[{"keyword":["Neurology (clinical)"],"page":"1436-1456","author":[{"first_name":"Rauan","last_name":"Kaiyrzhanov","full_name":"Kaiyrzhanov, Rauan"},{"last_name":"Rad","first_name":"Aboulfazl","full_name":"Rad, Aboulfazl"},{"last_name":"Lin","first_name":"Sheng-Jia","full_name":"Lin, Sheng-Jia"},{"full_name":"Bertoli-Avella, Aida","last_name":"Bertoli-Avella","first_name":"Aida"},{"first_name":"Wouter W","last_name":"Kallemeijn","full_name":"Kallemeijn, Wouter W"},{"first_name":"Annie","last_name":"Godwin","full_name":"Godwin, Annie"},{"full_name":"Zaki, Maha S","first_name":"Maha S","last_name":"Zaki"},{"last_name":"Huang","orcid":"0000-0002-2512-7812","id":"3b3d2888-1ff6-11ee-9fa6-8f209ca91fe3","first_name":"Kevin","full_name":"Huang, Kevin"},{"first_name":"Tracy","last_name":"Lau","full_name":"Lau, Tracy"},{"full_name":"Petree, Cassidy","last_name":"Petree","first_name":"Cassidy"},{"first_name":"Stephanie","last_name":"Efthymiou","full_name":"Efthymiou, Stephanie"},{"full_name":"Ghayoor Karimiani, Ehsan","last_name":"Ghayoor Karimiani","first_name":"Ehsan"},{"full_name":"Hempel, Maja","last_name":"Hempel","first_name":"Maja"},{"full_name":"Normand, Elizabeth A","last_name":"Normand","first_name":"Elizabeth A"},{"last_name":"Rudnik-Schöneborn","first_name":"Sabine","full_name":"Rudnik-Schöneborn, Sabine"},{"first_name":"Ulrich A","last_name":"Schatz","full_name":"Schatz, Ulrich A"},{"first_name":"Marc P","last_name":"Baggelaar","full_name":"Baggelaar, Marc P"},{"last_name":"Ilyas","first_name":"Muhammad","full_name":"Ilyas, Muhammad"},{"first_name":"Tipu","last_name":"Sultan","full_name":"Sultan, Tipu"},{"full_name":"Alvi, Javeria Raza","first_name":"Javeria Raza","last_name":"Alvi"},{"last_name":"Ganieva","first_name":"Manizha","full_name":"Ganieva, Manizha"},{"first_name":"Ben","last_name":"Fowler","full_name":"Fowler, Ben"},{"full_name":"Aanicai, Ruxandra","first_name":"Ruxandra","last_name":"Aanicai"},{"first_name":"Gulsen","last_name":"Akay Tayfun","full_name":"Akay Tayfun, Gulsen"},{"full_name":"Al Saman, Abdulaziz","last_name":"Al Saman","first_name":"Abdulaziz"},{"last_name":"Alswaid","first_name":"Abdulrahman","full_name":"Alswaid, Abdulrahman"},{"full_name":"Amiri, Nafise","first_name":"Nafise","last_name":"Amiri"},{"full_name":"Asilova, Nilufar","first_name":"Nilufar","last_name":"Asilova"},{"last_name":"Shotelersuk","first_name":"Vorasuk","full_name":"Shotelersuk, Vorasuk"},{"full_name":"Yeetong, Patra","first_name":"Patra","last_name":"Yeetong"},{"first_name":"Matloob","last_name":"Azam","full_name":"Azam, Matloob"},{"full_name":"Babaei, Meisam","first_name":"Meisam","last_name":"Babaei"},{"last_name":"Bahrami Monajemi","first_name":"Gholamreza","full_name":"Bahrami Monajemi, Gholamreza"},{"full_name":"Mohammadi, Pouria","first_name":"Pouria","last_name":"Mohammadi"},{"full_name":"Samie, Saeed","first_name":"Saeed","last_name":"Samie"},{"full_name":"Banu, Selina Husna","last_name":"Banu","first_name":"Selina Husna"},{"first_name":"Jorge Pinto","last_name":"Basto","full_name":"Basto, Jorge Pinto"},{"full_name":"Kortüm, Fanny","last_name":"Kortüm","first_name":"Fanny"},{"first_name":"Mislen","last_name":"Bauer","full_name":"Bauer, Mislen"},{"first_name":"Peter","last_name":"Bauer","full_name":"Bauer, Peter"},{"last_name":"Beetz","first_name":"Christian","full_name":"Beetz, Christian"},{"first_name":"Masoud","last_name":"Garshasbi","full_name":"Garshasbi, Masoud"},{"first_name":"Awatif","last_name":"Hameed