naik","full_name":"Naik, Suyash","id":"2C0B105C-F248-11E8-B48F-1D18A9856A87","first_name":"Suyash","orcid":"0000-0001-8421-5508"}],"day":"24","oa_version":"Published Version","file":[{"creator":"snaik","date_updated":"2026-03-16T11:51:10Z","content_type":"application/zip","date_created":"2026-03-16T11:51:10Z","file_size":725916,"checksum":"5d1fda7e410f24c311fcf6bcf725698f","description":"Python3 library written in C++20 to integrate vertex models. Please read the readme at https://github.com/yketa/cells/blob/main/README.md for detailed instructions for installation and usage of the code in this repository. ","title":"Cell git repository","file_id":"21461","file_name":"cells-main.zip","relation":"main_file","access_level":"open_access"},{"success":1,"date_created":"2026-03-18T14:52:02Z","content_type":"application/x-zip-compressed","file_size":282168895,"creator":"snaik","date_updated":"2026-03-18T14:52:02Z","file_name":"DevBranchDataRepo.zip","file_id":"21464","relation":"main_file","access_level":"open_access","checksum":"ee350c8eaed99f3ca348c47c8b190d3c"},{"file_id":"21466","file_name":"ReadMe.md","relation":"main_file","access_level":"open_access","checksum":"1ecaf2c1a2ce8ff9c75a128cc02d0b8f","date_created":"2026-03-18T15:01:32Z","content_type":"text/markdown","success":1,"file_size":2231,"creator":"snaik","date_updated":"2026-03-18T15:01:32Z"},{"file_id":"21467","file_name":"PaperSchematics.svg","relation":"main_file","access_level":"open_access","checksum":"da9a4687e5144b61a64ca341f922046a","date_created":"2026-03-18T15:12:57Z","content_type":"image/svg+xml","success":1,"file_size":1951210,"creator":"snaik","date_updated":"2026-03-18T15:12:57Z"},{"success":1,"content_type":"application/octet-stream","date_created":"2026-03-21T03:37:43Z","file_size":1897,"creator":"snaik","date_updated":"2026-03-21T03:37:43Z","file_name":"maxwell_sketch.tex","file_id":"21468","access_level":"open_access","relation":"main_file","checksum":"9ac1054b16c212c6f34d402dce2c80e0"},{"date_updated":"2026-03-24T07:21:43Z","creator":"snaik","file_size":749368723,"success":1,"date_created":"2026-03-24T07:21:43Z","content_type":"application/x-zip-compressed","checksum":"7c9ecf78e2593b3830d96fa94baa08df","access_level":"open_access","relation":"main_file","file_name":"DataRepo.zip","file_id":"21495"}],"date_published":"2026-03-24T00:00:00Z","acknowledgement":"We thank all members of the Heisenberg, Henkes, and Hannezo groups for their support. We are also grateful to the Imaging and Optics, Scientific Computing, Life Science Support, and Cryo-Electron Microscopy facilities at ISTA for their technical assistance and support. Numerical simulations were performed using the computational resources from Lorentz Institute and the Academic Leiden Interdisciplinary Cluster Environment (ALICE) provided by Leiden University, and from PMMH provided by Sorbonne Université. S.N has received funding from European Union’s Horizon 2020 research and innovation programme (grant agreement No. 665385). This work was supported by the Austrian Science Fund (FWF) under projects PAT5044023 and W1250 awarded to C.-P.H.","doi":"10.15479/AT-ISTA-21137","year":"2026","user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","date_created":"2026-02-04T16:38:02Z","license":"https://creativecommons.org/licenses/by-sa/4.0/","title":"Data associated with Keratins coordinate tissue spreading ","type":"research_data","project":[{"grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"_id":"8f060199-16d5-11f0-9cad-f3253b266c46","grant_number":"PAT 5044023","name":"Keratins in epithelial tissue spreading"},{"name":"Nano-Analytics of Cellular Systems","grant_number":"W1250-B20","_id":"252C3B08-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}]},{"title":"Faster algorithms for packing forests in graphs and related problems","type":"conference","language":[{"iso":"eng"}],"publication_status":"published","doi":"10.1137/1.9781611978971.148","year":"2026","publication_identifier":{"eisbn":["9781611978971"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","conference":{"end_date":"2026-01-14","start_date":"2026-01-11","name":"SODA: Symposium on Discrete Algorithms","location":"Vancouver, Canada"},"date_created":"2026-02-05T10:51:34Z","abstract":[{"lang":"eng","text":"We consider several problems related to packing forests in graphs. The first one is to find k edge-disjoint forests in a directed graph G of maximal size such that the indegree of each vertex in these forests is at most k. We describe a min-max characterization for this problem and show that it can be solved in almost linear time for fixed k, extending the algorithm of [Gabow, 1995]. Specifically, the complexity is O(kδm log n), where n, m are the number of vertices and edges in G respectively, and δ = max{1, k − kG}, where kG is the edge connectivity of the graph. Using our solution to this problem, we improve complexities for two existing applications:(1) k-forest problem: find k forests in an undirected graph G maximizing the number of edges in their union. We show how to solve this problem in O(k3 min{kn, m} log2 n + k · MAXFLOW(m, m) log n) time, breaking the Ok(n3/2) complexity barrier of previously known approaches.(2) Directed edge-connectivity augmentation problem: find a smallest set of directed edges whose addition to the given directed graph makes it strongly k-connected. We improve the deterministic complexity for this problem from O(kδ(m + δn) log n) [Gabow, STOC 1994] to O(kδm log n). A similar approach with the same complexity also works for the undirected version of the problem."}],"publication":"Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms","external_id":{"arxiv":["2409.20314"]},"date_published":"2026-01-07T00:00:00Z","author":[{"id":"b25f2ab2-1fed-11ee-8599-fe02d211784f","first_name":"Pavel","last_name":"Arkhipov","full_name":"Arkhipov, Pavel"},{"last_name":"Kolmogorov","full_name":"Kolmogorov, Vladimir","id":"3D50B0BA-F248-11E8-B48F-1D18A9856A87","first_name":"Vladimir"}],"day":"07","oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2409.20314"}],"arxiv":1,"department":[{"_id":"VlKo"}],"status":"public","corr_author":"1","_id":"21140","date_updated":"2026-02-16T09:18:33Z","oa":1,"publisher":"Society for Industrial and Applied Mathematics","OA_place":"repository","month":"01","page":"4023-4042","article_processing_charge":"No","OA_type":"green","quality_controlled":"1","citation":{"short":"P. Arkhipov, V. Kolmogorov, in:, Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms, Society for Industrial and Applied Mathematics, 2026, pp. 4023–4042.","ista":"Arkhipov P, Kolmogorov V. 2026. Faster algorithms for packing forests in graphs and related problems. Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms. SODA: Symposium on Discrete Algorithms, 4023–4042.","apa":"Arkhipov, P., &#38; Kolmogorov, V. (2026). Faster algorithms for packing forests in graphs and related problems. In <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i> (pp. 4023–4042). Vancouver, Canada: Society for Industrial and Applied Mathematics. <a href=\"https://doi.org/10.1137/1.9781611978971.148\">https://doi.org/10.1137/1.9781611978971.148</a>","mla":"Arkhipov, Pavel, and Vladimir Kolmogorov. “Faster Algorithms for Packing Forests in Graphs and Related Problems.” <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, Society for Industrial and Applied Mathematics, 2026, pp. 4023–42, doi:<a href=\"https://doi.org/10.1137/1.9781611978971.148\">10.1137/1.9781611978971.148</a>.","ieee":"P. Arkhipov and V. Kolmogorov, “Faster algorithms for packing forests in graphs and related problems,” in <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, Vancouver, Canada, 2026, pp. 4023–4042.","chicago":"Arkhipov, Pavel, and Vladimir Kolmogorov. “Faster Algorithms for Packing Forests in Graphs and Related Problems.” In <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>, 4023–42. Society for Industrial and Applied Mathematics, 2026. <a href=\"https://doi.org/10.1137/1.9781611978971.148\">https://doi.org/10.1137/1.9781611978971.148</a>.","ama":"Arkhipov P, Kolmogorov V. Faster algorithms for packing forests in graphs and related problems. In: <i>Proceedings of the 2026 Annual ACM-SIAM Symposium on Discrete Algorithms</i>. Society for Industrial and Applied Mathematics; 2026:4023-4042. doi:<a href=\"https://doi.org/10.1137/1.9781611978971.148\">10.1137/1.9781611978971.148</a>"}},{"acknowledgement":"We thank Nikolai R. Skrynnikov and Olga O. Lebedenko (St. Petersburg) for insightful discussions and for performing exploratory MD simulations. We are grateful to Tobias Schubeis (Lyon) for advice with GB1 crystallization, and Rebecca Schmid for initial crystallization trials.\r\nWe thank Sebastian Falkner for assistance with constructing the structural model of the IgG:GB1 complex.\r\nThis research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities. We thank Petra Rovó and Margarita Valhondo Falcón for excellent support of the NMR facility.\r\nLea M. Becker is recipient of a DOC fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (grant no. PR10660EAW01). Christophe Chipot acknowledges the European Research Council (grant project 101097272 ``MilliInMicro'') and the Métropole du Grand Nancy (grant project ``ARC''). BM07-FIP2 is supported by the French ANR PIA3 (France 2030) EquipEx+ project MAGNIFIX under grant agreement ANR-21-ESRE-0011.","doi":"10.15479/AT-ISTA-21145","year":"2026","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-02-05T13:54:39Z","title":"Additional Data for \"Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes\"","type":"research_data","project":[{"grant_number":"26777","name":"Exploring protein dynamics by solid-state MAS NMR through specific labeling approaches","_id":"7be609c4-9f16-11ee-852c-85015ce2b9b0"}],"author":[{"orcid":"0000-0002-6401-5151","last_name":"Becker","full_name":"Becker, Lea Marie","id":"36336939-eb97-11eb-a6c2-c83f1214ca79","first_name":"Lea Marie"},{"orcid":"0000-0002-9350-7606","full_name":"Schanda, Paul","last_name":"Schanda","first_name":"Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425"},{"last_name":"Chipot","full_name":"Chipot, Christophe","first_name":"Christophe"}],"day":"09","oa_version":"Published Version","abstract":[{"text":"Protein conformational energy landscapes are shaped not only by intramolecular interactions but also by their environment. In protein crystals and protein-protein complexes, intermolecular contacts alter this energy landscape, but the exact nature of this alteration is difficult to decipher. Understanding how the crystal lattice affects protein dynamics is crucial for crystallography-based studies of motion, yet its influence on collective motions remains unclear. Aromatic ring flips in the hydrophobic core represent sensitive probes of such dynamics. Here, we compare the kinetics of aromatic ring flips in the protein GB1 in crystals, in complex with its binding partner IgG, and in solution, combining advanced isotope labeling with quantitative NMR methods. We show that rings in the core flip nearly a thousand times less frequently in crystals than in solution. Enhanced-sampling molecular dynamics simulations, based on a new crystal structure, reproduce these elevated barriers and reveal how the crystal restrains motions. ","lang":"eng"}],"file":[{"date_created":"2026-02-05T13:52:37Z","content_type":"text/plain","file_size":4263,"creator":"lbecker","date_updated":"2026-02-05T13:52:37Z","file_name":"README.txt","file_id":"21146","relation":"table_of_contents","access_level":"open_access","checksum":"02a419cce8cea450bc952f35488d2df5"},{"file_size":50647107,"success":1,"date_created":"2026-02-05T13:52:41Z","content_type":"application/zip","date_updated":"2026-02-05T13:52:41Z","creator":"lbecker","relation":"main_file","access_level":"open_access","file_name":"Research_Data.zip","file_id":"21147","checksum":"b0b82b1aa73985b0b308a3fa52d21aea"}],"date_published":"2026-02-09T00:00:00Z","date_updated":"2026-06-10T08:25:16Z","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"20641"}]},"oa":1,"department":[{"_id":"GradSch"},{"_id":"PaSc"}],"file_date_updated":"2026-02-05T13:52:41Z","ddc":["572"],"contributor":[{"last_name":"Fu","contributor_type":"researcher","first_name":"Haohao"},{"id":"71cda2f3-e604-11ee-a1df-da10587eda3f","contributor_type":"researcher","first_name":"Benjamin","last_name":"Tatman"},{"first_name":"Matthias","contributor_type":"researcher","last_name":"Dreydoppel"},{"last_name":"Kapitonova","id":"9fb2a840-89e1-11ee-a8b7-cc5c7ba62471","contributor_type":"researcher","first_name":"Anna"},{"orcid":"0000-0001-7597-043X","first_name":"Daniel","contributor_type":"researcher","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","last_name":"Balazs"},{"last_name":"Weininger","first_name":"Ulrich","contributor_type":"researcher"},{"last_name":"Engilberge","first_name":"Sylvain","contributor_type":"researcher"}],"status":"public","_id":"21145","corr_author":"1","tmp":{"image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"article_processing_charge":"No","acknowledged_ssus":[{"_id":"NMR"},{"_id":"LifeSc"}],"citation":{"apa":"Becker, L. M., Schanda, P., &#38; Chipot, C. (2026). Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-21145\">https://doi.org/10.15479/AT-ISTA-21145</a>","mla":"Becker, Lea Marie, et al. <i>Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.”</i> Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21145\">10.15479/AT-ISTA-21145</a>.","ista":"Becker LM, Schanda P, Chipot C. 2026. Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT-ISTA-21145\">10.15479/AT-ISTA-21145</a>.","short":"L.M. Becker, P. Schanda, C. Chipot, (2026).","ama":"Becker LM, Schanda P, Chipot C. Additional Data for “Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.” 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21145\">10.15479/AT-ISTA-21145</a>","chicago":"Becker, Lea Marie, Paul Schanda, and Christophe Chipot. “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-21145\">https://doi.org/10.15479/AT-ISTA-21145</a>.","ieee":"L. M. Becker, P. Schanda, and C. Chipot, “Additional Data for ‘Aromatic Ring Flips Reveal Reshaping of Protein Dynamics in Crystals and Complexes.’” Institute of Science and Technology Austria, 2026."},"has_accepted_license":"1","publisher":"Institute of Science and Technology Austria","month":"02"},{"oa":1,"date_updated":"2026-02-10T11:30:37Z","status":"public","corr_author":"1","_id":"21149","arxiv":1,"scopus_import":"1","department":[{"_id":"MiLe"}],"file_date_updated":"2026-02-10T11:25:46Z","ddc":["530"],"OA_type":"hybrid","quality_controlled":"1","volume":136,"citation":{"apa":"Hrast, M., Koutentakis, G., Maslov, M., &#38; Lemeshko, M. (2026). Bottom-up analysis of rovibrational helical dichroism. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/fkf1-1jml\">https://doi.org/10.1103/fkf1-1jml</a>","mla":"Hrast, Mateja, et al. “Bottom-up Analysis of Rovibrational Helical Dichroism.” <i>Physical Review Letters</i>, vol. 136, no. 5, 053204, American Physical Society, 2026, doi:<a href=\"https://doi.org/10.1103/fkf1-1jml\">10.1103/fkf1-1jml</a>.","ista":"Hrast M, Koutentakis G, Maslov M, Lemeshko M. 2026. Bottom-up analysis of rovibrational helical dichroism. Physical Review Letters. 136(5), 053204.","short":"M. Hrast, G. Koutentakis, M. Maslov, M. Lemeshko, Physical Review Letters 136 (2026).","chicago":"Hrast, Mateja, Georgios Koutentakis, Mikhail Maslov, and Mikhail Lemeshko. “Bottom-up Analysis of Rovibrational Helical Dichroism.” <i>Physical Review Letters</i>. American Physical Society, 2026. <a href=\"https://doi.org/10.1103/fkf1-1jml\">https://doi.org/10.1103/fkf1-1jml</a>.","ama":"Hrast M, Koutentakis G, Maslov M, Lemeshko M. Bottom-up analysis of rovibrational helical dichroism. <i>Physical Review Letters</i>. 2026;136(5). doi:<a href=\"https://doi.org/10.1103/fkf1-1jml\">10.1103/fkf1-1jml</a>","ieee":"M. Hrast, G. Koutentakis, M. Maslov, and M. Lemeshko, “Bottom-up analysis of rovibrational helical dichroism,” <i>Physical Review Letters</i>, vol. 136, no. 5. American Physical Society, 2026."},"has_accepted_license":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"article_processing_charge":"Yes (via OA deal)","month":"02","OA_place":"publisher","intvolume":"       136","publisher":"American Physical Society","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-02-06T10:53:17Z","doi":"10.1103/fkf1-1jml","acknowledgement":"This research was funded in whole or in part by the Austrian Science Fund (FWF) [10.55776/F1004].","year":"2026","publication_identifier":{"eissn":["1079-7114"],"issn":["0031-9007"]},"article_number":"053204","publication_status":"published","article_type":"original","type":"journal_article","title":"Bottom-up analysis of rovibrational helical dichroism","project":[{"name":"Coherent Optical Metrology Beyond Electric-Dipole-Allowed Transitions","grant_number":"F100403","_id":"7c040762-9f16-11ee-852c-dd79eeee4ab3"}],"language":[{"iso":"eng"}],"oa_version":"Published Version","issue":"5","author":[{"id":"48dbb294-2a9c-11ef-905d-f56be71f0e5d","first_name":"Mateja","last_name":"Hrast","full_name":"Hrast, Mateja"},{"first_name":"Georgios","id":"d7b23d3a-9e21-11ec-b482-f76739596b95","full_name":"Koutentakis, Georgios","last_name":"Koutentakis"},{"orcid":"0000-0003-4074-2570","full_name":"Maslov, Mikhail","last_name":"Maslov","first_name":"Mikhail","id":"2E65BB0E-F248-11E8-B48F-1D18A9856A87"},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","last_name":"Lemeshko","full_name":"Lemeshko, Mikhail","orcid":"0000-0002-6990-7802"}],"day":"05","PlanS_conform":"1","publication":"Physical Review Letters","date_published":"2026-02-05T00:00:00Z","external_id":{"arxiv":["2505.16393"]},"file":[{"checksum":"805c929fff9fd4d0e733293eaace67b8","file_name":"2026_PhysicalReviewLetters_Hrast.pdf","file_id":"21210","access_level":"open_access","relation":"main_file","creator":"dernst","date_updated":"2026-02-10T11:25:46Z","success":1,"content_type":"application/pdf","date_created":"2026-02-10T11:25:46Z","file_size":511312}],"abstract":[{"text":"We present a general theoretical framework for helical dichroism (HD), establishing an explicit link between chiral resolution and orbital angular momentum (OAM) exchange in light–matter interaction. Tracing microscopic mechanisms of the OAM transfer, we derive rotational selection rules, which establish that HD emerges only from the spin–orbit coupling of light, even for beams without the far-field OAM. Our findings refine the conditions for observing HD, provide a tool to re-examine the outcome of prior experiments, and guide future designs for chiral sensing with structured light.","lang":"eng"}]},{"day":"27","PlanS_conform":"1","author":[{"first_name":"Pengfang","full_name":"Yang, Pengfang","last_name":"Yang"},{"first_name":"Yangyang","last_name":"Liu","full_name":"Liu, Yangyang"},{"first_name":"Qi","last_name":"Dong","full_name":"Dong, Qi"},{"full_name":"Miao, Yuting","last_name":"Miao","first_name":"Yuting"},{"last_name":"Zhang","full_name":"Zhang, Jianlong","first_name":"Jianlong"},{"full_name":"Xu, Shujuan","last_name":"Xu","first_name":"Shujuan","id":"9724dd9d-f591-11ee-bd51-e97ed0652286"},{"last_name":"Zhao","full_name":"Zhao, Hong","first_name":"Hong"},{"first_name":"Yuda","last_name":"Niu","full_name":"Niu, Yuda"},{"last_name":"Zhang","full_name":"Zhang, Xueyong","first_name":"Xueyong"},{"full_name":"Xu, Yunyuan","last_name":"Xu","first_name":"Yunyuan"},{"first_name":"Zifeng","last_name":"Guo","full_name":"Guo, Zifeng"},{"full_name":"Xing, Lijing","last_name":"Xing","first_name":"Lijing"},{"first_name":"Kang","full_name":"Chong, Kang","last_name":"Chong"}],"pmid":1,"oa_version":"Published Version","abstract":[{"text":"Vernalization-regulated flowering is vital for wheat yield and geographical distribution, and the diversity of flowering time genes is essential for the breeding of climate-resilient varieties. Sugars have long been recognized in regulating flowering; however, the intrinsic connection between carbohydrate metabolism and vernalization response remains largely unexplored. Here, we identify a fructose 1,6-bisphosphate aldolase (FBA) encoding gene, HtL1/FBA10, as a modulator of heading time variation based on a genome-wide association study utilizing wheat core germplasm collections. Evolutionary analysis shows a decrease in the proportion of haplotype-2 of HtL1, which is linked to delayed flowering, in Chinese and American wheat varieties compared to landraces. Vernalization reduces HtL1/FBA10 phosphorylation levels and  increases  its O-GlcNAcylation, which in turn enhances its enzymatic activity and facilitates VERNALIZATION 1 (VRN1) transcription by regulating histone acetylation at the VRN1 locus. Our findings provide mechanistic insights into the interplay between glucose metabolism and the epigenetic regulation of vernalization in winter wheat.","lang":"eng"}],"file":[{"file_name":"2026_NatureComm_Yang.pdf","file_id":"21223","relation":"main_file","access_level":"open_access","checksum":"9ae170ec70ba1ab56b6f1ffe67d1de7f","success":1,"date_created":"2026-02-12T14:33:14Z","content_type":"application/pdf","file_size":4685882,"creator":"dernst","date_updated":"2026-02-12T14:33:14Z"}],"date_published":"2026-01-27T00:00:00Z","external_id":{"pmid":["41455723"]},"publication":"Nature Communications","publication_identifier":{"eissn":["2041-1723"]},"year":"2026","article_number":"999","acknowledgement":"This work was supported by the Basic Science Center Project of National Natural Science Foundation of China (32388201) to K.C and the National Natural Science Foundation of China (31970331) to L.X. We thank Dr. Zhuang Lu, Dr. Bin Han and Ms. Jingquan Li (Plant Science Facility of the Institute of Botany, Chinese Academy of Sciences) for their technical assistance in LC-MS/MS assay, small molecule compound analysis and the subcellular localization assay, respectively. We thank Dr. Wei Luo and Dr. Dongfeng Liu for helpful discussions.","doi":"10.1038/s41467-025-67734-0","date_created":"2026-02-08T23:02:48Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"title":"O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization for flowering","type":"journal_article","article_type":"original","DOAJ_listed":"1","publication_status":"published","article_processing_charge":"Yes","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"has_accepted_license":"1","citation":{"short":"P. Yang, Y. Liu, Q. Dong, Y. Miao, J. Zhang, S. Xu, H. Zhao, Y. Niu, X. Zhang, Y. Xu, Z. Guo, L. Xing, K. Chong, Nature Communications 17 (2026).","ista":"Yang P, Liu Y, Dong Q, Miao Y, Zhang J, Xu S, Zhao H, Niu Y, Zhang X, Xu Y, Guo Z, Xing L, Chong K. 2026. O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization for flowering. Nature Communications. 17, 999.","apa":"Yang, P., Liu, Y., Dong, Q., Miao, Y., Zhang, J., Xu, S., … Chong, K. (2026). O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization for flowering. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-025-67734-0\">https://doi.org/10.1038/s41467-025-67734-0</a>","mla":"Yang, Pengfang, et al. “O-GlcNAc and Phosphorylation Modifications on HtL1/FBA10 Regulate Wheat Vernalization for Flowering.” <i>Nature Communications</i>, vol. 17, 999, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1038/s41467-025-67734-0\">10.1038/s41467-025-67734-0</a>.","ieee":"P. Yang <i>et al.</i>, “O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization for flowering,” <i>Nature Communications</i>, vol. 17. Springer Nature, 2026.","chicago":"Yang, Pengfang, Yangyang Liu, Qi Dong, Yuting Miao, Jianlong Zhang, Shujuan Xu, Hong Zhao, et al. “O-GlcNAc and Phosphorylation Modifications on HtL1/FBA10 Regulate Wheat Vernalization for Flowering.” <i>Nature Communications</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41467-025-67734-0\">https://doi.org/10.1038/s41467-025-67734-0</a>.","ama":"Yang P, Liu Y, Dong Q, et al. O-GlcNAc and phosphorylation modifications on HtL1/FBA10 regulate wheat vernalization for flowering. <i>Nature Communications</i>. 2026;17. doi:<a href=\"https://doi.org/10.1038/s41467-025-67734-0\">10.1038/s41467-025-67734-0</a>"},"volume":17,"OA_type":"gold","quality_controlled":"1","publisher":"Springer Nature","intvolume":"        17","OA_place":"publisher","month":"01","date_updated":"2026-02-12T14:34:24Z","oa":1,"ddc":["580"],"file_date_updated":"2026-02-12T14:33:14Z","department":[{"_id":"XiFe"}],"scopus_import":"1","_id":"21158","status":"public"},{"arxiv":1,"scopus_import":"1","ddc":["510"],"file_date_updated":"2026-02-16T09:52:38Z","department":[{"_id":"MaKw"},{"_id":"MoHe"}],"status":"public","corr_author":"1","_id":"21159","date_updated":"2026-02-16T09:55:17Z","oa":1,"intvolume":"        46","publisher":"Springer Nature","OA_place":"publisher","month":"02","article_processing_charge":"Yes (via OA deal)","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"volume":46,"OA_type":"hybrid","quality_controlled":"1","has_accepted_license":"1","citation":{"ista":"Kwan MA, Safavi Hemami R, Wang Y. 2026. Counting perfect matchings in Dirac hypergraphs. Combinatorica. 