[{"citation":{"mla":"Kelley, Ron, et al. “Toward Community-Driven Visual Proteomics with Large-Scale Cryo-Electron Tomography of Chlamydomonas Reinhardtii.” Molecular Cell, vol. 86, no. 1, Cell Press, 2026, p. 213–230.e7, doi:10.1016/j.molcel.2025.11.029.","ieee":"R. Kelley et al., “Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii,” Molecular Cell, vol. 86, no. 1. Cell Press, p. 213–230.e7, 2026.","short":"R. Kelley, S. Khavnekar, R.D. Righetto, J. Heebner, M. Obr, X. Zhang, S. Chakraborty, G. Tagiltsev, A.K. Michael, S. Van Dorst, F. Waltz, C.L. Mccafferty, L. Lamm, S. Zufferey, P. Van Der Stappen, H. Van Den Hoek, W. Wietrzynski, P. Harar, W. Wan, J.A.G. Briggs, J.M. Plitzko, B.D. Engel, A. Kotecha, Molecular Cell 86 (2026) 213–230.e7.","chicago":"Kelley, Ron, Sagar Khavnekar, Ricardo D. Righetto, Jessica Heebner, Martin Obr, Xianjun Zhang, Saikat Chakraborty, et al. “Toward Community-Driven Visual Proteomics with Large-Scale Cryo-Electron Tomography of Chlamydomonas Reinhardtii.” Molecular Cell. Cell Press, 2026. https://doi.org/10.1016/j.molcel.2025.11.029.","apa":"Kelley, R., Khavnekar, S., Righetto, R. D., Heebner, J., Obr, M., Zhang, X., … Kotecha, A. (2026). Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. Cell Press. https://doi.org/10.1016/j.molcel.2025.11.029","ama":"Kelley R, Khavnekar S, Righetto RD, et al. Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. 2026;86(1):213-230.e7. doi:10.1016/j.molcel.2025.11.029","ista":"Kelley R, Khavnekar S, Righetto RD, Heebner J, Obr M, Zhang X, Chakraborty S, Tagiltsev G, Michael AK, Van Dorst S, Waltz F, Mccafferty CL, Lamm L, Zufferey S, Van Der Stappen P, Van Den Hoek H, Wietrzynski W, Harar P, Wan W, Briggs JAG, Plitzko JM, Engel BD, Kotecha A. 2026. Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii. Molecular Cell. 86(1), 213–230.e7."},"PlanS_conform":"1","scopus_import":"1","intvolume":" 86","month":"01","issue":"1","ddc":["570"],"status":"public","file_date_updated":"2026-07-28T07:38:45Z","publisher":"Cell Press","date_created":"2026-01-04T23:01:36Z","supplementarymaterial":"yes","has_accepted_license":"1","type":"journal_article","language":[{"iso":"eng"}],"department":[{"_id":"AlMi"}],"doi":"10.1016/j.molcel.2025.11.029","file":[{"file_name":"2026_MolecularCell_Kelley.pdf","relation":"main_file","date_updated":"2026-07-28T07:38:45Z","file_size":26749637,"file_id":"22599","access_level":"open_access","date_created":"2026-07-28T07:38:45Z","checksum":"96a2f8519124d1a0d9de8d2594bf7147","content_type":"application/pdf","creator":"dernst","success":1}],"acknowledgement":"Calculations were performed at the Max Planck Institute of Biochemistry and the Raven Supercomputer of the Max Planck Computing and Data Facility (MPCDF) in Garching, Germany; at the sciCORE (http://scicore.unibas.ch/) scientific computing center at the University of Basel, Switzerland; and at Thermo Fisher Scientific, in Eindhoven, the Netherlands. This work was supported by Thermo Fisher Scientific. All lamella preparations and tilt-series collections used in this work were conducted at Thermo Fisher R&D facilities in Brno and Eindhoven, utilizing Arctis and Krios microscopes. This work was also supported by the ERC consolidator grant “cryOcean” (fulfilled by the Swiss State Secretariat for Education, Research and Innovation, M822.00045) as well as a Swiss Nanoscience Institute PhD school grant to B.D.E. and P.V.d.S., an EMBO long-term postdoctoral fellowship (ALTF-383-2022) to G.T., an SNSF Postdoctoral Fellowship (project 210561) to F.W., a Boehringer Ingelheim Fonds fellowship to L.L., and by the Max Planck Society to J.A.G.B. and J.M.P.","publication_identifier":{"eissn":["1097-4164"],"issn":["1097-2765"]},"day":"08","title":"Toward community-driven visual proteomics with large-scale cryo-electron tomography of Chlamydomonas reinhardtii","page":"213-230.e7","oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"volume":86,"fulldoi":"https://doi.org/10.1016/j.molcel.2025.11.029","oa":1,"article_processing_charge":"Yes (in subscription journal)","publication_status":"published","date_published":"2026-01-08T00:00:00Z","das_tickbox":"1","date_updated":"2026-10-20T09:02:52Z","OA_type":"hybrid","dataavailabilitystatement":"Raw EM data are available at the EMPIAR under accession code EMPIAR: EMPIAR-11830. Annotation and processing information for all 1,829 tomograms are provided in spreadsheet format.153 The following subtomogram averages have been deposited at the Electron Microscopy Data Bank (EMDB): 80S ribosome (EMDB: EMD-51847), nucleosome (EMDB: EMD-19906), PSII (EMDB: EMD-51731), Rubisco (EMDB: EMD-51848), microtubule (EMDB: EMD-51804), clathrin (EMDB: EMD-51789), and ATP synthase (EMDB: EMD-51802). Segmentations shown in Figures 2 and 3 are deposited on Zenodo (https://doi.org/10.5281/zenodo.15875785). Particle positions and orientations used for STA, along with all resources derived from this work, are available on GitHub (https://github.com/Chromatin-Structure-Rhythms-Lab/ChlamyAnnotations). Reconstructed tomograms and annotations are also available to explore interactively at the CZII Cryo-ET Data Portal (DS-10302, https://cryoetdataportal.czscience.com/datasets/10302/). Raw data for cryo-PFIB/SEM slice-and-view of a whole C. reinhardtii cell has also been deposited (EMPIAR: EMPIAR-11275).\r\n\r\nThis paper does not report original code.\r\n\r\nAny additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","_id":"20935","researchdata_availability":"yes","year":"2026","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","author":[{"first_name":"Ron","last_name":"Kelley","full_name":"Kelley, Ron"},{"first_name":"Sagar","last_name":"Khavnekar","full_name":"Khavnekar, Sagar"},{"first_name":"Ricardo D.","last_name":"Righetto","full_name":"Righetto, Ricardo D."},{"last_name":"Heebner","full_name":"Heebner, Jessica","first_name":"Jessica"},{"id":"4741CA5A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1756-6564","last_name":"Obr","full_name":"Obr, Martin","first_name":"Martin"},{"full_name":"Zhang, Xianjun","last_name":"Zhang","first_name":"Xianjun"},{"last_name":"Chakraborty","full_name":"Chakraborty, Saikat","first_name":"Saikat"},{"full_name":"Tagiltsev, Grigory","last_name":"Tagiltsev","first_name":"Grigory"},{"id":"6437c950-2a03-11ee-914d-d6476dd7b75c","orcid":"0000-0002-6080-839X","full_name":"Michael, Alicia","last_name":"Michael","first_name":"Alicia"},{"first_name":"Sofie","last_name":"Van Dorst","full_name":"Van Dorst, Sofie"},{"last_name":"Waltz","full_name":"Waltz, Florent","first_name":"Florent"},{"first_name":"Caitlyn L.","last_name":"Mccafferty","full_name":"Mccafferty, Caitlyn L."},{"full_name":"Lamm, Lorenz","last_name":"Lamm","first_name":"Lorenz"},{"last_name":"Zufferey","full_name":"Zufferey, Simon","first_name":"Simon"},{"first_name":"Philippe","full_name":"Van Der Stappen, Philippe","last_name":"Van Der Stappen"},{"full_name":"Van Den Hoek, Hugo","last_name":"Van Den Hoek","first_name":"Hugo"},{"first_name":"Wojciech","full_name":"Wietrzynski, Wojciech","last_name":"Wietrzynski"},{"orcid":"0000-0001-5206-1794","id":"e03d953a-6e8c-11ef-99e4-f0717d385cd5","first_name":"Pavol","full_name":"Harar, Pavol","last_name":"Harar"},{"full_name":"Wan, William","last_name":"Wan","first_name":"William"},{"first_name":"John A.G.","full_name":"Briggs, John A.G.","last_name":"Briggs"},{"full_name":"Plitzko, Jürgen M.","last_name":"Plitzko","first_name":"Jürgen M."},{"first_name":"Benjamin D.","full_name":"Engel, Benjamin D.","last_name":"Engel"},{"first_name":"Abhay","full_name":"Kotecha, Abhay","last_name":"Kotecha"}],"article_type":"original","abstract":[{"text":"In situ cryo-electron tomography (cryo-ET) has emerged as the method of choice to investigate the structures of biomolecules in their native context. However, challenges remain for the efficient production and sharing of large-scale cryo-ET datasets. Here, we combined cryogenic plasma-based focused ion beam (cryo-PFIB) milling with recent advances in cryo-ET acquisition and processing to generate a dataset of 1,829 annotated tomograms of the green alga Chlamydomonas reinhardtii, which we provide as a community resource to drive method development and inspire biological discovery. To assay data quality, we performed subtomogram averaging of both soluble and membrane-bound complexes ranging in size from >3 MDa to ∼200 kDa, including 80S ribosomes, Rubisco, nucleosomes, microtubules, clathrin, photosystem II, and mitochondrial ATP synthase. The majority of these density maps reached sub-nanometer resolution, demonstrating the potential of this C. reinhardtii dataset as well as the promise of modern cryo-ET workflows and open data sharing to empower visual proteomics.","lang":"eng"}],"quality_controlled":"1","publication":"Molecular Cell"},{"month":"02","PlanS_conform":"1","citation":{"ama":"Calderon Garcia JS, Costalunga G, Vogels TP, Vallentin D. Interplay between syllable duration and pitch during whistle matching in wild nightingales. Current Biology. 2026;36(3):791-798.e6. doi:10.1016/j.cub.2025.12.025","apa":"Calderon Garcia, J. S., Costalunga, G., Vogels, T. P., & Vallentin, D. (2026). Interplay between syllable duration and pitch during whistle matching in wild nightingales. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2025.12.025","chicago":"Calderon Garcia, Juan Sebastian, Giacomo Costalunga, Tim P Vogels, and Daniela Vallentin. “Interplay between Syllable Duration and Pitch during Whistle Matching in Wild Nightingales.” Current Biology. Cell Press, 2026. https://doi.org/10.1016/j.cub.2025.12.025.","ista":"Calderon Garcia JS, Costalunga G, Vogels TP, Vallentin D. 2026. Interplay between syllable duration and pitch during whistle matching in wild nightingales. Current Biology. 36(3), 791–798.e6.","mla":"Calderon Garcia, Juan Sebastian, et al. “Interplay between Syllable Duration and Pitch during Whistle Matching in Wild Nightingales.” Current Biology, vol. 36, no. 3, Cell Press, 2026, p. 791–798.e6, doi:10.1016/j.cub.2025.12.025.","short":"J.S. Calderon Garcia, G. Costalunga, T.P. Vogels, D. Vallentin, Current Biology 36 (2026) 791–798.e6.","ieee":"J. S. Calderon Garcia, G. Costalunga, T. P. Vogels, and D. Vallentin, “Interplay between syllable duration and pitch during whistle matching in wild nightingales,” Current Biology, vol. 36, no. 3. Cell Press, p. 791–798.e6, 2026."},"scopus_import":"1","intvolume":" 36","publisher":"Cell Press","issue":"3","ddc":["570","577"],"status":"public","file_date_updated":"2026-07-27T10:47:55Z","doi":"10.1016/j.cub.2025.12.025","department":[{"_id":"GradSch"},{"_id":"TiVo"}],"file":[{"creator":"dernst","success":1,"checksum":"e17c3537193d5ab4886596d1a04f9b0e","content_type":"application/pdf","access_level":"open_access","date_created":"2026-07-27T10:47:55Z","file_id":"22416","file_name":"2026_CurrentBiology_CalderonGarcia.pdf","file_size":7120959,"date_updated":"2026-07-27T10:47:55Z","relation":"main_file"}],"date_created":"2026-01-14T12:00:29Z","supplementarymaterial":"yes","type":"journal_article","has_accepted_license":"1","language":[{"iso":"eng"}],"oa_version":"Published Version","acknowledgement":"We would like to thank J. Benichov and N. Hein for their help with fieldwork; M. Ramadas for helping with the segmentation analysis; T. Eliav, C. Chintaluri, G. Tkacik, and A. Navas for providing helpful comments to the project and manuscript; and A. Costalunga for the drawings of nightingales. Funding sources: The Joachim Herz Stiftung Add-on Fellowships for Interdisciplinary Life Science, awarded to G.C.; the ERC Consolidator Grant 819603 SYNAPSEEK, awarded to T.P.V.; and DFG Research Unit 5768–532521431, DFG Research Grant-547921981, DFG SFB 1315–327654276, and the ERC Starting Grant 757459 MIDNIGHT, awarded to D.V.","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"day":"02","page":"791-798.e6","title":"Interplay between syllable duration and pitch during whistle matching in wild nightingales","article_processing_charge":"Yes (in subscription journal)","oa":1,"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"fulldoi":"https://doi.org/10.1016/j.cub.2025.12.025","volume":36,"project":[{"call_identifier":"H2020","name":"Learning the shape of synaptic plasticity rules for neuronal architectures and function through machine learning.","_id":"0aacfa84-070f-11eb-9043-d7eb2c709234","grant_number":"819603"}],"date_published":"2026-02-02T00:00:00Z","das_tickbox":"1","dataavailabilitystatement":"All data have been deposited at https://github.com/vallentinlab/NG-whistle-durations and are publicly available as of the date of publication.\r\nAll original code has been deposited at https://github.com/vallentinlab/NG-whistle-durations and is publicly available as of the date of publication.