[{"date_published":"2025-11-03T00:00:00Z","OA_place":"publisher","publication":"Annual Review of Genetics","corr_author":"1","has_accepted_license":"1","ddc":["570"],"quality_controlled":"1","abstract":[{"text":"The adult human brain, under resting conditions, consumes approximately 20% of total body glucose, a demand that is even higher during the first decade of life. The brain metabolic landscape is intricately regulated throughout development, and each cell type exhibits distinct metabolic signatures at each specific stage. This picture becomes even more intricate when considering that metabolism is dynamically modulated to sustain critical biological processes, such as cell proliferation and differentiation and synaptic activity–dependent processes. The orchestration between metabolic regulation and the aforementioned physiological processes often relies on metabolism-dependent changes in the epigenetic landscape, which shape gene expression patterns to trigger selected downstream biological responses. Perturbations of brain metabolic pathways are frequently the cause of severe neurodevelopmental disorders. This review explores the latest insights into the regulation of brain metabolism in health and disease.","lang":"eng"}],"publisher":"Annual Reviews","intvolume":"        59","volume":59,"department":[{"_id":"GaNo"}],"scopus_import":"1","type":"journal_article","year":"2025","author":[{"full_name":"Marano, Domenico","first_name":"Domenico","last_name":"Marano","id":"3b004c42-803f-11ed-ab7e-ecee8f08bd58"},{"last_name":"Mariano","id":"ee829c33-edb3-11ed-b4fb-c020aaca4b01","full_name":"Mariano, Vittoria","first_name":"Vittoria"},{"id":"3E57A680-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7673-7178","last_name":"Novarino","first_name":"Gaia","full_name":"Novarino, Gaia"}],"date_updated":"2025-12-09T12:55:11Z","PlanS_conform":"1","acknowledgement":"Funding provided by the European Union (grant 101057429) to G.N.","article_processing_charge":"Yes (in subscription journal)","date_created":"2025-12-07T23:02:01Z","publication_identifier":{"issn":["0066-4197"],"eissn":["1545-2948"]},"status":"public","file":[{"content_type":"application/pdf","relation":"main_file","date_updated":"2025-12-09T12:53:09Z","file_name":"2025_AnnualRevGenetics_Marano.pdf","access_level":"open_access","date_created":"2025-12-09T12:53:09Z","file_id":"20745","success":1,"creator":"dernst","file_size":3629986,"checksum":"1000228dc9aca3d48e92605607a99c41"}],"month":"11","project":[{"name":"Reducing the impact of major environmental challenges on mental health","grant_number":"101057429","_id":"349d1832-11ca-11ed-8bc3-d79b574010e0"}],"page":"415-434","external_id":{"pmid":["40902207"]},"oa":1,"article_type":"review","language":[{"iso":"eng"}],"doi":"10.1146/annurev-genet-111523-102424","fulldoi":"https://doi.org/10.1146/annurev-genet-111523-102424","title":"Fueling the mind: Brain metabolism in health and neurodevelopmental disorders","_id":"20731","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","OA_type":"hybrid","pmid":1,"publication_status":"published","day":"03","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Marano, Domenico, Vittoria Mariano, and Gaia Novarino. “Fueling the Mind: Brain Metabolism in Health and Neurodevelopmental Disorders.” <i>Annual Review of Genetics</i>. Annual Reviews, 2025. <a href=\"https://doi.org/10.1146/annurev-genet-111523-102424\">https://doi.org/10.1146/annurev-genet-111523-102424</a>.","ama":"Marano D, Mariano V, Novarino G. Fueling the mind: Brain metabolism in health and neurodevelopmental disorders. <i>Annual Review of Genetics</i>. 2025;59:415-434. doi:<a href=\"https://doi.org/10.1146/annurev-genet-111523-102424\">10.1146/annurev-genet-111523-102424</a>","ista":"Marano D, Mariano V, Novarino G. 2025. Fueling the mind: Brain metabolism in health and neurodevelopmental disorders. Annual Review of Genetics. 59, 415–434.","apa":"Marano, D., Mariano, V., &#38; Novarino, G. (2025). Fueling the mind: Brain metabolism in health and neurodevelopmental disorders. <i>Annual Review of Genetics</i>. Annual Reviews. <a href=\"https://doi.org/10.1146/annurev-genet-111523-102424\">https://doi.org/10.1146/annurev-genet-111523-102424</a>","ieee":"D. Marano, V. Mariano, and G. Novarino, “Fueling the mind: Brain metabolism in health and neurodevelopmental disorders,” <i>Annual Review of Genetics</i>, vol. 59. Annual Reviews, pp. 415–434, 2025.","short":"D. Marano, V. Mariano, G. Novarino, Annual Review of Genetics 59 (2025) 415–434.","mla":"Marano, Domenico, et al. “Fueling the Mind: Brain Metabolism in Health and Neurodevelopmental Disorders.” <i>Annual Review of Genetics</i>, vol. 59, Annual Reviews, 2025, pp. 415–34, doi:<a href=\"https://doi.org/10.1146/annurev-genet-111523-102424\">10.1146/annurev-genet-111523-102424</a>."},"file_date_updated":"2025-12-09T12:53:09Z"},{"date_created":"2025-12-07T23:02:02Z","publication_identifier":{"issn":["2643-1564"]},"status":"public","file":[{"file_name":"2025_PhysReviewResearch_Becker.pdf","access_level":"open_access","date_created":"2025-12-09T14:14:46Z","content_type":"application/pdf","date_updated":"2025-12-09T14:14:46Z","relation":"main_file","checksum":"b9f5ccd6957759b0e578bc817a050532","file_id":"20754","creator":"dernst","success":1,"file_size":2878032}],"month":"07","issue":"3","project":[{"grant_number":"F100403","_id":"7c040762-9f16-11ee-852c-dd79eeee4ab3","name":"Coherent Optical Metrology Beyond Electric-Dipole-Allowed Transitions"}],"external_id":{"arxiv":["2503.09835"]},"oa":1,"doi":"10.1103/2fr6-b59y","language":[{"iso":"eng"}],"article_type":"original","article_number":"033088","fulldoi":"https://doi.org/10.1103/2fr6-b59y","title":"Dynamical probe of the pseudo Jahn-Teller effect in one-dimensional confined fermions","_id":"20732","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","publication_status":"published","OA_type":"gold","day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2025-12-09T14:14:46Z","citation":{"ieee":"A. Becker, G. Koutentakis, and P. Schmelcher, “Dynamical probe of the pseudo Jahn-Teller effect in one-dimensional confined fermions,” <i>Physical Review Research</i>, vol. 7, no. 3. American Physical Society, 2025.","apa":"Becker, A., Koutentakis, G., &#38; Schmelcher, P. (2025). Dynamical probe of the pseudo Jahn-Teller effect in one-dimensional confined fermions. <i>Physical Review Research</i>. American Physical Society. <a href=\"https://doi.org/10.1103/2fr6-b59y\">https://doi.org/10.1103/2fr6-b59y</a>","mla":"Becker, A., et al. “Dynamical Probe of the Pseudo Jahn-Teller Effect in One-Dimensional Confined Fermions.” <i>Physical Review Research</i>, vol. 7, no. 3, 033088, American Physical Society, 2025, doi:<a href=\"https://doi.org/10.1103/2fr6-b59y\">10.1103/2fr6-b59y</a>.","short":"A. Becker, G. Koutentakis, P. Schmelcher, Physical Review Research 7 (2025).","ista":"Becker A, Koutentakis G, Schmelcher P. 2025. Dynamical probe of the pseudo Jahn-Teller effect in one-dimensional confined fermions. Physical Review Research. 7(3), 033088.","ama":"Becker A, Koutentakis G, Schmelcher P. Dynamical probe of the pseudo Jahn-Teller effect in one-dimensional confined fermions. <i>Physical Review Research</i>. 2025;7(3). doi:<a href=\"https://doi.org/10.1103/2fr6-b59y\">10.1103/2fr6-b59y</a>","chicago":"Becker, A., Georgios Koutentakis, and P. Schmelcher. “Dynamical Probe of the Pseudo Jahn-Teller Effect in One-Dimensional Confined Fermions.” <i>Physical Review Research</i>. American Physical Society, 2025. <a href=\"https://doi.org/10.1103/2fr6-b59y\">https://doi.org/10.1103/2fr6-b59y</a>."},"date_published":"2025-07-01T00:00:00Z","OA_place":"publisher","publication":"Physical Review Research","corr_author":"1","has_accepted_license":"1","ddc":["530"],"quality_controlled":"1","DOAJ_listed":"1","abstract":[{"lang":"eng","text":"We investigate the real-time dynamics of a quenched quantum impurity immersed in a one-dimensional ultracold Fermi gas, focusing on the breakdown of the adiabatic Born-Oppenheimer approximation due to nonadiabatic effects. Despite a sizable impurity-bath mass imbalance, increasing interactions induce strong nonadiabatic couplings, disrupting adiabatic motion and enabling population transfer between the adiabatic potential energy curves. These transitions are governed by conical intersections arising from the pseudo Jahn-Teller effect, dynamically shaping the impurity's motion through the bath. Using ab initio simulations via the multilayer multiconfiguration time-dependent Hartree method and a multichannel Born-Oppenheimer framework, we track the impurity's evolution and directly prove the dynamical manifestation of the pseudo Jahn-Teller effect. We analyze two key scenarios: (i) a small initial shift, where a single avoided crossing drives transitions, and (ii) a large shift, where multiple avoided crossings lead to enhanced nonadiabaticity, self-trapping, and energy redistribution. Our findings establish ultracold fermionic few-body systems as tunable platforms for studying nonadiabatic quantum dynamics, opening new avenues for controlled impurity transport in strongly correlated environments."}],"publisher":"American Physical Society","intvolume":"         7","volume":7,"department":[{"_id":"MiLe"}],"scopus_import":"1","type":"journal_article","year":"2025","author":[{"first_name":"A.","full_name":"Becker, A.","last_name":"Becker"},{"first_name":"Georgios","full_name":"Koutentakis, Georgios","last_name":"Koutentakis","id":"d7b23d3a-9e21-11ec-b482-f76739596b95"},{"last_name":"Schmelcher","full_name":"Schmelcher, P.","first_name":"P."}],"date_updated":"2025-12-09T14:16:15Z","PlanS_conform":"1","article_processing_charge":"Yes","acknowledgement":"This work has been funded by the Cluster of Excellence “Advanced Imaging of Matter” of the Deutsche Forschungsgemeinschaft (DFG) - EXC 2056 - Project ID 390715994. G.K.M. has received funding from the Austrian Science Fund (FWF) [DOI: 10.55776/F1004].","arxiv":1},{"volume":7,"department":[{"_id":"GeKa"}],"related_material":{"link":[{"relation":"software","url":"https://doi.org/10.5281/zenodo.14516009"}]},"type":"journal_article","scopus_import":"1","author":[{"last_name":"Aggarwal","full_name":"Aggarwal, Kushagra","first_name":"Kushagra"},{"full_name":"Rolandi, Alberto","first_name":"Alberto","last_name":"Rolandi"},{"first_name":"Yikai","full_name":"Yang, Yikai","last_name":"Yang"},{"first_name":"Joseph","full_name":"Hickie, Joseph","last_name":"Hickie"},{"full_name":"Jirovec, Daniel","first_name":"Daniel","last_name":"Jirovec","orcid":"0000-0002-7197-4801","id":"4C473F58-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Ballabio","full_name":"Ballabio, Andrea","first_name":"Andrea"},{"last_name":"Chrastina","full_name":"Chrastina, Daniel","first_name":"Daniel"},{"full_name":"Isella, Giovanni","first_name":"Giovanni","last_name":"Isella"},{"last_name":"Mitchison","full_name":"Mitchison, Mark T.","first_name":"Mark T."},{"last_name":"Perarnau-Llobet","first_name":"Martí","full_name":"Perarnau-Llobet, Martí"},{"first_name":"Natalia","full_name":"Ares, Natalia","last_name":"Ares"}],"date_updated":"2025-12-09T14:07:49Z","year":"2025","PlanS_conform":"1","arxiv":1,"article_processing_charge":"Yes","acknowledgement":"We thank Georgios Katsaros for providing the device for this experiment. K.A. and N.A. acknowledge the support provided by funding from the Engineering and Physical Sciences Research Council IAA (Grant No. EP/X525777/1). N.A. acknowledges support from the European Research Council (Grant Agreement No. 948932) and the Royal Society (URF-R1-191150). A.R. is supported by the Swiss National Science Foundation through a Postdoc. Mobility (Grant No. P500PT 225461). M.T.M. is supported by a Royal Society University Research Fellowship. M.P.-L. is supported by the Grant RYC2022-036958-I funded by the Spanish MICIU/AEI/10.13039/501100011033 and by ESF+. This project is cofunded by the European Union and UK Research & Innovation (Quantum Flagship project ASPECTS, Grant Agreement No. 101080167). However, views and opinions expressed are those of the authors only and do not necessarily reflect those of the European Union, Research Executive Agency, or UK Research & Innovation. Neither the European Union nor UK Research & Innovation can be held responsible for them.","publication":"Physical Review Research","date_published":"2025-07-01T00:00:00Z","OA_place":"publisher","has_accepted_license":"1","quality_controlled":"1","ddc":["530"],"abstract":[{"lang":"eng","text":"The conversion of thermal energy into work is usually more efficient in the slow-driving regime, where the power output is vanishingly small. Efficient work extraction for fast-driving protocols remains an outstanding challenge at the nanoscale, where fluctuations play a significant role. In this Letter, we use a quantum-dot Szilard engine to extract work from thermal fluctuations with maximum efficiency over two decades of driving speed. We design and implement a family of optimized protocols ranging from the slow- to the fast-driving regime, and we measure the engine's efficiency as well as the mean and variance of its power output in each case. These optimized protocols exhibit significant improvements in power and efficiency compared to the naive approach. Our results also show that, when optimizing for efficiency, boosting the power output of a Szilard engine inevitably comes at the cost of increased power fluctuations."}],"publisher":"American Physical Society","intvolume":"         7","_id":"20733","fulldoi":"https://doi.org/10.1103/q3dx-kyqj","article_number":"L032017","title":"Rapid optimal work extraction from a quantum-dot information engine","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","OA_type":"gold","publication_status":"published","day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Aggarwal, Kushagra, Alberto Rolandi, Yikai Yang, Joseph Hickie, Daniel Jirovec, Andrea Ballabio, Daniel Chrastina, et al. “Rapid Optimal Work Extraction from a Quantum-Dot Information Engine.” <i>Physical Review Research</i>. American Physical Society, 2025. <a href=\"https://doi.org/10.1103/q3dx-kyqj\">https://doi.org/10.1103/q3dx-kyqj</a>.","ama":"Aggarwal K, Rolandi A, Yang Y, et al. Rapid optimal work extraction from a quantum-dot information engine. <i>Physical Review Research</i>. 