Issa","full_name":"Hameed Issa, Awatif"},{"last_name":"Eyaid","first_name":"Wafaa","full_name":"Eyaid, Wafaa"},{"first_name":"Hind","last_name":"Ahmed","full_name":"Ahmed, Hind"},{"first_name":"Narges","last_name":"Hashemi","full_name":"Hashemi, Narges"},{"full_name":"Hassanpour, Kazem","last_name":"Hassanpour","first_name":"Kazem"},{"last_name":"Herman","first_name":"Isabella","full_name":"Herman, Isabella"},{"last_name":"Ibrohimov","first_name":"Sherozjon","full_name":"Ibrohimov, Sherozjon"},{"last_name":"Abdul-Majeed","first_name":"Ban A","full_name":"Abdul-Majeed, Ban A"},{"first_name":"Maria","last_name":"Imdad","full_name":"Imdad, Maria"},{"full_name":"Isrofilov, Maksudjon","last_name":"Isrofilov","first_name":"Maksudjon"},{"last_name":"Kaiyal","first_name":"Qassem","full_name":"Kaiyal, Qassem"},{"full_name":"Khan, Suliman","first_name":"Suliman","last_name":"Khan"},{"full_name":"Kirmse, Brian","first_name":"Brian","last_name":"Kirmse"},{"full_name":"Koster, Janet","first_name":"Janet","last_name":"Koster"},{"last_name":"Lourenço","first_name":"Charles Marques","full_name":"Lourenço, Charles Marques"},{"full_name":"Mitani, Tadahiro","first_name":"Tadahiro","last_name":"Mitani"},{"full_name":"Moldovan, Oana","last_name":"Moldovan","first_name":"Oana"},{"first_name":"David","last_name":"Murphy","full_name":"Murphy, David"},{"full_name":"Najafi, Maryam","last_name":"Najafi","first_name":"Maryam"},{"last_name":"Pehlivan","first_name":"Davut","full_name":"Pehlivan, Davut"},{"full_name":"Rocha, Maria Eugenia","last_name":"Rocha","first_name":"Maria Eugenia"},{"last_name":"Salpietro","first_name":"Vincenzo","full_name":"Salpietro, Vincenzo"},{"full_name":"Schmidts, Miriam","last_name":"Schmidts","first_name":"Miriam"},{"last_name":"Shalata","first_name":"Adel","full_name":"Shalata, Adel"},{"full_name":"Mahroum, Mohammad","first_name":"Mohammad","last_name":"Mahroum"},{"last_name":"Talbeya","first_name":"Jawabreh Kassem","full_name":"Talbeya, Jawabreh Kassem"},{"full_name":"Taylor, Robert W","first_name":"Robert W","last_name":"Taylor"},{"last_name":"Vazquez","first_name":"Dayana","full_name":"Vazquez, Dayana"},{"full_name":"Vetro, Annalisa","last_name":"Vetro","first_name":"Annalisa"},{"first_name":"Hans R","last_name":"Waterham","full_name":"Waterham, Hans R"},{"full_name":"Zaman, Mashaya","last_name":"Zaman","first_name":"Mashaya"},{"first_name":"Tina A","last_name":"Schrader","full_name":"Schrader, Tina A"},{"first_name":"Wendy K","last_name":"Chung","full_name":"Chung, Wendy K"},{"full_name":"Guerrini, Renzo","last_name":"Guerrini","first_name":"Renzo"},{"first_name":"James R","last_name":"Lupski","full_name":"Lupski, James R"},{"full_name":"Gleeson, Joseph","first_name":"Joseph","last_name":"Gleeson"},{"last_name":"Suri","first_name":"Mohnish","full_name":"Suri, Mohnish"},{"full_name":"Jamshidi, Yalda","first_name":"Yalda","last_name":"Jamshidi"},{"first_name":"Kailash P","last_name":"Bhatia","full_name":"Bhatia, Kailash