\r\nAny additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","date_updated":"2026-10-20T09:02:18Z","ec_funded":1,"OA_type":"hybrid","pmid":1,"publication_status":"published","article_type":"original","author":[{"id":"1271b54b-dbcd-11ea-9d1d-d92da838fe2c","first_name":"Juan Sebastian","full_name":"Calderon Garcia, Juan Sebastian","last_name":"Calderon Garcia"},{"full_name":"Costalunga, Giacomo","last_name":"Costalunga","first_name":"Giacomo"},{"orcid":"0000-0003-3295-6181","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","first_name":"Tim P","last_name":"Vogels","full_name":"Vogels, Tim P"},{"first_name":"Daniela","full_name":"Vallentin, Daniela","last_name":"Vallentin"}],"abstract":[{"text":"During complex vocal interactions, different features of acoustic stimuli are integrated to produce appropriate vocal responses,1 such as copying sounds during vocal matching behavior in some animals.2,3,4,5,6,7,8,9,10,11,12 However, little is known about the interplay and possible trade-offs between the different temporal and spectral acoustic features during these vocal exchanges.2,13,14 Nightingales can flexibly match the pitch of their tonal “whistle songs” in real time during counter-singing duels.15,16 Here, we show that the syllable duration of whistle playbacks could alter the song responses of wild nightingales, causing their whistle duration distribution to shift toward the presented stimulus duration. When exposed to whistle playbacks featuring unnatural combinations of pitch and duration, nightingales demonstrate a flexible trade-off between pitch matching and temporal imitation, yet they are constrained by their vocal repertoire. They selectively adapted their vocal responses to approximate these novel stimuli, aligning them with their natural whistle repertoire. We developed a computational model of nightingale whistle-matching behavior that revealed a hierarchical organization of acoustic feature production. During whistle matching, the feature integration process is constrained by the duration of syllables, and pitch matching follows within this temporal framework, forcing a trade-off between the two features. Our findings reveal a complex interplay between the spectral and temporal domains that shapes song-matching behavior.","lang":"eng"}],"publication":"Current Biology","quality_controlled":"1","_id":"20986","external_id":{"pmid":["41529680"]},"researchdata_availability":"yes","year":"2026","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher"},{"article_number":"115192","file_date_updated":"2026-07-27T12:03:23Z","status":"public","ddc":["570"],"issue":"4","publisher":"Cell Press","intvolume":" 29","scopus_import":"1","PlanS_conform":"1","citation":{"mla":"Akther, Sonam, et al. “Distribution and Functional Significance of Rodent Cerebellar Glycogen.” IScience, vol. 29, no. 4, 115192, Cell Press, 2026, doi:10.1016/j.isci.2026.115192.","ieee":"S. Akther et al., “Distribution and functional significance of rodent cerebellar glycogen,” iScience, vol. 29, no. 4. Cell Press, 2026.","short":"S. Akther, A.B. Lee, A. Konno, A. Asiminas, M. Vittani, T. Mishima, H. Hirai, C.F. Meehan, J. Duran, J. Guinovart, H. Ashida, T. Morita, O. Baba, R. Shigemoto, M. Nedergaard, H. Hirase, IScience 29 (2026).","ama":"Akther S, Lee AB, Konno A, et al. Distribution and functional significance of rodent cerebellar glycogen. iScience. 2026;29(4). doi:10.1016/j.isci.2026.115192","apa":"Akther, S., Lee, A. B., Konno, A., Asiminas, A., Vittani, M., Mishima, T., … Hirase, H. (2026). Distribution and functional significance of rodent cerebellar glycogen. IScience. Cell Press. https://doi.org/10.1016/j.isci.2026.115192","chicago":"Akther, Sonam, Ashley Bomin Lee, Ayumu Konno, Antonis Asiminas, Marta Vittani, Tsuneko Mishima, Hirokazu Hirai, et al. “Distribution and Functional Significance of Rodent Cerebellar Glycogen.” IScience. Cell Press, 2026. https://doi.org/10.1016/j.isci.2026.115192.","ista":"Akther S, Lee AB, Konno A, Asiminas A, Vittani M, Mishima T, Hirai H, Meehan CF, Duran J, Guinovart J, Ashida H, Morita T, Baba O, Shigemoto R, Nedergaard M, Hirase H. 2026. Distribution and functional significance of rodent cerebellar glycogen. iScience. 29(4), 115192."},"month":"04","title":"Distribution and functional significance of rodent cerebellar glycogen","day":"17","publication_identifier":{"eissn":["2589-0042"]},"acknowledgement":"This work was supported by the Novo Nordisk Foundation (NNFOC0058058, H. Hirase), the Danmarks Frie Forskningsfond (0134-00107B and 5283-00069A, H.Hirase), the Lundbeck Foundation, Japan Society for the Promotion of Science Grants-in-Aid for Scientific Research (KAKENHI) program (22K06454/24H01221, A.K.; 23K27482, H.Hirai), the Japan Agency for Medical Research and Development (AMED) Brain Mapping by Integrated Neurotechnologies for Disease Studies (Brain/MINDS) (JP21dm0207111, H. Hirai), AMED Brain/MINDS 2.0 (JP23wm0625001 and JP24wm0625103, H. Hirai), and grants from the Spanish Ministerio de Ciencia e Innovación (MCIU/FEDER/AEI) (PID2020-118699 GB-100, J.D.) and the Fundación Ramón Areces (J.D.). Sonam Akther has been supported by the RIKEN IPA fellowship. We are thankful to Dr. Yuki Oe for his support in the initial stage of this study and to Dan Xue for his help with the graphical abstract. We thank Dr. Pia Weikop for providing CTN research infrastructure. The authors declare no competing financial interests.","oa_version":"Published Version","language":[{"iso":"eng"}],"type":"journal_article","has_accepted_license":"1","supplementarymaterial":"no","date_created":"2026-03-29T22:07:07Z","file":[{"date_created":"2026-07-27T12:03:23Z","access_level":"open_access","date_updated":"2026-07-27T12:03:23Z","relation":"main_file","file_size":14469960,"file_name":"2026_iScience_Akther.pdf","file_id":"22427","content_type":"application/pdf","checksum":"9c9ccc87072d04808e4af407d647ed20","success":1,"creator":"dernst"}],"doi":"10.1016/j.isci.2026.115192","department":[{"_id":"RySh"}],"volume":29,"fulldoi":"https://doi.org/10.1016/j.isci.2026.115192","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes","oa":1,"OA_place":"publisher","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2026","researchdata_availability":"upon request","external_id":{"pmid":["41890976"]},"_id":"21502","DOAJ_listed":"1","publication":"iScience","quality_controlled":"1","abstract":[{"text":"The mammalian brain stores glucose, the main circulating energy substrate, as glycogen. In rodents, the cerebellum contains relatively high glycogen levels, yet its cellular and subcellular distribution remains poorly defined. Using monoclonal antibodies against glycogen, we examined its distribution in the mouse cerebellar cortex. Glycogen was predominantly localized to Bergmann glia (BG) processes in the molecular layer and was also detected in Purkinje cells (PCs), the principal cerebellar neurons. To assess the functional significance of cerebellar glycogen, we analyzed behavior in mice lacking glycogen synthase 1 (Gys1) in BG or PCs using a floxed Gys1 line. Gys1 deficiency in either PCs or GFAP-positive cells reduced anxiety-like behavior, whereas combined deletion caused PC degeneration and ataxia. These findings reveal a critical role for glycogen metabolism in both astrocytes and neurons in cerebellar function.","lang":"eng"}],"article_type":"original","author":[{"last_name":"Akther","full_name":"Akther, Sonam","first_name":"Sonam"},{"full_name":"Lee, Ashley Bomin","last_name":"Lee","first_name":"Ashley Bomin"},{"first_name":"Ayumu","full_name":"Konno, Ayumu","last_name":"Konno"},{"first_name":"Antonis","last_name":"Asiminas","full_name":"Asiminas, Antonis"},{"first_name":"Marta","full_name":"Vittani, Marta","last_name":"Vittani"},{"full_name":"Mishima, Tsuneko","last_name":"Mishima","first_name":"Tsuneko"},{"full_name":"Hirai, Hirokazu","last_name":"Hirai","first_name":"Hirokazu"},{"last_name":"Meehan","full_name":"Meehan, Claire Francesca","first_name":"Claire Francesca"},{"first_name":"Jordi","last_name":"Duran","full_name":"Duran, Jordi"},{"full_name":"Guinovart, Joan","last_name":"Guinovart","first_name":"Joan"},{"first_name":"Hitoshi","last_name":"Ashida","full_name":"Ashida, Hitoshi"},{"last_name":"Morita","full_name":"Morita, Tsuyoshi","first_name":"Tsuyoshi"},{"first_name":"Otto","last_name":"Baba","full_name":"Baba, Otto"},{"first_name":"Ryuichi","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi","orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Maiken","last_name":"Nedergaard","full_name":"Nedergaard, Maiken"},{"first_name":"Hajime","last_name":"Hirase","full_name":"Hirase, Hajime"}],"publication_status":"published","pmid":1,"date_updated":"2026-10-20T09:02:33Z","OA_type":"gold","dataavailabilitystatement":"This study did not generate new materials or reagents.All data supporting the findings of this study are available from the lead contact upon reasonable request.\r\nThis study did not generate any new code.\r\nAdditional raw data can be obtained from the lead contact upon reasonable request.","das_tickbox":"1","date_published":"2026-04-17T00:00:00Z"},{"project":[{"name":"Circadian structural transitions of chromatin","_id":"9136c684-16d5-11f0-9cad-91c0177b365f","grant_number":"101162145"}],"article_processing_charge":"Yes","oa":1,"volume":7,"fulldoi":"https://doi.org/10.1016/j.xpro.2025.104295","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"quality_controlled":"1","publication":"STAR Protocols","abstract":[{"lang":"eng","text":"Pioneer transcription factors (TFs) possess the ability to read out DNA motifs embedded within nucleosomes, driving changes in gene expression during cellular differentiation and reprogramming. Here, we present selected engagement on nucleosome sequencing (SeEN-seq), a protocol designed to systematically identify potential TF-binding sites on the nucleosome. We describe steps for nucleosome library assembly, SeEN-seq assay, and cryoelectron microscopy (cryo-EM) sample preparation. This protocol facilitates the preparation of homogeneous pioneer TF-nucleosome complexes for cryo-EM structure determination using single-particle analysis.\r\nFor complete details on the use and execution of this protocol, please refer to Michael et al.1"}],"article_type":"original","author":[{"first_name":"Wataru","full_name":"Kobayashi, Wataru","last_name":"Kobayashi"},{"full_name":"Michael, Alicia","last_name":"Michael","first_name":"Alicia","id":"6437c950-2a03-11ee-914d-d6476dd7b75c","orcid":"0000-0002-6080-839X"},{"first_name":"Siwat","last_name":"Ruangroengkulrith","full_name":"Ruangroengkulrith, Siwat"},{"last_name":"Kümmecke","full_name":"Kümmecke, Maximilian","first_name":"Maximilian"},{"last_name":"Tachibana","full_name":"Tachibana, Kikuë","first_name":"Kikuë"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","year":"2026","researchdata_availability":"yes","external_id":{"pmid":["41455105"]},"_id":"20924","DOAJ_listed":"1","OA_type":"gold","dataavailabilitystatement":"Raw SeEN-seq data of ESRRB nucleosome binding have been deposited on the Sequence Read Achieve database under the accession PRJNA1305216. Example analysis scripts and input files for SeEN-seq analysis can be found at https://doi.org/10.5281/zenodo.17665082.","date_updated":"2026-10-20T09:01:26Z","das_tickbox":"1","date_published":"2026-03-20T00:00:00Z","publication_status":"published","pmid":1,"publisher":"Cell Press","file_date_updated":"2026-07-23T06:33:24Z","article_number":"104295","status":"public","ddc":["570"],"issue":"1","month":"03","corr_author":"1","intvolume":" 7","scopus_import":"1","citation":{"chicago":"Kobayashi, Wataru, Alicia K. Michael, Siwat Ruangroengkulrith, Maximilian Kümmecke, and Kikuë Tachibana. “Protocol for Integrative Analysis of Transcription Factor-Nucleosome Interactions Using SeEN-Seq and Cryo-EM Structure Determination.” STAR Protocols. Cell Press, 2026. https://doi.org/10.1016/j.xpro.2025.104295.","ama":"Kobayashi W, Michael AK, Ruangroengkulrith S, Kümmecke M, Tachibana K. Protocol for integrative analysis of transcription factor-nucleosome interactions using SeEN-seq and cryo-EM structure determination. STAR Protocols. 2026;7(1). doi:10.1016/j.xpro.2025.104295","apa":"Kobayashi, W., Michael, A. K., Ruangroengkulrith, S., Kümmecke, M., & Tachibana, K. (2026). Protocol for integrative analysis of transcription factor-nucleosome interactions using SeEN-seq and cryo-EM structure determination. STAR Protocols. Cell Press. https://doi.org/10.1016/j.xpro.2025.104295","ista":"Kobayashi W, Michael AK, Ruangroengkulrith S, Kümmecke M, Tachibana K. 2026. Protocol for integrative analysis of transcription factor-nucleosome interactions using SeEN-seq and cryo-EM structure determination. STAR Protocols. 7(1), 104295.","mla":"Kobayashi, Wataru, et al. “Protocol for Integrative Analysis of Transcription Factor-Nucleosome Interactions Using SeEN-Seq and Cryo-EM Structure Determination.” STAR Protocols, vol. 7, no. 1, 104295, Cell Press, 2026, doi:10.1016/j.xpro.2025.104295.","ieee":"W. Kobayashi, A. K. Michael, S. Ruangroengkulrith, M. Kümmecke, and K. Tachibana, “Protocol for integrative analysis of transcription factor-nucleosome interactions using SeEN-seq and cryo-EM structure determination,” STAR Protocols, vol. 7, no. 1. Cell Press, 2026.","short":"W. Kobayashi, A.K. Michael, S. Ruangroengkulrith, M. Kümmecke, K. Tachibana, STAR Protocols 7 (2026)."},"PlanS_conform":"1","oa_version":"Published Version","title":"Protocol for integrative analysis of transcription factor-nucleosome interactions using SeEN-seq and cryo-EM structure determination","day":"20","publication_identifier":{"eissn":["2666-1667"]},"acknowledgement":"We thank R.H. Kim, A. Casper, and R. Gautsch for sequencing at the NGS facility (RRID:SCR_025746). K.T. is an Honorary Professor at the Department of Biology, Ludwig-Maximilians-University, Munich, Germany. This study was funded by European Research Council grant ERC-CoG-818556 TotipotentZygotChrom (K.T.), Max Planck Society (K.T.), and ERC Starting Grant “ChromaChrono” 101162145 (A.K.M.).","file":[{"file_id":"22389","file_size":5531906,"relation":"main_file","date_updated":"2026-07-23T06:33:24Z","file_name":"2026_StarProtocols_Kobayashi.pdf","access_level":"open_access","date_created":"2026-07-23T06:33:24Z","success":1,"creator":"dernst","content_type":"application/pdf","checksum":"cf04b061a48548a649e6a2435bf120db"}],"department":[{"_id":"AlMi"}],"doi":"10.1016/j.xpro.2025.104295","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"journal_article","supplementarymaterial":"yes","date_created":"2026-01-04T23:01:33Z"},{"abstract":[{"lang":"eng","text":"The canonical mechanism by which the phytohormone auxin regulates transcription has been one of the cornerstones of plant signaling. The recent unexpected discovery of cyclic AMP (cAMP) as a second messenger in this pathway has revised its foundations while leaving many open questions and gaps in our understanding; these will be discussed in this forum article."