46, 5.","short":"M.A. Kwan, R. Safavi Hemami, Y. Wang, Combinatorica 46 (2026).","apa":"Kwan, M. A., Safavi Hemami, R., &#38; Wang, Y. (2026). Counting perfect matchings in Dirac hypergraphs. <i>Combinatorica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00493-025-00194-8\">https://doi.org/10.1007/s00493-025-00194-8</a>","mla":"Kwan, Matthew Alan, et al. “Counting Perfect Matchings in Dirac Hypergraphs.” <i>Combinatorica</i>, vol. 46, 5, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1007/s00493-025-00194-8\">10.1007/s00493-025-00194-8</a>.","ieee":"M. A. Kwan, R. Safavi Hemami, and Y. Wang, “Counting perfect matchings in Dirac hypergraphs,” <i>Combinatorica</i>, vol. 46. Springer Nature, 2026.","chicago":"Kwan, Matthew Alan, Roodabeh Safavi Hemami, and Yiting Wang. “Counting Perfect Matchings in Dirac Hypergraphs.” <i>Combinatorica</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/s00493-025-00194-8\">https://doi.org/10.1007/s00493-025-00194-8</a>.","ama":"Kwan MA, Safavi Hemami R, Wang Y. Counting perfect matchings in Dirac hypergraphs. <i>Combinatorica</i>. 2026;46. doi:<a href=\"https://doi.org/10.1007/s00493-025-00194-8\">10.1007/s00493-025-00194-8</a>"},"type":"journal_article","title":"Counting perfect matchings in Dirac hypergraphs","language":[{"iso":"eng"}],"publication_status":"published","article_type":"original","doi":"10.1007/s00493-025-00194-8","acknowledgement":"We would like to thank the referees for a number of helpful comments and suggestions, which have substantially improved the paper. Open access funding provided by Institute of Science and Technology (IST Austria).","year":"2026","publication_identifier":{"issn":["0209-9683"],"eissn":["1439-6912"]},"article_number":"5","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-02-08T23:02:49Z","abstract":[{"lang":"eng","text":"One of the foundational theorems of extremal graph theory is Dirac’s theorem, which\r\nsays that if an n-vertex graph G has minimum degree at least n/2, then G has a\r\nHamilton cycle, and therefore a perfect matching (if n is even). Later work by Sárközy,\r\nSelkow and Szemerédi showed that in fact Dirac graphs have many Hamilton cycles\r\nand perfect matchings, culminating in a result of Cuckler and Kahn that gives a precise\r\ndescription of the numbers of Hamilton cycles and perfect matchings in a Dirac graph\r\nG (in terms of an entropy-like parameter of G). In this paper we extend Cuckler\r\nand Kahn’s result to perfect matchings in hypergraphs. For positive integers d < k,\r\nand for n divisible by k, let md (k, n) be the minimum d-degree that ensures the\r\nexistence of a perfect matching in an n-vertex k-uniform hypergraph. In general, it is\r\nan open question to determine (even asymptotically) the values of md (k, n), but we are\r\nnonetheless able to prove an analogue of the Cuckler–Kahn theorem, showing that if\r\nan n-vertex k-uniform hypergraph G has minimum d-degree at least (1+γ )md (k, n)\r\n(for any constantγ > 0), then the number of perfect matchings in G is controlled by\r\nan entropy-like parameter of G. This strengthens cruder estimates arising from work\r\nof Kang–Kelly–Kühn–Osthus–Pfenninger and Pham–Sah–Sawhney–Simkin."}],"publication":"Combinatorica","file":[{"file_size":539646,"success":1,"date_created":"2026-02-16T09:52:38Z","content_type":"application/pdf","date_updated":"2026-02-16T09:52:38Z","creator":"dernst","relation":"main_file","access_level":"open_access","file_name":"2026_Combinatorica_Kwan.pdf","file_id":"21228","checksum":"47b0031d90b0e6b9a843f422a1486089"}],"date_published":"2026-02-01T00:00:00Z","external_id":{"arxiv":["2408.09589"]},"author":[{"orcid":"0000-0002-4003-7567","last_name":"Kwan","full_name":"Kwan, Matthew Alan","id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","first_name":"Matthew Alan"},{"last_name":"Safavi Hemami","full_name":"Safavi Hemami, Roodabeh","id":"72ed2640-8972-11ed-ae7b-f9c81ec75154","first_name":"Roodabeh"},{"first_name":"Yiting","id":"1917d194-076e-11ed-97cd-837255f88785","full_name":"Wang, Yiting","last_name":"Wang","orcid":"0000-0002-2856-767X"}],"day":"01","PlanS_conform":"1","oa_version":"Published Version"},{"language":[{"iso":"eng"}],"title":"The evolutionary history of ultra-compact accreting binaries: I. Chemical abundances and the formation channel of the eclipsing AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy","type":"journal_article","article_type":"original","publication_status":"published","publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"article_number":"A14","year":"2026","doi":"10.1051/0004-6361/202557568","acknowledgement":"We thank Lars Bildsten for valuable insights and discussions. We acknowledge with thanks the variable star observations from the\r\nAAVSO International Database contributed by observers worldwide and used in this research. We thank the members of the Spanish Observers of Supernovae\r\n(ObSN) group for their valuable photometric contributions. This research was\r\nsupported by Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy – EXC 2121 “Quantum Universe”\r\n– 390833306. Co-funded by the European Union (ERC, CompactBINARIES,\r\n101078773). Views and opinions expressed are however those of the author(s)\r\nonly and do not necessarily reflect those of the European Union or the European Research Council. Neither the European Union nor the granting authority\r\ncan be held responsible for them. DB acknowledges support from the São Paulo\r\nResearch Foundation (FAPESP), Brazil, Process Numbers #2024/03736-2 and\r\n#2025/00817-4. MRS is supported by Fondecyt (grant 1221059). MJG acknowledges support from the European Research Council through ERC Advanced\r\nGrant No. 101054731, from the National Aeronautics and Space Administration under grants 80NSSC24K0436, 80NSSC22K0479, and 80NSSC24K0380,\r\nand from the National Science Foundation under grant AST-2205736. PJG\r\nis supported by NRF SARChI grant 111692. PR-G acknowledges support by\r\nthe Agencia Estatal de Investigación del Ministerio de Ciencia e Innovación\r\n(MCIN/AEI) and the European Regional Development Fund (ERDF) under grant\r\nPID2021–124879NB–I00. DS is supported by the UK Science and Technology Facilities Council (STFC, grant numbers ST/T007184/1, ST/T003103/1,\r\nand ST/T000406/1). OT acknowledges Proyectos Internos USM 2025, PI-LII2025-03. GT was supported by grants IN109723 from the Programa de Apoyo a\r\nProyectos de Investigación e Innovación Tecnológica (PAPIIT). This project has\r\nreceived funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant agreement No. 101020057).","date_created":"2026-02-08T23:02:49Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Context. AM Canum Venaticorum (AM CVn) stars are ultra-compact binary systems composed of a white dwarf primary accreting from a hydrogen-deficient donor. They play a crucial role in astrophysics as potential progenitors of Type Ia supernovae and as laboratories for gravitational wave studies. However, their formation and evolutionary history remain incomplete. Three formation channels have been discussed in the literature: the white dwarf, He-star, and cataclysmic variable channels.\r\n\r\nAims. The chemical composition of the accretor atmosphere reflects the material transferred from the donor. In this work we took the first accurate measurements of the fundamental parameters of the accreting white dwarf in ZTF J225237.05−051917.4, including the abundances of key elements such as carbon, nitrogen, and silicon, by analysing ultraviolet spectra obtained with the Hubble Space Telescope (HST). These measurements provide new insight into the evolutionary history of the system and, together with existing optical observations, establish it as a benchmark to develop our pipeline, paving the way for its application to a larger sample of AM CVn systems.\r\n\r\nMethods. We determined the binary parameters through photometric analysis and constrained the atmospheric parameters of the white dwarf accretor, including its effective temperature, surface gravity, and chemical abundances, by fitting the HST ultraviolet spectrum with synthetic spectral models. We then inferred the system’s formation channel by comparing the results with theoretical evolutionary models.\r\n\r\nResults. According to our measurements, the accretor’s effective temperature (Teff) is 23 300 ± 600 K and the surface gravity (log g) is 8.4 ± 0.3, which imply an accretor mass (MWD) of 0.86 ± 0.16 M⊙. We find a high nitrogen-to-carbon abundance ratio by mass of > 153.\r\n\r\nConclusions. The accretor is significantly hotter than previous estimates based on simplified blackbody fits to the spectral energy distribution, underscoring the importance of detailed spectral modelling for accurately determining system parameters. Our results show that ultraviolet spectroscopy is well suited to constraining the formation channels of AM CVn systems. Of the three proposed formation channels, the He-star channel can be excluded given the high nitrogen-to-carbon ratio. Our results are consistent with both the white dwarf and cataclysmic variable channels.","lang":"eng"}],"file":[{"success":1,"content_type":"application/pdf","date_created":"2026-02-16T09:33:56Z","file_size":4020466,"creator":"dernst","date_updated":"2026-02-16T09:33:56Z","file_name":"2026_AstronomyAstrophysics_Yu.pdf","file_id":"21227","access_level":"open_access","relation":"main_file","checksum":"2faec710fd04f927aa43deb57e35c9b2"}],"external_id":{"arxiv":["2512.04147"]},"date_published":"2026-02-01T00:00:00Z","publication":"Astronomy and Astrophysics","day":"01","PlanS_conform":"1","author":[{"full_name":"Yu, W.","last_name":"Yu","first_name":"W."},{"first_name":"A. F.","last_name":"Pala","full_name":"Pala, A. F."},{"first_name":"T.","last_name":"Kupfer","full_name":"Kupfer, T."},{"last_name":"Gänsicke","full_name":"Gänsicke, B. T.","first_name":"B. T."},{"first_name":"D.","last_name":"Koester","full_name":"Koester, D."},{"first_name":"D.","last_name":"Belloni","full_name":"Belloni, D."},{"first_name":"T. L.S.","full_name":"Wong, T. L.S.","last_name":"Wong"},{"first_name":"M. R.","full_name":"Schreiber, M. R.","last_name":"Schreiber"},{"full_name":"van Roestel, Joannes C","last_name":"van Roestel","first_name":"Joannes C","id":"4d122fc8-6083-11f0-87a5-97d68b860333"},{"first_name":"A. J.","full_name":"Brown, A. J.","last_name":"Brown"},{"first_name":"E. O.","last_name":"Waagen","full_name":"Waagen, E. O."},{"first_name":"J. L.","last_name":"González-Carballo","full_name":"González-Carballo, J. L."},{"first_name":"S.","full_name":"Bednarz, S.","last_name":"Bednarz"},{"full_name":"Bernacki, K.","last_name":"Bernacki","first_name":"K."},{"full_name":"De Martino, D.","last_name":"De Martino","first_name":"D."},{"first_name":"E.","full_name":"Fernández Mañanes, E.","last_name":"Fernández Mañanes"},{"last_name":"González Farfán","full_name":"González Farfán, R.","first_name":"R."},{"first_name":"M. J.","full_name":"Green, M. J.","last_name":"Green"},{"full_name":"Groot, P. J.","last_name":"Groot","first_name":"P. J."},{"last_name":"Hambsch","full_name":"Hambsch, F. J.","first_name":"F. J."},{"full_name":"Knigge, C.","last_name":"Knigge","first_name":"C."},{"first_name":"J. L.","last_name":"Martin-Velasco","full_name":"Martin-Velasco, J. L."},{"first_name":"M.","full_name":"Morales-Aimar, M.","last_name":"Morales-Aimar"},{"first_name":"G.","full_name":"Myers, G.","last_name":"Myers"},{"last_name":"Naves Nogues","full_name":"Naves Nogues, R.","first_name":"R."},{"last_name":"Poggiani","full_name":"Poggiani, R.","first_name":"R."},{"first_name":"A.","full_name":"Popowicz, A.","last_name":"Popowicz"},{"full_name":"Ramsay, G.","last_name":"Ramsay","first_name":"G."},{"first_name":"E.","last_name":"Reina-Lorenz","full_name":"Reina-Lorenz, E."},{"first_name":"P.","full_name":"Rodríguez-Gil, P.","last_name":"Rodríguez-Gil"},{"first_name":"J. L.","last_name":"Salto-González","full_name":"Salto-González, J. L."},{"last_name":"Sion","full_name":"Sion, E. M.","first_name":"E. M."},{"last_name":"Steeghs","full_name":"Steeghs, D.","first_name":"D."},{"first_name":"P.","last_name":"Szkody","full_name":"Szkody, P."