2025;7(3). doi:<a href=\"https://doi.org/10.1103/q3dx-kyqj\">10.1103/q3dx-kyqj</a>","ista":"Aggarwal K, Rolandi A, Yang Y, Hickie J, Jirovec D, Ballabio A, Chrastina D, Isella G, Mitchison MT, Perarnau-Llobet M, Ares N. 2025. Rapid optimal work extraction from a quantum-dot information engine. Physical Review Research. 7(3), L032017.","short":"K. Aggarwal, A. Rolandi, Y. Yang, J. Hickie, D. Jirovec, A. Ballabio, D. Chrastina, G. Isella, M.T. Mitchison, M. Perarnau-Llobet, N. Ares, Physical Review Research 7 (2025).","mla":"Aggarwal, Kushagra, et al. “Rapid Optimal Work Extraction from a Quantum-Dot Information Engine.” <i>Physical Review Research</i>, vol. 7, no. 3, L032017, American Physical Society, 2025, doi:<a href=\"https://doi.org/10.1103/q3dx-kyqj\">10.1103/q3dx-kyqj</a>.","apa":"Aggarwal, K., Rolandi, A., Yang, Y., Hickie, J., Jirovec, D., Ballabio, A., … Ares, N. (2025). Rapid optimal work extraction from a quantum-dot information engine. <i>Physical Review Research</i>. American Physical Society. <a href=\"https://doi.org/10.1103/q3dx-kyqj\">https://doi.org/10.1103/q3dx-kyqj</a>","ieee":"K. Aggarwal <i>et al.</i>, “Rapid optimal work extraction from a quantum-dot information engine,” <i>Physical Review Research</i>, vol. 7, no. 3. American Physical Society, 2025."},"file_date_updated":"2025-12-09T14:05:56Z","status":"public","publication_identifier":{"eissn":["2643-1564"]},"date_created":"2025-12-07T23:02:02Z","file":[{"checksum":"66f2b572a36a7b5fe611a7639a8b6f12","file_id":"20753","creator":"dernst","success":1,"file_size":536624,"access_level":"open_access","file_name":"2025_PhysReviewResearch_Aggarwal.pdf","date_created":"2025-12-09T14:05:56Z","content_type":"application/pdf","date_updated":"2025-12-09T14:05:56Z","relation":"main_file"}],"month":"07","issue":"3","oa":1,"external_id":{"arxiv":["2412.06916"]},"language":[{"iso":"eng"}],"doi":"10.1103/q3dx-kyqj","article_type":"letter_note"},{"issue":"3-4","month":"09","file":[{"checksum":"55a1bd9c1b6b0198c42504fb94f4ad4c","file_id":"20752","file_size":1379626,"success":1,"creator":"dernst","file_name":"2025_MathStatLearning_Zhang.pdf","access_level":"open_access","date_created":"2025-12-09T13:50:03Z","content_type":"application/pdf","date_updated":"2025-12-09T13:50:03Z","relation":"main_file"}],"publication_identifier":{"eissn":["2520-2324"],"issn":["2520-2316"]},"date_created":"2025-12-07T23:02:02Z","status":"public","doi":"10.4171/MSL/52","article_type":"original","language":[{"iso":"eng"}],"page":"193-304","oa":1,"project":[{"name":"Prix Lopez-Loretta 2019 - Marco Mondelli","_id":"059876FA-7A3F-11EA-A408-12923DDC885E"}],"OA_type":"diamond","publication_status":"published","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","fulldoi":"https://doi.org/10.4171/MSL/52","title":"Spectral estimators for structured generalized linear models via approximate message passing","_id":"20734","file_date_updated":"2025-12-09T13:50:03Z","citation":{"short":"Y. Zhang, H.C. Ji, R. Venkataramanan, M. Mondelli, Mathematical Statistics and Learning 8 (2025) 193–304.","mla":"Zhang, Yihan, et al. “Spectral Estimators for Structured Generalized Linear Models via Approximate Message Passing.” <i>Mathematical Statistics and Learning</i>, vol. 8, no. 3–4, EMS Press, 2025, pp. 193–304, doi:<a href=\"https://doi.org/10.4171/MSL/52\">10.4171/MSL/52</a>.","ieee":"Y. Zhang, H. C. Ji, R. Venkataramanan, and M. Mondelli, “Spectral estimators for structured generalized linear models via approximate message passing,” <i>Mathematical Statistics and Learning</i>, vol. 8, no. 3–4. EMS Press, pp. 193–304, 2025.","apa":"Zhang, Y., Ji, H. C., Venkataramanan, R., &#38; Mondelli, M. (2025). Spectral estimators for structured generalized linear models via approximate message passing. <i>Mathematical Statistics and Learning</i>. EMS Press. <a href=\"https://doi.org/10.4171/MSL/52\">https://doi.org/10.4171/MSL/52</a>","ista":"Zhang Y, Ji HC, Venkataramanan R, Mondelli M. 2025. Spectral estimators for structured generalized linear models via approximate message passing. Mathematical Statistics and Learning. 8(3–4), 193–304.","ama":"Zhang Y, Ji HC, Venkataramanan R, Mondelli M. Spectral estimators for structured generalized linear models via approximate message passing. <i>Mathematical Statistics and Learning</i>. 2025;8(3-4):193-304. doi:<a href=\"https://doi.org/10.4171/MSL/52\">10.4171/MSL/52</a>","chicago":"Zhang, Yihan, Hong Chang Ji, Ramji Venkataramanan, and Marco Mondelli. “Spectral Estimators for Structured Generalized Linear Models via Approximate Message Passing.” <i>Mathematical Statistics and Learning</i>. EMS Press, 2025. <a href=\"https://doi.org/10.4171/MSL/52\">https://doi.org/10.4171/MSL/52</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"02","ddc":["000"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","OA_place":"publisher","date_published":"2025-09-02T00:00:00Z","publication":"Mathematical Statistics and Learning","intvolume":"         8","publisher":"EMS Press","abstract":[{"text":"We consider the problem of parameter estimation in a high-dimensional generalized linear model. Spectral methods obtained via the principal eigenvector of a suitable data-dependent matrix provide a simple yet surprisingly effective solution. However, despite their wide use, a rigorous performance characterization, as well as a principled way to preprocess the data, are available only for unstructured (i.i.d. Gaussian and Haar orthogonal) designs. In contrast, real-world data matrices are highly structured and exhibit non-trivial correlations. To address the problem, we consider correlated Gaussian designs capturing the anisotropic nature of the features via a covariance matrix Σ. Our main result is a precise asymptotic characterization of the performance of spectral estimators. This allows us to identify the optimal preprocessing that minimizes the number of samples needed for parameter estimation. Surprisingly, such preprocessing is universal across a broad set of designs, which partly addresses a conjecture on optimal spectral estimators for rotationally invariant models. Our principled approach vastly improves upon previous heuristic methods, including for designs common in computational imaging and genetics. The proposed methodology, based on approximate message passing, is broadly applicable and opens the way to the precise characterization of spiked matrices and of the corresponding spectral methods in a variety of settings.","lang":"eng"}],"year":"2025","date_updated":"2025-12-09T13:53:31Z","author":[{"full_name":"Zhang, Yihan","first_name":"Yihan","id":"2ce5da42-b2ea-11eb-bba5-9f264e9d002c","last_name":"Zhang","orcid":"0000-0002-6465-6258"},{"last_name":"Ji","full_name":"Ji, Hong Chang","first_name":"Hong Chang"},{"first_name":"Ramji","full_name":"Venkataramanan, Ramji","last_name":"Venkataramanan"},{"last_name":"Mondelli","orcid":"0000-0002-3242-7020","id":"27EB676C-8706-11E9-9510-7717E6697425","full_name":"Mondelli, Marco","first_name":"Marco"}],"type":"journal_article","scopus_import":"1","volume":8,"department":[{"_id":"MaMo"}],"acknowledgement":"This work was done when Y. Z. and H. C. J. were at the Institute of Science and Technology Austria. Y. Z. thanks Hugo Latourelle-Vigeant for bringing [53] to the authors’ attention.\r\nY. Z. and M. M. are partially supported by the 2019 Lopez-Loreta Prize and by the Interdisciplinary Projects Committee (IPC) at ISTA. H. C. J. is supported by the ERC Advanced Grant “RMTBeyond” No. 101020331.","article_processing_charge":"No","PlanS_conform":"1"},{"day":"09","keyword":["NOTCH","radial glial progenitor","lineage progression","cortical development"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","citation":{"ista":"Casado Polanco R. 2025. Role of NOTCH signaling in radial glial progenitor lineage progression. Institute of Science and Technology Austria.","ama":"Casado Polanco R. Role of NOTCH signaling in radial glial progenitor lineage progression. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20737\">10.15479/AT-ISTA-20737</a>","chicago":"Casado Polanco, Raquel. “Role of NOTCH Signaling in Radial Glial Progenitor Lineage Progression.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20737\">https://doi.org/10.15479/AT-ISTA-20737</a>.","short":"R. Casado Polanco, Role of NOTCH Signaling in Radial Glial Progenitor Lineage Progression, Institute of Science and Technology Austria, 2025.","mla":"Casado Polanco, Raquel. <i>Role of NOTCH Signaling in Radial Glial Progenitor Lineage Progression</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20737\">10.15479/AT-ISTA-20737</a>.","ieee":"R. Casado Polanco, “Role of NOTCH signaling in radial glial progenitor lineage progression,” Institute of Science and Technology Austria, 2025.","apa":"Casado Polanco, R. (2025). <i>Role of NOTCH signaling in radial glial progenitor lineage progression</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20737\">https://doi.org/10.15479/AT-ISTA-20737</a>"},"file_date_updated":"2025-12-11T11:18:37Z","title":"Role of NOTCH signaling in radial glial progenitor lineage progression","fulldoi":"https://doi.org/10.15479/AT-ISTA-20737","_id":"20737","oa_version":"Published Version","publication_status":"published","project":[{"name":"Stem Cell Modulation in Neural Development and Regeneration/ P05-Molecular Mechanisms of Neural Stem Cell Lineage Progression","_id":"059F6AB4-7A3F-11EA-A408-12923DDC885E","grant_number":"F7805"}],"page":"133","doi":"10.15479/AT-ISTA-20737","language":[{"iso":"eng"}],"date_created":"2025-12-09T09:04:18Z","publication_identifier":{"isbn":["978-3-99078-072-5"],"issn":["2663-337X"]},"status":"public","file":[{"date_created":"2025-12-11T09:28:09Z","file_name":"2025_CasadoPolanco_Raquel_Thesis.docx","access_level":"closed","date_updated":"2025-12-11T11:18:37Z","relation":"source_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","checksum":"71e0fdf4619b0d70d03657ad7348137d","file_size":78207207,"creator":"rcasadop","file_id":"20793"},{"date_created":"2025-12-11T09:28:04Z","file_name":"2025_CasadoPolanco_Raquel_Thesis.pdf","access_level":"closed","embargo_to":"open_access","date_updated":"2025-12-11T09:28:04Z","relation":"main_file","content_type":"application/pdf","checksum":"58cf2f25c33567723bc754a019c3e396","file_size":6261874,"creator":"rcasadop","embargo":"2026-12-01","file_id":"20794"}],"month":"12","alternative_title":["ISTA Thesis"],"article_processing_charge":"No","acknowledgement":"I also want to thank ISTA and the Austrian Science Fund FWF SFB F78 (F7805) for financially\r\nsupporting my research.","degree_awarded":"PhD","department":[{"_id":"GradSch"},{"_id":"SiHi"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"type":"dissertation","year":"2025","author":[{"id":"15240fc1-dbcd-11ea-9d1d-ac5a786425fd","orcid":"0000-0001-8293-4568","last_name":"Casado Polanco","full_name":"Casado Polanco, Raquel","first_name":"Raquel"}],"date_updated":"2026-04-14T08:16:58Z","publisher":"Institute of Science and Technology Austria","supervisor":[{"id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","orcid":"0000-0003-2279-1061","first_name":"Simon","full_name":"Hippenmeyer, Simon"}],"date_published":"2025-12-09T00:00:00Z","OA_place":"publisher","corr_author":"1","has_accepted_license":"1","ddc":["570"]},{"year":"2025","author":[{"id":"73e7ecd4-dc85-11ea-9058-88a16394b160","last_name":"Kojic","orcid":"0000-0001-7244-8128","full_name":"Kojic, Marko","first_name":"Marko"}],"date_updated":"2026-04-07T12:27:58Z","type":"dissertation","acknowledged_ssus":[{"_id":"Bio"}],"department":[{"_id":"GradSch"},{"_id":"MaLo"}],"related_material":{"record":[{"status":"public","id":"15118","relation":"part_of_dissertation"}]},"degree_awarded":"PhD","article_processing_charge":"No","ddc":["572"],"corr_author":"1","has_accepted_license":"1","OA_place":"publisher","date_published":"2025-12-09T00:00:00Z","supervisor":[{"full_name":"Loose, Martin","first_name":"Martin","id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724","last_name":"Loose"}],"publisher":"Institute of Science and Technology Austria","abstract":[{"lang":"eng","text":"Life on Earth emerged when biomacromolecules were membrane-enclosed in a confined space where many essential chemical reactions were more likely to happen and thereby accelerate evolution. These kinds of membranes separated internal reactions from the outside chaos while staying flexible so that those primordial cells can move, adopt their shape and, most importantly, propagate. Such membrane plasticity still remains a defining feature of all modern cell types. This remarkable ability to change their shape is most prominently observed during their propagation (i.e., cell division). Throughout division, a cell undergoes drastic change in its shape, usually at the middle of the cell, pulling the two opposite membrane sides inward, closer to each other, and, finally, culminating in pinching off to separate the cell into two daughter cells. To achieve this, a cell needs to employ a protein machinery, usually termed divisome, that can coordinate all necessary intracellular processes with membrane remodelling and synthesis of other extracellular structures that decorate a cell. The focus of this dissertation is a membrane-remodelling FtsZ system that is present across all domains of life. FtsZ forms filaments that further self-organize into ring-like structures at the cell septum and together with other division proteins perform cell envelope synthesis and constriction. However, there are still knowledge gaps in our mechanistic understanding of division in both archaea and bacteria. My work presented in this dissertation centres around a simple yet not well understood question: How is the divisome positioned correctly at the mid-cell? To achieve the proper positioning, the divisome needs to (i) be recruited to the mid-cell and (ii) localized orthogonally to the long cell axis. I tackle these processes in two different systems by applying an in vitro biochemical bottom-up reconstitution approach. I use purified components of Haloferax volcanii and Escherichia coli divisome to explore how divisome is recruited to the mid-cell in archaea and how the Z-ring positions orthogonally to the long cell axis in bacteria, respectively. \r\n\r\nFirstly, I collaborate with archaeal cell and structural