}],"quality_controlled":"1","publication":"Trends in Plant Science","author":[{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří"}],"article_type":"review","year":"2026","researchdata_availability":"no","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","_id":"20725","external_id":{"pmid":["41249070"]},"das_tickbox":"0","date_published":"2026-02-01T00:00:00Z","OA_type":"hybrid","date_updated":"2026-10-20T09:01:46Z","pmid":1,"publication_status":"published","project":[{"name":"Cyclic nucleotides as second messengers in plants","grant_number":"101142681","_id":"8f347782-16d5-11f0-9cad-8c19706ee739"},{"name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors","_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6","grant_number":"P37051"}],"article_processing_charge":"Yes (via OA deal)","oa":1,"volume":31,"fulldoi":"https://doi.org/10.1016/j.tplants.2025.10.018","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","day":"01","page":"136-138","title":"Role of cAMP in TIR1/AFB auxin signaling: Open issues","acknowledgement":"I apologize to colleagues whose relevant work I was unable to cite due to space limitations. This work was funded by the European Union (ERC, CYNIPS, 101142681) and Austrian Science Fund (FWF; 37051-B). I thank Drs Huihuang Chen, Yuanrong Pei, Jason Reed, Linlin Qi, and Dolf Weijers for inspiration and critical input.","publication_identifier":{"eissn":["1878-4372"],"issn":["1360-1385"]},"doi":"10.1016/j.tplants.2025.10.018","department":[{"_id":"JiFr"}],"file":[{"date_created":"2026-07-27T08:26:40Z","access_level":"open_access","file_name":"2026_TrendsPlantScience_Friml.pdf","date_updated":"2026-07-27T08:26:40Z","relation":"main_file","file_size":432792,"file_id":"22413","checksum":"e60e903fb4b3e917dba763976ec652cd","content_type":"application/pdf","creator":"dernst","success":1}],"has_accepted_license":"1","type":"journal_article","language":[{"iso":"eng"}],"date_created":"2025-12-02T16:29:22Z","supplementarymaterial":"no","publisher":"Cell Press","status":"public","file_date_updated":"2026-07-27T08:26:40Z","issue":"2","ddc":["580"],"corr_author":"1","month":"02","intvolume":" 31","citation":{"ista":"Friml J. 2026. Role of cAMP in TIR1/AFB auxin signaling: Open issues. Trends in Plant Science. 31(2), 136–138.","chicago":"Friml, Jiří. “Role of CAMP in TIR1/AFB Auxin Signaling: Open Issues.” Trends in Plant Science. Cell Press, 2026. https://doi.org/10.1016/j.tplants.2025.10.018.","ama":"Friml J. Role of cAMP in TIR1/AFB auxin signaling: Open issues. Trends in Plant Science. 2026;31(2):136-138. doi:10.1016/j.tplants.2025.10.018","apa":"Friml, J. (2026). Role of cAMP in TIR1/AFB auxin signaling: Open issues. Trends in Plant Science. Cell Press. https://doi.org/10.1016/j.tplants.2025.10.018","short":"J. Friml, Trends in Plant Science 31 (2026) 136–138.","ieee":"J. Friml, “Role of cAMP in TIR1/AFB auxin signaling: Open issues,” Trends in Plant Science, vol. 31, no. 2. Cell Press, pp. 136–138, 2026.","mla":"Friml, Jiří. “Role of CAMP in TIR1/AFB Auxin Signaling: Open Issues.” Trends in Plant Science, vol. 31, no. 2, Cell Press, 2026, pp. 136–38, doi:10.1016/j.tplants.2025.10.018."},"PlanS_conform":"1","scopus_import":"1"},{"type":"journal_article","language":[{"iso":"eng"}],"date_created":"2025-11-12T10:03:39Z","supplementarymaterial":"yes","doi":"10.1016/j.devcel.2025.09.009","department":[{"_id":"JiFr"}],"day":"14","page":"73-84","title":"TMK-PIN1 drives a short self-organizing circuit for auxin export and signaling in Arabidopsis","acknowledgement":"We thank Lukáš Fiedler for helping with the writing. This work was supported by the National Key Research and Development Program of China (2023YFA0913500) to T.X., R.H., Y.Y., Y.X., and M.W. and by the National Natural Science Foundation of China grants to T.X. (32130010), Z.Y. (3241101698), and R.H. (32070309 and 32470276) and startup funds from the Fujian Agriculture and Forestry University and the Shanghai Plant Stress Biology Center, Chinese Academy of Sciences to T.X.","publication_identifier":{"issn":["1534-5807"],"eissn":["1878-1551"]},"oa_version":"None","intvolume":" 61","citation":{"ista":"Huang R, Wang J, Chang M, Tang W, Yu Y, Zhang Y, Peng Y, Wang Y, Guo Y, Lu T, Cao Y, Zhou Y, Zhang Q, Huang Y, Wu A, Ren L, Gallei MC, Dong J, Chen H, He J, Wen M, Friml J, Sun L, Xiong Y, Yang Z, Xu T. 2026. TMK-PIN1 drives a short self-organizing circuit for auxin export and signaling in Arabidopsis. Developmental Cell. 61(1), 73–84.","ama":"Huang R, Wang J, Chang M, et al. TMK-PIN1 drives a short self-organizing circuit for auxin export and signaling in Arabidopsis. Developmental Cell. 2026;61(1):73-84. doi:10.1016/j.devcel.2025.09.009","chicago":"Huang, R, J Wang, M Chang, W Tang, Y Yu, Y Zhang, Y Peng, et al. “TMK-PIN1 Drives a Short Self-Organizing Circuit for Auxin Export and Signaling in Arabidopsis.” Developmental Cell. Cell Press, 2026. https://doi.org/10.1016/j.devcel.2025.09.009.","apa":"Huang, R., Wang, J., Chang, M., Tang, W., Yu, Y., Zhang, Y., … Xu, T. (2026). TMK-PIN1 drives a short self-organizing circuit for auxin export and signaling in Arabidopsis. Developmental Cell. Cell Press. https://doi.org/10.1016/j.devcel.2025.09.009","short":"R. Huang, J. Wang, M. Chang, W. Tang, Y. Yu, Y. Zhang, Y. Peng, Y. Wang, Y. Guo, T. Lu, Y. Cao, Y. Zhou, Q. Zhang, Y. Huang, A. Wu, L. Ren, M.C. Gallei, J. Dong, H. Chen, J. He, M. Wen, J. Friml, L. Sun, Y. Xiong, Z. Yang, T. Xu, Developmental Cell 61 (2026) 73–84.","ieee":"R. Huang et al., “TMK-PIN1 drives a short self-organizing circuit for auxin export and signaling in Arabidopsis,” Developmental Cell, vol. 61, no. 1. Cell Press, pp. 73–84, 2026.","mla":"Huang, R., et al. “TMK-PIN1 Drives a Short Self-Organizing Circuit for Auxin Export and Signaling in Arabidopsis.” Developmental Cell, vol. 61, no. 1, Cell Press, 2026, pp. 73–84, doi:10.1016/j.devcel.2025.09.009."},"scopus_import":"1","month":"01","status":"public","issue":"1","publisher":"Cell Press","pmid":1,"publication_status":"published","das_tickbox":"1","date_published":"2026-01-14T00:00:00Z","dataavailabilitystatement":"Plasmids and genetic materials generated in this study will be made available upon request from the lead contact.The mass spectrometry data reported in this work have been deposited at the iProX database. Original western blot gel images have been deposited to Mendeley Data. The accession code and the DOI are listed in the key resources table.\r\nThis paper does not report original code. Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","OA_type":"closed access","date_updated":"2026-10-20T09:02:01Z","year":"2026","researchdata_availability":"upon request","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"20636","external_id":{"pmid":["41043435"]},"abstract":[{"lang":"eng","text":"The versatile and pivotal roles of the phytohormone auxin in regulating plant growth and development are typically linked to its directional transport, relying on the polarized PIN-FORMED (PIN) auxin exporters at the plasma membrane (PM). For decades, auxin has been proposed to promote PIN polarization, generating self-regulatory feedback mediating much of plant development, but mechanistic insight into this regulation is lacking. Here, we uncover an auxin-induced protein complex at the PM, containing auxin co-receptors transmembrane kinases (TMKs) and PIN1 auxin exporter, as the core machinery that underlies this feedback regulation. Auxin promotes PIN1 phosphorylation by TMKs, modulating PIN1 polarization and transport activity. We also provide evidence that PIN1-exported extracellular auxin is crucial for TMK activation and cell elongation, thus forming the simplest two-element self-regulatory feedback circuit. Thus, these findings offer direct mechanistic insights into a potential self-organizing circuit for auxin signaling and transport to ensure proper plant development in Arabidopsis."}],"quality_controlled":"1","publication":"Developmental Cell","article_type":"original","author":[{"last_name":"Huang","full_name":"Huang, R","first_name":"R"},{"first_name":"J","full_name":"Wang, J","last_name":"Wang"},{"first_name":"M","last_name":"Chang","full_name":"Chang, M"},{"first_name":"W","last_name":"Tang","full_name":"Tang, W"},{"full_name":"Yu, Y","last_name":"Yu","first_name":"Y"},{"last_name":"Zhang","full_name":"Zhang, Y","first_name":"Y"},{"first_name":"Y","last_name":"Peng","full_name":"Peng, Y"},{"last_name":"Wang","full_name":"Wang, Y","first_name":"Y"},{"full_name":"Guo, Y","last_name":"Guo","first_name":"Y"},{"first_name":"T","full_name":"Lu, T","last_name":"Lu"},{"full_name":"Cao, Y","last_name":"Cao","first_name":"Y"},{"full_name":"Zhou, Y","last_name":"Zhou","first_name":"Y"},{"first_name":"Q","last_name":"Zhang","full_name":"Zhang, Q"},{"first_name":"Y","last_name":"Huang","full_name":"Huang, Y"},{"last_name":"Wu","full_name":"Wu, A","first_name":"A"},{"first_name":"L","full_name":"Ren, L","last_name":"Ren"},{"orcid":"0000-0003-1286-7368","id":"35A03822-F248-11E8-B48F-1D18A9856A87","first_name":"Michelle C","full_name":"Gallei, Michelle C","last_name":"Gallei"},{"first_name":"J","last_name":"Dong","full_name":"Dong, J"},{"first_name":"H","full_name":"Chen, H","last_name":"Chen"},{"last_name":"He","full_name":"He, J","first_name":"J"},{"last_name":"Wen","full_name":"Wen, M","first_name":"M"},{"first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"L","full_name":"Sun, L","last_name":"Sun"},{"full_name":"Xiong, Y","last_name":"Xiong","first_name":"Y"},{"first_name":"Z","last_name":"Yang","full_name":"Yang, Z"},{"last_name":"Xu","full_name":"Xu, T","first_name":"T"}],"fulldoi":"https://doi.org/10.1016/j.devcel.2025.09.009","volume":61,"article_processing_charge":"No"},{"fulldoi":"https://doi.org/10.1016/j.cub.2026.04.047","volume":36,"article_processing_charge":"No","publication_status":"published","pmid":1,"date_updated":"2026-10-20T09:00:35Z","OA_type":"closed access","date_published":"2026-07-06T00:00:00Z","das_tickbox":"0","external_id":{"pmid":["42407441"]},"_id":"22286","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","researchdata_availability":"no","year":"2026","author":[{"id":"4c665ce3-0016-11ec-bea0-e44de7a4fa3d","full_name":"Leitner, Valentin","last_name":"Leitner","first_name":"Valentin"},{"first_name":"Eva","last_name":"Benková","full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"article_type":"original","quality_controlled":"1","publication":"Current Biology","abstract":[{"lang":"eng","text":"Plants are remarkable organisms. Unlike animals, they cannot flee and, rooted in one place, they must cope with whatever challenges arise — nutrient scarcity, drought, shade, wind or obstacles in the soil. Their extraordinary ability to survive in such unstable environmental conditions lies in their capacity to adapt. In response to environmental signals, plants can rapidly adjust the rate of organ growth, change the direction of growth, bend toward resources, or remodel their body architecture by promoting or suppressing the formation of new organs such as lateral roots, branches, leaves, or flowers. This unique developmental plasticity depends on chemical signals, plant hormones that serve as regulators and coordinators of endogenous molecular and cellular processes. Chief among these signals is auxin, a plant hormone central to nearly every aspect of plant life."}],"scopus_import":"1","citation":{"apa":"Leitner, V., & Benková, E. (2026). Auxin and the control of plant growth and development. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2026.04.047","ama":"Leitner V, Benková E. Auxin and the control of plant growth and development. Current Biology. 2026;36(13):R739-R744. doi:10.1016/j.cub.2026.04.047","chicago":"Leitner, Valentin, and Eva Benková. “Auxin and the Control of Plant Growth and Development.” Current Biology. Cell Press, 2026. https://doi.org/10.1016/j.cub.2026.04.047.","ista":"Leitner V, Benková E. 2026. Auxin and the control of plant growth and development. Current Biology. 36(13), R739–R744.","mla":"Leitner, Valentin, and Eva Benková. “Auxin and the Control of Plant Growth and Development.” Current Biology, vol. 36, no. 13, Cell Press, 2026, pp. R739–44, doi:10.1016/j.cub.2026.04.047.","ieee":"V. Leitner and E. Benková, “Auxin and the control of plant growth and development,” Current Biology, vol. 36, no. 13. Cell Press, pp. R739–R744, 2026.","short":"V. Leitner, E. Benková, Current Biology 36 (2026) R739–R744."},"intvolume":" 36","month":"07","corr_author":"1","issue":"13","status":"public","publisher":"Cell Press","supplementarymaterial":"no","date_created":"2026-07-13T09:39:40Z","language":[{"iso":"eng"}],"type":"journal_article","department":[{"_id":"EvBe"},{"_id":"GradSch"}],"doi":"10.1016/j.cub.2026.04.047","publication_identifier":{"issn":["0960-9822"]},"page":"R739-R744","title":"Auxin and the control of plant growth and development","day":"06","oa_version":"None"},{"publication_identifier":{"issn":["0896-6273"]},"title":"Mission impossible? Quantitative analysis of dendritic computations in vivo","page":"1706-1708","day":"20","oa_version":"None","supplementarymaterial":"no","date_created":"2026-07-13T10:51:27Z","language":[{"iso":"eng"}],"type":"journal_article","doi":"10.1016/j.neuron.2026.04.002","department":[{"_id":"PeJo"}],"issue":"10","status":"public","publisher":"Cell Press","scopus_import":"1","citation":{"ista":"Bhattacharya S, Jonas PM. 2026. Mission impossible? Quantitative analysis of dendritic computations in vivo. Neuron. 114(10), 1706–1708.","chicago":"Bhattacharya, Subhodeep, and Peter M Jonas. “Mission Impossible? Quantitative Analysis of Dendritic Computations in Vivo.” Neuron. Cell Press, 2026. https://doi.org/10.1016/j.neuron.2026.04.002.","apa":"Bhattacharya, S., & Jonas, P. M. (2026). Mission impossible? Quantitative analysis of dendritic computations in vivo. Neuron. Cell Press. https://doi.org/10.1016/j.neuron.2026.04.002","ama":"Bhattacharya S, Jonas PM. Mission impossible? Quantitative analysis of dendritic computations in vivo. Neuron. 