P"},{"last_name":"Vona","first_name":"Barbara","full_name":"Vona, Barbara"},{"first_name":"Michael","last_name":"Schrader","full_name":"Schrader, Michael"},{"last_name":"Severino","first_name":"Mariasavina","full_name":"Severino, Mariasavina"},{"full_name":"Guille, Matthew","first_name":"Matthew","last_name":"Guille"},{"last_name":"Tate","first_name":"Edward W","full_name":"Tate, Edward W"},{"first_name":"Gaurav K","last_name":"Varshney","full_name":"Varshney, Gaurav K"},{"first_name":"Henry","last_name":"Houlden","full_name":"Houlden, Henry"},{"first_name":"Reza","last_name":"Maroofian","full_name":"Maroofian, Reza"}],"publication_status":"published","pmid":1,"date_published":"2024-04-01T00:00:00Z","file":[{"content_type":"application/pdf","file_size":2641456,"date_updated":"2024-07-16T08:22:13Z","checksum":"0ee7a8ab9300225d60968f7a3e3cfa0d","relation":"main_file","success":1,"date_created":"2024-07-16T08:22:13Z","creator":"dernst","file_name":"2024_Brain_Kaiyrzhanov.pdf","access_level":"open_access","file_id":"17254"}],"doi":"10.1093/brain/awad380","file_date_updated":"2024-07-16T08:22:13Z","title":"Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders","language":[{"iso":"eng"}],"extern":"1","oa_version":"Submitted Version","status":"public","citation":{"ieee":"R. Kaiyrzhanov <i>et al.</i>, “Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders,” <i>Brain</i>, vol. 147, no. 4. Oxford University Press, pp. 1436–1456, 2024.","ista":"Kaiyrzhanov R, Rad A, Lin S-J, Bertoli-Avella A, Kallemeijn WW, Godwin A, Zaki MS, Huang K, Lau T, Petree C, Efthymiou S, Ghayoor Karimiani E, Hempel M, Normand EA, Rudnik-Schöneborn S, Schatz UA, Baggelaar MP, Ilyas M, Sultan T, Alvi JR, Ganieva M, Fowler B, Aanicai R, Akay Tayfun G, Al Saman A, Alswaid A, Amiri N, Asilova N, Shotelersuk V, Yeetong P, Azam M, Babaei M, Bahrami Monajemi G, Mohammadi P, Samie S, Banu SH, Basto JP, Kortüm F, Bauer M, Bauer P, Beetz C, Garshasbi M, Hameed Issa A, Eyaid W, Ahmed H, Hashemi N, Hassanpour K, Herman I, Ibrohimov S, Abdul-Majeed BA, Imdad M, Isrofilov M, Kaiyal Q, Khan S, Kirmse B, Koster J, Lourenço CM, Mitani T, Moldovan O, Murphy D, Najafi M, Pehlivan D, Rocha ME, Salpietro V, Schmidts M, Shalata A, Mahroum M, Talbeya JK, Taylor RW, Vazquez D, Vetro A, Waterham HR, Zaman M, Schrader TA, Chung WK, Guerrini R, Lupski JR, Gleeson J, Suri M, Jamshidi Y, Bhatia KP, Vona B, Schrader M, Severino M, Guille M, Tate EW, Varshney GK, Houlden H, Maroofian R. 2024. Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders. Brain. 147(4), 1436–1456.","ama":"Kaiyrzhanov R, Rad A, Lin S-J, et al. Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders. <i>Brain</i>. 2024;147(4):1436-1456. doi:<a href=\"https://doi.org/10.1093/brain/awad380\">10.1093/brain/awad380</a>","mla":"Kaiyrzhanov, Rauan, et al. “Bi-Allelic ACBD6 Variants Lead to a Neurodevelopmental Syndrome with Progressive and Complex Movement Disorders.” <i>Brain</i>, vol. 147, no. 4, Oxford University Press, 2024, pp. 1436–56, doi:<a href=\"https://doi.org/10.1093/brain/awad380\">10.1093/brain/awad380</a>.","short":"R. Kaiyrzhanov, A. Rad, S.