biologists to explore the assembly of early division proteins in two FtsZ-containing archaeon H. volcanii, a standard model system for understudied archaeal organisms. I particularly address the hierarchy of interactions that allow a tripartite complex formation (SepF-CdpB1-CdpB2) and how the hierarchy of interactions ultimately leads to the recruitment of FtsZ filaments to the septum. This part of work has been published in (Nußbaum et al., 2024). In collaboration with evolutionary biologists, I shed light on ancient features that archaeal divisome has retained to this day and also speculate on a property that it might have lost during the course of evolution. \r\n\r\nNext, I switch my attention to E. coli divisome. Particularly, I address the FtsZ’s intrinsic biophysical property that drives the Z-ring diameter, and thereby the perpendicular orientation of the Z-ring to the long cell axis based on suggested membrane curvature sensing mechanism (Vanhille-Campos et al., 2024). This property allows formation of different Z-ring diameters that match the variety of cell diameters present in prokaryotes. The results showcase that the distribution of charged amino acids in the intrinsically disordered linker at the C-terminus (CTL) of FtsZ is the major determining factor of Z-ring diameter with inter-CTL interactions as an underlying mechanism. \r\n\r\nFinally, I thoroughly explain the methodology I used to address the abovementioned projects, and I finish with a discussion on how early archaeal divisome assembly and curvature sensing mechanism in bacteria, at first sight unrelated topics, are interconnected and important groundwork for both fundamental and translational research. "}],"publication_status":"published","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","fulldoi":"https://doi.org/10.15479/AT-ISTA-20741","title":"Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria","_id":"20741","file_date_updated":"2025-12-10T13:09:58Z","citation":{"short":"M. Kojic, Towards Understanding the Assembly Mechanisms of the Z-Ring in Archaea and Bacteria, Institute of Science and Technology Austria, 2025.","mla":"Kojic, Marko. <i>Towards Understanding the Assembly Mechanisms of the Z-Ring in Archaea and Bacteria</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20741\">10.15479/AT-ISTA-20741</a>.","apa":"Kojic, M. (2025). <i>Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20741\">https://doi.org/10.15479/AT-ISTA-20741</a>","ieee":"M. Kojic, “Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria,” Institute of Science and Technology Austria, 2025.","chicago":"Kojic, Marko. “Towards Understanding the Assembly Mechanisms of the Z-Ring in Archaea and Bacteria.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20741\">https://doi.org/10.15479/AT-ISTA-20741</a>.","ama":"Kojic M. Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20741\">10.15479/AT-ISTA-20741</a>","ista":"Kojic M. 2025. Towards understanding the assembly mechanisms of the Z-ring in Archaea and Bacteria. Institute of Science and Technology Austria."},"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","day":"09","alternative_title":["ISTA Thesis"],"month":"12","file":[{"file_id":"20774","creator":"mkojic","file_size":142876975,"checksum":"a3643d07e93134b2490a566b02a4517d","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","relation":"source_file","date_updated":"2025-12-10T13:09:58Z","file_name":"2025_marko_kojic_thesis.docx","access_level":"closed","date_created":"2025-12-10T13:09:58Z"},{"checksum":"0a096f0af6ccc3a8329d5bb8797ad533","file_size":8597045,"creator":"mkojic","success":1,"file_id":"20775","date_created":"2025-12-10T13:09:38Z","file_name":"2025_marko_kojic_thesis.pdf","access_level":"open_access","date_updated":"2025-12-10T13:09:38Z","relation":"main_file","content_type":"application/pdf"}],"date_created":"2025-12-09T13:08:11Z","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-073-2"]},"status":"public","language":[{"iso":"eng"}],"doi":"10.15479/AT-ISTA-20741","oa":1},{"ddc":["530"],"corr_author":"1","month":"11","has_accepted_license":"1","date_published":"2025-11-10T00:00:00Z","date_created":"2025-12-09T13:36:16Z","OA_place":"repository","status":"public","doi":"10.5281/ZENODO.15752991","publisher":"Zenodo","oa":1,"abstract":[{"lang":"eng","text":"Datasets and code for publication \"Electrostatics overcome acoustic collapse to assemble, adapt, and activate levitated matter\""}],"main_file_link":[{"url":"https://doi.org/10.5281/ZENODO.15752991","open_access":"1"}],"OA_type":"green","year":"2025","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","author":[{"first_name":"Sue","full_name":"Shi, Sue","id":"5c5b9247-15b2-11ec-abd3-fd958715639c","last_name":"Shi"}],"date_updated":"2026-05-20T08:41:14Z","fulldoi":"https://doi.org/10.5281/ZENODO.15752991","title":"Datasets and code for manuscript \"Electrostatics overcome acoustic collapse to assemble, adapt, and activate levitated matter\"","_id":"20749","type":"research_data_reference","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"20727"}]},"department":[{"_id":"ScWa"},{"_id":"CaGo"}],"citation":{"ama":"Shi S. Datasets and code for manuscript “Electrostatics overcome acoustic collapse to assemble, adapt, and activate levitated matter.” 2025. doi:<a href=\"https://doi.org/10.5281/ZENODO.15752991\">10.5281/ZENODO.15752991</a>","chicago":"Shi, Sue. “Datasets and Code for Manuscript ‘Electrostatics Overcome Acoustic Collapse to Assemble, Adapt, and Activate Levitated Matter.’” Zenodo, 2025. <a href=\"https://doi.org/10.5281/ZENODO.15752991\">https://doi.org/10.5281/ZENODO.15752991</a>.","ista":"Shi S. 2025. Datasets and code for manuscript ‘Electrostatics overcome acoustic collapse to assemble, adapt, and activate levitated matter’, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.15752991\">10.5281/ZENODO.15752991</a>.","apa":"Shi, S. (2025). Datasets and code for manuscript “Electrostatics overcome acoustic collapse to assemble, adapt, and activate levitated matter.” Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.15752991\">https://doi.org/10.5281/ZENODO.15752991</a>","ieee":"S. Shi, “Datasets and code for manuscript ‘Electrostatics overcome acoustic collapse to assemble, adapt, and activate levitated matter.’” Zenodo, 2025.","short":"S. Shi, (2025).","mla":"Shi, Sue. <i>Datasets and Code for Manuscript “Electrostatics Overcome Acoustic Collapse to Assemble, Adapt, and Activate Levitated Matter.”</i> Zenodo, 2025, doi:<a href=\"https://doi.org/10.5281/ZENODO.15752991\">10.5281/ZENODO.15752991</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"10","article_processing_charge":"No","contributor":[{"first_name":"Maximilian","id":"5eb8629e-15b2-11ec-abd3-e6f3e5e01f32","last_name":"Hübl"},{"first_name":"Galien M","id":"0C5FDA4A-9CF6-11E9-8939-FF05E6697425","orcid":"0000-0001-5154-417X","last_name":"Grosjean"}]},{"citation":{"short":"B. Van Straaten, F. Fedele, F. Vigneau, J. Hickie, D. Jirovec, D. Chrastina, G. Isella, N. Ares, (2025).","mla":"Van Straaten, Barnaby, et al. <i>All Rf-Based Tuning Algorithm for Quantum Devices Using Machine Learning</i>. 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All rf-based tuning algorithm for quantum devices using machine learning, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.17352653\">10.5281/ZENODO.17352653</a>.","chicago":"Van Straaten, Barnaby, Federico Fedele, Florian Vigneau, Joseph Hickie, Daniel Jirovec, Daniel Chrastina, Giovanni Isella, and Natalia Ares. “All Rf-Based Tuning Algorithm for Quantum Devices Using Machine Learning.” Zenodo, 2025. <a href=\"https://doi.org/10.5281/ZENODO.17352653\">https://doi.org/10.5281/ZENODO.17352653</a>.","ama":"Van Straaten B, Fedele F, Vigneau F, et al. All rf-based tuning algorithm for quantum devices using machine learning. 2025. doi:<a href=\"https://doi.org/10.5281/ZENODO.17352653\">10.5281/ZENODO.17352653</a>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","day":"14","OA_type":"green","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.17352653"}],"author":[{"last_name":"Van Straaten","first_name":"Barnaby","full_name":"Van Straaten, Barnaby"},{"full_name":"Fedele, Federico","first_name":"Federico","last_name":"Fedele"},{"first_name":"Florian","full_name":"Vigneau, Florian","last_name":"Vigneau"},{"first_name":"Joseph","full_name":"Hickie, Joseph","last_name":"Hickie"},{"id":"4C473F58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7197-4801","last_name":"Jirovec","full_name":"Jirovec, Daniel","first_name":"Daniel"},{"last_name":"Chrastina","first_name":"Daniel","full_name":"Chrastina, Daniel"},{"last_name":"Isella","first_name":"Giovanni","full_name":"Isella, Giovanni"},{"last_name":"Ares","first_name":"Natalia","full_name":"Ares, Natalia"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","date_updated":"2025-12-09T14:49:36Z","year":"2025","_id":"20750","type":"research_data_reference","title":"All rf-based tuning algorithm for quantum devices using machine learning","fulldoi":"https://doi.org/10.5281/ZENODO.17352653","related_material":{"record":[{"relation":"used_in_publication","id":"20730","status":"public"}]},"department":[{"_id":"GeKa"}],"publisher":"Zenodo","doi":"10.5281/ZENODO.17352653","oa":1,"ddc":["530"],"has_accepted_license":"1","month":"10","status":"public","date_created":"2025-12-09T13:36:29Z","OA_place":"repository","date_published":"2025-10-14T00:00:00Z"},{"publication_status":"published","OA_type":"hybrid","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","_id":"20755","title":"Efficient optimization and synthesis of diverse azaarenes via nitrogen atom insertion under continuous flow conditions","fulldoi":"https://doi.org/10.1039/d5cc03194j","citation":{"short":"S. Moon, J. Reisenbauer, A.-S.K. Paschke, A. Scotto, L. Terraneo, N. Brenner, Q. Lefebvre, T.C. Fessard, B. Morandi, Chemical Communications 61 (2025) 16993–16996.","mla":"Moon, Sooyeon, et al. “Efficient Optimization and Synthesis of Diverse Azaarenes via Nitrogen Atom Insertion under Continuous Flow Conditions.” <i>Chemical Communications</i>, vol. 61, no. 87, Royal Society of Chemistry, 2025, pp. 16993–96, doi:<a href=\"https://doi.org/10.1039/d5cc03194j\">10.1039/d5cc03194j</a>.","ieee":"S. Moon <i>et al.</i>, “Efficient optimization and synthesis of diverse azaarenes via nitrogen atom insertion under continuous flow conditions,” <i>Chemical Communications</i>, vol. 61, no. 87. Royal Society of Chemistry, pp. 16993–16996, 2025.","apa":"Moon, S., Reisenbauer, J., Paschke, A.-S. K., Scotto, A., Terraneo, L., Brenner, N., … Morandi, B. (2025). Efficient optimization and synthesis of diverse azaarenes via nitrogen atom insertion under continuous flow conditions. <i>Chemical Communications</i>. Royal Society of Chemistry. <a href=\"https://doi.org/10.1039/d5cc03194j\">https://doi.org/10.1039/d5cc03194j</a>","ista":"Moon S, Reisenbauer J, Paschke A-SK, Scotto A, Terraneo L, Brenner N, Lefebvre Q, Fessard TC, Morandi B. 2025. Efficient optimization and synthesis of diverse azaarenes via nitrogen atom insertion under continuous flow conditions. Chemical Communications. 61(87), 16993–16996.","ama":"Moon S, Reisenbauer J, Paschke A-SK, et al. Efficient optimization and synthesis of diverse azaarenes via nitrogen atom insertion under continuous flow conditions. <i>Chemical Communications</i>. 2025;61(87):16993-16996. doi:<a href=\"https://doi.org/10.1039/d5cc03194j\">10.1039/d5cc03194j</a>","chicago":"Moon, Sooyeon, Julia Reisenbauer, Ann-Sophie K. Paschke, Alessandro Scotto, Luca Terraneo, Niklas Brenner, Quentin Lefebvre, Thomas C. Fessard, and Bill Morandi. “Efficient Optimization and Synthesis of Diverse Azaarenes via Nitrogen Atom Insertion under Continuous Flow Conditions.” <i>Chemical Communications</i>. Royal Society of Chemistry, 2025. <a href=\"https://doi.org/10.1039/d5cc03194j\">https://doi.org/10.1039/d5cc03194j</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"06","issue":"87","month":"10","status":"public","publication_identifier":{"eissn":["1364-548X"],"issn":["1359-7345"]},"date_created":"2025-12-09T14:22:09Z","doi":"10.1039/d5cc03194j","article_type":"original","language":[{"iso":"eng"}],"oa":1,"page":"16993-16996","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1039/D5CC03194J"}],"author":[{"last_name":"Moon","first_name":"Sooyeon","full_name":"Moon, Sooyeon"},{"last_name":"Reisenbauer","id":"51d862e9-36ee-11f0-86d3-8534c85a5496","full_name":"Reisenbauer, Julia","first_name":"Julia"},{"last_name":"Paschke","full_name":"Paschke, Ann-Sophie K.","first_name":"Ann-Sophie K."},{"full_name":"Scotto, Alessandro","first_name":"Alessandro","last_name":"Scotto"},{"last_name":"Terraneo","full_name":"Terraneo, Luca","first_name":"Luca"},{"last_name":"Brenner","full_name":"Brenner, Niklas","first_name":"Niklas"},{"first_name":"Quentin","full_name":"Lefebvre, Quentin","last_name":"Lefebvre"},{"first_name":"Thomas C.","full_name":"Fessard, Thomas C.","last_name":"Fessard"},{"full_name":"Morandi, Bill","first_name":"Bill","last_name":"Morandi"}],"date_updated":"2026-03-16T08:31:23Z","year":"2025","type":"journal_article","scopus_import":"1","volume":61,"article_processing_charge":"Yes (in subscription journal)","extern":"1","quality_controlled":"1","ddc":["540"],"has_accepted_license":"1","publication":"Chemical Communications","date_published":"2025-10-06T00:00:00Z","OA_place":"publisher","intvolume":"        61","publisher":"Royal Society of Chemistry","abstract":[{"text":"We report the development of a continuous flow approach to nitrogen atom insertion. The setup is modular, enabling the rapid optimization of reaction conditions for a wide range of substrates. The milder reaction conditions led to an improved substrate scope and functional group tolerance compared to batch conditions. The reactions can also be safely scaled up to preparative scale.","lang":"eng"}]},{"issue":"9","month":"08","publication_identifier":{"eissn":["1938-1328"],"issn":["0021-9584"]},"date_created":"2025-12-09T14:27:11Z","status":"public","article_type":"original","language":[{"iso":"eng"}],"doi":"10.1021/acs.jchemed.5c00555","page":"3777-3783","OA_type":"closed access","publication_status":"published","oa_version":"None","fulldoi":"https://doi.org/10.1021/acs.jchemed.5c00555","title":"Reimagining advanced chemistry education: A community-based approach to course design for modern learners","_id":"20767","citation":{"mla":"Horwitz, Matthew A., et al. “Reimagining Advanced Chemistry Education: A Community-Based Approach to Course Design for Modern Learners.” <i>Journal of Chemical Education</i>, vol. 102, no. 9, American Chemical Society, 2025, pp. 3777–83, doi:<a href=\"https://doi.org/10.1021/acs.jchemed.5c00555\">10.1021/acs.jchemed.5c00555</a>.","short":"M.A. Horwitz, R. Al-Ahmad, X. Bai, M. Balletti, P. Bellotti, Y. Ben-Tal, M.W. Campbell, K. Cheasty, S.W.M. Crossley, C.S. Day, P.J. Deneny, K.C. Forbes, E.S. Gogarnoiu, P.S. Grant, R. Halder, G.R. Harris, P. Hernández-Lladó, M. Jouanneau, V. Jost, D.A. Kutateladze, G. Laudadio, C. Liu, A.P. Looby, A. Maestro, T. McCallum, M.D. Palkowitz, J.M. Paolillo, M.W.D. Perry, J. Reisenbauer, C. Reyes, H.A. Sharma, F.K. Sheong, B. Thoma, A.V. Tran, D.N. Tran, F.J. Aguilar Troyano, T. Verheyen, M.P. Walsh, A. Wagner, E.R. Wearing, G. Wuitschik, Journal of Chemical Education 102 (2025) 3777–3783.","ieee":"M. A. Horwitz <i>et al.