},{"first_name":"O.","full_name":"Toloza, O.","last_name":"Toloza"},{"first_name":"G.","full_name":"Tovmassian, G.","last_name":"Tovmassian"}],"oa_version":"Published Version","ddc":["520"],"file_date_updated":"2026-02-16T09:33:56Z","department":[{"_id":"IlCa"}],"scopus_import":"1","arxiv":1,"_id":"21160","status":"public","date_updated":"2026-02-16T09:36:24Z","oa":1,"publisher":"EDP Sciences","intvolume":"       706","OA_place":"publisher","month":"02","article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"has_accepted_license":"1","citation":{"chicago":"Yu, W., A. F. Pala, T. Kupfer, B. T. Gänsicke, D. Koester, D. Belloni, T. L.S. Wong, et al. “The Evolutionary History of Ultra-Compact Accreting Binaries: I. Chemical Abundances and the Formation Channel of the Eclipsing AM CVn System ZTF J225237.05-051917.4 from HST Spectroscopy.” <i>Astronomy and Astrophysics</i>. EDP Sciences, 2026. <a href=\"https://doi.org/10.1051/0004-6361/202557568\">https://doi.org/10.1051/0004-6361/202557568</a>.","ama":"Yu W, Pala AF, Kupfer T, et al. The evolutionary history of ultra-compact accreting binaries: I. Chemical abundances and the formation channel of the eclipsing AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy. <i>Astronomy and Astrophysics</i>. 2026;706. doi:<a href=\"https://doi.org/10.1051/0004-6361/202557568\">10.1051/0004-6361/202557568</a>","ieee":"W. Yu <i>et al.</i>, “The evolutionary history of ultra-compact accreting binaries: I. Chemical abundances and the formation channel of the eclipsing AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy,” <i>Astronomy and Astrophysics</i>, vol. 706. EDP Sciences, 2026.","apa":"Yu, W., Pala, A. F., Kupfer, T., Gänsicke, B. T., Koester, D., Belloni, D., … Tovmassian, G. (2026). The evolutionary history of ultra-compact accreting binaries: I. Chemical abundances and the formation channel of the eclipsing AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy. <i>Astronomy and Astrophysics</i>. EDP Sciences. <a href=\"https://doi.org/10.1051/0004-6361/202557568\">https://doi.org/10.1051/0004-6361/202557568</a>","mla":"Yu, W., et al. “The Evolutionary History of Ultra-Compact Accreting Binaries: I. Chemical Abundances and the Formation Channel of the Eclipsing AM CVn System ZTF J225237.05-051917.4 from HST Spectroscopy.” <i>Astronomy and Astrophysics</i>, vol. 706, A14, EDP Sciences, 2026, doi:<a href=\"https://doi.org/10.1051/0004-6361/202557568\">10.1051/0004-6361/202557568</a>.","ista":"Yu W, Pala AF, Kupfer T, Gänsicke BT, Koester D, Belloni D, Wong TLS, Schreiber MR, van Roestel JC, Brown AJ, Waagen EO, González-Carballo JL, Bednarz S, Bernacki K, De Martino D, Fernández Mañanes E, González Farfán R, Green MJ, Groot PJ, Hambsch FJ, Knigge C, Martin-Velasco JL, Morales-Aimar M, Myers G, Naves Nogues R, Poggiani R, Popowicz A, Ramsay G, Reina-Lorenz E, Rodríguez-Gil P, Salto-González JL, Sion EM, Steeghs D, Szkody P, Toloza O, Tovmassian G. 2026. The evolutionary history of ultra-compact accreting binaries: I. Chemical abundances and the formation channel of the eclipsing AM CVn system ZTF J225237.05-051917.4 from HST spectroscopy. Astronomy and Astrophysics. 706, A14.","short":"W. Yu, A.F. Pala, T. Kupfer, B.T. Gänsicke, D. Koester, D. Belloni, T.L.S. Wong, M.R. Schreiber, J.C. van Roestel, A.J. Brown, E.O. Waagen, J.L. González-Carballo, S. Bednarz, K. Bernacki, D. De Martino, E. Fernández Mañanes, R. González Farfán, M.J. Green, P.J. Groot, F.J. Hambsch, C. Knigge, J.L. Martin-Velasco, M. Morales-Aimar, G. Myers, R. Naves Nogues, R. Poggiani, A. Popowicz, G. Ramsay, E. Reina-Lorenz, P. Rodríguez-Gil, J.L. Salto-González, E.M. Sion, D. Steeghs, P. Szkody, O. Toloza, G. Tovmassian, Astronomy and Astrophysics 706 (2026)."},"volume":706,"quality_controlled":"1","OA_type":"diamond"},{"publisher":"Royal Society of London","intvolume":"       293","month":"01","OA_place":"publisher","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"article_processing_charge":"Yes (via OA deal)","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"Bio"}],"citation":{"ieee":"C. de Castro Barbosa Rodrigues Barata and B. Vicoso, “Single-nucleus resolution of sex-biased expression and dosage compensation in Drosophila melanogaster,” <i>Proceedings of the Royal Society B Biological Sciences</i>, vol. 293, no. 2063. Royal Society of London, 2026.","chicago":"Castro Barbosa Rodrigues Barata, Carolina de, and Beatriz Vicoso. “Single-Nucleus Resolution of Sex-Biased Expression and Dosage Compensation in Drosophila Melanogaster.” <i>Proceedings of the Royal Society B Biological Sciences</i>. Royal Society of London, 2026. <a href=\"https://doi.org/10.1098/rspb.2025.2471\">https://doi.org/10.1098/rspb.2025.2471</a>.","ama":"de Castro Barbosa Rodrigues Barata C, Vicoso B. Single-nucleus resolution of sex-biased expression and dosage compensation in Drosophila melanogaster. <i>Proceedings of the Royal Society B Biological Sciences</i>. 2026;293(2063). doi:<a href=\"https://doi.org/10.1098/rspb.2025.2471\">10.1098/rspb.2025.2471</a>","ista":"de Castro Barbosa Rodrigues Barata C, Vicoso B. 2026. Single-nucleus resolution of sex-biased expression and dosage compensation in Drosophila melanogaster. Proceedings of the Royal Society B Biological Sciences. 293(2063), 20252471.","short":"C. de Castro Barbosa Rodrigues Barata, B. Vicoso, Proceedings of the Royal Society B Biological Sciences 293 (2026).","apa":"de Castro Barbosa Rodrigues Barata, C., &#38; Vicoso, B. (2026). Single-nucleus resolution of sex-biased expression and dosage compensation in Drosophila melanogaster. <i>Proceedings of the Royal Society B Biological Sciences</i>. Royal Society of London. <a href=\"https://doi.org/10.1098/rspb.2025.2471\">https://doi.org/10.1098/rspb.2025.2471</a>","mla":"de Castro Barbosa Rodrigues Barata, Carolina, and Beatriz Vicoso. “Single-Nucleus Resolution of Sex-Biased Expression and Dosage Compensation in Drosophila Melanogaster.” <i>Proceedings of the Royal Society B Biological Sciences</i>, vol. 293, no. 2063, 20252471, Royal Society of London, 2026, doi:<a href=\"https://doi.org/10.1098/rspb.2025.2471\">10.1098/rspb.2025.2471</a>."},"has_accepted_license":"1","volume":293,"quality_controlled":"1","OA_type":"hybrid","department":[{"_id":"BeVi"}],"file_date_updated":"2026-02-16T09:26:02Z","ddc":["570"],"scopus_import":"1","corr_author":"1","_id":"21161","status":"public","date_updated":"2026-02-16T09:27:33Z","oa":1,"abstract":[{"lang":"eng","text":"In many species, sex-biased expression is widespread and thought to contribute to sexual dimorphism. While bulk RNA-sequencing has been instrumental in identifying strongly sex-biased genes, it lacks resolution to assess variation across cell-types and tissue compartments. Using single-nucleus expression data from the Fly Cell Atlas, we investigate sex differences in adult Drosophila melanogaster. We find that differences in cell-type composition between the sexes are not a major source of sex-bias, as for the vast majority of genes, the degree of sex-bias is similar regardless of whether sex differences in cell-type composition are controlled for or not. Our analysis confirms a deficit of X-linked male-biased genes in the body’s somatic tissues that is widespread across cell-types. We also find the excess of X-linked female-biased genes to be associated with nervous system cells in the head but with epithelial cells in the body’s somatic tissues, showing that single-nucleus data crucially resolves sex-bias at the cell-type level. We investigate dosage compensation (DC) across 15 tissues and 17 cell-types. We observe that it varies throughout the body. Surprisingly, we observe a lack of DC in a cluster of main cells within the male accessory glands. This result highlights the importance of understanding context-dependent DC."}],"date_published":"2026-01-28T00:00:00Z","file":[{"checksum":"d76afebca0a6f112df0146ae2d929f36","file_id":"21226","file_name":"2026_RoyalSocPubProceedingsB_Barata.pdf","access_level":"open_access","relation":"main_file","creator":"dernst","date_updated":"2026-02-16T09:26:02Z","date_created":"2026-02-16T09:26:02Z","content_type":"application/pdf","success":1,"file_size":2230841}],"external_id":{"pmid":["41592777"]},"publication":"Proceedings of the Royal Society B Biological Sciences","PlanS_conform":"1","day":"28","author":[{"first_name":"Carolina","id":"20565186-803f-11ed-ab7e-96a4ff7694ef","full_name":"De Castro Barbosa Rodrigues Barata, Carolina","last_name":"De Castro Barbosa Rodrigues Barata","orcid":"0000-0003-1945-2245"},{"last_name":"Vicoso","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","first_name":"Beatriz","orcid":"0000-0002-4579-8306"}],"issue":"2063","oa_version":"Published Version","pmid":1,"language":[{"iso":"eng"}],"type":"journal_article","title":"Single-nucleus resolution of sex-biased expression and dosage compensation in Drosophila melanogaster","project":[{"_id":"90ef7108-16d5-11f0-9cad-e6e116913473","grant_number":"ESP 6331524","name":"Does genetic drift set a limit on the adaptive evolution of sex-biased expression?"}],"article_type":"original","publication_status":"published","publication_identifier":{"eissn":["1471-2954"]},"year":"2026","article_number":"20252471","acknowledgement":"This work was partly funded by an Austrian Science Foundation FWF ESPRIT fellowship (10.55776/ESP6331524) to C.B. We would like to thank the Vicoso group for their invaluable input and discussions throughout this work. We thank Filip Ruzicka for his insightful comments on the manuscript. All computational resources were provided by the Scientific Computing Unit at ISTA. This research was also supported through resources provided by the Imaging & Optics Facility (IOF) at ISTA.","doi":"10.1098/rspb.2025.2471","date_created":"2026-02-08T23:02:49Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"date_updated":"2026-05-11T06:35:59Z","oa":1,"related_material":{"link":[{"url":"https://arxiv.org/pdf/2506.08984","relation":"preprint"}],"record":[{"id":"21845","status":"public","relation":"used_in_publication"}]},"file_date_updated":"2026-02-19T07:39:07Z","department":[{"_id":"KiMo"}],"ddc":["530"],"corr_author":"1","_id":"21174","contributor":[{"first_name":"Valeska","id":"467ed36b-dc96-11ea-b7c8-b043a380b282","contributor_type":"project_member","last_name":"Zambra","orcid":"0000-0002-8806-5719"}],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"acknowledged_ssus":[{"_id":"NanoFab"}],"article_processing_charge":"Yes","citation":{"mla":"Modic, Kimberly A. <i>Research Data for “Giant Transverse Magnetic Fluctuations at the Edge of Re-Entrant Superconductivity in UTe2.”</i> Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21174\">10.15479/AT-ISTA-21174</a>.","apa":"Modic, K. A. (2026). Research data for “Giant transverse magnetic fluctuations at the edge of re-entrant superconductivity in UTe2.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-21174\">https://doi.org/10.15479/AT-ISTA-21174</a>","ista":"Modic KA. 2026. Research data for ‘Giant transverse magnetic fluctuations at the edge of re-entrant superconductivity in UTe2’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT-ISTA-21174\">10.15479/AT-ISTA-21174</a>.","short":"K.A. Modic, (2026).","ama":"Modic KA. Research data for “Giant transverse magnetic fluctuations at the edge of re-entrant superconductivity in UTe2.” 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21174\">10.15479/AT-ISTA-21174</a>","chicago":"Modic, Kimberly A. “Research Data for ‘Giant Transverse Magnetic Fluctuations at the Edge of Re-Entrant Superconductivity in UTe2.’” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-21174\">https://doi.org/10.15479/AT-ISTA-21174</a>.","ieee":"K. A. Modic, “Research data for ‘Giant transverse magnetic fluctuations at the edge of re-entrant superconductivity in UTe2.’” Institute of Science and Technology Austria, 2026."