-J. Lin, A. Bertoli-Avella, W.W. Kallemeijn, A. Godwin, M.S. Zaki, K. Huang, T. Lau, C. Petree, S. Efthymiou, E. Ghayoor Karimiani, M. Hempel, E.A. Normand, S. Rudnik-Schöneborn, U.A. Schatz, M.P. Baggelaar, M. Ilyas, T. Sultan, J.R. Alvi, M. Ganieva, B. Fowler, R. Aanicai, G. Akay Tayfun, A. Al Saman, A. Alswaid, N. Amiri, N. Asilova, V. Shotelersuk, P. Yeetong, M. Azam, M. Babaei, G. Bahrami Monajemi, P. Mohammadi, S. Samie, S.H. Banu, J.P. Basto, F. Kortüm, M. Bauer, P. Bauer, C. Beetz, M. Garshasbi, A. Hameed Issa, W. Eyaid, H. Ahmed, N. Hashemi, K. Hassanpour, I. Herman, S. Ibrohimov, B.A. Abdul-Majeed, M. Imdad, M. Isrofilov, Q. Kaiyal, S. Khan, B. Kirmse, J. Koster, C.M. Lourenço, T. Mitani, O. Moldovan, D. Murphy, M. Najafi, D. Pehlivan, M.E. Rocha, V. Salpietro, M. Schmidts, A. Shalata, M. Mahroum, J.K. Talbeya, R.W. Taylor, D. Vazquez, A. Vetro, H.R. Waterham, M. Zaman, T.A. Schrader, W.K. Chung, R. Guerrini, J.R. Lupski, J. Gleeson, M. Suri, Y. Jamshidi, K.P. Bhatia, B. Vona, M. Schrader, M. Severino, M. Guille, E.W. Tate, G.K. Varshney, H. Houlden, R. Maroofian, Brain 147 (2024) 1436–1456.","chicago":"Kaiyrzhanov, Rauan, Aboulfazl Rad, Sheng-Jia Lin, Aida Bertoli-Avella, Wouter W Kallemeijn, Annie Godwin, Maha S Zaki, et al. “Bi-Allelic ACBD6 Variants Lead to a Neurodevelopmental Syndrome with Progressive and Complex Movement Disorders.” <i>Brain</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/brain/awad380\">https://doi.org/10.1093/brain/awad380</a>.","apa":"Kaiyrzhanov, R., Rad, A., Lin, S.-J., Bertoli-Avella, A., Kallemeijn, W. W., Godwin, A., … Maroofian, R. (2024). Bi-allelic ACBD6 variants lead to a neurodevelopmental syndrome with progressive and complex movement disorders. <i>Brain</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/brain/awad380\">https://doi.org/10.1093/brain/awad380</a>"},"department":[{"_id":"GradSch"}],"_id":"14543","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"date_updated":"2024-07-16T08:23:24Z","quality_controlled":"1","date_created":"2023-11-16T12:36:51Z","intvolume":"       147","year":"2024","fulldoi":"https://doi.org/10.1093/brain/awad380","issue":"4","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","type":"journal_article","month":"04","publication":"Brain","external_id":{"pmid":["37951597"]},"article_processing_charge":"No","oa":1,"publisher":"Oxford University Press","has_accepted_license":"1","ddc":["570"],"volume":147,"day":"01","scopus_import":"1","abstract":[{"lang":"eng","text":"The acyl-CoA-binding domain-containing protein 6 (ACBD6) is ubiquitously expressed, plays a role in the acylation of lipids and proteins, and regulates the N-myristoylation of proteins via N-myristoyltransferase enzymes (NMTs). However, its precise function in cells is still unclear, as is the consequence of ACBD6 defects on human pathophysiology. Utilizing exome sequencing and extensive international data sharing efforts, we identified 45 affected individuals from 28 unrelated families (consanguinity 93%) with bi-allelic pathogenic, predominantly loss-of-function (18/20) variants in ACBD6. We generated zebrafish and Xenopus tropicalis acbd6 knockouts by CRISPR/Cas9 and characterized the role of ACBD6 on protein N-myristoylation with YnMyr chemical proteomics in the model organisms and human cells, with the latter also being subjected further to ACBD6 peroxisomal localization studies. The affected individuals (23 males and 22 females), with ages ranging from 1 to 50 years old, typically present with a complex and progressive disease involving moderate-to-severe global developmental delay/intellectual disability (100%) with significant