2026;114(10):1706-1708. doi:10.1016/j.neuron.2026.04.002","short":"S. Bhattacharya, P.M. Jonas, Neuron 114 (2026) 1706–1708.","ieee":"S. Bhattacharya and P. M. Jonas, “Mission impossible? Quantitative analysis of dendritic computations in vivo,” Neuron, vol. 114, no. 10. Cell Press, pp. 1706–1708, 2026.","mla":"Bhattacharya, Subhodeep, and Peter M. Jonas. “Mission Impossible? Quantitative Analysis of Dendritic Computations in Vivo.” Neuron, vol. 114, no. 10, Cell Press, 2026, pp. 1706–08, doi:10.1016/j.neuron.2026.04.002."},"intvolume":" 114","month":"05","corr_author":"1","external_id":{"pmid":["42161246"]},"_id":"22305","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","researchdata_availability":"no","year":"2026","author":[{"orcid":"0009-0009-0334-9068","id":"45f74010-66f6-11f0-a7d4-c441fa3685ff","first_name":"Subhodeep","full_name":"Bhattacharya, Subhodeep","last_name":"Bhattacharya"},{"id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804","full_name":"Jonas, Peter M","last_name":"Jonas","first_name":"Peter M"}],"article_type":"letter_note","quality_controlled":"1","publication":"Neuron","abstract":[{"lang":"eng","text":"Active dendrites enrich the repertoire of single-neuron computations. Whereas a lot is known about the function of dendrites in vitro, information about their in vivo properties is limited. A new study1 uses advanced imaging to study hippocampal CA1 pyramidal neuron dendrites in head-fixed, awake animals."}],"publication_status":"published","pmid":1,"OA_type":"closed access","date_updated":"2026-10-20T09:00:56Z","date_published":"2026-05-20T00:00:00Z","das_tickbox":"0","volume":114,"fulldoi":"https://doi.org/10.1016/j.neuron.2026.04.002","article_processing_charge":"No"},{"abstract":[{"text":"As vertebrates transitioned from water to land, locomotion shifted from undulatory swimming to limb-based movement. How spinal circuits and their cell types evolved to support this transition remains unclear. We leverage frog metamorphosis, which recapitulates this transition within a single organism, to define how spinal circuits generate aquatic versus terrestrial motor patterns. At swim stages, spinal architecture is uniform, with a transcriptionally and anatomically homogeneous motor and interneurons. As limbs develop and their movement complexifies, spinal circuits expand in neuron number and subtype diversity. This expansion is most pronounced for V1 inhibitory neurons, which increase ∼70-fold and diversify into transcriptionally distinct subtypes. Disrupting transcription factors defining emerging motor and V1 populations reveals molecular segregation between swim and limb circuits, highlighting the role of subtype diversity in motor coordination. A multifold increase in inhibitory neuron diversity thus underlies the tail-to-limb locomotor transition, providing a framework for spinal circuit adaptation during vertebrate evolution.","lang":"eng"}],"quality_controlled":"1","publication":"Cell Reports","article_type":"original","author":[{"last_name":"Vijatovic","full_name":"Vijatovic, David","first_name":"David","id":"cf391e77-ec3c-11ea-a124-d69323410b58","orcid":"0000-0002-5494-0941"},{"id":"2f73f876-f128-11eb-9611-b96b5a30cb0e","first_name":"Florina Alexandra ","last_name":"Toma","full_name":"Toma, Florina Alexandra "},{"first_name":"Y","last_name":"Ignatyev","full_name":"Ignatyev, Y"},{"first_name":"Zoe P","last_name":"Harrington","full_name":"Harrington, Zoe P","orcid":"0009-0008-0158-4032","id":"a8144562-32c9-11ee-b5ce-d9800628bda2"},{"first_name":"Christoph M","full_name":"Sommer, Christoph M","last_name":"Sommer","orcid":"0000-0003-1216-9105","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hauschild, Robert","last_name":"Hauschild","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522"},{"id":"7a231d52-e216-11ee-a0bb-8acd55f8f1f0","first_name":"Matthijs Geert","last_name":"Smits","full_name":"Smits, Matthijs Geert"},{"full_name":"Dalla Vecchia, Marco","last_name":"Dalla Vecchia","first_name":"Marco","id":"02a7a869-ff06-11ed-a87f-86649d6077e5"},{"first_name":"Alexandra J.","last_name":"Trevisan","full_name":"Trevisan, Alexandra J."},{"first_name":"Phillip","full_name":"Chapman, Phillip","last_name":"Chapman"},{"last_name":"Julseth","full_name":"Julseth, Mara","first_name":"Mara","id":"1cf464b2-dc7d-11ea-9b2f-f9b1aa9417d1"},{"first_name":"Susan","last_name":"Brenner-Morton","full_name":"Brenner-Morton, Susan"},{"full_name":"Gabitto, Mariano I.","last_name":"Gabitto","first_name":"Mariano I."},{"first_name":"Jeremy S.","full_name":"Dasen, Jeremy S.","last_name":"Dasen"},{"first_name":"Jay B.","full_name":"Bikoff, Jay B.","last_name":"Bikoff"},{"first_name":"Lora Beatrice Jaeger","last_name":"Sweeney","full_name":"Sweeney, Lora Beatrice Jaeger","orcid":"0000-0001-9242-5601","id":"56BE8254-C4F0-11E9-8E45-0B23E6697425"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"22667"}]},"year":"2026","OA_place":"publisher","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"21746","DOAJ_listed":"1","external_id":{"pmid":["41964955 "]},"date_published":"2026-04-28T00:00:00Z","date_updated":"2026-10-20T09:04:23Z","OA_type":"gold","pmid":1,"publication_status":"published","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"project":[{"grant_number":"101041551","_id":"ebb66355-77a9-11ec-83b8-b8ac210a4dae","name":"Development and Evolution of Tetrapod Motor Circuits"},{"name":"Stem Cell Modulation in Neural Development and Regeneration/ P14-Swim-to-limb transition: cell type to connection diversity","grant_number":"F7814","_id":"8da85f50-16d5-11f0-9cad-eab8b0ff6c9e"},{"name":"Tools for automation and feedback microscopy","grant_number":"CZI01","_id":"c08e9ad1-5a5b-11eb-8a69-9d1cf3b07473"},{"name":"Development of V1 interneuron diversity during swim-to-walk transition of Xenopus metamorphosis","_id":"bd73af52-d553-11ed-ba76-912049f0ac7a","grant_number":"FTI21-D-046"},{"name":"Neuronal circuits in health and disease (Sweeney)","grant_number":"COE16","_id":"cf428362-b037-11f1-b015-8277a8a2f63d"}],"article_processing_charge":"Yes","oa":1,"volume":45,"fulldoi":"https://doi.org/10.1016/j.celrep.2026.117227","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa_version":"Published Version","day":"28","title":"Multifold increase in spinal inhibitory cell types with emergence of limb movement","acknowledgement":"We would like to thank the members of the Sweeney Lab, Mario de Bono, Michael Forsthofer, Katharina Lust, and Meital Oren, for comments on the manuscript. We are also grateful to Tom Jessell and Chris Kintner for their scientific insight and mentorship during the conception of this project. It would also have not been possible without the technical support of the Aquatics and Imaging and Optics Facility support teams (ISTA). We thank Martin Estermann for preparing the initial draft of the graphical abstract and Niki Barolini for the final version. In addition, we thank our funding sources for providing the resources to do these experiments: GFF NÖ FTI Strategy Lower Austria dissertation grant FT121-D-046 (to D.V.), Horizon Europe ERC starting grant 101041551 (to Y.I., L.B.S., F.A.T., and D.V.), Special Research Program (SFB) of the Austrian Science Fund (FWF) project F7814-B (to L.B.S.), Austrian Science Fund (FWF) 10.55776/COE16 (to Y.I. and L.B.S.), NINDS 5R35NS116858 (to J.S.D.), CZI grant DAF2020-225401 (DOI) 10.37921/120055ratwvi (to R.H.), NIH grant R01NS123116 (to J.B.B.), American Lebanese Syrian Associated Charities (ALSAC) (to J.B.B.), German Academic Exchange Service (DAAD) IFI grant 57515251-91853472 (to Z.H.), and Project A.L.S. (to S.B.-M.).","publication_identifier":{"eissn":["2211-1247"],"issn":["2639-1856"]},"department":[{"_id":"LoSw"},{"_id":"GradSch"},{"_id":"TiVo"},{"_id":"Bio"},{"_id":"NiBa"}],"doi":"10.1016/j.celrep.2026.117227","file":[{"file_name":"2026_CellReports_Vijatovic.pdf","relation":"main_file","date_updated":"2026-05-04T12:20:10Z","file_size":14925958,"file_id":"21795","access_level":"open_access","date_created":"2026-05-04T12:20:10Z","content_type":"application/pdf","checksum":"0d26cdb5b8d8dec3a911d8261a65cdef","creator":"dernst","success":1}],"type":"journal_article","has_accepted_license":"1","language":[{"iso":"eng"}],"date_created":"2026-04-19T22:07:43Z","publisher":"Cell Press","status":"public","article_number":"117227","file_date_updated":"2026-05-04T12:20:10Z","issue":"4","ddc":["570"],"corr_author":"1","month":"04","intvolume":" 45","PlanS_conform":"1","citation":{"ista":"Vijatovic D, Toma FA, Ignatyev Y, Harrington ZP, Sommer CM, Hauschild R, Smits MG, Dalla Vecchia M, Trevisan AJ, Chapman P, Julseth M, Brenner-Morton S, Gabitto MI, Dasen JS, Bikoff JB, Sweeney LB. 2026. Multifold increase in spinal inhibitory cell types with emergence of limb movement. Cell Reports. 45(4), 117227.","ama":"Vijatovic D, Toma FA, Ignatyev Y, et al. Multifold increase in spinal inhibitory cell types with emergence of limb movement. Cell Reports. 2026;45(4). doi:10.1016/j.celrep.2026.117227","chicago":"Vijatovic, David, Florina Alexandra Toma, Y Ignatyev, Zoe P Harrington, Christoph M Sommer, Robert Hauschild, Matthijs Geert Smits, et al. “Multifold Increase in Spinal Inhibitory Cell Types with Emergence of Limb Movement.” Cell Reports. Cell Press, 2026. https://doi.org/10.1016/j.celrep.2026.117227.","apa":"Vijatovic, D., Toma, F. A., Ignatyev, Y., Harrington, Z. P., Sommer, C. M., Hauschild, R., … Sweeney, L. B. (2026). Multifold increase in spinal inhibitory cell types with emergence of limb movement. Cell Reports. Cell Press. https://doi.org/10.1016/j.celrep.2026.117227","ieee":"D. Vijatovic et al., “Multifold increase in spinal inhibitory cell types with emergence of limb movement,” Cell Reports, vol. 45, no. 4. Cell Press, 2026.","short":"D. Vijatovic, F.A. Toma, Y. Ignatyev, Z.P. Harrington, C.M. Sommer, R. Hauschild, M.G. Smits, M. Dalla Vecchia, A.J. Trevisan, P. Chapman, M. Julseth, S. Brenner-Morton, M.I. Gabitto, J.S. Dasen, J.B. Bikoff, L.B. Sweeney, Cell Reports 45 (2026).","mla":"Vijatovic, David, et al. “Multifold Increase in Spinal Inhibitory Cell Types with Emergence of Limb Movement.” Cell Reports, vol. 45, no. 4, 117227, Cell Press, 2026, doi:10.1016/j.celrep.2026.117227."},"scopus_import":"1"},{"tmp":{"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","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"volume":6,"fulldoi":"https://doi.org/10.1016/j.xgen.2026.101277","article_processing_charge":"Yes","oa":1,"acknowledged_ssus":[{"_id":"ScienComp"}],"project":[{"_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","grant_number":"PCEGP3_181181","name":"Improving estimation and prediction of common complex disease risk"}],"pmid":1,"publication_status":"published","das_tickbox":"1","date_published":"2026-07-08T00:00:00Z","OA_type":"gold","date_updated":"2026-10-20T09:03:50Z","dataavailabilitystatement":"Information on how to access the MoBaPsychGen post-imputation QC data are available here: https://www.fhi.no/en/me/the-psychgen-centre-for-genetic-epidemiology-and-mental-health/access-to-genetic-data-after-quality-control-by-the-mobapsychgen-pipeline-v/.\r\nEstonian Biobank data (https://genomics.ut.ee/en/content/estonian-biobank) were used in this project. For access to be granted to the Estonian Biobank genotypic and corresponding phenotypic data, a preliminary application must be presented to the oversight committee, who must first approve the project. Ethics permission must then be obtained from the Estonian Committee on Bioethics and Human Research. Finally, a full project must be submitted and approved by the Estonian Biobank.\r\nAccess to the Generation Scotland data is available with appropriate permission from the Generation Scotland Access Committee. Applications should be made to access@generationscotland.org (https://genscot.ed.ac.uk/).\r\nThe code for JODIE developed in this work is open source and is publicly available on zenodo (https://doi.org/10.5281/zenodo.19593928) and GitHub (https://github.com/medical-genomics-group/JODIE).\r\nHaplotype Reference Consortium Release 1.1 data (https://ega-archive.org/datasets/EGAD00001002729) are available by application to a Data Access Committee (DAC) of the Wellcome Trust Sanger Institute.\r\nThe Common Metabolic Diseases Atlas can be accessed here: https://cmdga.org.","_id":"21987","DOAJ_listed":"1","external_id":{"pmid":["40909755"]},"researchdata_availability":"yes","year":"2026","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","article_type":"original","author":[{"first_name":"Ilse","last_name":"Krätschmer","full_name":"Krätschmer, Ilse","orcid":"0000-0002-5636-9259","id":"30d4014e-7753-11eb-b44b-db6d61112e73"},{"full_name":"Hegemann, Laura","last_name":"Hegemann","first_name":"Laura"},{"last_name":"Hofmeister","full_name":"Hofmeister, Robin J.","first_name":"Robin J."},{"full_name":"Corfield, Elizabeth C.","last_name":"Corfield","first_name":"Elizabeth C."},{"first_name":"Mahdi","full_name":"Mahmoudi, Mahdi","last_name":"Mahmoudi"},{"full_name":"Delaneau, Olivier","last_name":"Delaneau","first_name":"Olivier"},{"last_name":"Andreassen","full_name":"Andreassen, Ole A.","first_name":"Ole A."},{"last_name":"Campbell","full_name":"Campbell, Archie","first_name":"Archie"},{"last_name":"Hayward","full_name":"Hayward, Caroline","first_name":"Caroline"},{"full_name":"Marioni, Riccardo E.","last_name":"Marioni","first_name":"Riccardo E."