},"has_accepted_license":"1","OA_type":"free access","publisher":"Institute of Science and Technology Austria","month":"02","OA_place":"repository","year":"2026","doi":"10.15479/AT-ISTA-21174","acknowledgement":"Thanks to Salvatore Bagiante, Evgeniia Volobueva, Lubuna Shafeek, Ali Bangura and Zoltan Kollo.","keyword":["transverse magnetic susceptibility","magnetotropic","superconductivity","magnetic fluctuations"],"date_created":"2026-02-09T12:04:20Z","user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","title":"Research data for \"Giant transverse magnetic fluctuations at the edge of re-entrant superconductivity in UTe2\"","type":"research_data","project":[{"_id":"bd968c70-d553-11ed-ba76-cde40b0aba64","name":"Gaining leverage with spin liquids and superconductors","grant_number":"101078696"}],"day":"19","author":[{"first_name":"Kimberly A","id":"13C26AC0-EB69-11E9-87C6-5F3BE6697425","full_name":"Modic, Kimberly A","last_name":"Modic","orcid":"0000-0001-9760-3147"}],"oa_version":"Published Version","abstract":[{"lang":"eng","text":"UTe2 exhibits the remarkable phenomenon of re-entrant superconductivity, whereby the zero-resistance state reappears above 40 tesla after being suppressed with a field of around 10 tesla. One potential pairing mechanism, invoked in the related re-entrant superconductors UCoGe and URhGe, involves transverse fluctuations of a ferromagnetic order parameter. However, the requisite ferromagnetic order - present in both UCoGe and URhGe - is absent in UTe2, and magnetization measurements show no sign of strong fluctuations. Here, we measure the magnetotropic susceptibility of UTe2 across two field-angle planes. This quantity is sensitive to the magnetic susceptibility in a direction transverse to the applied magnetic field - a quantity that is not accessed in conventional magnetization measurements. We observe a very large decrease in the magnetotropic susceptibility over a broad range of field orientations, indicating a large increase in the transverse magnetic susceptibility. The three superconducting phases of UTe2, including the high-field re-entrant phase, surround this region of enhanced susceptibility in the field-angle phase diagram. The strongest transverse susceptibility is found near the critical end point of the high-field metamagnetic transition, suggesting that quantum critical fluctuations of a field-induced magnetic order parameter may be responsible for the large transverse susceptibility, and may provide a pairing mechanism for field-induced superconductivity in UTe2."}],"file":[{"file_size":1347,"date_created":"2026-02-19T07:38:15Z","content_type":"text/plain","success":1,"date_updated":"2026-02-19T07:38:15Z","creator":"kmodic","access_level":"open_access","relation":"main_file","file_id":"21332","file_name":"README.txt","checksum":"53157d908fba663275c2b8dc6ee84fdb"},{"file_id":"21333","file_name":"processed_data_bc_plane_Fig2d.zip","access_level":"open_access","relation":"main_file","checksum":"b2c8ca5620ee9c181a42082068d3d73c","date_created":"2026-02-19T07:39:03Z","content_type":"application/zip","success":1,"file_size":534853,"creator":"kmodic","date_updated":"2026-02-19T07:39:03Z"},{"file_id":"21334","file_name":"processed_data_ac_plane_Fig2c.zip","relation":"main_file","access_level":"open_access","checksum":"976bf113da4b1133313f0b292e71289f","content_type":"application/zip","date_created":"2026-02-19T07:39:07Z","success":1,"file_size":427144,"creator":"kmodic","date_updated":"2026-02-19T07:39:07Z"}],"date_published":"2026-02-19T00:00:00Z"},{"OA_place":"publisher","month":"02","supervisor":[{"orcid":"0000-0001-8622-7887","first_name":"Christoph","id":"40C20FD2-F248-11E8-B48F-1D18A9856A87","full_name":"Lampert, Christoph","last_name":"Lampert"}],"publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","citation":{"ieee":"J. A. Scott, “Data heterogeneity and personalization in federated learning,” Institute of Science and Technology Austria, 2026.","chicago":"Scott, Jonathan A. “Data Heterogeneity and Personalization in Federated Learning.” Institute of Science and Technology Austria, 2026. <a href=\"https://doi.org/10.15479/AT-ISTA-21198\">https://doi.org/10.15479/AT-ISTA-21198</a>.","ama":"Scott JA. Data heterogeneity and personalization in federated learning. 2026. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21198\">10.15479/AT-ISTA-21198</a>","ista":"Scott JA. 2026. Data heterogeneity and personalization in federated learning. Institute of Science and Technology Austria.","short":"J.A. Scott, Data Heterogeneity and Personalization in Federated Learning, Institute of Science and Technology Austria, 2026.","mla":"Scott, Jonathan A. <i>Data Heterogeneity and Personalization in Federated Learning</i>. Institute of Science and Technology Austria, 2026, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-21198\">10.15479/AT-ISTA-21198</a>.","apa":"Scott, J. A. (2026). <i>Data heterogeneity and personalization in federated learning</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-21198\">https://doi.org/10.15479/AT-ISTA-21198</a>"},"page":"158","acknowledged_ssus":[{"_id":"ScienComp"}],"article_processing_charge":"No","status":"public","corr_author":"1","_id":"21198","degree_awarded":"PhD","ddc":["005"],"file_date_updated":"2026-02-27T10:25:41Z","department":[{"_id":"GradSch"},{"_id":"ChLa"}],"related_material":{"record":[{"id":"20819","status":"public","relation":"part_of_dissertation"},{"id":"17411","status":"public","relation":"part_of_dissertation"},{"status":"public","relation":"part_of_dissertation","id":"18120"},{"relation":"part_of_dissertation","status":"public","id":"21207"}]},"oa":1,"date_updated":"2026-04-07T11:46:11Z","file":[{"file_name":"2026_Scott_Jonathan_Thesis_Source.zip","file_id":"21298","access_level":"closed","relation":"source_file","checksum":"121c1d968bd86f3630aa7e81d5bbbcb0","date_created":"2026-02-17T11:46:22Z","content_type":"application/zip","file_size":272379252,"creator":"jscott","date_updated":"2026-02-17T11:46:22Z"},{"checksum":"6e3e08ba474bbee8511cc8a839ab2077","file_name":"2026_Jonathan_Scott_Thesis.pdf","file_id":"21366","relation":"main_file","access_level":"open_access","creator":"jscott","date_updated":"2026-02-27T10:25:41Z","success":1,"date_created":"2026-02-27T10:25:41Z","content_type":"application/pdf","file_size":15220298}],"date_published":"2026-02-09T00:00:00Z","abstract":[{"text":"In recent years there has been a massive increase in the amount of data generated in a\r\ndecentralized manner. Ever more powerful edge devices, such as smartphones, have become\r\nubiquitous in most societies on earth. Through text typed, photos taken and apps used,\r\nthese devices, which we refer to as clients, generate enormous amounts of high quality and\r\ncomplex data. Moreover, the nature of these devices means the data they generate is often\r\nsensitive and privacy concerns prevent it being gathered and stored in a central location. This\r\npresents a challenge to the modern machine learning paradigm that requires central access\r\nto large amounts of data. Federated learning (FL) has emerged as one of the answers to\r\nthis problem. Rather than bringing the data to the model, FL sends the model to the data.\r\nModel training takes place on device, with periodically synchronized updates, allowing data to\r\nremain locally stored. While this approach offers significant privacy advantages it comes with\r\nits own set of unique challenges. These include: data heterogeneity, the notion that different\r\ndevices generate data in distinct ways which can negatively impact training dynamics; systems\r\nheterogeneity, meaning that different devices may have differing hardware specifications; high\r\ncommunication costs, which are induced by the repeated transferring of models over the\r\nnetwork and low device computational power, which limits the use of larger models on device.\r\nIn this thesis we present a range of methods for federated learning. We focus primarily on\r\nthe challenge of data heterogeneity, though the methods presented are designed to be well\r\nadapted to the other challenges of a federated setting, such as the constraints of limited\r\ncompute and communication overhead. We first present a method for explicitly modeling client\r\ndata heterogeneity. The approach formulates clients as samples from a certain probability\r\ndistribution and infers the parameters of this distribution from the available training clients.\r\nThis learned distribution then represents the heterogeneity present among the clients and can\r\nbe sampled from in order to create new simulated clients that are similar to the real clients we\r\nhave observed so far. Following this we present two methods for directly dealing with data\r\nheterogeneity through personalization. Highly heterogeneous client data distributions can mean\r\nthat learning a single global model becomes suboptimal, and some form of personalization of\r\nmodels to each individual client is required. Our approaches are based around hypernetworks,\r\nwhich we use to generate personalized model parameters without the need for additional\r\ntraining or finetuning. In the first approach we focus on generating full parameterizations of\r\nclient models using learned embeddings of client data and labels, with a hypernetwork located\r\non the central server. In the second approach we address the more challenging scenario where\r\nwe want to generate a personalized model for a client without any label information. The\r\nhypernetwork is trained to generate a low dimensional representation of a client’s personalized\r\nmodel parameters, allowing it to be transferred to and run on the client devices. In our final\r\npresented method, we change our focus and rather than aim to directly address the challenge\r\nof data heterogeneity, we instead ensure we are unaffected by it. This is done in the context\r\nof k-means clustering and we present a method for federated clustering with a focus on added\r\nprivacy guarantees.","lang":"eng"}],"oa_version":"Published Version","author":[{"id":"e499926b-f6e0-11ea-865d-9c63db0031e8","first_name":"Jonathan A","last_name":"Scott","full_name":"Scott, Jonathan A"}],"day":"09","publication_status":"published","title":"Data heterogeneity and personalization in federated learning","type":"dissertation","language":[{"iso":"eng"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_created":"2026-02-09T14:59:53Z","alternative_title":["ISTA Thesis"],"acknowledgement":"This research was funded in part by the Austrian Science Fund (FWF)\r\n[10.55776/COE12]. Furthermore, the candidate acknowledges the support from the Scientific\r\nService Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp).","doi":"10.15479/AT-ISTA-21198","publication_identifier":{"issn":["2663-337X"]},"year":"2026"},{"citation":{"ista":"Jiang Y, Ahn R, Huang A, Gonzalez PP, Kim J, Zhang G, Liu Z, He Z, Dudley L, Patel KS, Dzhivhuho GA, Crowl S, Przanowski P, Camacho LQ, Hao S, Zeng J, Hippenmeyer S, Fallahi-Sichani M, Janes KA, Naegle KM, Hammarskjold M-L, Goldman SA, Kornblum HI, Yao M, White F, Zong H. 2026. Critical role of cell competition in gliomagenesis. bioRxiv, <a href=\"https://doi.org/10.64898/2026.01.15.699808\">10.64898/2026.01.15.699808</a>.","short":"Y. Jiang, R. Ahn, A. Huang, P.P. Gonzalez, J. Kim, G. Zhang, Z. Liu, Z. He, L. Dudley, K.S. Patel, G.A. Dzhivhuho, S. Crowl, P. Przanowski, L.Q. Camacho, S. Hao, J. Zeng, S. Hippenmeyer, M. Fallahi-Sichani, K.A. Janes, K.M. Naegle, M.-L. Hammarskjold, S.A. Goldman, H.I. Kornblum, M. Yao, F. White, H. Zong, BioRxiv (2026).","mla":"Jiang, Ying, et al. “Critical Role of Cell Competition in Gliomagenesis.” <i>BioRxiv</i>, 2026, doi:<a href=\"https://doi.org/10.64898/2026.01.15.699808\">10.64898/2026.01.15.699808</a>.","apa":"Jiang, Y., Ahn, R., Huang, A., Gonzalez, P. P., Kim, J., Zhang, G., … Zong, H. (2026). Critical role of cell competition in gliomagenesis. <i>bioRxiv</i>. <a href=\"https://doi.org/10.64898/2026.01.15.699808\">https://doi.org/10.64898/2026.01.15.699808</a>","ieee":"Y. Jiang <i>et al.</i>, “Critical role of cell competition in gliomagenesis,” <i>bioRxiv</i>. 2026.","ama":"Jiang Y, Ahn R, Huang A, et al. Critical role of cell competition in gliomagenesis. <i>bioRxiv</i>. 2026. doi:<a href=\"https://doi.org/10.64898/2026.01.15.699808\">10.64898/2026.01.15.699808</a>","chicago":"Jiang, Ying, Ryuhjin Ahn, Arthur Huang, Phillippe P. Gonzalez, Jungeun Kim, Guoxin Zhang, Zihao Liu, et al. “Critical Role of Cell Competition in Gliomagenesis.” <i>BioRxiv</i>, 2026. <a href=\"https://doi.org/10.64898/2026.01.15.699808\">https://doi.org/10.64898/2026.01.15.699808</a>."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.64898/2026.01.15.699808"}],"has_accepted_license":"1","oa_version":"Preprint","OA_type":"green","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)"},"article_processing_charge":"No","day":"16","author":[{"full_name":"Jiang, Ying","last_name":"Jiang","first_name":"Ying"},{"first_name":"Ryuhjin","last_name":"Ahn","full_name":"Ahn, Ryuhjin"},{"first_name":"Arthur","last_name":"Huang","full_name":"Huang, Arthur"},{"last_name":"Gonzalez","full_name":"Gonzalez, Phillippe P.","first_name":"Phillippe P."},{"first_name":"Jungeun","last_name":"Kim","full_name":"Kim, Jungeun"},{"first_name":"Guoxin","last_name":"Zhang","full_name":"Zhang, Guoxin"},{"full_name":"Liu, Zihao","last_name":"Liu","first_name":"Zihao"},{"first_name":"Zhenqiang","last_name":"He","full_name":"He, Zhenqiang"},{"full_name":"Dudley, Lindsey","last_name":"Dudley","first_name":"Lindsey"},{"first_name":"Kunal S.","last_name":"Patel","full_name":"Patel, Kunal S."