</i>, “Reimagining advanced chemistry education: A community-based approach to course design for modern learners,” <i>Journal of Chemical Education</i>, vol. 102, no. 9. American Chemical Society, pp. 3777–3783, 2025.","apa":"Horwitz, M. A., Al-Ahmad, R., Bai, X., Balletti, M., Bellotti, P., Ben-Tal, Y., … Wuitschik, G. (2025). Reimagining advanced chemistry education: A community-based approach to course design for modern learners. <i>Journal of Chemical Education</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acs.jchemed.5c00555\">https://doi.org/10.1021/acs.jchemed.5c00555</a>","ista":"Horwitz MA, Al-Ahmad R, Bai X, Balletti M, Bellotti P, Ben-Tal Y, Campbell MW, Cheasty K, Crossley SWM, Day CS, Deneny PJ, Forbes KC, Gogarnoiu ES, Grant PS, Halder R, Harris GR, Hernández-Lladó P, Jouanneau M, Jost V, Kutateladze DA, Laudadio G, Liu C, Looby AP, Maestro A, McCallum T, Palkowitz MD, Paolillo JM, Perry MWD, Reisenbauer J, Reyes C, Sharma HA, Sheong FK, Thoma B, Tran AV, Tran DN, Aguilar Troyano FJ, Verheyen T, Walsh MP, Wagner A, Wearing ER, Wuitschik G. 2025. Reimagining advanced chemistry education: A community-based approach to course design for modern learners. Journal of Chemical Education. 102(9), 3777–3783.","chicago":"Horwitz, Matthew A., Reem Al-Ahmad, Xingfeng Bai, Matteo Balletti, Peter Bellotti, Yael Ben-Tal, Mark W. Campbell, et al. “Reimagining Advanced Chemistry Education: A Community-Based Approach to Course Design for Modern Learners.” <i>Journal of Chemical Education</i>. American Chemical Society, 2025. <a href=\"https://doi.org/10.1021/acs.jchemed.5c00555\">https://doi.org/10.1021/acs.jchemed.5c00555</a>.","ama":"Horwitz MA, Al-Ahmad R, Bai X, et al. Reimagining advanced chemistry education: A community-based approach to course design for modern learners. <i>Journal of Chemical Education</i>. 2025;102(9):3777-3783. doi:<a href=\"https://doi.org/10.1021/acs.jchemed.5c00555\">10.1021/acs.jchemed.5c00555</a>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"15","quality_controlled":"1","date_published":"2025-08-15T00:00:00Z","publication":"Journal of Chemical Education","intvolume":"       102","publisher":"American Chemical Society","abstract":[{"lang":"eng","text":"Chemistry education at the graduate level and beyond faces the formidable challenge of a boundless and constantly expanding frontier of knowledge on many fronts. While modern learners have an increasingly broad range of resources available at their disposal (including open access text-based references, online videos, training problems, and other digital learning materials), there are comparatively fewer such materials aimed at the highest levels of study. With the goal of producing widely accessible graduate-level learning content, we created a community-based approach to online course design that is easily digestible to meet the expectations of modern learners. Herein, we report the development of an open access Advanced Organic Chemistry video-based online course and several other specialized minicourses using the Synthesis Workshop YouTube channel."}],"year":"2025","date_updated":"2025-12-16T12:13:49Z","author":[{"last_name":"Horwitz","full_name":"Horwitz, Matthew A.","first_name":"Matthew A."},{"full_name":"Al-Ahmad, Reem","first_name":"Reem","last_name":"Al-Ahmad"},{"last_name":"Bai","first_name":"Xingfeng","full_name":"Bai, Xingfeng"},{"last_name":"Balletti","first_name":"Matteo","full_name":"Balletti, Matteo"},{"last_name":"Bellotti","full_name":"Bellotti, Peter","first_name":"Peter"},{"last_name":"Ben-Tal","first_name":"Yael","full_name":"Ben-Tal, Yael"},{"first_name":"Mark W.","full_name":"Campbell, Mark W.","last_name":"Campbell"},{"first_name":"Kathleen","full_name":"Cheasty, Kathleen","last_name":"Cheasty"},{"last_name":"Crossley","first_name":"Steven W. M.","full_name":"Crossley, Steven W. M."},{"first_name":"Craig S.","full_name":"Day, Craig S.","last_name":"Day"},{"last_name":"Deneny","full_name":"Deneny, Patrick J.","first_name":"Patrick J."},{"last_name":"Forbes","first_name":"Katherine C.","full_name":"Forbes, Katherine C."},{"full_name":"Gogarnoiu, Emma S.","first_name":"Emma S.","last_name":"Gogarnoiu"},{"last_name":"Grant","first_name":"Phillip S.","full_name":"Grant, Phillip S."},{"full_name":"Halder, Riya","first_name":"Riya","last_name":"Halder"},{"first_name":"Georgia R.","full_name":"Harris, Georgia R.","last_name":"Harris"},{"last_name":"Hernández-Lladó","full_name":"Hernández-Lladó, Pol","first_name":"Pol"},{"last_name":"Jouanneau","full_name":"Jouanneau, Morgan","first_name":"Morgan"},{"last_name":"Jost","full_name":"Jost, Vera","first_name":"Vera"},{"last_name":"Kutateladze","first_name":"Dennis A.","full_name":"Kutateladze, Dennis A."},{"last_name":"Laudadio","first_name":"Gabriele","full_name":"Laudadio, Gabriele"},{"full_name":"Liu, Chun","first_name":"Chun","last_name":"Liu"},{"full_name":"Looby, Aidan P.","first_name":"Aidan P.","last_name":"Looby"},{"first_name":"Aitor","full_name":"Maestro, Aitor","last_name":"Maestro"},{"first_name":"Terry","full_name":"McCallum, Terry","last_name":"McCallum"},{"last_name":"Palkowitz","full_name":"Palkowitz, Maximilian D.","first_name":"Maximilian D."},{"full_name":"Paolillo, Joshua M.","first_name":"Joshua M.","last_name":"Paolillo"},{"first_name":"Matthew W. D.","full_name":"Perry, Matthew W. D.","last_name":"Perry"},{"full_name":"Reisenbauer, Julia","first_name":"Julia","last_name":"Reisenbauer","id":"51d862e9-36ee-11f0-86d3-8534c85a5496"},{"first_name":"Cesar","full_name":"Reyes, Cesar","last_name":"Reyes"},{"first_name":"Hayden A.","full_name":"Sharma, Hayden A.","last_name":"Sharma"},{"full_name":"Sheong, Fu Kit","first_name":"Fu Kit","last_name":"Sheong"},{"last_name":"Thoma","first_name":"Benjamin","full_name":"Thoma, Benjamin"},{"first_name":"Andrew V.","full_name":"Tran, Andrew V.","last_name":"Tran"},{"first_name":"Duc N.","full_name":"Tran, Duc N.","last_name":"Tran"},{"full_name":"Aguilar Troyano, Francisco José","first_name":"Francisco José","last_name":"Aguilar Troyano"},{"full_name":"Verheyen, Thomas","first_name":"Thomas","last_name":"Verheyen"},{"first_name":"Mark P.","full_name":"Walsh, Mark P.","last_name":"Walsh"},{"last_name":"Wagner","full_name":"Wagner, Alicia","first_name":"Alicia"},{"first_name":"Emily R.","full_name":"Wearing, Emily R.","last_name":"Wearing"},{"last_name":"Wuitschik","full_name":"Wuitschik, Georg","first_name":"Georg"}],"scopus_import":"1","type":"journal_article","volume":102,"extern":"1","article_processing_charge":"No"},{"publisher":"Institute of Science and Technology Austria","doi":"10.15479/AT-ISTA-20780","abstract":[{"text":"Sex-chromosome systems are highly variable across animals, but how they transition from one to another is not well understood. Diptera have undergone multiple sex-chromosome turnovers and expansions while maintaining their general chromosomal content, which makes them an ideal clade to study such transitions. We analysed more than 100 dipteran whole-genome assemblies and identified 4 new lineages that underwent sex-chromosome turnover (in addition to the 5 previously reported). We find the majority of turnovers happened in the group Schizophora, which tend to have fewer genes on the F element (the chromosome homologous to the ancestral insect X chromosome) than lower dipterans, a factor previously hypothesized to facilitate turnover. Most derived X chromosomes have higher GC content than autosomes, consistent with a high prevalence of male-achiasmy in Diptera. In addition, an excess of gene movement out of the X is detected for most of these new X chromosomes, and many of these moved genes have high testis expression in Drosophila, suggesting that out-of-X gene movement contributes to the long-term demasculinization of X chromosomes.","lang":"eng"}],"oa":1,"has_accepted_license":"1","month":"12","corr_author":"1","status":"public","date_published":"2025-12-01T00:00:00Z","date_created":"2025-12-10T23:40:14Z","file":[{"file_id":"20799","creator":"llayanaf","success":1,"file_size":4575,"checksum":"251e7aab01917c2ad2fbccf465492ea1","content_type":"application/zip","relation":"main_file","date_updated":"2025-12-11T10:47:15Z","file_name":"Perl_scripts.zip","access_level":"open_access","date_created":"2025-12-11T10:47:15Z"},{"checksum":"daf1c03149dd170b14e5c8e109ee3c77","file_id":"20800","creator":"llayanaf","success":1,"file_size":19052849,"file_name":"Supplementary_Datasets.zip","access_level":"open_access","date_created":"2025-12-11T10:52:17Z","content_type":"application/zip","date_updated":"2025-12-11T10:52:17Z","relation":"main_file"},{"checksum":"658d6e95a361b0a3db058b7b4e1733d4","creator":"llayanaf","success":1,"file_size":566476,"file_id":"20801","date_created":"2025-12-11T10:52:11Z","access_level":"open_access","file_name":"Supplementary_Tables.zip","relation":"main_file","date_updated":"2025-12-11T10:52:11Z","content_type":"application/zip"},{"date_created":"2025-12-11T11:00:53Z","access_level":"open_access","file_name":"README.txt","date_updated":"2025-12-11T11:00:53Z","relation":"main_file","content_type":"text/plain","checksum":"2a2b92eb9fade0015719190596a8c5b7","file_size":1204,"creator":"llayanaf","success":1,"file_id":"20802"}],"user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","keyword":["Schizophora","sex chromosomes","sex-chromosome turnover","Diptera","genomic features","out-of-X movement."],"file_date_updated":"2025-12-11T11:00:53Z","citation":{"short":"L.A. Layana Franco, M.A. Toups, B. Vicoso, (2025).","mla":"Layana Franco, Lorena Alexandra, et al. <i>Causes and Consequences of Sex-Chromosome Turnovers in Diptera</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20780\">10.15479/AT-ISTA-20780</a>.","ieee":"L. A. Layana Franco, M. A. Toups, and B. Vicoso, “Causes and consequences of sex-chromosome turnovers in Diptera.” Institute of Science and Technology Austria, 2025.","apa":"Layana Franco, L. A., Toups, M. A., &#38; Vicoso, B. (2025). Causes and consequences of sex-chromosome turnovers in Diptera. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20780\">https://doi.org/10.15479/AT-ISTA-20780</a>","ista":"Layana Franco LA, Toups MA, Vicoso B. 2025. Causes and consequences of sex-chromosome turnovers in Diptera, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT-ISTA-20780\">10.15479/AT-ISTA-20780</a>.","chicago":"Layana Franco, Lorena Alexandra, Melissa A Toups, and Beatriz Vicoso. “Causes and Consequences of Sex-Chromosome Turnovers in Diptera.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20780\">https://doi.org/10.15479/AT-ISTA-20780</a>.","ama":"Layana Franco LA, Toups MA, Vicoso B. Causes and consequences of sex-chromosome turnovers in Diptera. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20780\">10.15479/AT-ISTA-20780</a>"},"article_processing_charge":"No","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"author":[{"orcid":"0000-0002-1253-6297","last_name":"Layana Franco","id":"02814589-eb8f-11eb-b029-a70074f3f18f","first_name":"Lorena Alexandra","full_name":"Layana Franco, Lorena Alexandra"},{"first_name":"Melissa A","full_name":"Toups, Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9752-7380","last_name":"Toups"},{"last_name":"Vicoso","orcid":"0000-0002-4579-8306","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","first_name":"Beatriz"}],"oa_version":"Published Version","date_updated":"2026-06-10T08:27:48Z","year":"2025","department":[{"_id":"BeVi"}],"acknowledged_ssus":[{"_id":"ScienComp"}],"_id":"20780","type":"research_data","fulldoi":"https://doi.org/10.15479/AT-ISTA-20780","title":"Causes and consequences of sex-chromosome turnovers in Diptera"},{"article_type":"original","doi":"10.1073/pnas.2511549122","language":[{"iso":"eng"}],"project":[{"_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","call_identifier":"H2020","grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program"},{"grant_number":"805041","_id":"629205d8-2b32-11ec-9570-e1356ff73576","call_identifier":"H2020","name":"Organization of CLoUdS, and implications of Tropical  cyclones and for the Energetics of the tropics, in current and waRming climate"}],"external_id":{"pmid":["41284872"]},"oa":1,"month":"12","issue":"48","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"date_created":"2025-12-11T10:41:13Z","status":"public","file":[{"date_created":"2025-12-15T09:17:33Z","file_name":"2025_PNAS_Bao.pdf","access_level":"open_access","relation":"main_file","date_updated":"2025-12-15T09:17:33Z","content_type":"application/pdf","checksum":"093a8685170e4a1de9176f68ee449493","file_size":30890293,"success":1,"creator":"dernst","file_id":"20822"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Bao J, Bony S, Takasuka D, Muller CJ. 2025. Tropics-wide intraseasonal oscillations. Proceedings of the National Academy of Sciences. 122(48), e2511549122.","chicago":"Bao, Jiawei, Sandrine Bony, Daisuke Takasuka, and Caroline J Muller. “Tropics-Wide Intraseasonal Oscillations.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2025. <a href=\"https://doi.org/10.1073/pnas.2511549122\">https://doi.org/10.1073/pnas.2511549122</a>.","ama":"Bao J, Bony S, Takasuka D, Muller CJ. Tropics-wide intraseasonal oscillations. <i>Proceedings of the National Academy of Sciences</i>. 