expressive language impairment (98%), movement disorders (97%), facial dysmorphism (95%), and mild cerebellar ataxia (85%) associated with gait impairment (94%), limb spasticity/hypertonia (76%), oculomotor (71%) and behavioural abnormalities (65%), overweight (59%), microcephaly (39%) and epilepsy (33%). The most conspicuous and common movement disorder was dystonia (94%), frequently leading to early-onset progressive postural deformities (97%), limb dystonia (55%), and cervical dystonia (31%). A jerky tremor in the upper limbs (63%), a mild head tremor (59%), parkinsonism/hypokinesia developing with advancing age (32%), and simple motor and vocal tics were among other frequent movement disorders. Midline brain malformations including corpus callosum abnormalities (70%), hypoplasia/agenesis of the anterior commissure (66%), short midbrain and small inferior cerebellar vermis (38% each), as well as hypertrophy of the clava (24%) were common neuroimaging findings. acbd6-deficient zebrafish and Xenopus models effectively recapitulated many clinical phenotypes reported in patients including movement disorders, progressive neuromotor impairment, seizures, microcephaly, craniofacial dysmorphism, and midbrain defects accompanied by developmental delay with increased mortality over time. Unlike ACBD5, ACBD6 did not show a peroxisomal localisation and ACBD6-deficiency was not associated with altered peroxisomal parameters in patient fibroblasts. Significant differences in YnMyr-labelling were observed for 68 co- and 18 post-translationally N-myristoylated proteins in patient-derived fibroblasts. N-Myristoylation was similarly affected in acbd6-deficient zebrafish and Xenopus tropicalis models, including Fus, Marcks, and Chchd-related proteins implicated in neurological diseases. The present study provides evidence that bi-allelic pathogenic variants in ACBD6 lead to a distinct neurodevelopmental syndrome accompanied by complex and progressive cognitive and movement disorders."}],"publication_identifier":{"issn":["0006-8950"],"eissn":["1460-2156"]}},{"volume":36,"day":"01","abstract":[{"lang":"eng","text":"Autocrine signaling pathways regulated by RAPID ALKALINIZATION FACTORs (RALFs) control cell wall integrity during pollen tube germination and growth in Arabidopsis (Arabidopsis thaliana). To investigate the role of pollen-specific RALFs in another plant species, we combined gene expression data with phylogenetic and biochemical studies to identify candidate orthologs in maize (Zea mays). We show that Clade IB ZmRALF2/3 mutations, but not Clade III ZmRALF1/5 mutations, cause cell wall instability in the sub-apical region of the growing pollen tube. ZmRALF2/3 are mainly located in the cell wall and are partially able to complement the pollen germination defect of their Arabidopsis orthologs AtRALF4/19. Mutations in ZmRALF2/3 compromise pectin distribution patterns leading to altered cell wall organization and thickness culminating in pollen tube burst. Clade IB, but not Clade III ZmRALFs, strongly interact as ligands with the pollen-specific Catharanthus roseus RLK1-like (CrRLK1L) receptor kinases Zea mays FERONIA-like (ZmFERL) 4/7/9, LORELEI-like glycosylphosphatidylinositol-anchor (LLG) proteins Zea mays LLG 1 and 2 (ZmLLG1/2) and Zea mays pollen extension-like (PEX) cell wall proteins ZmPEX2/4. Notably, ZmFERL4 outcompetes ZmLLG2 and ZmPEX2 outcompetes ZmFERL4 for ZmRALF2 binding. Based on these data, we suggest that Clade IB RALFs act in a dual role as cell wall components and extracellular sensors to regulate cell wall integrity and thickness during pollen tube growth in maize and probably other plants."