},{"full_name":"Dzhivhuho, Godfrey A.","last_name":"Dzhivhuho","first_name":"Godfrey A."},{"last_name":"Crowl","full_name":"Crowl, Sam","first_name":"Sam"},{"full_name":"Przanowski, Piotr","last_name":"Przanowski","first_name":"Piotr"},{"first_name":"Luisa Quesada","last_name":"Camacho","full_name":"Camacho, Luisa Quesada"},{"first_name":"Sijie","last_name":"Hao","full_name":"Hao, Sijie"},{"full_name":"Zeng, Jianhao","last_name":"Zeng","first_name":"Jianhao"},{"orcid":"0000-0003-2279-1061","full_name":"Hippenmeyer, Simon","last_name":"Hippenmeyer","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Mohammad","full_name":"Fallahi-Sichani, Mohammad","last_name":"Fallahi-Sichani"},{"first_name":"Kevin A.","full_name":"Janes, Kevin A.","last_name":"Janes"},{"first_name":"Kristen M.","full_name":"Naegle, Kristen M.","last_name":"Naegle"},{"first_name":"Marie-Louise","last_name":"Hammarskjold","full_name":"Hammarskjold, Marie-Louise"},{"last_name":"Goldman","full_name":"Goldman, Steven A.","first_name":"Steven A."},{"last_name":"Kornblum","full_name":"Kornblum, Harley I.","first_name":"Harley I."},{"last_name":"Yao","full_name":"Yao, Maojin","first_name":"Maojin"},{"full_name":"White, Forest","last_name":"White","first_name":"Forest"},{"first_name":"Hui","full_name":"Zong, Hui","last_name":"Zong"}],"date_published":"2026-01-16T00:00:00Z","publication":"bioRxiv","month":"01","OA_place":"repository","abstract":[{"text":"Malignant glioma is incurable. Using a mouse genetic mosaic system to generate sporadic Trp53,Nf1-null OPCs, we previously identified oligodendrocyte precursor cell (OPC) as a cell-of-origin of glioma. Here, we report that pre-malignant Trp53,Nf1-null OPCs outcompete wildtype counterparts during their expansion. Blocking competition by mutating/strengthening wildtype OPCs impeded both pre-malignant progression and malignant expansion of glioma.\r\n\r\n“In-tissue” phosphoproteomic profiling revealed an enrichment of phosphopeptides related to RNA splicing and protein translation at the peak of cell competition, suggesting that competitiveness may stem from unique protein species. Among candidates was mTORC1, whose pharmacological inhibition or genetic disruption resulted in a loss of competitiveness in our mouse model. Finally, analysis of patient biopsies and interrogating the role of individual gliomagenic mutations in OPC competition supported its relevance in human gliomas. Together, these findings identified the driving role of competitive interactions among OPCs in gliomagenesis, and suggest unconventional therapeutic strategies to target this process.","lang":"eng"}],"oa":1,"date_created":"2026-02-10T12:55:55Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2026","acknowledgement":"We thank Dr. Wenjie Liu for providing critical feedback on the manuscript. We also thank Dr.\r\nPat Pramoonjago at the Biorepository and Tissue Research Facility, and Hope Davis at the\r\nvivarium for their assistance on the project. These Core Facilities are supported by UVA Cancer\r\nCenter grant #P30-CA044579. We are grateful to Dr. Jonathan A. Epstein for providing the\r\nNf1GRD/+ mouse strain (https://pubmed.ncbi.nlm.nih.gov/26460546/). This work was partly\r\nsupported by the National Institute of Neurological Diseases and Stroke R21 NS125479-01A1\r\n(H.Z.), American Cancer Society Institutional Research Grant to the University of Virginia\r\n(Y.J.), the National Natural Science Foundation of China #82072787 (M.Y.), the National\r\nCancer Institute U54 CA238114 (F.W.), U01 CA284193 (K.M.N.), and U54 CA274499 (K.A.J.,\r\nM.F-S.), the National institute of General Medical Sciences R35 GM133404 (M.F-S.), the Dr.\r\nMiriam and Sheldon G. Adelson Medical Research Foundation (H.I.K., S.A.G.), the National\r\nCenter for Advancing Translational Sciences KL2TR001882 (K.S.P.), Tower Cancer Career Development Grant (K.S.P.), McKnight Neurobiology of Brain Disorders Grant (K.S.P.). The\r\ncontent is solely the responsibility of the authors and does not necessarily represent the official\r\nviews of the National Institutes of Health. Illustrations in this manuscript were created with\r\nBioRender (BioRender.com).","doi":"10.64898/2026.01.15.699808","date_updated":"2026-02-16T10:12:42Z","_id":"21212","publication_status":"published","status":"public","department":[{"_id":"SiHi"}],"ddc":["570"],"language":[{"iso":"eng"}],"type":"preprint","title":"Critical role of cell competition in gliomagenesis"},{"day":"12","author":[{"orcid":"0000-0002-1988-5035","first_name":"Alejandro","id":"92081129-2d75-11ef-a48d-b04dd7a2385a","full_name":"Casallas Garcia, Alejandro","last_name":"Casallas Garcia"},{"first_name":"Adrian","full_name":"Mark Tompkins, Adrian","last_name":"Mark Tompkins"},{"id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","first_name":"Caroline J","last_name":"Muller","full_name":"Muller, Caroline J","orcid":"0000-0001-5836-5350"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1002/qj.70131"}],"oa_version":"Published Version","abstract":[{"lang":"eng","text":"This study investigates the mechanisms driving clustered convection and the breakdown of the Intertropical Convergence Zone (ITCZ) over the Western Pacific Warm Pool using high‐resolution cloud‐resolving simulations and machine‐learning sensitivity experiments. Results show that ITCZ breakdown episodes, marked by spatially homogeneous convection and weakened meridional moisture gradients, are triggered primarily by anomalous moisture advection linked to the equatorial Rossby‐wave activity. While large‐scale moisture advection regulates the background convective state strongly, it is the surface and low‐level meridional winds that dominate transitions between clustered and random convection. Simulations demonstrate that moisture alone can sustain convective clustering, but breakdown episodes are more persistent and widespread when coupled with southerly meridional advection. These findings confirm that wave‐driven advection acts as a regulatory mechanism, periodically disrupting convective clustering and reshaping the meridional moisture gradient. This modulation of organization by wave‐induced breakdown events is critical for understanding tropical convection variability and its implications for the climate system."}],"date_published":"2026-02-12T00:00:00Z","publication":"Quarterly Journal of the Royal Meteorological Society","publication_identifier":{"issn":["0035-9009"],"eissn":["1477-870X"]},"article_number":"e70131","year":"2026","acknowledgement":"This article is based on chapter 5 of the PhD thesis of A. Casallas. The authors thank Graziano Giuliani for discussions on the boundary-condition experiments. A. Casallas was supported by a PhD fellowship awarded by the Abdus Salam International Centre for Theoretical Physics. A. Casallas also acknowledges support by the European Union's Horizon 2020 research and innovation program under the Marie Skłodowska-Curie grant agreement No 101034413. C. Muller 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). The authors gratefully acknowledge Daniel Hernández-Deckers, Lokahith Agasthya, Chris Holloway, and Paolina Cerlini for their valuable feedback and insightful discussions. They are especially thankful to Bety Pechacova for suggesting the use of SHAP to complement their analysis. They also thank the two anonymous reviewers for their constructive comments, which improved the quality and clarity of the article significantly. Open Access funding provided by Institute of Science and Technology Austria/KEMÖ.","doi":"10.1002/qj.70131","date_created":"2026-02-12T10:13:02Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"title":"Moisture and wind effects of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events","type":"journal_article","project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020"},{"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","_id":"629205d8-2b32-11ec-9570-e1356ff73576"}],"article_type":"original","publication_status":"epub_ahead","tmp":{"image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"article_processing_charge":"Yes (via OA deal)","ec_funded":1,"citation":{"chicago":"Casallas Garcia, Alejandro, Adrian Mark Tompkins, and Caroline J Muller. “Moisture and Wind Effects of Rossby Waves on Western Pacific Intertropical Convergence Zone Breakdown Events.” <i>Quarterly Journal of the Royal Meteorological Society</i>. Wiley, 2026. <a href=\"https://doi.org/10.1002/qj.70131\">https://doi.org/10.1002/qj.70131</a>.","ama":"Casallas Garcia A, Mark Tompkins A, Muller CJ. Moisture and wind effects of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events. <i>Quarterly Journal of the Royal Meteorological Society</i>. 2026. doi:<a href=\"https://doi.org/10.1002/qj.70131\">10.1002/qj.70131</a>","ieee":"A. Casallas Garcia, A. Mark Tompkins, and C. J. Muller, “Moisture and wind effects of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events,” <i>Quarterly Journal of the Royal Meteorological Society</i>. Wiley, 2026.","apa":"Casallas Garcia, A., Mark Tompkins, A., &#38; Muller, C. J. (2026). Moisture and wind effects of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events. <i>Quarterly Journal of the Royal Meteorological Society</i>. Wiley. <a href=\"https://doi.org/10.1002/qj.70131\">https://doi.org/10.1002/qj.70131</a>","mla":"Casallas Garcia, Alejandro, et al. “Moisture and Wind Effects of Rossby Waves on Western Pacific Intertropical Convergence Zone Breakdown Events.” <i>Quarterly Journal of the Royal Meteorological Society</i>, e70131, Wiley, 2026, doi:<a href=\"https://doi.org/10.1002/qj.70131\">10.1002/qj.70131</a>.","short":"A. Casallas Garcia, A. Mark Tompkins, C.J. Muller, Quarterly Journal of the Royal Meteorological Society (2026).","ista":"Casallas Garcia A, Mark Tompkins A, Muller CJ. 2026. Moisture and wind effects of Rossby waves on Western Pacific Intertropical Convergence Zone breakdown events. Quarterly Journal of the Royal Meteorological Society., e70131."},"has_accepted_license":"1","quality_controlled":"1","OA_type":"hybrid","publisher":"Wiley","month":"02","OA_place":"publisher","date_updated":"2026-02-16T10:19:52Z","oa":1,"department":[{"_id":"CaMu"}],"ddc":["550"],"scopus_import":"1","corr_author":"1","_id":"21217","status":"public"},{"publication_status":"published","language":[{"iso":"eng"}],"type":"book_chapter","title":"Asteroseismology","date_created":"2026-02-16T10:43:01Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","editor":[{"first_name":"Ilya","full_name":"Mandel, Ilya","last_name":"Mandel"}],"publication_identifier":{"isbn":["9780443214400"]},"year":"2026","doi":"10.1016/b978-0-443-21439-4.00036-5","external_id":{"arxiv":["2410.01715"]},"date_published":"2026-01-01T00:00:00Z","publication":"Encyclopedia of Astrophysics","abstract":[{"text":"Asteroseismology is the study of the interior physics and structure of stars using their pulsations. It is applicable to stars across the Hertzsprung–Russell (HR) diagram and a powerful technique not only to measure masses, radii, and ages but also directly constrain interior rotation, chemical mixing, and magnetism. This is because a star's self-excited pulsation modes are sensitive to its structure. Asteroseismology generally requires long-duration and high-precision time-series data. The method of forward asteroseismic modeling, which is the statistical comparison of observed pulsation mode frequencies to theoretically predicted pulsation frequencies calculated from a grid of models, provides precise constraints for calibrating various transport phenomena. In this introduction to asteroseismology, we provide an overview of its principles, and the typical data sets and methodologies used to constrain stellar interiors. Finally, we present key highlights of asteroseismic results from across the HR diagram, and conclude with ongoing challenges and future prospects for this ever-expanding field within stellar astrophysics.","lang":"eng"}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2410.01715","open_access":"1"}],"oa_version":"Preprint","day":"01","author":[{"first_name":"Dominic M.","full_name":"Bowman, Dominic M.","last_name":"Bowman"},{"first_name":"Lisa Annabelle","id":"d9edb345-f866-11ec-9b37-d119b5234501","full_name":"Bugnet, Lisa Annabelle","last_name":"Bugnet","orcid":"0000-0003-0142-4000"}],"_id":"21230","status":"public","department":[{"_id":"LiBu"}],"scopus_import":"1","arxiv":1,"oa":1,"date_updated":"2026-02-17T11:05:20Z","OA_place":"repository","month":"01","publisher":"Elsevier","intvolume":"         2","citation":{"ieee":"D. M. Bowman and L. A. Bugnet, “Asteroseismology,” in <i>Encyclopedia of Astrophysics</i>, vol. 2, I. Mandel, Ed. Elsevier, 2026, pp. 133–153.","ama":"Bowman DM, Bugnet LA. Asteroseismology. In: Mandel I, ed. <i>Encyclopedia of Astrophysics</i>. Vol 2. Elsevier; 2026:133-153. doi:<a href=\"https://doi.org/10.1016/b978-0-443-21439-4.00036-5\">10.1016/b978-0-443-21439-4.00036-5</a>","chicago":"Bowman, Dominic M., and Lisa Annabelle Bugnet. “Asteroseismology.” In <i>Encyclopedia of Astrophysics</i>, edited by Ilya Mandel, 2:133–53. Elsevier, 2026. <a href=\"https://doi.org/10.1016/b978-0-443-21439-4.00036-5\">https://doi.org/10.1016/b978-0-443-21439-4.00036-5</a>.","short":"D.M. Bowman, L.A. Bugnet, in:, I. Mandel (Ed.), Encyclopedia of Astrophysics, Elsevier, 2026, pp. 133–153.","ista":"Bowman DM, Bugnet LA. 2026.Asteroseismology. In: Encyclopedia of Astrophysics. vol. 2, 133–153.","apa":"Bowman, D. M., &#38; Bugnet, L. A. (2026). Asteroseismology. In I. Mandel (Ed.), <i>Encyclopedia of Astrophysics</i> (Vol. 2, pp. 133–153). Elsevier. <a href=\"https://doi.org/10.1016/b978-0-443-21439-4.00036-5\">https://doi.org/10.1016/b978-0-443-21439-4.00036-5</a>","mla":"Bowman, Dominic M., and Lisa Annabelle Bugnet. “Asteroseismology.” <i>Encyclopedia of Astrophysics</i>, edited by Ilya Mandel, vol. 2, Elsevier, 2026, pp. 133–53, doi:<a href=\"https://doi.org/10.1016/b978-0-443-21439-4.00036-5\">10.1016/b978-0-443-21439-4.00036-5</a>."