},{"last_name":"Ystrom","full_name":"Ystrom, Eivind","first_name":"Eivind"},{"last_name":"Havdahl","full_name":"Havdahl, Alexandra","first_name":"Alexandra"},{"id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813","full_name":"Robinson, Matthew Richard","last_name":"Robinson","first_name":"Matthew Richard"}],"related_material":{"link":[{"url":"https://ista.ac.at/en/news/human-traits-beyond-inherited-genes/","relation":"press_release","description":"News on ISTA website"}]},"abstract":[{"text":"We introduce JODIE, a genetic joint modeling approach that estimates how DNA loci influence human traits by partitioning genetic effects into four components: direct effects (from a child’s alleles), indirect maternal and paternal effects (from parents’ alleles), and parent-of-origin (PofO) effects (dependent on parental transmission of alleles), while uniquely accounting for assortative mating. We analyze 30,000 child-mother-father trios from the Estonian Biobank and the Norwegian Mother, Father, and Child Cohort, focusing on height, body mass index, and childhood educational test scores. We find direct effects to be the largest contributor to trait variation, but combined, indirect parental and PofO effects are similarly substantial. We support our results by within-family genome-wide association testing and identify 276 independently associated DNA regions with a complex interplay between direct, indirect, and PofO effects. By joint modeling, we show that direct, indirect, and PofO effects collectively shape human phenotypic variation across loci genome-wide.","lang":"eng"}],"publication":"Cell Genomics","quality_controlled":"1","citation":{"ista":"Krätschmer I, Hegemann L, Hofmeister RJ, Corfield EC, Mahmoudi M, Delaneau O, Andreassen OA, Campbell A, Hayward C, Marioni RE, Ystrom E, Havdahl A, Robinson MR. 2026. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 6(7), 101277.","chicago":"Krätschmer, Ilse, Laura Hegemann, Robin J. Hofmeister, Elizabeth C. Corfield, Mahdi Mahmoudi, Olivier Delaneau, Ole A. Andreassen, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” Cell Genomics. Cell Press, 2026. https://doi.org/10.1016/j.xgen.2026.101277.","ama":"Krätschmer I, Hegemann L, Hofmeister RJ, et al. Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. 2026;6(7). doi:10.1016/j.xgen.2026.101277","apa":"Krätschmer, I., Hegemann, L., Hofmeister, R. J., Corfield, E. C., Mahmoudi, M., Delaneau, O., … Robinson, M. R. (2026). Separating direct, indirect, and parent-of-origin genetic effects in the human population. Cell Genomics. Cell Press. https://doi.org/10.1016/j.xgen.2026.101277","short":"I. Krätschmer, L. Hegemann, R.J. Hofmeister, E.C. Corfield, M. Mahmoudi, O. Delaneau, O.A. Andreassen, A. Campbell, C. Hayward, R.E. Marioni, E. Ystrom, A. Havdahl, M.R. Robinson, Cell Genomics 6 (2026).","ieee":"I. Krätschmer et al., “Separating direct, indirect, and parent-of-origin genetic effects in the human population,” Cell Genomics, vol. 6, no. 7. Cell Press, 2026.","mla":"Krätschmer, Ilse, et al. “Separating Direct, Indirect, and Parent-of-Origin Genetic Effects in the Human Population.” Cell Genomics, vol. 6, no. 7, 101277, Cell Press, 2026, doi:10.1016/j.xgen.2026.101277."},"scopus_import":"1","intvolume":" 6","corr_author":"1","month":"07","issue":"7","ddc":["570"],"status":"public","file_date_updated":"2026-07-28T07:24:50Z","article_number":"101277","publisher":"Cell Press","keyword":["direct genetic effects","DGE","indirect genetic effects","IGE","parent-of-origin effects","phenotypic variation","assortative mating","within-family GWAS","MoBa","EstBB"],"date_created":"2026-06-10T07:39:08Z","supplementarymaterial":"yes","has_accepted_license":"1","type":"journal_article","language":[{"iso":"eng"}],"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","department":[{"_id":"MaRo"}],"doi":"10.1016/j.xgen.2026.101277","file":[{"access_level":"open_access","date_created":"2026-07-28T07:24:50Z","file_id":"22597","relation":"main_file","date_updated":"2026-07-28T07:24:50Z","file_size":3679297,"file_name":"2026_CellGenomics_Kraetschmer.pdf","success":1,"creator":"dernst","content_type":"application/pdf","checksum":"f896b510480d2d4e4a7fd46c2e2761f4"}],"acknowledgement":"We thank Zoltan Kutalik, Peter Visscher, and members of the Robinson group at ISTA for their comments, which improved this manuscript. This work was funded by an SNSF Eccellenza Grant to M.R.R. (PCEGP3-181181) and by core funding from the Institute of Science and Technology Austria.\r\nThe Norwegian Mother, Father, and Child Cohort Study is supported by the Norwegian Ministry of Health and Care Services and the Ministry of Education and Research. We are grateful to all the participating families in Norway who take part in this on-going cohort study. We thank the Norwegian Institute of Public Health (NIPH) for generating high-quality genomic data. The research is part of the HARVEST collaboration, supported by the Research Council of Norway (#229624). We also thank the NORMENT Center for providing genotype data, funded by the Research Council of Norway (#223273), South East Norway Health Authorities, and Stiftelsen Kristian Gerhard Jebsen, and in collaboration with deCODE Genetics. We further thank the Center for Diabetes Research, the University of Bergen for providing genotype data funded by the ERC AdG project SELECTionPREDISPOSED, Stiftelsen Kristian Gerhard Jebsen, Trond Mohn Foundation, the Research Council of Norway, the Novo Nordisk Foundation, the University of Bergen, and the Western Norway Health Authorities. The MoBa work was performed on the TSD (Tjeneste for Sensitive Data) facilities, owned by the University of Oslo, operated and developed by the TSD service group at the University of Oslo, IT Department (USIT, tsd-drift@usit.uio.no). E.Y. is supported by the European Union (grant numbers 101045526 and 101073237) and the Research Council of Norway (grant numbers 336078, 288083, and 331640).\r\nWe would like to acknowledge the participants and investigators of the Generation Scotland Cohort study. 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). Genotyping and methylation typing of the GS:SFHS samples was carried out by the Genetics Core Laboratory at the Wellcome Trust Clinical Research Facility, 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] ref. 104036/Z/14/Z).\r\nWe would like to thank and acknowledge the participants and investigators of the Estonian Biobank (EstBB) study. The research was conducted using the Estonian Center of Genomics/Roadmap II funded by the Estonian Research Council (project number TT17).\r\nNorwegian analyses were performed on resources provided by Sigma2 - the National Infrastructure for High-Performance Computing and Data Storage in Norway. Estonian Data analysis was carried out in the High-Performance Computing Center cloud provided by University of Tartu. Analysis of the Generation Scotland data and the summary statistics obtained from the other analyses was conducted at IST Austria and is supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Scientific Computing (SciComp).","publication_identifier":{"eissn":["2666-979X"]},"day":"08","title":"Separating direct, indirect, and parent-of-origin genetic effects in the human population","oa_version":"Published Version"},{"oa":1,"article_processing_charge":"No","fulldoi":"https://doi.org/10.15479/AT-ISTA-22258","supervisor":[{"first_name":"Matthew Richard","last_name":"Robinson","full_name":"Robinson, Matthew Richard","orcid":"0000-0001-8982-8813","id":"E5D42276-F5DA-11E9-8E24-6303E6697425"},{"id":"27EB676C-8706-11E9-9510-7717E6697425","orcid":"0000-0002-3242-7020","full_name":"Mondelli, Marco","last_name":"Mondelli","first_name":"Marco"}],"project":[{"_id":"059876FA-7A3F-11EA-A408-12923DDC885E","name":"Prix Lopez-Loretta 2019 - Marco Mondelli"},{"grant_number":"101161364","_id":"911e6d1f-16d5-11f0-9cad-c5c68c6a1cdf","name":"Inference in High Dimensions: Light-speed Algorithms and Information Limits"},{"name":"Improving estimation and prediction of common complex disease risk","_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","grant_number":"PCEGP3_181181"}],"acknowledged_ssus":[{"_id":"ScienComp"}],"date_updated":"2026-10-20T09:03:21Z","date_published":"2026-07-11T00:00:00Z","das_tickbox":"1","publication_status":"published","abstract":[{"lang":"eng","text":"Uncovering the genetic architecture of complex traits and pinpointing causal molecular drivers require the ability to distinguish true signals from noise within massive, high-dimensional omics datasets. To extract meaningful biological insights from these datasets, such as identifying causal genetic variants and proteins, scalable and accurate inference methods are essential. To this end, this thesis develops novel Bayesian inference frameworks based on Vector Approximate Message Passing and demonstrates their effectiveness in the modeling of disease onset times and quantitative physical and clinical measures.\r\n\r\nFirst, we introduce gVAMP, a Bayesian framework tailored for Genome-Wide Association Studies that enables the joint modeling of quantitative complex traits across millions of genetic variants. gVAMP demonstrates superior accuracy in variable selection and out-of-sample polygenic risk prediction compared to state-of-the-art approaches. We model human height using 17 million whole-genome sequence variants from the UK Biobank, incorporating a vast number of rare variants and revealing novel associations. gVAMP achieves a prediction accuracy of approximately 46% for human height, representing the highest reported performance for this trait to date. \r\n\r\nSecond, we present vampW, a Bayesian framework for survival analysis applied to proteomic data. By effectively handling right-censoring and complex protein dependencies within the UK Biobank Pharma Proteomics Project dataset, vampW identifies 219 protein associations across 24 disease outcomes, the majority of which are not among the top marginal discoveries. We further adjust protein levels for exponential age effects, yielding 1,308 associations and highlighting the sensitivity of the analysis to the chosen age-correction methodology. Finally, vampW improves upon the variable selection capabilities of the commonly used (penalized) variants of the Cox proportional hazards model and delivers state-of-the-art out-of-sample prediction of disease onset times.\r\n\r\nCollectively, these methods provide powerful tools for dissecting the genetic architecture of complex traits and the proteomic drivers of disease onset. Furthermore, by delivering accurate polygenic risk scores and precise predictions of onset times, this work advances the capabilities of personalized medicine and clinical risk stratification."}],"related_material":{"record":[{"relation":"part_of_dissertation","id":"21488","status":"public"}]},"author":[{"id":"0b77531d-dbcd-11ea-9d1d-a8eee0bf3830","full_name":"Depope, Al","last_name":"Depope","first_name":"Al"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","OA_place":"publisher","year":"2026","_id":"22258","degree_awarded":"PhD","month":"07","corr_author":"1","doi_confirm":"1","citation":{"mla":"Depope, Al. From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22258.","short":"A. Depope, From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics, Institute of Science and Technology Austria, 2026.","ieee":"A. Depope, “From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics,” Institute of Science and Technology Austria, 2026.","apa":"Depope, A. (2026). From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22258","chicago":"Depope, Al. “From Sparse Selection to Risk Prediction: Approximate Message Passing for Proteomic Survival Models and Large-Scale Genomics.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22258.","ama":"Depope A. From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. 2026. doi:10.15479/AT-ISTA-22258","ista":"Depope A. 2026. From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics. Institute of Science and Technology Austria."},"keyword":["Approximate Message Passing","GWAS","Genomics","Proteomics","Survival modeling"],"publisher":"Institute of Science and Technology Austria","file_date_updated":"2026-07-13T14:56:41Z","status":"public","ddc":["576","610","006"],"file":[{"content_type":"application/pdf","checksum":"9ab386790515628d957a194f30a7ccb4","creator":"adepope","date_created":"2026-07-13T14:52:19Z","access_level":"open_access","file_size":25109878,"date_updated":"2026-07-13T14:52:19Z","relation":"main_file","file_name":"2026_Depope_Al_Thesis.pdf","file_id":"22316"},{"content_type":"application/zip","checksum":"8ed8fb63f76a695d5b6fec35343f4b90","creator":"adepope","access_level":"closed","date_created":"2026-07-13T14:56:41Z","file_name":"2026_Depope_Al_Thesis.zip","date_updated":"2026-07-13T14:56:41Z","relation":"source_file","file_size":1203199939,"file_id":"22317"}],"department":[{"_id":"GradSch"},{"_id":"MaRo"},{"_id":"MaMo"}],"doi":"10.15479/AT-ISTA-22258","language":[{"iso":"eng"}],"type":"dissertation","has_accepted_license":"1","alternative_title":["ISTA Thesis"],"date_created":"2026-07-10T13:27:20Z","oa_version":"Published Version","title":"From sparse selection to risk prediction: Approximate message passing for proteomic survival models and large-scale genomics","page":"169","day":"11","publication_identifier":{"issn":["2663-337X"]},"acknowledgement":"This work was supported in part by the Swiss National Science Foundation through the\r\nEccellenza Grant \"Improving estimation and prediction of common complex disease risk\"\r\n(grant number PCEGP3_181181); the European Research Council through the grant\r\n\"Inference in High Dimensions: Light-speed Algorithms and Information Limits\" (grant\r\nnumber 101161364); and the Fondation Jean-Jacques et Felicia Lopez-Loreta through the\r\nPrix Lopez-Loretta 2019.\r\n"},{"oa":1,"article_processing_charge":"Yes","tmp":{"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","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"fulldoi":"https://doi.org/10.1016/j.xgen.2026.101162","volume":6,"project":[{"_id":"059876FA-7A3F-11EA-A408-12923DDC885E","name":"Prix Lopez-Loretta 2019 - Marco Mondelli"},{"_id":"911e6d1f-16d5-11f0-9cad-c5c68c6a1cdf","grant_number":"101161364","name":"Inference in High Dimensions: Light-speed Algorithms and Information Limits"},{"grant_number":"PCEGP3_181181","_id":"9B8D11D6-BA93-11EA-9121-9846C619BF3A","name":"Improving estimation and prediction of common complex disease risk"}],"OA_type":"gold","dataavailabilitystatement":"This project uses the UK Biobank data under project number 35520. UK Biobank genotypic and phenotypic data are available through a formal request at http://www.ukbiobank.ac.uk. It also uses genotypic and phenotypic data from the All of Us study, which are also available through a formal request at https://www.researchallofus.org/data-tools/data-access/. All summary statistic estimates are released publicly on Dryad: https://doi.org/10.5061/dryad.cz8w9gjjc.