2025;122(48). doi:<a href=\"https://doi.org/10.1073/pnas.2511549122\">10.1073/pnas.2511549122</a>","mla":"Bao, Jiawei, et al. “Tropics-Wide Intraseasonal Oscillations.” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 48, e2511549122, National Academy of Sciences, 2025, doi:<a href=\"https://doi.org/10.1073/pnas.2511549122\">10.1073/pnas.2511549122</a>.","short":"J. Bao, S. Bony, D. Takasuka, C.J. Muller, Proceedings of the National Academy of Sciences 122 (2025).","ieee":"J. Bao, S. Bony, D. Takasuka, and C. J. Muller, “Tropics-wide intraseasonal oscillations,” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 48. National Academy of Sciences, 2025.","apa":"Bao, J., Bony, S., Takasuka, D., &#38; Muller, C. J. (2025). Tropics-wide intraseasonal oscillations. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2511549122\">https://doi.org/10.1073/pnas.2511549122</a>"},"file_date_updated":"2025-12-15T09:17:33Z","ec_funded":1,"day":"02","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","APC_amount":"5651,35 EUR","OA_type":"hybrid","pmid":1,"publication_status":"published","fulldoi":"https://doi.org/10.1073/pnas.2511549122","title":"Tropics-wide intraseasonal oscillations","article_number":"e2511549122","_id":"20795","publisher":"National Academy of Sciences","intvolume":"       122","abstract":[{"lang":"eng","text":"The tropical climate variability is characterized by various oscillations across a range of timescales. Oscillations that imprint the tropical mean state are generally attributed to slow processes, such as the seasonal cycle or interannual variability. Here, we identify a pronounced tropics-wide intraseasonal oscillation (TWISO) in satellite observations and reanalyses. This oscillation, with a period of 30 to 60 d, is evident across multiple variables and involves interactions between convection, radiation, surface fluxes, and large-scale circulation. It is primarily manifested as convective perturbations in the tropical Indo-Pacific warm pool accompanied by oscillations in the large-scale tropical overturning circulation. Here, we examine the relationship between TWISO, the Madden–Julian Oscillation (MJO), and the instability of radiative-convective equilibrium. Certain phases of TWISO coincide with specific phases of the MJO, suggesting a potential connection between the two. However, although the MJO can amplify the oscillation amplitude of TWISO, it is not essential for TWISO to occur. Finally, due to its broad manifestation across the tropics, TWISO potentially exerts widespread influence on tropical weather and climate at regional scales."}],"corr_author":"1","has_accepted_license":"1","ddc":["550"],"quality_controlled":"1","date_published":"2025-12-02T00:00:00Z","OA_place":"publisher","publication":"Proceedings of the National Academy of Sciences","PlanS_conform":"1","acknowledgement":"J.B. acknowledges funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant (grant agreement No. 101034413). S.B. acknowledges funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Project Mesoscale organization of tropical convection, grant agreement No 101098063). D.T. acknowledges funding from the Japan Society for the Promotion of Science (JSPS) (Project JSPS Grants-in-Aid for Scientific Research, grant No. JP24K22893). C.M. gratefully acknowledges funding from the ERC under the European Union’s Horizon 2020 research and innovation program (Project organisation of CLoUdS, and implications for Tropical cyclones and for the Energetics of the tropics, in current and in a waRming climate, grant agreement No. 805041). We thank Martin Singh, Steven Sherwood, Bjorn Stevens, and Lokahith Agasthya for helpful discussions. JSPS Core-to-Core Program, “International Core-to-Core Project on Global Storm Resolving Analysis” (Grant Number: JPJSCCA20220001)","article_processing_charge":"Yes (in subscription journal)","year":"2025","date_updated":"2026-05-20T08:11:56Z","author":[{"last_name":"Bao","id":"bb9a7399-fefd-11ed-be3c-ae648fd1d160","full_name":"Bao, Jiawei","first_name":"Jiawei"},{"last_name":"Bony","first_name":"Sandrine","full_name":"Bony, Sandrine"},{"last_name":"Takasuka","full_name":"Takasuka, Daisuke","first_name":"Daisuke"},{"first_name":"Caroline J","full_name":"Muller, Caroline J","id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","orcid":"0000-0001-5836-5350","last_name":"Muller"}],"department":[{"_id":"CaMu"}],"volume":122,"related_material":{"link":[{"relation":"press_release","description":"News on ISTA website","url":"https://ista.ac.at/en/news/hidden-in-plain-sight/"}]},"scopus_import":"1","type":"journal_article"},{"date_updated":"2025-12-15T09:28:37Z","author":[{"last_name":"Paouneskou","full_name":"Paouneskou, Dimitra","first_name":"Dimitra"},{"full_name":"Baudrimont, Antoine","first_name":"Antoine","last_name":"Baudrimont"},{"last_name":"Kelemen","orcid":"0000-0002-8489-9281","id":"48D3F8DE-F248-11E8-B48F-1D18A9856A87","full_name":"Kelemen, Réka K","first_name":"Réka K"},{"full_name":"Elkrewi, Marwan N","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","orcid":"0000-0002-5328-7231","last_name":"Elkrewi"},{"last_name":"Graf","first_name":"Angela","full_name":"Graf, Angela"},{"first_name":"Shehab","full_name":"Moukbel Ali Aldawla, Shehab","last_name":"Moukbel Ali Aldawla"},{"last_name":"Kölbl","first_name":"Claudia","full_name":"Kölbl, Claudia"},{"last_name":"Tiemann-Boege","first_name":"Irene","full_name":"Tiemann-Boege, Irene"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","last_name":"Vicoso","orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","first_name":"Beatriz"},{"last_name":"Jantsch","first_name":"Verena","full_name":"Jantsch, Verena"}],"year":"2025","volume":16,"department":[{"_id":"BeVi"}],"type":"journal_article","scopus_import":"1","PlanS_conform":"1","acknowledgement":"We are grateful to Monique Zetka, Nicola Silva, and Yumi Kim, Needhi Bhalla, George Krohne and Rueyling Lin for providing reagents; Scott Kennedy for sharing the multiplexed FISH library; and members of the Max Perutz Labs’ BioOptics facility (Irmgard Fischer, Josef Gotzmann, Thomas Peterbauer, Clara Bodner, and Nick Wedige) for training and support in image acquisition. We also thank the members of the NGS facility at the Vienna Biocenter. This work was funded by the Austrian Science Fund (FWF) SFB projects F 8805-B (VJ), https://doi.org/10.55776/F88, F 8809-B (ITB), and F8810-B (BV). We are also grateful to members of the V. Jantsch laboratory for helpful discussions. Some strains were provided by the Caenorhabditis Genetics Center, which is funded by the National Institutes of Health Office of Research Infrastructure Programs (P40OD010440).","article_processing_charge":"Yes","has_accepted_license":"1","quality_controlled":"1","ddc":["570"],"publication":"Nature Communications","OA_place":"publisher","date_published":"2025-11-25T00:00:00Z","publisher":"Springer Nature","intvolume":"        16","abstract":[{"lang":"eng","text":"Rapid prophase chromosome movements ensure faithful alignment of the parental homologous chromosomes and successful synapsis formation during meiosis. These movements are driven by cytoplasmic forces transmitted to the nuclear periphery, where chromosome ends are attached through transmembrane proteins. During many developmental stages a specific genome architecture with chromatin nuclear periphery contacts mediates specific gene expression. Whether chromatin is removed from the nuclear periphery as a consequence of chromosome motions or by a specific mechanism is not fully understood. Here, we identify a mechanism to remove chromatin from the nuclear periphery through vaccinia related kinase (VRK-1)–dependent phosphorylation of Barrier to Autointegration Factor 1 (BAF-1) in Caenorhabditis elegans early prophase of meiosis. Interfering with chromatin removal delays chromosome pairing, impairs synapsis, produces oocytes with abnormal chromosomes and elevated apoptosis. Long read sequencing reveals deletions and duplications in offspring lacking VRK-1 underscoring the importance of the BAF-1–VRK-1 module in preserving genome stability in gametes during rapid chromosome movements."}],"DOAJ_listed":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","OA_type":"gold","publication_status":"published","pmid":1,"_id":"20796","title":"BAF-1–VRK-1 mediated release of meiotic chromosomes from the nuclear periphery is important for genome integrity","fulldoi":"https://doi.org/10.1038/s41467-025-65420-9","article_number":"10446","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2025-12-15T09:25:51Z","citation":{"apa":"Paouneskou, D., Baudrimont, A., Kelemen, R. K., Elkrewi, M. N., Graf, A., Moukbel Ali Aldawla, S., … Jantsch, V. (2025). BAF-1–VRK-1 mediated release of meiotic chromosomes from the nuclear periphery is important for genome integrity. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-025-65420-9\">https://doi.org/10.1038/s41467-025-65420-9</a>","ieee":"D. Paouneskou <i>et al.</i>, “BAF-1–VRK-1 mediated release of meiotic chromosomes from the nuclear periphery is important for genome integrity,” <i>Nature Communications</i>, vol. 16. Springer Nature, 2025.","mla":"Paouneskou, Dimitra, et al. “BAF-1–VRK-1 Mediated Release of Meiotic Chromosomes from the Nuclear Periphery Is Important for Genome Integrity.” <i>Nature Communications</i>, vol. 16, 10446, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41467-025-65420-9\">10.1038/s41467-025-65420-9</a>.","short":"D. Paouneskou, A. Baudrimont, R.K. Kelemen, M.N. Elkrewi, A. Graf, S. Moukbel Ali Aldawla, C. Kölbl, I. Tiemann-Boege, B. Vicoso, V. Jantsch, Nature Communications 16 (2025).","ama":"Paouneskou D, Baudrimont A, Kelemen RK, et al. BAF-1–VRK-1 mediated release of meiotic chromosomes from the nuclear periphery is important for genome integrity. <i>Nature Communications</i>. 2025;16. doi:<a href=\"https://doi.org/10.1038/s41467-025-65420-9\">10.1038/s41467-025-65420-9</a>","chicago":"Paouneskou, Dimitra, Antoine Baudrimont, Réka K Kelemen, Marwan N Elkrewi, Angela Graf, Shehab Moukbel Ali Aldawla, Claudia Kölbl, Irene Tiemann-Boege, Beatriz Vicoso, and Verena Jantsch. “BAF-1–VRK-1 Mediated Release of Meiotic Chromosomes from the Nuclear Periphery Is Important for Genome Integrity.” <i>Nature Communications</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41467-025-65420-9\">https://doi.org/10.1038/s41467-025-65420-9</a>.","ista":"Paouneskou D, Baudrimont A, Kelemen RK, Elkrewi MN, Graf A, Moukbel Ali Aldawla S, Kölbl C, Tiemann-Boege I, Vicoso B, Jantsch V. 2025. BAF-1–VRK-1 mediated release of meiotic chromosomes from the nuclear periphery is important for genome integrity. Nature Communications. 16, 10446."},"day":"25","month":"11","status":"public","date_created":"2025-12-11T10:45:06Z","publication_identifier":{"eissn":["2041-1723"]},"file":[{"date_created":"2025-12-15T09:25:51Z","file_name":"2025_NatureComm_Paouneskou.pdf","access_level":"open_access","date_updated":"2025-12-15T09:25:51Z","relation":"main_file","content_type":"application/pdf","checksum":"a952f7ea050242b79008540de49a0e61","success":1,"creator":"dernst","file_size":8096309,"file_id":"20823"}],"language":[{"iso":"eng"}],"article_type":"original","doi":"10.1038/s41467-025-65420-9","project":[{"name":"The highjacking of meiosis for asexual reproduction","grant_number":"F8810","_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396"}],"oa":1,"external_id":{"pmid":["41290579"]}},{"article_processing_charge":"Yes","acknowledgement":"Generation Scotland received core support from the Chief Scientist Office of the Scottish Government Health Directorates [CZD/16/6] and the Scottish Funding Council [HR03006] and is currently supported by the Wellcome Trust [216767/Z/19/Z]. Genotyping of the Generation Scotland samples was carried out by the Genetics Core Laboratory at the Edinburgh Clinical Research Facility, University of Edinburgh, Scotland and was funded by the Medical Research Council UK and the Wellcome Trust (Wellcome Trust Strategic Award “STratifying Resilience and Depression Longitudinally” (STRADL) Reference 104036/Z/14/Z). The DNA methylation profiling and analysis was supported by Wellcome Investigator Award 220857/Z/20/Z and Grant 104036/Z/14/Z (PI: Prof AM McIntosh) and through funding from NARSAD (Ref: 27404; awardee: Dr DM Howard) and the Royal College of Physicians of Edinburgh (Sim Fellowship; Awardee: Prof HC Whalley).\r\nJAR is a University of Edinburgh Clinical Academic Track PhD student, supported by the Wellcome Trust (319878/Z/24/Z). ADC was supported by a Medical Research Council PhD Studentship in Precision Medicine with funding from the Medical Research Council Doctoral Training Program and the University of Edinburgh College of Medicine and Veterinary Medicine. HMS is a student on the University of Edinburgh Translational Neuroscience PhD programme funded by the Wellcome Trust (218493/Z/19/Z). CH was funded by MRC Human Genetics Unit program (QTL in Health and Disease) (grant U.MC_UU_00007/10). S.R.C. is supported by a Sir Henry Dale Fellowship jointly funded by the Wellcome Trust and the Royal Society (221890/Z/20/Z). JM and REM were supported by Alzheimer’s Society project grant AS-PG-19b-010.","author":[{"first_name":"Josephine A.","full_name":"Robertson, Josephine A.","last_name":"Robertson"},{"last_name":"Bajzik","id":"b995e25b-8c4b-11ed-a6d8-f71b7bcd6122","first_name":"Jakub","full_name":"Bajzik, Jakub"},{"last_name":"Vernardis","full_name":"Vernardis, Spyros","first_name":"Spyros"},{"last_name":"Chybowska","first_name":"Aleksandra D.","full_name":"Chybowska, Aleksandra D."},{"full_name":"Mccartney, Daniel L.","first_name":"Daniel L.","last_name":"Mccartney"},{"full_name":"Grauslys, Arturas","first_name":"Arturas","last_name":"Grauslys"},{"last_name":"Mur","full_name":"Mur, Jure","first_name":"Jure"},{"last_name":"Smith","first_name":"Hannah M.","full_name":"Smith, Hannah M."},{"last_name":"Campbell","full_name":"Campbell, Archie","first_name":"Archie"},{"first_name":"Camilla","full_name":"Drake, Camilla","last_name":"Drake"},{"first_name":"Hannah","full_name":"Grant, Hannah","last_name":"Grant"},{"last_name":"Pearce","full_name":"Pearce, Jamie","first_name":"Jamie"},{"full_name":"Russ, Tom C.","first_name":"Tom C.","last_name":"Russ"},{"full_name":"Adkin, Poppy","first_name":"Poppy","last_name":"Adkin"},{"full_name":"White, Matthew","first_name":"Matthew","last_name":"White"},{"last_name":"Brigden","full_name":"Brigden, Charles","first_name":"Charles"},{"first_name":"Christoph B.","full_name":"Messner, Christoph B.","last_name":"Messner"},{"last_name":"Porteous","full_name":"Porteous, David J.","first_name":"David J."