},"quality_controlled":"1","OA_type":"green","volume":2,"article_processing_charge":"No","page":"133-153"},{"publisher":"Springer Nature","intvolume":"        12","OA_place":"publisher","month":"02","article_processing_charge":"Yes (via OA deal)","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"has_accepted_license":"1","citation":{"ama":"Arruda J, Alamoudi E, Mueller R, et al. Simulation-based inference of cell migration dynamics in complex spatial environments. <i>npj Systems Biology and Applications</i>. 2026;12. doi:<a href=\"https://doi.org/10.1038/s41540-026-00648-9\">10.1038/s41540-026-00648-9</a>","chicago":"Arruda, Jonas, Emad Alamoudi, Robert Mueller, Marc Vaisband, Ronja Molkenbur, Jack Merrin, Eva Kiermaier, and Jan Hasenauer. “Simulation-Based Inference of Cell Migration Dynamics in Complex Spatial Environments.” <i>Npj Systems Biology and Applications</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1038/s41540-026-00648-9\">https://doi.org/10.1038/s41540-026-00648-9</a>.","ieee":"J. Arruda <i>et al.</i>, “Simulation-based inference of cell migration dynamics in complex spatial environments,” <i>npj Systems Biology and Applications</i>, vol. 12. Springer Nature, 2026.","apa":"Arruda, J., Alamoudi, E., Mueller, R., Vaisband, M., Molkenbur, R., Merrin, J., … Hasenauer, J. (2026). Simulation-based inference of cell migration dynamics in complex spatial environments. <i>Npj Systems Biology and Applications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41540-026-00648-9\">https://doi.org/10.1038/s41540-026-00648-9</a>","mla":"Arruda, Jonas, et al. “Simulation-Based Inference of Cell Migration Dynamics in Complex Spatial Environments.” <i>Npj Systems Biology and Applications</i>, vol. 12, 20, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1038/s41540-026-00648-9\">10.1038/s41540-026-00648-9</a>.","short":"J. Arruda, E. Alamoudi, R. Mueller, M. Vaisband, R. Molkenbur, J. Merrin, E. Kiermaier, J. Hasenauer, Npj Systems Biology and Applications 12 (2026).","ista":"Arruda J, Alamoudi E, Mueller R, Vaisband M, Molkenbur R, Merrin J, Kiermaier E, Hasenauer J. 2026. Simulation-based inference of cell migration dynamics in complex spatial environments. npj Systems Biology and Applications. 12, 20."},"volume":12,"quality_controlled":"1","OA_type":"gold","ddc":["570"],"file_date_updated":"2026-02-23T10:09:03Z","department":[{"_id":"NanoFab"}],"scopus_import":"1","_id":"21231","status":"public","date_updated":"2026-02-23T10:10:10Z","oa":1,"abstract":[{"text":"To assess cell migration in complex spatial environments, microfabricated chips, such as mazes and pillar forests, are routinely used to impose spatial and mechanical constraints, and cell trajectories are followed within these structures by advanced imaging techniques. In systems mechanobiology, computational models serve as essential tools to uncover how physical geometry influences intracellular dynamics; however, decoding such complex behaviors requires advanced inference techniques. Here, we integrated experimental observations of dendritic cell migration in a geometrically constrained microenvironment into a Cellular Potts model. We demonstrated that these spatial constraints modulate the motility dynamics, including speed and directional changes. We show that classical summary statistics, such as mean squared displacement and turning angle distributions, can resolve key mechanistic features but fail to extract richer spatiotemporal patterns, limiting accurate parameter inference. To solve this, we applied neural posterior estimation with in-the-loop learning of summary features. This learned summary representation of the data enables robust and flexible parameter inference, providing a data-driven framework for model calibration and advancing quantitative analysis of cell migration in structured microenvironments.","lang":"eng"}],"external_id":{"pmid":["41611727"]},"date_published":"2026-02-05T00:00:00Z","file":[{"date_updated":"2026-02-23T10:09:03Z","creator":"dernst","file_size":10217687,"success":1,"date_created":"2026-02-23T10:09:03Z","content_type":"application/pdf","checksum":"99b2e6bbaaedf45f22e07751948669f5","relation":"main_file","access_level":"open_access","file_name":"2026_npjSysBioApp_Arruda.pdf","file_id":"21346"}],"publication":"npj Systems Biology and Applications","PlanS_conform":"1","day":"05","author":[{"first_name":"Jonas","full_name":"Arruda, Jonas","last_name":"Arruda"},{"first_name":"Emad","last_name":"Alamoudi","full_name":"Alamoudi, Emad"},{"first_name":"Robert","full_name":"Mueller, Robert","last_name":"Mueller"},{"first_name":"Marc","last_name":"Vaisband","full_name":"Vaisband, Marc"},{"last_name":"Molkenbur","full_name":"Molkenbur, Ronja","first_name":"Ronja"},{"id":"4515C308-F248-11E8-B48F-1D18A9856A87","first_name":"Jack","last_name":"Merrin","full_name":"Merrin, Jack","orcid":"0000-0001-5145-4609"},{"full_name":"Kiermaier, Eva","last_name":"Kiermaier","first_name":"Eva"},{"first_name":"Jan","last_name":"Hasenauer","full_name":"Hasenauer, Jan"}],"oa_version":"Published Version","pmid":1,"language":[{"iso":"eng"}],"title":"Simulation-based inference of cell migration dynamics in complex spatial environments","type":"journal_article","article_type":"original","DOAJ_listed":"1","publication_status":"published","year":"2026","article_number":"20","publication_identifier":{"eissn":["2056-7189"]},"acknowledgement":"This work was supported by the German Federal Ministry of Education and Research (BMBF) (EMUNE/031L0293C), the European Union via the ERC grant INTEGRATE, grant agreement number 101126146, and under Germany’s Excellence Strategy by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) (EXC 2047—390685813, EXC 2151—390873048, FOR5775 — 533863915, and 524747443), the University of Bonn via the Schlegel Professorship of J.H., and the returning experts fellowship of the Ministry of Innovation, Science, and Research of North-Rhine-Westphalia (AZ: 421-8.03.03.02-137069). J.M. is a member of the Nanofabrication Facility and is supported by the Institute of Science and Technology Austria. E.K. acknowledges the TRA Life and Health (University of Bonn) as part of the Excellence Strategy of the federal and state governments. The authors thank Laeschkir Würthner for his insightful comments on the implementation of the authors’ model. The views and opinions expressed are those of the authors only and do not necessarily reflect those of the funding agencies. Parts of Fig. 1 were created using BioRender. Open Access funding enabled and organized by Projekt DEAL.","doi":"10.1038/s41540-026-00648-9","date_created":"2026-02-16T10:44:31Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"language":[{"iso":"eng"}],"title":"Towards stratified space learning: 2-complexes","type":"journal_article","article_type":"original","publication_status":"published","year":"2026","article_number":"17","publication_identifier":{"issn":["2730-9657"]},"acknowledgement":"The author would like to thank Kate Turner, Chris Williams, Jonathan Spreer, Stephan Tillmann, Vanessa Robins, Vigleik Angeltveit, Martin Helmer, and James Morgan for very helpful discussions; and thanks Sara Kališnik Hintz and Paul Bendich for comments on an earlier version. Additonally, the author would like to thank both reviewers for their very insightful and helpful comments, without which the paper would be infinitely less coherent than it currently is. Open access funding provided by Institute of Science and Technology (IST Austria). The work in this paper was supported by an Australian Federal Government Grant, 2019-2022, Stratified Space Learning.","doi":"10.1007/s44007-025-00183-9","date_created":"2026-02-16T10:44:44Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"<jats:title>Abstract</jats:title>\r\n                  <jats:p>In this paper, we consider a simple class of stratified spaces – 2-complexes. We present an algorithm that learns the abstract structure of an embedded 2-complex from a point cloud sampled from it. We use tools and inspiration from computational geometry, algebraic topology, and topological data analysis and prove the correctness of the identified abstract structure under assumptions on the embedding.</jats:p>","lang":"eng"}],"external_id":{"arxiv":["2305.02724"]},"date_published":"2026-02-08T00:00:00Z","file":[{"relation":"main_file","access_level":"open_access","file_name":"2026_LaMatematica_Bleile.pdf","file_id":"21347","checksum":"6cae2efb47b025af22a8539c606a4e09","file_size":15051582,"success":1,"date_created":"2026-02-23T10:18:52Z","content_type":"application/pdf","date_updated":"2026-02-23T10:18:52Z","creator":"dernst"}],"publication":"La Matematica","day":"08","PlanS_conform":"1","author":[{"first_name":"Yossi","id":"920a7385-7995-11ef-9bfd-8c434cd8f3c2","full_name":"Bleile, Yossi","last_name":"Bleile","orcid":"0000-0002-4861-9174"}],"oa_version":"Published Version","ddc":["510"],"department":[{"_id":"HeEd"}],"file_date_updated":"2026-02-23T10:18:52Z","scopus_import":"1","arxiv":1,"corr_author":"1","_id":"21232","status":"public","date_updated":"2026-06-11T11:51:14Z","oa":1,"publisher":"Springer Nature","intvolume":"         5","OA_place":"publisher","month":"02","article_processing_charge":"Yes (via OA deal)","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"has_accepted_license":"1","citation":{"ieee":"Y. Bokor Bleile, “Towards stratified space learning: 2-complexes,” <i>La Matematica</i>, vol. 5. Springer Nature, 2026.","chicago":"Bokor Bleile, Yossi. “Towards Stratified Space Learning: 2-Complexes.” <i>La Matematica</i>. Springer Nature, 2026. <a href=\"https://doi.org/10.1007/s44007-025-00183-9\">https://doi.org/10.1007/s44007-025-00183-9</a>.","ama":"Bokor Bleile Y. Towards stratified space learning: 2-complexes. <i>La Matematica</i>. 2026;5. doi:<a href=\"https://doi.org/10.1007/s44007-025-00183-9\">10.1007/s44007-025-00183-9</a>","short":"Y. Bokor Bleile, La Matematica 5 (2026).","ista":"Bokor Bleile Y. 2026. Towards stratified space learning: 2-complexes. La Matematica. 5, 17.","mla":"Bokor Bleile, Yossi. “Towards Stratified Space Learning: 2-Complexes.” <i>La Matematica</i>, vol. 5, 17, Springer Nature, 2026, doi:<a href=\"https://doi.org/10.1007/s44007-025-00183-9\">10.1007/s44007-025-00183-9</a>.","apa":"Bokor Bleile, Y. (2026). Towards stratified space learning: 2-complexes. <i>La Matematica</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s44007-025-00183-9\">https://doi.org/10.1007/s44007-025-00183-9</a>"},"quality_controlled":"1","OA_type":"hybrid","volume":5},{"oa":1,"date_updated":"2026-02-23T10:28:48Z","status":"public","_id":"21233","scopus_import":"1","department":[{"_id":"CaMu"}],"file_date_updated":"2026-02-23T10:26:29Z","ddc":["550"],"volume":17,"OA_type":"gold","quality_controlled":"1","citation":{"mla":"Yoon, Arim, et al. “Extreme Events in the Amazon after Deforestation.” <i>Earth System Dynamics</i>, vol. 17, no. 1, Copernicus GmbH, 2026, pp. 167–79, doi:<a href=\"https://doi.org/10.5194/esd-17-167-2026\">10.5194/esd-17-167-2026</a>.","apa":"Yoon, A., Hohenegger, C., Bao, J., &#38; Brunner, L. (2026). Extreme events in the Amazon after deforestation. <i>Earth System Dynamics</i>. Copernicus GmbH. <a href=\"https://doi.org/10.5194/esd-17-167-2026\">https://doi.org/10.5194/esd-17-167-2026</a>","ista":"Yoon A, Hohenegger C, Bao J, Brunner L. 2026. Extreme events in the Amazon after deforestation. Earth System Dynamics. 