\r\n•\r\nThe gVAMP code developed in this work is open source and has been deposited on GitHub, where it is publicly available at https://github.com/medical-genomics-group/gVAMP, and the code used to generate the data in the manuscript are available from Zenodo https://doi.org/10.5281/zenodo.17935521. The URLs of other software used are listed in the key resources table.","date_updated":"2026-10-20T09:03:22Z","das_tickbox":"1","date_published":"2026-05-13T00:00:00Z","publication_status":"published","pmid":1,"related_material":{"record":[{"relation":"dissertation_contains","id":"22258","status":"public"}],"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/big-data-and-human-height/","relation":"press_release"}]},"author":[{"first_name":"Al","full_name":"Depope, Al","last_name":"Depope","id":"0b77531d-dbcd-11ea-9d1d-a8eee0bf3830"},{"id":"b995e25b-8c4b-11ed-a6d8-f71b7bcd6122","full_name":"Bajzik, Jakub","last_name":"Bajzik","first_name":"Jakub"},{"orcid":"0000-0002-3242-7020","id":"27EB676C-8706-11E9-9510-7717E6697425","first_name":"Marco","full_name":"Mondelli, Marco","last_name":"Mondelli"},{"full_name":"Robinson, Matthew Richard","last_name":"Robinson","first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813"}],"article_type":"original","quality_controlled":"1","publication":"Cell Genomics","abstract":[{"text":"Human height is a model for the genetic analysis of complex traits, and recent studies suggest the presence of thousands of common genetic variant associations and hundreds of low-frequency/rare variants. Here, we develop a new algorithmic paradigm based on approximate message passing (genomic vector approximate message passing [gVAMP]) for identifying DNA sequence variants associated with complex traits and common diseases in large-scale whole-genome sequencing (WGS) data. We show that gVAMP accurately localizes associations to variants with the correct frequency and position in the DNA, outperforming existing fine-mapping methods in selecting the appropriate genetic variants within WGS data. We then apply gVAMP to jointly model the relationship of tens of millions of WGS variants with human height in hundreds of thousands of UK Biobank individuals. We identify 59 rare variants and gene burden scores alongside many hundreds of DNA regions containing common variant associations and show that understanding the genetic basis of complex traits will require the joint analysis of hundreds of millions of variables measured on millions of people. The polygenic risk scores obtained from gVAMP have high accuracy (including a prediction accuracy of ∼46% for human height) and outperform current methods for downstream tasks such as mixed linear model association testing across 13 UK Biobank traits. In conclusion, gVAMP offers a scalable foundation for a wider range of analyses in WGS data.","lang":"eng"}],"external_id":{"pmid":["41713425"]},"DOAJ_listed":"1","_id":"21488","OA_place":"publisher","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","researchdata_availability":"yes","year":"2026","month":"05","corr_author":"1","scopus_import":"1","citation":{"short":"A. Depope, J. Bajzik, M. Mondelli, M.R. Robinson, Cell Genomics 6 (2026).","ieee":"A. Depope, J. Bajzik, M. Mondelli, and M. R. Robinson, “Joint modeling of whole-genome sequencing data for human height via approximate message passing,” Cell Genomics, vol. 6, no. 5. Cell Press, 2026.","mla":"Depope, Al, et al. “Joint Modeling of Whole-Genome Sequencing Data for Human Height via Approximate Message Passing.” Cell Genomics, vol. 6, no. 5, 101162, Cell Press, 2026, doi:10.1016/j.xgen.2026.101162.","ista":"Depope A, Bajzik J, Mondelli M, Robinson MR. 2026. Joint modeling of whole-genome sequencing data for human height via approximate message passing. Cell Genomics. 6(5), 101162.","chicago":"Depope, Al, Jakub Bajzik, Marco Mondelli, and Matthew Richard Robinson. “Joint Modeling of Whole-Genome Sequencing Data for Human Height via Approximate Message Passing.” Cell Genomics. Cell Press, 2026. https://doi.org/10.1016/j.xgen.2026.101162.","ama":"Depope A, Bajzik J, Mondelli M, Robinson MR. Joint modeling of whole-genome sequencing data for human height via approximate message passing. Cell Genomics. 2026;6(5). doi:10.1016/j.xgen.2026.101162","apa":"Depope, A., Bajzik, J., Mondelli, M., & Robinson, M. R. (2026). Joint modeling of whole-genome sequencing data for human height via approximate message passing. Cell Genomics. Cell Press. https://doi.org/10.1016/j.xgen.2026.101162"},"intvolume":" 6","publisher":"Cell Press","ddc":["000","570"],"issue":"5","file_date_updated":"2026-07-28T07:06:26Z","article_number":"101162","status":"public","file":[{"creator":"dernst","success":1,"content_type":"application/pdf","checksum":"6b59686f8d9733add4f23d23f3dd9df0","date_created":"2026-07-28T07:06:26Z","access_level":"open_access","file_id":"22596","file_name":"2026_CellGenomics_Depope.pdf","date_updated":"2026-07-28T07:06:26Z","relation":"main_file","file_size":3736705}],"department":[{"_id":"MaMo"},{"_id":"MaRo"}],"doi":"10.1016/j.xgen.2026.101162","supplementarymaterial":"yes","date_created":"2026-03-23T15:10:03Z","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"journal_article","oa_version":"Published Version","publication_identifier":{"eissn":["2666-979X"]},"acknowledgement":"We thank Malgorzata Borczyk for creating the gene burden scores. We thank Robin Beaumont, Amedeo Roberto Esposito, Gareth Hawkes, Philip Schniter, Matthew Stephens, Pragya Sur, Peter Visscher, Michael Weedon, and Harry Wright for providing valuable suggestions and comments on earlier versions of the work. This project was funded by a Lopez-Loreta Prize to M.M., an SNSF Eccellenza Grant to M.R.R. (PCEGP3-181181), an ERC Starting Grant to M.M. (INF2, project number 101161364), and core funding from ISTA. High-performance computing was supported by the Scientific Service Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp). We would like to acknowledge the participants and investigators of the UK Biobank study. We gratefully acknowledge the All of Us participants for their contributions, without whom this research would not have been possible. We also thank the National Institutes of Health All of Us Research Program for making available the participant data (and/or samples and/or cohort) examined in this study.","title":"Joint modeling of whole-genome sequencing data for human height via approximate message passing","day":"13"},{"pmid":1,"publication_status":"published","date_published":"2026-07-20T00:00:00Z","das_tickbox":"1","OA_type":"hybrid","date_updated":"2026-10-20T09:03:35Z","dataavailabilitystatement":"* All NGS data are available through GEO under accession number GSE331410.\r\n* This paper does not report original code.\r\n* Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","_id":"22267","external_id":{"pmid":["42409014"]},"year":"2026","researchdata_availability":"upon request","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","article_type":"original","author":[{"last_name":"Ewe","full_name":"Ewe, Chee Kiang","first_name":"Chee Kiang"},{"first_name":"Hanna","full_name":"Achache, Hanna","last_name":"Achache"},{"id":"C8E17EDC-D7AA-11E9-B7B7-45ECE5697425","first_name":"Hanna","full_name":"Schön, Hanna","last_name":"Schön"},{"first_name":"Leonid","last_name":"Kontorovich","full_name":"Kontorovich, Leonid"},{"full_name":"Teichman, Guy","last_name":"Teichman","first_name":"Guy"},{"first_name":"Shir","full_name":"Weiss, Shir","last_name":"Weiss"},{"last_name":"Mogilevskaya","full_name":"Mogilevskaya, Anna","first_name":"Anna"},{"full_name":"Valenski, Myriam","last_name":"Valenski","first_name":"Myriam"},{"full_name":"Anava, Sarit","last_name":"Anava","first_name":"Sarit"},{"last_name":"Bardapurkar","full_name":"Bardapurkar, Rutwik","first_name":"Rutwik"},{"first_name":"Hila","full_name":"Gingold, Hila","last_name":"Gingold"},{"full_name":"Posner, Rachel","last_name":"Posner","first_name":"Rachel"},{"first_name":"Olga","last_name":"Antonova","full_name":"Antonova, Olga"},{"id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8347-0443","full_name":"De Bono, Mario","last_name":"De Bono","first_name":"Mario"},{"full_name":"Tzur, Yonatan B.","last_name":"Tzur","first_name":"Yonatan B."},{"full_name":"Rechavi, Oded","last_name":"Rechavi","first_name":"Oded"}],"abstract":[{"text":"Thermal pollution, whether local or driven by global warming, threatens biodiversity in part through its detrimental effects on reproduction. Non-coding small RNAs (sRNAs) are crucial for maintaining germline developmental robustness under heat stress. Remarkably, we uncovered that neuronal sRNAs regulate germ cells’ thermotolerance, affecting both spermatogenic and oogenic germlines in a cell-non-autonomous manner. Furthermore, we demonstrate that, in RNAi mutants, an oxygen-sensing neural circuit, modulated by neuropeptide signaling, antagonizes germline maintenance, likely reflecting the nematode’s innate association of reduced oxygen levels with food availability and reproductive permissive environments. Finally, we provide evidence that laboratory-domesticated alleles of oxygen-response genes encoding neuropeptide receptor NPR-1 and hexacoordinated globin GLB-5 compromise germline thermotolerance. Hence, our findings raise the possibility that sensory perception, independent of direct environmental change, modulates germline integrity, highlighting a novel mechanism by which neural circuits integrate environmental information to safeguard reproductive fitness in fluctuating environments.","lang":"eng"}],"quality_controlled":"1","publication":"Current Biology","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"volume":36,"fulldoi":"https://doi.org/10.1016/j.cub.2026.06.016","oa":1,"article_processing_charge":"Yes (in subscription journal)","date_created":"2026-07-12T22:02:18Z","supplementarymaterial":"yes","type":"journal_article","has_accepted_license":"1","language":[{"iso":"eng"}],"department":[{"_id":"MaDe"}],"doi":"10.1016/j.cub.2026.06.016","file":[{"relation":"main_file","date_updated":"2026-07-28T07:31:44Z","file_size":6795092,"file_name":"2026_CurrentBiology_KiangEwe.pdf","file_id":"22598","access_level":"open_access","date_created":"2026-07-28T07:31:44Z","content_type":"application/pdf","checksum":"5ec4472d81fd44de03ccb92b1eb690a6","success":1,"creator":"dernst"}],"acknowledgement":"We thank Itai Reiger for their assistance with experiments. We thank Cori Bargmann (Rockefeller University) for providing introgressed strains carrying HW alleles of npr-1 and glb-5. Some graphics were created with Biorender.com. We are grateful to WormBase for providing valuable data and resources. Some strains were provided by the Caenorhabditis Genetics Center (CGC), which is funded by NIH Office of Research Infrastructure Programs (P40 OD010440). O.R. is grateful for the support of the Morris Kahn Foundation. C.K.E. was supported by an EMBO fellowship ALTF 6-2022. This work is funded by Eric and Wendy Schmidt Fund for Strategic Innovation Polymath Award 0140001000 (O.R.); European Research Council grant 335624 (O.R.); Israel Science Foundation 979/21 (Y.B.T.); and the US-Israel Binational Science Foundation 2023036 (Y.B.T.).","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"day":"20","page":"3566-3579.e5","title":"Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress","oa_version":"Published Version","citation":{"mla":"Ewe, Chee Kiang, et al. “Neuronal RNAi and Oxygen-Sensing Circuit Shape Germline Resilience to Heat Stress.” Current Biology, vol. 36, no. 14, Cell Press, 2026, p. 3566–3579.e5, doi:10.1016/j.cub.2026.06.016.","ieee":"C. K. Ewe et al., “Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress,” Current Biology, vol. 36, no. 14. Cell Press, p. 3566–3579.e5, 2026.","short":"C.K. Ewe, H. Achache, H. Schön, L. Kontorovich, G. Teichman, S. Weiss, A. Mogilevskaya, M. Valenski, S. Anava, R. Bardapurkar, H. Gingold, R. Posner, O. Antonova, M. de Bono, Y.B. Tzur, O. Rechavi, Current Biology 36 (2026) 3566–3579.e5.","chicago":"Ewe, Chee Kiang, Hanna Achache, Hanna Schön, Leonid Kontorovich, Guy Teichman, Shir Weiss, Anna Mogilevskaya, et al. “Neuronal RNAi and Oxygen-Sensing Circuit Shape Germline Resilience to Heat Stress.” Current Biology. Cell Press, 2026. https://doi.org/10.1016/j.cub.2026.06.016.","apa":"Ewe, C. K., Achache, H., Schön, H., Kontorovich, L., Teichman, G., Weiss, S., … Rechavi, O. (2026). Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2026.06.016","ama":"Ewe CK, Achache H, Schön H, et al. Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress. Current Biology. 2026;36(14):3566-3579.e5. doi:10.1016/j.cub.2026.06.016","ista":"Ewe CK, Achache H, Schön H, Kontorovich L, Teichman G, Weiss S, Mogilevskaya A, Valenski M, Anava S, Bardapurkar R, Gingold H, Posner R, Antonova O, de Bono M, Tzur YB, Rechavi O. 2026. Neuronal RNAi and oxygen-sensing circuit shape germline resilience to heat stress. Current Biology. 36(14), 3566–3579.e5."},"scopus_import":"1","intvolume":" 36","month":"07","issue":"14","ddc":["570"],"status":"public","file_date_updated":"2026-07-28T07:31:44Z","publisher":"Cell Press"},{"doi":"10.1016/j.molcel.2026.05.026","license":"https://creativecommons.org/licenses/by-nc/4.0/","department":[{"_id":"LeSa"}],"language":[{"iso":"eng"}],"type":"journal_article","has_accepted_license":"1","supplementarymaterial":"yes","date_created":"2026-06-28T22:01:35Z","oa_version":"Published Version","title":"Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo","day":"22","biorxivid":1,"publication_identifier":{"eissn":["1097-4164"],"issn":["1097-2765"]},"acknowledgement":"We thank IST Austria for providing the funding. We thank IST Austria EM facility for the use of Titan Krios TEM. Data processing was performed using IST high-performance computer cluster. We thank Dr. R. Roemhild and Professor C. Guet (ISTA) for help in constructing Tat deletion strains and Dr. A. Charnagalov (ISTA) for technical help.","month":"06","corr_author":"1","scopus_import":"1","citation":{"ama":"Zhao Z, Sazanov LA. Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo. Molecular Cell. doi:10.1016/j.molcel.2026.05.026","apa":"Zhao, Z., & Sazanov, L. A. (n.d.). Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo. Molecular Cell. Cell Press. https://doi.org/10.1016/j.molcel.2026.05.026","chicago":"Zhao, Ziyu, and Leonid A Sazanov. “Structure of E. Coli Twin-Arginine Translocase (Tat) Complex with Bound Cargo.” Molecular Cell. Cell Press, n.d. https://doi.org/10.1016/j.molcel.2026.05.026.","ista":"Zhao Z, Sazanov LA. Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo. Molecular Cell.","mla":"Zhao, Ziyu, and Leonid A. Sazanov. “Structure of E. Coli Twin-Arginine Translocase (Tat) Complex with Bound Cargo.” Molecular Cell, Cell Press, doi:10.1016/j.molcel.2026.05.026.","short":"Z. Zhao, L.A. Sazanov, Molecular Cell (n.d.).","ieee":"Z. Zhao and L. A. Sazanov, “Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo,” Molecular Cell. Cell Press."},"publisher":"Cell Press","status":"public","ddc":["570"],"OA_type":"hybrid","dataavailabilitystatement":"This study did not generate new unique reagents. Strains and plasmids generated in this study are available from the lead contact without restrictions.\r\n• Source data are provided within this paper. The cryo-EM map is deposited in the Electron Microscopy Data Bank under accession number EMD-53848. The model is deposited in the Protein Data Bank under accession number 9R91. The structural data are publicly available as of the date of publication. Raw images of spot assays, SDS-PAGE and BN-PAGE gels with Coomassie staining and immunoblot images are available at Mendeley Data (https://doi.org/10.17632/v2g3p9n985.1).\r\n• This paper does not report original code.\r\n• Any additional information required to reanalyze the data reported in this paper is available from the lead contact upon request.","date_updated":"2026-10-20T09:04:07Z","date_published":"2026-06-22T00:00:00Z","das_tickbox":"1","publication_status":"inpress","publication":"Molecular Cell","quality_controlled":"1","abstract":[{"lang":"eng","text":"How the twin-arginine translocase (Tat) system transports fully folded substrate proteins across cellular membranes without disrupting membrane integrity has been a fundamental question in cell biology for decades. The Tat system, found in prokaryotes and plant organelles, recognizes a cargo signal peptide via a conserved twin-arginine motif. The multi-subunit Tat complex facilitates the proton-motive-force-dependent translocation process, yet its overall architecture has remained unknown. Here, we present the cryo-electron microscopy (cryo-EM) structure of the Escherichia coli (E. coli) trimeric TatB₃C₃ complex with bound substrate SufI, assembled in vivo. The complex adopts an unusual, wide-open, bowl-shaped architecture with a polar inner cavity. Unexpectedly, the cargo is engaged in a dual-contact mode: while the signal peptide binds inside one TatBC unit, the folded domain docks tightly onto an adjacent unit, possibly performing a proofreading function. This structure provides a mechanistic framework for substrate engagement and suggests the direct involvement of the entire Tat complex in substrate translocation."}],"related_material":{"record":[{"status":"public","id":"22189","relation":"research_data"}],"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/the-gate-for-bulky-cargo/","description":"News on ISTA website"}]},"author":[{"last_name":"Zhao","full_name":"Zhao, Ziyu","first_name":"Ziyu","id":"a63fe682-9f3a-11ee-bf8c-cfdf919b9850"},{"orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A","full_name":"Sazanov, Leonid A","last_name":"Sazanov"}],"article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","year":"2026","researchdata_availability":"yes","external_id":{"biorxivid":["10.1101/2025.09.16.676506"]},"_id":"22148","oa":1,"article_processing_charge":"Yes (via OA deal)","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.molcel.2026.05.026"}],"fulldoi":"https://doi.org/10.1016/j.molcel.2026.05.026","tmp":{"short":"CC BY-NC (4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)"},"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"ScienComp"}]},{"article_processing_charge":"No","fulldoi":"https://doi.org/10.15479/AT-ISTA-22667","supervisor":[{"orcid":"0000-0001-9242-5601","id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","first_name":"Lora Beatrice Jaeger","full_name":"Sweeney, Lora Beatrice Jaeger","last_name":"Sweeney"}],"project":[{"name":"Development and Evolution of Tetrapod Motor Circuits","grant_number":"101041551","_id":"ebb66355-77a9-11ec-83b8-b8ac210a4dae"},{"name":"Development of V1 interneuron diversity during swim-to-walk transition of Xenopus metamorphosis","grant_number":"FTI21-D-046","_id":"bd73af52-d553-11ed-ba76-912049f0ac7a"},{"_id":"34a02c70-11ca-11ed-8bc3-fbfd2c86c88f","grant_number":"3(GG016346-01)","name":"Development of Viral Vectors for Amphibian Gene Delivery and Manipulation"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"date_updated":"2026-10-20T09:04:22Z","date_published":"2026-08-10T00:00:00Z","publication_status":"published","related_material":{"record":[{"relation":"part_of_dissertation","id":"15016","status":"public"},{"status":"public","id":"21746","relation":"part_of_dissertation"}]},"author":[{"id":"cf391e77-ec3c-11ea-a124-d69323410b58","orcid":"0000-0002-5494-0941","last_name":"Vijatovic","full_name":"Vijatovic, David","first_name":"David"}],"OA_place":"publisher","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","year":"2026","_id":"22667","degree_awarded":"PhD","month":"08","corr_author":"1","doi_confirm":"1","citation":{"ista":"Vijatovic D. 2026. Dissecting the molecular and functional basis of motor control in the frog Xenopus laevis. Institute of Science and Technology Austria.","apa":"Vijatovic, D. (2026). Dissecting the molecular and functional basis of motor control in the frog Xenopus laevis. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-22667","chicago":"Vijatovic, David. “Dissecting the Molecular and Functional Basis of Motor Control in the Frog Xenopus Laevis.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-22667.","ama":"Vijatovic D. Dissecting the molecular and functional basis of motor control in the frog Xenopus laevis. 2026. doi:10.15479/AT-ISTA-22667","ieee":"D. Vijatovic, “Dissecting the molecular and functional basis of motor control in the frog Xenopus laevis,” Institute of Science and Technology Austria, 2026.","short":"D. Vijatovic, Dissecting the Molecular and Functional Basis of Motor Control in the Frog Xenopus Laevis, Institute of Science and Technology Austria, 2026.","mla":"Vijatovic, David. Dissecting the Molecular and Functional Basis of Motor Control in the Frog Xenopus Laevis. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-22667."},"publisher":"Institute of Science and Technology Austria","file_date_updated":"2026-08-12T13:44:36Z","status":"public","ddc":["573"],"file":[{"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","checksum":"e3acfea4b1a3abf99e74224656740a15","creator":"dvijatov","access_level":"closed","date_created":"2026-08-10T13:35:39Z","date_updated":"2026-08-10T13:35:39Z","relation":"source_file","file_size":14322760,"file_name":"2026_Vijatovic_David_Thesis.docx","file_id":"22669"},{"file_name":"2026_Vijatovic_David_Thesis.pdf","relation":"main_file","date_updated":"2026-08-12T13:44:36Z","file_size":116926375,"file_id":"22695","access_level":"closed","date_created":"2026-08-12T13:44:36Z","checksum":"dc8c78ae14f69e54faa41e65db5c6402","content_type":"application/pdf","creator":"dvijatov","embargo":"2027-08-10","embargo_to":"open_access"}],"department":[{"_id":"GradSch"},{"_id":"LoSw"}],"doi":"10.15479/AT-ISTA-22667","language":[{"iso":"eng"}],"type":"dissertation","has_accepted_license":"1","date_created":"2026-08-10T13:44:30Z","alternative_title":["ISTA Thesis"],"oa_version":"Published Version","title":"Dissecting the molecular and functional basis of motor control in the frog Xenopus laevis","page":"172","day":"10","publication_identifier":{"isbn":["978-3-99078-082-4"],"issn":["2663-337X"]},"acknowledgement":"I am also grateful for the financial support that made this work possible, including the\r\nEuropean Research Council (ERC Starting Grant 101041551), the Austrian Science\r\nFund (FWF, Cluster of Excellence 10.55776/COE16), the GFF Lower Austria FTI\r\nStrategy Dissertation Fellowship (FTI21-D-046), and the FENS/IBRO-PERC\r\nExchange Fellowship. "},{"date_published":"2026-05-15T00:00:00Z","OA_type":"gold","date_updated":"2026-10-20T09:04:06Z","doi":"10.17632/V2G3P9N985.1","department":[{"_id":"LeSa"}],"date_created":"2026-06-29T12:54:45Z","type":"research_data_reference","has_accepted_license":"1","author":[{"orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","first_name":"Leonid A","last_name":"Sazanov","full_name":"Sazanov, Leonid A"}],"related_material":{"record":[{"id":"22148","status":"public","relation":"used_in_publication"}]},"oa_version":"Published Version","abstract":[{"text":"Raw images for SDS and Blue Native gels, western blots and spot growth assays, related to figures S1 and S2.","lang":"eng"}],"_id":"22189","year":"2026","day":"15","OA_place":"publisher","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Structure of E. coli twin-arginine translocase (Tat) complex with bound cargo. Zhao et al.","corr_author":"1","main_file_link":[{"url":"https://doi.org/10.17632/v2g3p9n985.1","open_access":"1"}],"month":"05","article_processing_charge":"No","oa":1,"citation":{"short":"L.A. Sazanov, (2026).","ieee":"L. A. Sazanov, “Structure of E. coli twin-arginine translocase (Tat) complex with bound cargo. Zhao et al.” Mendeley Data, 2026.","mla":"Sazanov, Leonid A. Structure of E. Coli Twin-Arginine Translocase (Tat) Complex with Bound Cargo. Zhao et Al. Mendeley Data, 2026, doi:10.17632/V2G3P9N985.1.","ista":"Sazanov LA. 2026. Structure of E. coli twin-arginine translocase (Tat) complex with bound cargo. Zhao et al., Mendeley Data, 10.17632/V2G3P9N985.1.","ama":"Sazanov LA. Structure of E. coli twin-arginine translocase (Tat) complex with bound cargo. Zhao et al. 2026. doi:10.17632/V2G3P9N985.1","chicago":"Sazanov, Leonid A. “Structure of E. Coli Twin-Arginine Translocase (Tat) Complex with Bound Cargo. Zhao et Al.” Mendeley Data, 2026. https://doi.org/10.17632/V2G3P9N985.1.","apa":"Sazanov, L. A. (2026). Structure of E. coli twin-arginine translocase (Tat) complex with bound cargo. Zhao et al. Mendeley Data. https://doi.org/10.17632/V2G3P9N985.1"},"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"fulldoi":"https://doi.org/10.17632/V2G3P9N985.1","publisher":"Mendeley Data","keyword":["Protein Purification"],"ddc":["570"],"status":"public"},{"external_id":{"pmid":["42532043"]},"_id":"22955","OA_place":"publisher","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","researchdata_availability":"no","year":"2026","article_type":"original","author":[{"first_name":"Ricardo","full_name":"Barrientos, Ricardo","last_name":"Barrientos"},{"orcid":"0000-0003-3441-1337","id":"a4725fd6-932b-11ed-81e2-c098c7f37ae1","first_name":"Billie","last_name":"Meadowcroft","full_name":"Meadowcroft, Billie"},{"first_name":"Besaiz J.","last_name":"Sánchez-Sánchez","full_name":"Sánchez-Sánchez, Besaiz J."},{"full_name":"Stramer, Brian M.","last_name":"Stramer","first_name":"Brian M."},{"first_name":"Ewa K.","full_name":"Paluch, Ewa K.","last_name":"Paluch"},{"last_name":"Charras","full_name":"Charras, Guillaume","first_name":"Guillaume"},{"last_name":"Banerjee","full_name":"Banerjee, Shiladitya","first_name":"Shiladitya"},{"full_name":"Šarić, Anđela","last_name":"Šarić","first_name":"Anđela","id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139"},{"last_name":"Mao","full_name":"Mao, Yanlan","first_name":"Yanlan"}],"publication":"Cell","quality_controlled":"1","abstract":[{"lang":"eng","text":"The regulation of 3D cell shape is a fundamental problem of life. In multicellular tissues, cell shape emerges through the balance of forces inside and outside the cell. In epithelia, the basement membrane (BM) is the first extracellular barrier that cells sense biochemically and mechanically. Despite this, little is known about how BM mechanical properties are regulated and how they impact cell shape. Through mathematical modeling, we show that the stress relaxation time of the BM can regulate cell shape. Using molecular dynamics simulations, we show that the stress relaxation time of a collagen IV network can be inferred from the lifetime of collagen IV molecules. To measure collagen IV lifetime in vivo, we develop a fluorescent timer reporter for collagen IV and show that perlecan modifies collagen IV lifetime. This cross-disciplinary approach establishes a multiscale framework to probe matrix turnover, and its regulation and function in cell shape control."}],"publication_status":"published","pmid":1,"OA_type":"hybrid","date_updated":"2026-10-20T09:04:52Z","dataavailabilitystatement":"The fly line generated in this study is available from the lead contact without restriction.\r\nData and code availability\r\n•\r\nCollagen IV fluorescent timer image data and associated data analysis code have been deposited in the UCL Research Data Repository at https://doi.org/10.5522/04/32647191 and are publicly available as of the date of publication.\r\n•\r\nAll original code associated with the tissue mechanics model has also been deposited in the UCL Research Data Repository at https://doi.org/10.5522/04/32647191 and is publicly available as of the date of publication.\r\n•\r\nAll original code associated with the collagen IV network model has been deposited on Zenodo at https://doi.org/10.5281/zenodo.20719515 and is publicly available as of the date of publication.