},{"last_name":"Hayward","full_name":"Hayward, Caroline","first_name":"Caroline"},{"last_name":"Cox","first_name":"Simon R.","full_name":"Cox, Simon R."},{"last_name":"Zelezniak","full_name":"Zelezniak, Aleksej","first_name":"Aleksej"},{"full_name":"Ralser, Markus","first_name":"Markus","last_name":"Ralser"},{"first_name":"Matthew Richard","full_name":"Robinson, Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","last_name":"Robinson"},{"last_name":"Marioni","full_name":"Marioni, Riccardo E.","first_name":"Riccardo E."}],"date_updated":"2025-12-15T13:19:41Z","year":"2025","type":"journal_article","scopus_import":"1","department":[{"_id":"MaRo"}],"volume":26,"intvolume":"        26","publisher":"Springer Nature","abstract":[{"lang":"eng","text":"Background: DNA methylation (DNAm) can regulate gene expression, and its genome-wide patterns (epigenetic scores or EpiScores) can act as biomarkers for complex traits. The relative stability of methylation profiles may enable better assessment of chronic exposures compared to single time-point protein measures. We present the first large-scale epigenetic study of the highly-abundant serum proteome measured via ultra-high throughput mass spectrometry in 14,671 samples from the Generation Scotland cohort. We further demonstrate the first large-scale comparison of protein EpiScores and their respective proteins as predictors of incident cardiovascular disease.\r\n\r\nResults: Marginal epigenome-wide association models, adjusting for age, sex, measurement batch, estimated white cell proportions, BMI, smoking and methylation principal components, reveal 15,855 significant CpG – protein associations across 125 of 133 proteins PBonferroni < 2.71 × 10-10. Bayesian epigenome-wide association studies of the same 133 proteins reveal 697 CpG-Protein associations (posterior inclusion probability > 0.95). 112 protein EpiScores correlate significantly with their respective protein in a holdout test-set. Of these, sixteen associate significantly with incident all-cause cardiovascular disease (Nevents=191) compared to one measured protein.\r\n\r\nConclusions: We highlight a complex interplay between the blood-based methylome and proteome. Importantly, we show that protein EpiScores correlate with measured proteins and demonstrate that the, as-yet understudied, high-abundance proteome may yield clinically relevant biomarkers. The protein EpiScores demonstrate more significant associations with cardiovascular disease than directly measured proteins, suggesting their potential as clinical biomarkers for monitoring or predicting disease risk. We suggest that biomarker development could be enhanced by the consideration of protein EpiScores alongside measured proteins."}],"DOAJ_listed":"1","quality_controlled":"1","ddc":["570"],"has_accepted_license":"1","publication":"Genome Biology","date_published":"2025-12-08T00:00:00Z","OA_place":"publisher","file_date_updated":"2025-12-15T13:18:07Z","citation":{"ista":"Robertson JA, Bajzik J, Vernardis S, Chybowska AD, Mccartney DL, Grauslys A, Mur J, Smith HM, Campbell A, Drake C, Grant H, Pearce J, Russ TC, Adkin P, White M, Brigden C, Messner CB, Porteous DJ, Hayward C, Cox SR, Zelezniak A, Ralser M, Robinson MR, Marioni RE. 2025. Methylome-wide association studies and epigenetic biomarker development for 133 mass spectrometry-assessed circulating proteins in 14,671 Generation Scotland participants. Genome Biology. 26, 417.","ama":"Robertson JA, Bajzik J, Vernardis S, et al. Methylome-wide association studies and epigenetic biomarker development for 133 mass spectrometry-assessed circulating proteins in 14,671 Generation Scotland participants. <i>Genome Biology</i>. 2025;26. doi:<a href=\"https://doi.org/10.1186/s13059-025-03892-0\">10.1186/s13059-025-03892-0</a>","chicago":"Robertson, Josephine A., Jakub Bajzik, Spyros Vernardis, Aleksandra D. Chybowska, Daniel L. Mccartney, Arturas Grauslys, Jure Mur, et al. “Methylome-Wide Association Studies and Epigenetic Biomarker Development for 133 Mass Spectrometry-Assessed Circulating Proteins in 14,671 Generation Scotland Participants.” <i>Genome Biology</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1186/s13059-025-03892-0\">https://doi.org/10.1186/s13059-025-03892-0</a>.","ieee":"J. A. Robertson <i>et al.</i>, “Methylome-wide association studies and epigenetic biomarker development for 133 mass spectrometry-assessed circulating proteins in 14,671 Generation Scotland participants,” <i>Genome Biology</i>, vol. 26. Springer Nature, 2025.","apa":"Robertson, J. A., Bajzik, J., Vernardis, S., Chybowska, A. D., Mccartney, D. L., Grauslys, A., … Marioni, R. E. (2025). Methylome-wide association studies and epigenetic biomarker development for 133 mass spectrometry-assessed circulating proteins in 14,671 Generation Scotland participants. <i>Genome Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s13059-025-03892-0\">https://doi.org/10.1186/s13059-025-03892-0</a>","short":"J.A. Robertson, J. Bajzik, S. Vernardis, A.D. Chybowska, D.L. Mccartney, A. Grauslys, J. Mur, H.M. Smith, A. Campbell, C. Drake, H. Grant, J. Pearce, T.C. Russ, P. Adkin, M. White, C. Brigden, C.B. Messner, D.J. Porteous, C. Hayward, S.R. Cox, A. Zelezniak, M. Ralser, M.R. Robinson, R.E. Marioni, Genome Biology 26 (2025).","mla":"Robertson, Josephine A., et al. “Methylome-Wide Association Studies and Epigenetic Biomarker Development for 133 Mass Spectrometry-Assessed Circulating Proteins in 14,671 Generation Scotland Participants.” <i>Genome Biology</i>, vol. 26, 417, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1186/s13059-025-03892-0\">10.1186/s13059-025-03892-0</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"08","pmid":1,"publication_status":"published","OA_type":"gold","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","_id":"20816","fulldoi":"https://doi.org/10.1186/s13059-025-03892-0","article_number":"417","title":"Methylome-wide association studies and epigenetic biomarker development for 133 mass spectrometry-assessed circulating proteins in 14,671 Generation Scotland participants","article_type":"original","doi":"10.1186/s13059-025-03892-0","language":[{"iso":"eng"}],"oa":1,"external_id":{"pmid":["41361833"]},"month":"12","file":[{"date_created":"2025-12-15T13:18:07Z","file_name":"2025_GenomeBiology_Robertson.pdf","access_level":"open_access","date_updated":"2025-12-15T13:18:07Z","relation":"main_file","content_type":"application/pdf","checksum":"7c92919af1b5820d01e91e08906a411f","creator":"dernst","success":1,"file_size":2206991,"file_id":"20825"}],"status":"public","date_created":"2025-12-14T23:02:04Z","publication_identifier":{"issn":["1474-7596"],"eissn":["1474-760X"]}},{"oa":1,"external_id":{"isi":["001451378900002"]},"project":[{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"},{"name":"What’s in a memory? Spatiotemporal dynamics in strongly coupled recurrent neuronal networks.","grant_number":"214316/Z/18/Z","_id":"c084a126-5a5b-11eb-8a69-d75314a70a87"}],"language":[{"iso":"eng"}],"article_type":"original","doi":"10.1103/PhysRevX.15.011057","file":[{"file_name":"2025_PhysReviewX_Podlaski.pdf","access_level":"open_access","date_created":"2025-03-20T12:47:17Z","content_type":"application/pdf","date_updated":"2025-03-20T12:47:17Z","relation":"main_file","checksum":"1f27ee469ab51a3e1ce1e2df0022e81d","file_id":"19432","file_size":1373704,"creator":"dernst","success":1}],"locked":"1","status":"public","date_created":"2020-07-16T12:24:28Z","publication_identifier":{"eissn":["2160-3308"]},"month":"03","day":"13","citation":{"ista":"Podlaski WF, Agnes EJ, Vogels TP. 2025. High capacity and dynamic accessibility in associative memory networks with context-dependent neuronal and synaptic gating. Physical Review X. 15, 011057.","chicago":"Podlaski, William F., Everton J. Agnes, and Tim P Vogels. “High Capacity and Dynamic Accessibility in Associative Memory Networks with Context-Dependent Neuronal and Synaptic Gating.” <i>Physical Review X</i>. American Physical Society, 2025. <a href=\"https://doi.org/10.1103/PhysRevX.15.011057\">https://doi.org/10.1103/PhysRevX.15.011057</a>.","ama":"Podlaski WF, Agnes EJ, Vogels TP. High capacity and dynamic accessibility in associative memory networks with context-dependent neuronal and synaptic gating. <i>Physical Review X</i>. 2025;15. doi:<a href=\"https://doi.org/10.1103/PhysRevX.15.011057\">10.1103/PhysRevX.15.011057</a>","mla":"Podlaski, William F., et al. “High Capacity and Dynamic Accessibility in Associative Memory Networks with Context-Dependent Neuronal and Synaptic Gating.” <i>Physical Review X</i>, vol. 15, 011057, American Physical Society, 2025, doi:<a href=\"https://doi.org/10.1103/PhysRevX.15.011057\">10.1103/PhysRevX.15.011057</a>.","short":"W.F. Podlaski, E.J. Agnes, T.P. Vogels, Physical Review X 15 (2025).","ieee":"W. F. Podlaski, E. J. Agnes, and T. P. Vogels, “High capacity and dynamic accessibility in associative memory networks with context-dependent neuronal and synaptic gating,” <i>Physical Review X</i>, vol. 15. American Physical Society, 2025.","apa":"Podlaski, W. F., Agnes, E. J., &#38; Vogels, T. P. (2025). High capacity and dynamic accessibility in associative memory networks with context-dependent neuronal and synaptic gating. <i>Physical Review X</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevX.15.011057\">https://doi.org/10.1103/PhysRevX.15.011057</a>"},"file_date_updated":"2025-03-20T12:47:17Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"8125","fulldoi":"https://doi.org/10.1103/PhysRevX.15.011057","title":"High capacity and dynamic accessibility in associative memory networks with context-dependent neuronal and synaptic gating","article_number":"011057","publication_status":"published","OA_type":"gold","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"APC_amount":"4910,08 EUR","abstract":[{"lang":"eng","text":"Biological memory is known to be flexible—memory formation and recall depend on factors such as the behavioral context of the organism. However, this property is often ignored in associative memory models, leaving it unclear how memories can be organized and recalled when subject to contextual control. Because of the lack of a rigorous analytical framework, it is also unknown how contextual control affects memory stability, storage capacity, and information content. Here, we bring the dynamic nature of memory to the fore by introducing a novel model of associative memory, which we refer to as the context-modular memory network. In our model, stored memory patterns are associated to one of several background network states, or contexts. Memories are accessible when their corresponding context is active, and are otherwise inaccessible. Context modulates the effective network connectivity by imposing a specific\r\nconfiguration of neuronal and synaptic gating—gated neurons (synapses) have their activity (weights) momentarily silenced, thereby reducing interference from memories belonging to other contexts. Memory patterns are randomly and independently chosen, while neuronal and synaptic gates may be selected randomly or optimized through a process of contextual synaptic refinement. Through analytic and numerical results, we show that context-modular memory networks can exhibit both improved memory capacity and differential control of memory stability with random gating (especially for neuronal gating). For contextual synaptic refinement, we devise a method in which synapses are gated off for a given context if they destabilize the memory patterns in that context, drastically improving memory capacity and enabling even more precise control over memory stability. Notably, synaptic refinement allows for patterns to be\r\naccessible in multiple contexts, stabilizing memory patterns even for weight matrices that alone do not contain any information about the memory patterns, such as Gaussian random matrices. Overall, our model integrates recent ideas about context-dependent memory organization with classic associative memory models and proposes a rigorous theory which can act as a framework for future work. Furthermore, our work carries important implications for the understanding of biological memory storage and recall in the brain, such as highlighting an intriguing trade-off between memory capacity and accessibility."}],"intvolume":"        15","publisher":"American Physical Society","publication":"Physical Review X","date_published":"2025-03-13T00:00:00Z","OA_place":"publisher","quality_controlled":"1","ddc":["530"],"has_accepted_license":"1","corr_author":"1","article_processing_charge":"Yes","acknowledgement":"We thank Helen Barron, Vezha Boboeva, Adam Packer, João Sacramento, Andrew Saxe, Misha Tsodyks, and Friedemann Zenke for helpful comments at various stages of this work, and Rubem Erichsen, Jr. for carefully reading the manuscript and valuable comments. This work was\r\nsupported by a Sir Henry Dale Fellowship by the Wellcome Trust and the Royal Society [No. WT100000 (W. F. P., E. J. A., and T. P. V.)], a Wellcome Trust Senior Research Fellowship [No. 214316/Z/18/Z (E. J. A. and T. P. V.)], and a Research Project Grant by the Leverhulme Trust\r\n[No. RPG-2016-446 (E. J. A.)]. ","scopus_import":"1","type":"journal_article","department":[{"_id":"TiVo"}],"volume":15,"related_material":{"link":[{"relation":"software","url":"https://github.com/wpodlaski/contextual-memory-nets"}]},"isi":1,"date_updated":"2026-05-06T12:44:27Z","author":[{"last_name":"Podlaski","orcid":"0000-0001-6619-7502","full_name":"Podlaski, William F.","first_name":"William F."