17(1), 167–179.","short":"A. Yoon, C. Hohenegger, J. Bao, L. Brunner, Earth System Dynamics 17 (2026) 167–179.","chicago":"Yoon, Arim, Cathy Hohenegger, Jiawei Bao, and Lukas Brunner. “Extreme Events in the Amazon after Deforestation.” <i>Earth System Dynamics</i>. Copernicus GmbH, 2026. <a href=\"https://doi.org/10.5194/esd-17-167-2026\">https://doi.org/10.5194/esd-17-167-2026</a>.","ama":"Yoon A, Hohenegger C, Bao J, Brunner L. Extreme events in the Amazon after deforestation. <i>Earth System Dynamics</i>. 2026;17(1):167-179. doi:<a href=\"https://doi.org/10.5194/esd-17-167-2026\">10.5194/esd-17-167-2026</a>","ieee":"A. Yoon, C. Hohenegger, J. Bao, and L. Brunner, “Extreme events in the Amazon after deforestation,” <i>Earth System Dynamics</i>, vol. 17, no. 1. Copernicus GmbH, pp. 167–179, 2026."},"has_accepted_license":"1","page":"167-179","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"article_processing_charge":"Yes (via OA deal)","month":"02","OA_place":"publisher","intvolume":"        17","publisher":"Copernicus GmbH","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-02-16T10:44:58Z","doi":"10.5194/esd-17-167-2026","acknowledgement":"AY acknowledges funding by the CLICCS centre of excellence subproject A3 funded by DFG. We thank the German Climate Computing Center DKRZ for providing computing resources and the Integrated Climate Data Center (ICDC), the Center for Earth System Research and Sustainability (CEN), University of Hamburg, for supporting the IMERG data. In addition, we would like to thank Jana Sillmann for suggesting the analysis of heat stress indices and Keno Riechers for providing a thorough internal review of the initial manuscript at the Max Planck Institute for Meteorology. Open Access funding is enabled and organized by Projekt DEAL. This research has been supported by the Deutsche Forschungsgemeinschaft (grant no. CLICCS 390683824 (A3)). The article processing charges for this open-access publication were covered by the Max Planck Society.","year":"2026","publication_identifier":{"eissn":["2190-4987"]},"publication_status":"published","DOAJ_listed":"1","article_type":"original","title":"Extreme events in the Amazon after deforestation","type":"journal_article","language":[{"iso":"eng"}],"oa_version":"Published Version","issue":"1","author":[{"last_name":"Yoon","full_name":"Yoon, Arim","first_name":"Arim"},{"first_name":"Cathy","last_name":"Hohenegger","full_name":"Hohenegger, Cathy"},{"first_name":"Jiawei","id":"bb9a7399-fefd-11ed-be3c-ae648fd1d160","full_name":"Bao, Jiawei","last_name":"Bao"},{"first_name":"Lukas","full_name":"Brunner, Lukas","last_name":"Brunner"}],"PlanS_conform":"1","day":"04","publication":"Earth System Dynamics","file":[{"success":1,"content_type":"application/pdf","date_created":"2026-02-23T10:26:29Z","file_size":2068229,"creator":"dernst","date_updated":"2026-02-23T10:26:29Z","file_name":"2026_EarthSystDynam_Yoon.pdf","file_id":"21348","relation":"main_file","access_level":"open_access","checksum":"6c3669c463731ad7c484b2990eb8ee0d"}],"date_published":"2026-02-04T00:00:00Z","abstract":[{"text":"Potential self-perpetuating dieback of the Amazon rain forest has been a topic of concern. The concern is that initial deforestation could critically impair the forest’s water recycling capacities, further harming the remaining forest through reduced annual precipitation. Many studies have focused on annual mean precipitation changes, due to its widespread perception as a central control on the Amazon rain forest’s stability. However, the impact of deforestation goes beyond changes in the annual mean precipitation. Yet, global coarse-resolution climate models are not well suited to investigate changes in short-duration and localized events due to their coarse resolution. Here, we circumvent these issues by analyzing a full-deforestation scenario simulated by a global storm-resolving model. We focus on changes in the tail of the hourly distribution of precipitation, temperature, and wind. Hourly precipitation becomes more extreme in the absence of the forest than in an intact forest, with an increased occurrence of both no rain and intense rainfall. These changes are driven by enhanced moisture convergence that strengthens vertical velocity. On average, the near-surface temperature rises significantly by about 3.84 °C, and the daily minimum temperature after deforestation becomes similar to the daily maximum temperature before deforestation. Except for wet-bulb temperature, human heat stress indicators shift to more severe levels, with implications for health and a significant reduction in work productivity. Finally, the mean 10 m wind speed intensifies by a factor of four, with the 99th percentile wind speed doubling. To summarize, our findings, while based on an idealized case, provide a stark warning of the effects of continuing deforestation of the Amazon.","lang":"eng"}]},{"OA_place":"publisher","month":"02","intvolume":"        17","publisher":"Elsevier","OA_type":"hybrid","quality_controlled":"1","volume":17,"has_accepted_license":"1","citation":{"apa":"Gómez-Pascual, A., Glikman, D. M., Ng, H. X., Tomkins, J. E., Lu, L., Xu, Y., … de Bakker, D. E. M. (2026). The Smarcal1-Usp37 locus modulates glycogen aggregation in astrocytes of the aged hippocampus. <i>Cell Systems</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cels.2025.101488\">https://doi.org/10.1016/j.cels.2025.101488</a>","mla":"Gómez-Pascual, Alicia, et al. “The Smarcal1-Usp37 Locus Modulates Glycogen Aggregation in Astrocytes of the Aged Hippocampus.” <i>Cell Systems</i>, vol. 17, no. 2, 101488, Elsevier, 2026, doi:<a href=\"https://doi.org/10.1016/j.cels.2025.101488\">10.1016/j.cels.2025.101488</a>.","ista":"Gómez-Pascual A, Glikman DM, Ng HX, Tomkins JE, Lu L, Xu Y, Ashbrook DG, Kaczorowski C, Kempermann G, Killmar J, Mozhui K, Ohlenschläger O, Aebersold R, Ingram DK, Williams EG, Jucker M, Overall RW, Williams RW, de Bakker DEM. 2026. The Smarcal1-Usp37 locus modulates glycogen aggregation in astrocytes of the aged hippocampus. Cell Systems. 17(2), 101488.","short":"A. Gómez-Pascual, D.M. Glikman, H.X. Ng, J.E. Tomkins, L. Lu, Y. Xu, D.G. Ashbrook, C. Kaczorowski, G. Kempermann, J. Killmar, K. Mozhui, O. Ohlenschläger, R. Aebersold, D.K. Ingram, E.G. Williams, M. Jucker, R.W. Overall, R.W. Williams, D.E.M. de Bakker, Cell Systems 17 (2026).","ama":"Gómez-Pascual A, Glikman DM, Ng HX, et al. The Smarcal1-Usp37 locus modulates glycogen aggregation in astrocytes of the aged hippocampus. <i>Cell Systems</i>. 2026;17(2). doi:<a href=\"https://doi.org/10.1016/j.cels.2025.101488\">10.1016/j.cels.2025.101488</a>","chicago":"Gómez-Pascual, Alicia, Dow M Glikman, Hui Xin Ng, James E. Tomkins, Lu Lu, Ying Xu, David G. Ashbrook, et al. “The Smarcal1-Usp37 Locus Modulates Glycogen Aggregation in Astrocytes of the Aged Hippocampus.” <i>Cell Systems</i>. Elsevier, 2026. <a href=\"https://doi.org/10.1016/j.cels.2025.101488\">https://doi.org/10.1016/j.cels.2025.101488</a>.","ieee":"A. Gómez-Pascual <i>et al.</i>, “The Smarcal1-Usp37 locus modulates glycogen aggregation in astrocytes of the aged hippocampus,” <i>Cell Systems</i>, vol. 17, no. 2. Elsevier, 2026."},"article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"status":"public","_id":"21234","scopus_import":"1","ddc":["570"],"file_date_updated":"2026-02-23T10:32:12Z","department":[{"_id":"GradSch"}],"oa":1,"date_updated":"2026-02-23T10:35:01Z","publication":"Cell Systems","date_published":"2026-02-18T00:00:00Z","external_id":{"pmid":["41633365"]},"file":[{"date_created":"2026-02-23T10:32:12Z","content_type":"application/pdf","success":1,"file_size":10606778,"creator":"dernst","date_updated":"2026-02-23T10:32:12Z","file_id":"21349","file_name":"2026_CellSystems_GomezPascual.pdf","relation":"main_file","access_level":"open_access","checksum":"920e8edfd3b8b42f5bb6f86d4c66c54d"}],"abstract":[{"text":"In aged humans and mice, hypobranched glycogen aggregates, known as polyglucosan bodies (PGBs), accumulate in hippocampal astrocytes. While PGBs are linked to cognitive decline in neurological diseases, they remain largely unstudied in the context of typical aging. We show that PGBs arise in autophagy-dysregulated astrocytes in the aged hippocampus, with substantial variation among 32 inbred BXD mouse strains. Genetic mapping through quantitative trait locus analysis identified a major locus (Pgb1) that modulates hippocampal PGB burden. Extensive transcriptomic and proteomic datasets were produced for the aged hippocampus of the BXD family to investigate the mechanism by which the Pgb1 locus modulates PGB burden. We identified that Pgb1 contains allelic Smarcal1 and Usp37 variants and influences PGB burden through trans-regulation of mRNA and protein expression levels, including abundance of glycogen-mobilizing factor PYGB. Furthermore, comprehensive phenome-wide association scans, transcriptomic analyses, and direct behavioral testing demonstrated that cognition remains intact despite age-related PGB burden. A record of this paper’s transparent peer review process is included in the supplemental information.","lang":"eng"}],"pmid":1,"oa_version":"Published Version","issue":"2","author":[{"first_name":"Alicia","last_name":"Gómez-Pascual","full_name":"Gómez-Pascual, Alicia"},{"id":"ab8acda1-91c1-11f0-aad8-f75d3d6424d8","first_name":"Dow M","last_name":"Glikman","full_name":"Glikman, Dow M"},{"first_name":"Hui Xin","full_name":"Ng, Hui Xin","last_name":"Ng"},{"last_name":"Tomkins","full_name":"Tomkins, James E.","first_name":"James E."},{"first_name":"Lu","full_name":"Lu, Lu","last_name":"Lu"},{"first_name":"Ying","last_name":"Xu","full_name":"Xu, Ying"},{"first_name":"David G.","last_name":"Ashbrook","full_name":"Ashbrook, David G."},{"last_name":"Kaczorowski","full_name":"Kaczorowski, Catherine","first_name":"Catherine"},{"first_name":"Gerd","last_name":"Kempermann","full_name":"Kempermann, Gerd"},{"first_name":"John","full_name":"Killmar, John","last_name":"Killmar"},{"full_name":"Mozhui, Khyobeni","last_name":"Mozhui","first_name":"Khyobeni"},{"full_name":"Ohlenschläger, Oliver","last_name":"Ohlenschläger","first_name":"Oliver"},{"full_name":"Aebersold, Rudolf","last_name":"Aebersold","first_name":"Rudolf"},{"last_name":"Ingram","full_name":"Ingram, Donald K.","first_name":"Donald K."},{"first_name":"Evan G.","last_name":"Williams","full_name":"Williams, Evan G."},{"last_name":"Jucker","full_name":"Jucker, Mathias","first_name":"Mathias"},{"full_name":"Overall, Rupert W.","last_name":"Overall","first_name":"Rupert W."},{"first_name":"Robert W.","last_name":"Williams","full_name":"Williams, Robert W."},{"last_name":"de Bakker","full_name":"de Bakker, Dennis E.M.","first_name":"Dennis E.M."}],"day":"18","PlanS_conform":"1","publication_status":"published","article_type":"original","title":"The Smarcal1-Usp37 locus modulates glycogen aggregation in astrocytes of the aged hippocampus","type":"journal_article","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_created":"2026-02-16T10:45:10Z","doi":"10.1016/j.cels.2025.101488","acknowledgement":"We would like to thank the Summer School Systems Genetics of Neural Ageing for bringing us together and spurring our international collaboration. We would also like to acknowledge the funding for the Summer School 2022 from the e:Med Systems Medicine Program of the BMBF (Bundesministerium für Bildung und Forschung; German Ministry of Education and Research) to R.W.O. In addition, we would like to thank the FLI imaging core facility for their assistance. A.G.-P. is supported by Fundación Séneca, Región de Murcia, Spain (21259/FPI/19). D.E.M.d.B. is financed by a Rubicon scholarship (452021116) from the Dutch Research Council (NWO). This work was also supported by NIH NIA R01AG070913-01 (R.W.W.), R01AG075813-01 (D.G.A.), and R01AG075818 (C.K.). We acknowledge the help of Larry Mobraaten (Jackson Laboratory, Bar Harbor, MN) with the BXD strains and U. Obermüller for the help with the histology. For the purpose of open access, the authors have applied a CC BY public copyright license to all author-accepted manuscripts arising from this submission.","year":"2026","publication_identifier":{"issn":["2405-4712"]},"article_number":"101488"}]