\r\n•\r\nAny additional information reported in this paper is available from the lead contact upon request.","ec_funded":1,"date_published":"2026-09-03T00:00:00Z","das_tickbox":"1","project":[{"grant_number":"802960","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e","name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines","call_identifier":"H2020"}],"tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"fulldoi":"https://doi.org/10.1016/j.cell.2026.07.010","volume":189,"oa":1,"article_processing_charge":"Yes (in subscription journal)","publication_identifier":{"eissn":["1097-4172"],"issn":["0092-8674"]},"acknowledgement":"We thank all members of the Mao lab for insightful discussions throughout the project, and we thank Giulia Paci and Nargess Khalilgharibi for critical reading of the manuscript. We thank Jonathan Chubb for molecular biology guidance and WellGenetics for generating the timer protein fly lines.\r\nR.B. was funded by a UCL COMPLEX PhD studentship and a Leverhulme Trust project grant RPG-2020-068 awarded to Y.M. B.M. and A.S. were funded by the European Union Horizon 2020 research and innovation programme (ERC starting grant no. 802960). S.B. was funded by NIH R35 GM143042. G.C. was funded by EPSRC Physics of Life, grants EP/W023806 and EP/W023865. B.J.S.S. and B.M.S. are funded by the Wellcome Trust (grant no. 301803/Z/23/Z to B.M.S.). E.K.P. was funded by the Medical Research Council UK (MRC programme award MC_UU_12018/5). Y.M. was funded by MRC award MR/W027437/1, a Lister Institute Research Prize, and the EMBO Young Investigator Programme.","title":"Basement membrane turnover controls cell shape","page":"5611-5624.e4","day":"03","oa_version":"Published Version","supplementarymaterial":"yes","date_created":"2026-09-17T11:06:06Z","language":[{"iso":"eng"}],"has_accepted_license":"1","type":"journal_article","file":[{"access_level":"open_access","date_created":"2026-09-24T12:35:11Z","file_size":5642382,"relation":"main_file","date_updated":"2026-09-24T12:35:11Z","file_name":"2026_Cell_Barrientos.pdf","file_id":"22990","checksum":"01e74f866223ca9ea8680b617d4aa4e3","content_type":"application/pdf","success":1,"creator":"dernst"}],"department":[{"_id":"AnSa"}],"doi":"10.1016/j.cell.2026.07.010","ddc":["570"],"issue":"18","file_date_updated":"2026-09-24T12:35:11Z","status":"public","publisher":"Cell Press","scopus_import":"1","PlanS_conform":"1","citation":{"apa":"Barrientos, R., Meadowcroft, B., Sánchez-Sánchez, B. J., Stramer, B. M., Paluch, E. K., Charras, G., … Mao, Y. (2026). Basement membrane turnover controls cell shape. Cell. Cell Press. https://doi.org/10.1016/j.cell.2026.07.010","chicago":"Barrientos, Ricardo, Billie Meadowcroft, Besaiz J. Sánchez-Sánchez, Brian M. Stramer, Ewa K. Paluch, Guillaume Charras, Shiladitya Banerjee, Anđela Šarić, and Yanlan Mao. “Basement Membrane Turnover Controls Cell Shape.” Cell. Cell Press, 2026. https://doi.org/10.1016/j.cell.2026.07.010.","ama":"Barrientos R, Meadowcroft B, Sánchez-Sánchez BJ, et al. Basement membrane turnover controls cell shape. Cell. 2026;189(18):5611-5624.e4. doi:10.1016/j.cell.2026.07.010","ista":"Barrientos R, Meadowcroft B, Sánchez-Sánchez BJ, Stramer BM, Paluch EK, Charras G, Banerjee S, Šarić A, Mao Y. 2026. Basement membrane turnover controls cell shape. 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Cell Press. https://doi.org/10.1016/j.chom.2026.05.013","ama":"Williams-Jones D, Bravo JPK. NAD to the bone: How bacteria put phages under aRES-t … and how phages fight back. Cell Host & Microbe. 2026;34(6):978-980. doi:10.1016/j.chom.2026.05.013","chicago":"Williams-Jones, Daniel, and Jack Peter Kelly Bravo. “NAD to the Bone: How Bacteria Put Phages under ARES-t … and How Phages Fight Back.” Cell Host & Microbe. Cell Press, 2026. https://doi.org/10.1016/j.chom.2026.05.013.","ieee":"D. Williams-Jones and J. P. K. Bravo, “NAD to the bone: How bacteria put phages under aRES-t … and how phages fight back,” Cell Host & Microbe, vol. 34, no. 6. Cell Press, pp. 978–980, 2026.","short":"D. Williams-Jones, J.P.K. Bravo, Cell Host & Microbe 34 (2026) 978–980.","mla":"Williams-Jones, Daniel, and Jack Peter Kelly Bravo. “NAD to the Bone: How Bacteria Put Phages under ARES-t … and How Phages Fight Back.” Cell Host & Microbe, vol. 34, no. 6, Cell Press, 2026, pp. 978–80, doi:10.1016/j.chom.2026.05.013."},"month":"06","corr_author":"1","page":"978-980","title":"NAD to the bone: How bacteria put phages under aRES-t … and how phages fight back","day":"10","publication_identifier":{"issn":["1931-3128"],"eissn":["1934-6069"]},"acknowledgement":"This work was supported by the Austrian Science Fund (FWF) (10.55776/PAT1617625).","oa_version":"None","language":[{"iso":"eng"}],"type":"journal_article","date_created":"2026-06-14T22:01:42Z","department":[{"_id":"JaBr"}],"doi":"10.1016/j.chom.2026.05.013","project":[{"name":"Search & Destroy: Mechanisms of anti-plasmid immunity","_id":"9f295cab-ad08-11f1-bc83-9e197d0f6d50","grant_number":"PAT1617625"}],"volume":34,"fulldoi":"https://doi.org/10.1016/j.chom.2026.05.013","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2026","external_id":{"pmid":["42269584"]},"_id":"21996","publication":"Cell Host & Microbe","quality_controlled":"1","abstract":[{"text":"In this issue of Cell Host & Microbe, Osterman et al. discover aRES,1 a new family of bacterial immune proteins that deplete cellular NAD+, generating cleavage products that cannot be utilized by canonical phage NAD+ regeneration pathways. They identify the invader-specific trigger for aRES and characterize two distinct evolutionary countermeasures employed by phages to resist aRES.","lang":"eng"}],"article_type":"original","author":[{"id":"128eaab9-b327-11f0-bdbe-e02d5abac73b","first_name":"Daniel","last_name":"Williams-Jones","full_name":"Williams-Jones, Daniel"},{"id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","orcid":"0000-0003-0456-0753","full_name":"Bravo, Jack Peter Kelly","last_name":"Bravo","first_name":"Jack Peter Kelly"}],"publication_status":"published","pmid":1,"OA_type":"closed access","date_updated":"2026-10-20T09:04:35Z","date_published":"2026-06-10T00:00:00Z","das_tickbox":"1"},{"department":[{"_id":"ToHe"}],"doi":"10.5220/0014326500004052","file":[{"access_level":"open_access","date_created":"2026-10-20T14:00:27Z","file_id":"23178","relation":"main_file","date_updated":"2026-10-20T14:00:27Z","file_size":779692,"file_name":"2026_CAART_Hatua.pdf","success":1,"creator":"dernst","content_type":"application/pdf","checksum":"d0f5212846c8f3129509b081648465cb"}],"has_accepted_license":"1","type":"conference","language":[{"iso":"eng"}],"date_created":"2026-06-21T22:03:01Z","supplementarymaterial":"no","oa_version":"Published Version","day":"01","title":"Machine unlearning using forgetting neural networks","page":"1536-1546","acknowledgement":"This work has been supported by the European Research\r\nCouncil under Grant No.: ERC-2020-AdG\r\n101020093. We thank Brian Subirana for the original\r\nideation of the concept of forgetting neural networks\r\nand his belief in their potential.","publication_identifier":{"eissn":["2184-433X"],"issn":["2184-3589"],"isbn":["9789897587962"]},"month":"04","intvolume":" 2","citation":{"ista":"Hatua A, Nguyen TT, Cano Cordoba F, Sung AH. 2026. Machine unlearning using forgetting neural networks. Proceedings of the 18th International Conference on Agents and Artificial Intelligence. ICAART: International Conference on Agents and Artificial Intelligence vol. 2, 1536–1546.","apa":"Hatua, A., Nguyen, T. T., Cano Cordoba, F., & Sung, A. H. (2026). Machine unlearning using forgetting neural networks. In Proceedings of the 18th International Conference on Agents and Artificial Intelligence (Vol. 2, pp. 1536–1546). Marbella, Spain: Science and Technology Publications. https://doi.org/10.5220/0014326500004052","ama":"Hatua A, Nguyen TT, Cano Cordoba F, Sung AH. Machine unlearning using forgetting neural networks. In: Proceedings of the 18th International Conference on Agents and Artificial Intelligence. Vol 2. Science and Technology Publications; 2026:1536-1546. doi:10.5220/0014326500004052","chicago":"Hatua, Amartya, Trung T. Nguyen, Filip Cano Cordoba, and Andrew H. Sung. “Machine Unlearning Using Forgetting Neural Networks.” In Proceedings of the 18th International Conference on Agents and Artificial Intelligence, 2:1536–46. Science and Technology Publications, 2026. https://doi.org/10.5220/0014326500004052.","short":"A. Hatua, T.T. Nguyen, F. Cano Cordoba, A.H. Sung, in:, Proceedings of the 18th International Conference on Agents and Artificial Intelligence, Science and Technology Publications, 2026, pp. 1536–1546.","ieee":"A. Hatua, T. T. Nguyen, F. Cano Cordoba, and A. H. Sung, “Machine unlearning using forgetting neural networks,” in Proceedings of the 18th International Conference on Agents and Artificial Intelligence, Marbella, Spain, 2026, vol. 2, pp. 1536–1546.","mla":"Hatua, Amartya, et al. “Machine Unlearning Using Forgetting Neural Networks.” Proceedings of the 18th International Conference on Agents and Artificial Intelligence, vol. 2, Science and Technology Publications, 2026, pp. 1536–46, doi:10.5220/0014326500004052."},"scopus_import":"1","publisher":"Science and Technology Publications","keyword":["Machine Unlearning","Neuroscience-Inspired Machine Learning","Membership Inference Attacks"],"status":"public","arxiv":1,"file_date_updated":"2026-10-20T14:00:27Z","ddc":["000"],"das_tickbox":"0","date_published":"2026-04-01T00:00:00Z","OA_type":"green","date_updated":"2026-10-20T14:05:02Z","ec_funded":1,"publication_status":"published","abstract":[{"lang":"eng","text":" Modern computer systems store vast amounts of personal data, enabling advances in AI and ML but risking user privacy and trust. For privacy reasons, it is sometimes desired for an ML model to forget part of the data it was trained on. In this paper, we introduce a novel unlearning approach based on Forgetting Neural Networks (FNNs), a neuroscience-inspired architecture that explicitly encodes forgetting through multiplicative decay factors. While FNNs had previously been studied as a theoretical construct, we provide the first concrete implementation and demonstrate their effectiveness for targeted unlearning. We propose several variants with per-neuron forgetting factors, including rank-based assignments guided by activation levels, and evaluate them on MNIST and Fashion-MNIST benchmarks. Our method systematically removes information associated with forget sets while preserving performance on retained data. Membership inference attacks confirm the effectiveness of FNN-based unlearning in erasing information about the training data from the neural network. These results establish FNNs as a promising foundation for efficient and interpretable unlearning."}],"publication":"Proceedings of the 18th International Conference on Agents and Artificial Intelligence","quality_controlled":"1","author":[{"last_name":"Hatua","full_name":"Hatua, Amartya","first_name":"Amartya"},{"first_name":"Trung T.","last_name":"Nguyen","full_name":"Nguyen, Trung T."},{"full_name":"Cano Cordoba, Filip","last_name":"Cano Cordoba","first_name":"Filip","id":"708cad98-e86a-11ef-8098-bdae2d7c6af1","orcid":"0000-0002-0783-904X"},{"full_name":"Sung, Andrew H.","last_name":"Sung","first_name":"Andrew H."}],"year":"2026","researchdata_availability":"no","OA_place":"repository","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"22104","external_id":{"arxiv":["2410.22374"]},"article_processing_charge":"No","oa":1,"fulldoi":"https://doi.org/10.5220/0014326500004052","volume":2,"conference":{"end_date":"2026-03-08","start_date":"2026-03-05","location":"Marbella, Spain","name":"ICAART: International Conference on Agents and Artificial Intelligence"},"tmp":{"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","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"project":[{"name":"Vigilant Algorithmic Monitoring of Software","call_identifier":"H2020","_id":"62781420-2b32-11ec-9570-8d9b63373d4d","grant_number":"101020093"}]},{"project":[{"grant_number":"101020331","_id":"62796744-2b32-11ec-9570-940b20777f1d","call_identifier":"H2020","name":"Random matrices beyond Wigner-Dyson-Mehta"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2607.05848"}],"article_processing_charge":"No","oa":1,"fulldoi":"https://doi.org/10.48550/arXiv.2607.05848","author":[{"id":"96155047-f36a-11ef-b766-8b5ae7cecd49","first_name":"Jaehun","last_name":"Lee","full_name":"Lee, Jaehun"},{"full_name":"Erdös, László","last_name":"Erdös","first_name":"László","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5366-9603"}],"publication":"arXiv","abstract":[{"text":"We prove a mesoscopic central limit theorem for linear eigenvalue statistics of correlated Hermitian random matrices. The class considered here includes Wigner and Wigner-type matrices, as well as models whose entry correlations decay polynomially in the distance between index pairs. The proof combines a multivariate cumulant expansion with multi-resolvent local laws and a detailed analysis of the resulting variance kernel on the operator-level.","lang":"eng"}],"external_id":{"arxiv":["2607.05848"]},"_id":"22359","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"repository","year":"2026","date_updated":"2026-10-20T10:06:12Z","OA_type":"green","ec_funded":1,"date_published":"2026-07-07T00:00:00Z","das_tickbox":"1","publication_status":"submitted","keyword":["Central limit theorem","universality","matrix Dyson equation","multi-resolvent local law"],"article_number":"2607.05848","arxiv":1,"status":"public","month":"07","corr_author":"1","citation":{"mla":"Lee, Jaehun, and László Erdös. “Mesoscopic Eigenvalue Statistics for Correlated Random Matrices.” ArXiv, 2607.05848, doi:10.48550/arXiv.2607.05848.","short":"J. Lee, L. Erdös, ArXiv (n.d.).","ieee":"J. Lee and L. 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