},{"first_name":"Everton J.","full_name":"Agnes, Everton J.","last_name":"Agnes","orcid":"0000-0001-7184-7311"},{"full_name":"Vogels, Tim P","first_name":"Tim P","last_name":"Vogels","orcid":"0000-0003-3295-6181","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425"}],"year":"2025"},{"language":[{"iso":"eng"}],"doi":"10.1038/s41467-025-60308-0","article_type":"original","external_id":{"isi":["001523450500035"]},"oa":1,"project":[{"name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","_id":"260018B0-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"725780"}],"month":"07","file":[{"checksum":"f59748cb67232cfb210035d9aef60836","success":1,"creator":"dernst","file_size":17018106,"file_id":"19971","date_created":"2025-07-07T09:52:46Z","file_name":"2025_NatureComm_Gao.pdf","access_level":"open_access","relation":"main_file","date_updated":"2025-07-07T09:52:46Z","content_type":"application/pdf"}],"date_created":"2020-10-06T08:58:59Z","publication_identifier":{"eissn":["2041-1723"]},"status":"public","citation":{"ieee":"X. Gao <i>et al.</i>, “Reduction of neuronal activity mediated by blood-vessel regression in the brain,” <i>Nature Communications</i>, vol. 16. Springer Nature, 2025.","apa":"Gao, X., Li, J.-L., Chen, X., Ci, B., Chen, F., Lu, N., … Ge, W. (2025). Reduction of neuronal activity mediated by blood-vessel regression in the brain. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-025-60308-0\">https://doi.org/10.1038/s41467-025-60308-0</a>","mla":"Gao, Xiaofei, et al. “Reduction of Neuronal Activity Mediated by Blood-Vessel Regression in the Brain.” <i>Nature Communications</i>, vol. 16, 5840, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41467-025-60308-0\">10.1038/s41467-025-60308-0</a>.","short":"X. Gao, J.-L. Li, X. Chen, B. Ci, F. Chen, N. Lu, B. Shen, L. Zheng, J.-M. Jia, Y. Yi, S. Zhang, Y.-C. Shi, K. Shi, N.E. Propson, Y. Huang, K. Poinsatte, Z. Zhang, Y. Yue, D.B. Bosco, Y. Lu, S. Yang, R.H. Adams, V. Lindner, F. Huang, L.-J. Wu, H. Zheng, F. Han, S. Hippenmeyer, A.M. Stowe, B. Peng, M. Margeta, X. Wang, Q. Liu, J. Körbelin, M. Trepel, H. Lu, B.O. Zhou, H. Zhao, W. Su, R.M. Bachoo, W. Ge, Nature Communications 16 (2025).","ista":"Gao X, Li J-L, Chen X, Ci B, Chen F, Lu N, Shen B, Zheng L, Jia J-M, Yi Y, Zhang S, Shi Y-C, Shi K, Propson NE, Huang Y, Poinsatte K, Zhang Z, Yue Y, Bosco DB, Lu Y, Yang S, Adams RH, Lindner V, Huang F, Wu L-J, Zheng H, Han F, Hippenmeyer S, Stowe AM, Peng B, Margeta M, Wang X, Liu Q, Körbelin J, Trepel M, Lu H, Zhou BO, Zhao H, Su W, Bachoo RM, Ge W. 2025. Reduction of neuronal activity mediated by blood-vessel regression in the brain. Nature Communications. 16, 5840.","chicago":"Gao, Xiaofei, Jun-Liszt Li, Xingjun Chen, Bo Ci, Fei Chen, Nannan Lu, Bo Shen, et al. “Reduction of Neuronal Activity Mediated by Blood-Vessel Regression in the Brain.” <i>Nature Communications</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41467-025-60308-0\">https://doi.org/10.1038/s41467-025-60308-0</a>.","ama":"Gao X, Li J-L, Chen X, et al. Reduction of neuronal activity mediated by blood-vessel regression in the brain. <i>Nature Communications</i>. 2025;16. doi:<a href=\"https://doi.org/10.1038/s41467-025-60308-0\">10.1038/s41467-025-60308-0</a>"},"ec_funded":1,"file_date_updated":"2025-07-07T09:52:46Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","OA_type":"gold","publication_status":"published","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"oa_version":"Published Version","article_number":"5840","fulldoi":"https://doi.org/10.1038/s41467-025-60308-0","title":"Reduction of neuronal activity mediated by blood-vessel regression in the brain","_id":"8616","intvolume":"        16","publisher":"Springer Nature","DOAJ_listed":"1","abstract":[{"lang":"eng","text":"The brain vasculature supplies neurons with glucose and oxygen, but little is known about how vascular plasticity contributes to brain function. Using longitudinal in vivo imaging, we report that a substantial proportion of blood vessels in the adult mouse brain sporadically occlude and regress. Their regression proceeds through sequential stages of blood-flow occlusion, endothelial cell collapse, relocation or loss of pericytes, and retraction of glial endfeet. Regressing vessels are found to be widespread in mouse, monkey and human brains. We further reveal that blood vessel regression cause a reduction of neuronal activity due to a dysfunction in mitochondrial metabolism and glutamate production. Our results elucidate the mechanism of vessel regression and its role in neuronal function in the adult brain."}],"ddc":["570"],"quality_controlled":"1","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","has_accepted_license":"1","OA_place":"publisher","date_published":"2025-07-01T00:00:00Z","publication":"Nature Communications","acknowledgement":"The project was initiated in the Jan lab at UCSF. We thank Lily Jan and Yuh-Nung Jan’s generous support. We thank Liqun Luo’s lab for providing MADM-7 mice and Rolf A Brekken for VEGF-antibodies.  Drs. Yuanquan Song (UPenn), Zhaozhu Hu (JHU), Ji Hu (ShanghaiTech), Yang Xiang (U. Mass), Hao Wang (Zhejiang U.) and Ruikang Wang (U. Washington) for critical input, colleagues at Children’s Research Institute, Departments of Neuroscience, Neurology and Neurotherapeutics, Pediatrics from UT Southwestern, and colleagues from the Jan lab for discussion. Dr. Bridget Samuels, Sean Morrison (UT Southwestern), and Nannan Lu (Zhejiang U.) for critical reading. We acknowledge the assistance of the CIBR Imaging core. We also thank UT Southwestern Live Cell Imaging Facility, a Shared Resource of the Harold C. Simmons Cancer Center, supported in part by an NCI Cancer Center Support Grant, P30 CA142543K. This work is supported by CIBR funds and the American Heart Association AWRP Summer 2016 Innovative Research Grant (17IRG33410377) to W-P.G.; National Natural Science Foundation of China (No.81370031) to Z.Z.;National Key Research and Development Program of China (2016YFE0125400)to F.H.;National Natural Science Foundations of China (No. 81473202) to Y.L.; National Natural Science Foundation of China (No.31600839) and Shenzhen Science and Technology Research Program (JCYJ20170818163320865) to B.P.; National Natural Science Foundation of China (No. 31800864) and Westlake University start-up funds to J-M. J. NIH R01NS088627 to W.L.J.; NIH: R01 AG020670 and RF1AG054111 to H.Z.; R01 NS088555 to A.M.S., and European Research Council No.725780 to S.H.;W-P.G. was a recipient of Bugher-American Heart Association Dan Adams Thinking Outside the Box Award.","article_processing_charge":"Yes","isi":1,"year":"2025","date_updated":"2025-09-04T07:08:37Z","author":[{"first_name":"Xiaofei","full_name":"Gao, Xiaofei","last_name":"Gao"},{"last_name":"Li","full_name":"Li, Jun-Liszt","first_name":"Jun-Liszt"},{"last_name":"Chen","full_name":"Chen, Xingjun","first_name":"Xingjun"},{"last_name":"Ci","first_name":"Bo","full_name":"Ci, Bo"},{"full_name":"Chen, Fei","first_name":"Fei","last_name":"Chen"},{"full_name":"Lu, Nannan","first_name":"Nannan","last_name":"Lu"},{"first_name":"Bo","full_name":"Shen, Bo","last_name":"Shen"},{"last_name":"Zheng","full_name":"Zheng, Lijun","first_name":"Lijun"},{"first_name":"Jie-Min","full_name":"Jia, Jie-Min","last_name":"Jia"},{"full_name":"Yi, Yating","first_name":"Yating","last_name":"Yi"},{"first_name":"Shiwen","full_name":"Zhang, Shiwen","last_name":"Zhang"},{"last_name":"Shi","full_name":"Shi, Ying-Chao","first_name":"Ying-Chao"},{"last_name":"Shi","first_name":"Kaibin","full_name":"Shi, Kaibin"},{"last_name":"Propson","first_name":"Nicholas E","full_name":"Propson, Nicholas E"},{"first_name":"Yubin","full_name":"Huang, Yubin","last_name":"Huang"},{"first_name":"Katherine","full_name":"Poinsatte, Katherine","last_name":"Poinsatte"},{"first_name":"Zhaohuan","full_name":"Zhang, Zhaohuan","last_name":"Zhang"},{"first_name":"Yuanlei","full_name":"Yue, Yuanlei","last_name":"Yue"},{"full_name":"Bosco, Dale B","first_name":"Dale B","last_name":"Bosco"},{"first_name":"Ying-mei","full_name":"Lu, Ying-mei","last_name":"Lu"},{"last_name":"Yang","full_name":"Yang, Shi-bing","first_name":"Shi-bing"},{"last_name":"Adams","full_name":"Adams, Ralf H.","first_name":"Ralf H."},{"last_name":"Lindner","first_name":"Volkhard","full_name":"Lindner, Volkhard"},{"last_name":"Huang","first_name":"Fen","full_name":"Huang, Fen"},{"first_name":"Long-Jun","full_name":"Wu, Long-Jun","last_name":"Wu"},{"first_name":"Hui","full_name":"Zheng, Hui","last_name":"Zheng"},{"full_name":"Han, Feng","first_name":"Feng","last_name":"Han"},{"full_name":"Hippenmeyer, Simon","first_name":"Simon","last_name":"Hippenmeyer","orcid":"0000-0003-2279-1061","id":"37B36620-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ann M.","full_name":"Stowe, Ann M.","last_name":"Stowe"},{"full_name":"Peng, Bo","first_name":"Bo","last_name":"Peng"},{"first_name":"Marta","full_name":"Margeta, Marta","last_name":"Margeta"},{"full_name":"Wang, Xiaoqun","first_name":"Xiaoqun","last_name":"Wang"},{"last_name":"Liu","first_name":"Qiang","full_name":"Liu, Qiang"},{"first_name":"Jakob","full_name":"Körbelin, Jakob","last_name":"Körbelin"},{"full_name":"Trepel, Martin","first_name":"Martin","last_name":"Trepel"},{"last_name":"Lu","first_name":"Hui","full_name":"Lu, Hui"},{"last_name":"Zhou","first_name":"Bo O.","full_name":"Zhou, Bo O."},{"first_name":"Hu","full_name":"Zhao, Hu","last_name":"Zhao"},{"last_name":"Su","first_name":"Wenzhi","full_name":"Su, Wenzhi"},{"first_name":"Robert M.","full_name":"Bachoo, Robert M.","last_name":"Bachoo"},{"first_name":"Woo-ping","full_name":"Ge, Woo-ping","last_name":"Ge"}],"scopus_import":"1","type":"journal_article","volume":16,"department":[{"_id":"SiHi"}]},{"publication":"Journal of the European Academy of Dermatology and Venereology","OA_place":"publisher","date_published":"2025-02-01T00:00:00Z","quality_controlled":"1","ddc":["570"],"has_accepted_license":"1","abstract":[{"lang":"eng","text":"Atopic dermatitis (AD) is the most common chronic inflammatory skin disease worldwide. AD is a highly complex disease with different subtypes. Many elements of AD pathophysiology have been described, but if/how they interact with each other or which mechanisms are important in which patients is still unclear. Langerhans cells (LCs) are antigen-presenting cells (APCs) in the epidermis. Depending on the context, they can act either pro- or anti-inflammatory. Many different studies have investigated LCs in the context of AD and found them to be connected to all major mechanisms of AD pathophysiology. As APCs, LCs recruit other immune cells and shape the immune response, especially adaptive immunity via polarization of T cells. As sentinel cells, LCs are primary sensors of the skin microbiome and are important for the decision of immunity versus tolerance. LCs are also involved with the integrity of the skin barrier by influencing tight junctions. Finally, LCs are important cells in the neuro-immune crosstalk in the skin. In this review, we provide an overview about the many different roles of LCs in AD. Understanding LCs might bring us closer to a more complete understanding of this highly complex disease. Potentially, modulating LCs might offer new options for targeted therapies for AD patients."}],"intvolume":"        39","publisher":"Wiley","type":"journal_article","scopus_import":"1","volume":39,"department":[{"_id":"MiSi"}],"isi":1,"date_updated":"2025-05-19T13:58:50Z","author":[{"first_name":"Yi","full_name":"Pan, Yi","last_name":"Pan"},{"full_name":"Hochgerner, Mathias","first_name":"Mathias","last_name":"Hochgerner"},{"id":"d63197a3-c188-11ed-9387-8d33a3f13871","last_name":"Cichon","first_name":"Malgorzata Anna","full_name":"Cichon, Malgorzata Anna"},{"first_name":"Theresa","full_name":"Benezeder, Theresa","last_name":"Benezeder"},{"last_name":"Bieber","full_name":"Bieber, Thomas","first_name":"Thomas"},{"first_name":"Peter","full_name":"Wolf, Peter","last_name":"Wolf"}],"year":"2025","acknowledgement":"This work was supported by the CK-CARE of the KühneFoundation, Switzerland; the China Scholarship Counciland Shanghai Biocelline Enterprise Co. Ltd, China.","article_processing_charge":"Yes (in subscription journal)","file":[{"date_updated":"2025-04-16T09:59:37Z","relation":"main_file","content_type":"application/pdf","date_created":"2025-04-16T09:59:37Z","access_level":"open_access","file_name":"2025_JEADV_Pan.pdf","success":1,"creator":"dernst","file_size":457698,"file_id":"19583","checksum":"12555ddb3490daf10b8d44e334e7312e"}],"status":"public","publication_identifier":{"issn":["0926-9959"],"eissn":["1468-3083"]},"date_created":"2024-08-25T22:01:07Z","issue":"2","month":"02","oa":1,"external_id":{"pmid":["39157943"],"isi":["001292894900001"]},"page":"278-289","article_type":"original","doi":"10.1111/jdv.20291","language":[{"iso":"eng"}],"_id":"17459","title":"Langerhans cells: Central players in the pathophysiology of atopic dermatitis","fulldoi":"https://doi.org/10.1111/jdv.20291","publication_status":"published","OA_type":"hybrid","pmid":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","day":"01","citation":{"apa":"Pan, Y., Hochgerner, M., Cichon, M. A., Benezeder, T., Bieber, T., &#38; Wolf, P. (2025). Langerhans cells: Central players in the pathophysiology of atopic dermatitis. <i>Journal of the European Academy of Dermatology and Venereology</i>. Wiley. <a href=\"https://doi.org/10.1111/jdv.20291\">https://doi.org/10.1111/jdv.20291</a>","ieee":"Y. Pan, M. Hochgerner, M. A. Cichon, T. Benezeder, T. Bieber, and P. Wolf, “Langerhans cells: Central players in the pathophysiology of atopic dermatitis,” <i>Journal of the European Academy of Dermatology and Venereology</i>, vol. 39, no. 2. Wiley, pp. 278–289, 2025.","mla":"Pan, Yi, et al. “Langerhans Cells: Central Players in the Pathophysiology of Atopic Dermatitis.” <i>Journal of the European Academy of Dermatology and Venereology</i>, vol. 39, no. 2, Wiley, 2025, pp. 278–89, doi:<a href=\"https://doi.org/10.1111/jdv.20291\">10.1111/jdv.20291</a>.","short":"Y. Pan, M. Hochgerner, M.A. Cichon, T. Benezeder, T. Bieber, P. Wolf, Journal of the European Academy of Dermatology and Venereology 39 (2025) 278–289.","chicago":"Pan, Yi, Mathias Hochgerner, Malgorzata Anna Cichon, Theresa Benezeder, Thomas Bieber, and Peter Wolf. “Langerhans Cells: Central Players in the Pathophysiology of Atopic Dermatitis.” <i>Journal of the European Academy of Dermatology and Venereology</i>. Wiley, 2025. <a href=\"https://doi.org/10.1111/jdv.20291\">https://doi.org/10.1111/jdv.20291</a>.","ama":"Pan Y, Hochgerner M, Cichon MA, Benezeder T, Bieber T, Wolf P. Langerhans cells: Central players in the pathophysiology of atopic dermatitis. <i>Journal of the European Academy of Dermatology and Venereology</i>. 2025;39(2):278-289. doi:<a href=\"https://doi.org/10.1111/jdv.20291\">10.1111/jdv.20291</a>","ista":"Pan Y, Hochgerner M, Cichon MA, Benezeder T, Bieber T, Wolf P. 2025. Langerhans cells: Central players in the pathophysiology of atopic dermatitis. Journal of the European Academy of Dermatology and Venereology. 39(2), 278–289."},"file_date_updated":"2025-04-16T09:59:37Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"issue":"2","month":"02","file":[{"success":1,"creator":"dernst","file_size":731175,"file_id":"18830","checksum":"eb240e93c178e48429ad918c9058f1fe","date_updated":"2025-01-13T08:57:57Z","relation":"main_file","content_type":"application/pdf","date_created":"2025-01-13T08:57:57Z","file_name":"2024_JourAlgebra_Loewit.pdf","access_level":"open_access"}],"date_created":"2024-09-29T22:01:37Z","publication_identifier":{"eissn":["1090-266X"],"issn":["0021-8693"]},"status":"public","doi":"10.1016/j.jalgebra.2024.08.033","language":[{"iso":"eng"}],"article_type":"original","page":"81-118","external_id":{"arxiv":["2404.11176"],"isi":["001325207800001"]},"oa":1,"publication_status":"published","OA_type":"hybrid","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"fulldoi":"https://doi.org/10.1016/j.jalgebra.2024.08.033","title":"On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn","_id":"18154","citation":{"chicago":"Löwit, Jakub. “On modulo ℓ Cohomology of P-Adic Deligne–Lusztig Varieties for GLn.” <i>Journal of Algebra</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.jalgebra.2024.08.033\">https://doi.org/10.1016/j.jalgebra.2024.08.033</a>.","ama":"Löwit J. On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn. <i>Journal of Algebra</i>. 2025;663(2):81-118. doi:<a href=\"https://doi.org/10.1016/j.jalgebra.2024.08.033\">10.1016/j.jalgebra.2024.08.033</a>","ista":"Löwit J. 2025. On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn. Journal of Algebra. 663(2), 81–118.","mla":"Löwit, Jakub. “On modulo ℓ Cohomology of P-Adic Deligne–Lusztig Varieties for GLn.” <i>Journal of Algebra</i>, vol. 663, no. 2, Elsevier, 2025, pp. 81–118, doi:<a href=\"https://doi.org/10.1016/j.jalgebra.2024.08.033\">10.1016/j.jalgebra.2024.08.033</a>.","short":"J. Löwit, Journal of Algebra 663 (2025) 81–118.","apa":"Löwit, J. (2025). On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn. <i>Journal of Algebra</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jalgebra.2024.08.033\">https://doi.org/10.1016/j.jalgebra.2024.08.033</a>","ieee":"J. Löwit, “On modulo ℓ cohomology of p-adic Deligne–Lusztig varieties for GLn,” <i>Journal of Algebra</i>, vol. 663, no. 2. Elsevier, pp. 81–118, 2025."},"file_date_updated":"2025-01-13T08:57:57Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","ddc":["510"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","OA_place":"publisher","date_published":"2025-02-01T00:00:00Z","publication":"Journal of Algebra","intvolume":"       663","publisher":"Elsevier","abstract":[{"text":"In 1976, Deligne and Lusztig realized the representation theory of finite groups of Lie type inside étale cohomology of certain algebraic varieties. Recently, a p-adic version of this theory started to emerge: there are p-adic Deligne–Lusztig spaces, whose cohomology encodes representation theoretic information for p-adic groups – for instance, it partially realizes the local Langlands correspondence with characteristic zero coefficients. However, the parallel case of coefficients of positive characteristic  ℓ≠p has not been inspected so far. The purpose of this article is to initiate such an inspection. In particular, we relate cohomology of certain p-adic Deligne–Lusztig spaces to Vignéras's modular local Langlands correspondence for GLn.","lang":"eng"}],"isi":1,"year":"2025","date_updated":"2025-02-27T12:32:40Z","author":[{"first_name":"Jakub","full_name":"Löwit, Jakub","id":"e3b80ae2-eb8e-11eb-b029-9aef4a9108a0","last_name":"Löwit"}],"scopus_import":"1","type":"journal_article","department":[{"_id":"TaHa"}],"volume":663,"article_processing_charge":"Yes (via OA deal)","arxiv":1},{"oa":1,"page":"52-65","external_id":{"isi":["001318056000001"],"arxiv":["2303.09459"]},"article_type":"original","language":[{"iso":"eng"}],"doi":"10.1007/s00283-024-10358-x","status":"public","date_created":"2024-09-29T22:01:38Z","publication_identifier":{"issn":["0343-6993"]},"file":[{"date_created":"2025-04-08T11:17:45Z","file_name":"2025_MathIntelligencer_Brunck.pdf","access_level":"open_access","relation":"main_file","date_updated":"2025-04-08T11:17:45Z","content_type":"application/pdf","checksum":"c932ebe45c460d4a73f5b2dcca643db1","success":1,"creator":"dernst","file_size":1760643,"file_id":"19530"}],"month":"03","day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Brunck FR, Kwan MA. 2025. Books, Hallways, and social butterflies: A note on sliding block puzzles. Mathematical Intelligencer. 47, 52–65.","chicago":"Brunck, Florestan R, and Matthew Alan Kwan. “Books, Hallways, and Social Butterflies: A Note on Sliding Block Puzzles.” <i>Mathematical Intelligencer</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1007/s00283-024-10358-x\">https://doi.org/10.1007/s00283-024-10358-x</a>.","ama":"Brunck FR, Kwan MA. Books, Hallways, and social butterflies: A note on sliding block puzzles. <i>Mathematical Intelligencer</i>. 2025;47:52-65. doi:<a href=\"https://doi.org/10.1007/s00283-024-10358-x\">10.1007/s00283-024-10358-x</a>","mla":"Brunck, Florestan R., and Matthew Alan Kwan. “Books, Hallways, and Social Butterflies: A Note on Sliding Block Puzzles.” <i>Mathematical Intelligencer</i>, vol. 47, Springer Nature, 2025, pp. 52–65, doi:<a href=\"https://doi.org/10.1007/s00283-024-10358-x\">10.1007/s00283-024-10358-x</a>.","short":"F.R. Brunck, M.A. Kwan, Mathematical Intelligencer 47 (2025) 52–65.","ieee":"F. R. Brunck and M. A. Kwan, “Books, Hallways, and social butterflies: A note on sliding block puzzles,” <i>Mathematical Intelligencer</i>, vol. 47. Springer Nature, pp. 52–65, 2025.","apa":"Brunck, F. R., &#38; Kwan, M. A. (2025). Books, Hallways, and social butterflies: A note on sliding block puzzles. <i>Mathematical Intelligencer</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00283-024-10358-x\">https://doi.org/10.1007/s00283-024-10358-x</a>"},"file_date_updated":"2025-04-08T11:17:45Z","_id":"18157","title":"Books, Hallways, and social butterflies: A note on sliding block puzzles","fulldoi":"https://doi.org/10.1007/s00283-024-10358-x","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","publication_status":"published","OA_type":"hybrid","abstract":[{"lang":"eng","text":"Interest in sliding block puzzles dates back to the 15-puzzle, seemingly invented by Noyes Chapman in 1874 (see [23] for an account of the fascinating history of the puzzle). The game consists of fifteen movable square blocks numbered \r\n and arranged within a \r\n square box, leaving one empty space (see Figure 1). The task at hand is to start from a given configuration of the numbered blocks and reach the desired target configuration, where the only allowed move is to slide a numbered block into an adjacent empty space. This task seemed to be unpredictably either very easy to accomplish, or completely impossible, and the puzzle turned into a worldwide sensation in the spring of 1880. A particularly challenging instance, known as the 13-15-14 puzzle, consisted of initial and target configurations that differed by a single swap (historically this swap involved the blocks labeled 14 and 15). The craze of this puzzle was such that it consistently made newspaper headlines in 1880, with an article in the New York Times lamenting that it was “threatening our free institutions” [23, p. 9]. Various prizes were offered for anyone who could solve this challenge, beginning with a $25 set of teeth and culminating with Sam Loyd’s famous $1,000 cash prize."}],"publisher":"Springer Nature","intvolume":"        47","publication":"Mathematical Intelligencer","date_published":"2025-03-01T00:00:00Z","OA_place":"publisher","has_accepted_license":"1","quality_controlled":"1","ddc":["510"],"arxiv":1,"acknowledgement":"Open access funding provided by Copenhagen University.","article_processing_charge":"Yes (via OA deal)","volume":47,"department":[{"_id":"UlWa"},{"_id":"MaKw"}],"type":"journal_article","scopus_import":"1","author":[{"last_name":"Brunck","id":"6ab6e556-f394-11eb-9cf6-9dfb78f00d8d","full_name":"Brunck, Florestan R","first_name":"Florestan R"},{"id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","last_name":"Kwan","orcid":"0000-0002-4003-7567","first_name":"Matthew Alan","full_name":"Kwan, Matthew Alan"}],"date_updated":"2025-05-19T14:00:09Z","year":"2025","isi":1},{"language":[{"iso":"eng"}],"article_type":"original","doi":"10.1016/j.scico.2024.103212","project":[{"name":"Vigilant Algorithmic Monitoring of Software","grant_number":"101020093","call_identifier":"H2020","_id":"62781420-2b32-11ec-9570-8d9b63373d4d"}],"external_id":{"isi":["001327852600001"]},"oa":1,"month":"02","issue":"2","publication_identifier":{"issn":["0167-6423"]},"date_created":"2024-10-06T22:01:10Z","status":"public","file":[{"content_type":"application/pdf","relation":"main_file","date_updated":"2025-01-13T09:02:47Z","file_name":"2024_ScienceCompProg_Chalupa.pdf","access_level":"open_access","date_created":"2025-01-13T09:02:47Z","file_id":"18831","creator":"dernst","success":1,"file_size":1173677,"checksum":"cd93c0c356e479ffccfbe8499b6ba8e2"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ec_funded":1,"citation":{"apa":"Chalupa, M., Mühlböck, F., Muroya Lei, S., &#38; Henzinger, T. A. (2025). VAMOS: Middleware for best-effort third-party monitoring. <i>Science of Computer Programming</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.scico.2024.103212\">https://doi.org/10.1016/j.scico.2024.103212</a>","ieee":"M. Chalupa, F. Mühlböck, S. Muroya Lei, and T. A. Henzinger, “VAMOS: Middleware for best-effort third-party monitoring,” <i>Science of Computer Programming</i>, vol. 240, no. 2. Elsevier, 2025.","short":"M. Chalupa, F. Mühlböck, S. Muroya Lei, T.A. Henzinger, Science of Computer Programming 240 (2025).","mla":"Chalupa, Marek, et al. “VAMOS: Middleware for Best-Effort Third-Party Monitoring.” <i>Science of Computer Programming</i>, vol. 240, no. 2, 103212, Elsevier, 2025, doi:<a href=\"https://doi.org/10.1016/j.scico.2024.103212\">10.1016/j.scico.2024.103212</a>.","ama":"Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. VAMOS: Middleware for best-effort third-party monitoring. <i>Science of Computer Programming</i>. 2025;240(2). doi:<a href=\"https://doi.org/10.1016/j.scico.2024.103212\">10.1016/j.scico.2024.103212</a>","chicago":"Chalupa, Marek, Fabian Mühlböck, Stefanie Muroya Lei, and Thomas A Henzinger. “VAMOS: Middleware for Best-Effort Third-Party Monitoring.” <i>Science of Computer Programming</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.scico.2024.103212\">https://doi.org/10.1016/j.scico.2024.103212</a>.","ista":"Chalupa M, Mühlböck F, Muroya Lei S, Henzinger TA. 2025. VAMOS: Middleware for best-effort third-party monitoring. Science of Computer Programming. 240(2), 103212."},"file_date_updated":"2025-01-13T09:02:47Z","day":"01","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"hybrid","publication_status":"published","fulldoi":"https://doi.org/10.1016/j.scico.2024.103212","article_number":"103212","title":"VAMOS: Middleware for best-effort third-party monitoring","_id":"18169","publisher":"Elsevier","intvolume":"       240","abstract":[{"lang":"eng","text":"As the complexity and criticality of software increase every year, so does the importance of runtime monitoring. Third-party and best-effort monitoring are especially valuable, yet under-explored areas of runtime monitoring. In this context, third-party monitoring means monitoring with a limited knowledge of the monitored software (as it has been developed by a third party). Best-effort monitoring keeps pace with the monitored software at the cost of possibly imprecise verdicts when keeping up with the monitored software would not be feasible. Most existing monitoring frameworks do not support the combination of third-party and best-effort monitoring because they either require the full access to the monitored code or the ability to process all observable events, or both.\r\nWe present a middleware framework, Vamos, for the runtime monitoring of software. Vamos is explicitly designed to support third-party and best-effort scenarios. The design goals of Vamos are (i) efficiency (tracing events with low overhead), (ii) flexibility (the ability to monitor a variety of different event channels, and to connect to a wide range of monitors), and (iii) ease-of-use. To achieve its goals, Vamos combines aspects of event broker and event recognition systems with aspects of stream processing systems.\r\nWe implemented a prototype toolchain for Vamos and conducted a set of experiments demonstrating the usability of the scheme. The results indicate that Vamos enables writing useful yet efficient monitors, and simplifies key aspects of setting up a monitoring system from scratch."}],"corr_author":"1","has_accepted_license":"1","ddc":["000"],"quality_controlled":"1","date_published":"2025-02-01T00:00:00Z","OA_place":"publisher","publication":"Science of Computer Programming","article_processing_charge":"Yes (via OA deal)","acknowledgement":"This work was supported in part by the ERC-2020-AdG 101020093. The authors would like to thank the STTT reviewers for their valuable feedback and suggestions.","year":"2025","date_updated":"2025-09-09T12:25:29Z","author":[{"id":"87e34708-d6c6-11ec-9f5b-9391e7be2463","last_name":"Chalupa","full_name":"Chalupa, Marek","first_name":"Marek"},{"full_name":"Mühlböck, Fabian","first_name":"Fabian","orcid":"0000-0003-1548-0177","last_name":"Mühlböck","id":"6395C5F6-89DF-11E9-9C97-6BDFE5697425"},{"first_name":"Stefanie","full_name":"Muroya Lei, Stefanie","id":"a376de31-8972-11ed-ae7b-d0251c13c8ff","last_name":"Muroya Lei"},{"id":"40876CD8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2985-7724","last_name":"Henzinger","full_name":"Henzinger, Thomas A","first_name":"Thomas A"}],"isi":1,"department":[{"_id":"ToHe"}],"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"12856"}]},"volume":240,"scopus_import":"1","type":"journal_article"}]