}],"scopus_import":"1","publication_identifier":{"eissn":["1532-298X"],"issn":["1040-4651"]},"publisher":"Oxford University Press","has_accepted_license":"1","ddc":["580"],"external_id":{"pmid":["38142229"]},"publication":"The Plant Cell","article_processing_charge":"No","oa":1,"month":"05","type":"journal_article","article_type":"original","issue":"5","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","year":"2024","fulldoi":"https://doi.org/10.1093/plcell/koad324","date_updated":"2024-07-16T11:18:46Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"_id":"14726","article_number":"koad324","quality_controlled":"1","date_created":"2024-01-02T11:19:37Z","intvolume":"        36","status":"public","citation":{"short":"L.-Z. Zhou, L. Wang, X. Chen, Z. Ge, J. Mergner, X. Li, B. Küster, G. Längst, L.-J. Qu, T. Dresselhaus, The Plant Cell 36 (2024).","chicago":"Zhou, Liang-Zi, Lele Wang, Xia Chen, Zengxiang Ge, Julia Mergner, Xingli Li, Bernhard Küster, Gernot Längst, Li-Jia Qu, and Thomas Dresselhaus. “The RALF Signaling Pathway Regulates Cell Wall Integrity during Pollen Tube Growth in Maize.” <i>The Plant Cell</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/plcell/koad324\">https://doi.org/10.1093/plcell/koad324</a>.","apa":"Zhou, L.-Z., Wang, L., Chen, X., Ge, Z., Mergner, J., Li, X., … Dresselhaus, T. (2024). The RALF signaling pathway regulates cell wall integrity during pollen tube growth in maize. <i>The Plant Cell</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/plcell/koad324\">https://doi.org/10.1093/plcell/koad324</a>","ieee":"L.-Z. Zhou <i>et al.</i>, “The RALF signaling pathway regulates cell wall integrity during pollen tube growth in maize,” <i>The Plant Cell</i>, vol. 36, no. 5. Oxford University Press, 2024.","ama":"Zhou L-Z, Wang L, Chen X, et al. The RALF signaling pathway regulates cell wall integrity during pollen tube growth in maize. <i>The Plant Cell</i>. 2024;36(5). doi:<a href=\"https://doi.org/10.1093/plcell/koad324\">10.1093/plcell/koad324</a>","ista":"Zhou L-Z, Wang L, Chen X, Ge Z, Mergner J, Li X, Küster B, Längst G, Qu L-J, Dresselhaus T. 2024. The RALF signaling pathway regulates cell wall integrity during pollen tube growth in maize. The Plant Cell. 36(5), koad324.","mla":"Zhou, Liang-Zi, et al. “The RALF Signaling Pathway Regulates Cell Wall Integrity during Pollen Tube Growth in Maize.” <i>The Plant Cell</i>, vol. 36, no. 5, koad324, Oxford University Press, 2024, doi:<a href=\"https://doi.org/10.1093/plcell/koad324\">10.1093/plcell/koad324</a>."},"main_file_link":[{"url":"https://doi.org/10.1093/plcell/koad324","open_access":"1"}],"language":[{"iso":"eng"}],"extern":"1","oa_version":"Published Version","doi":"10.1093/plcell/koad324","title":"The RALF signaling pathway regulates cell wall integrity during pollen tube growth in maize","keyword":["Cell Biology","Plant Science"],"author":[{"full_name":"Zhou, Liang-Zi","first_name":"Liang-Zi","last_name":"Zhou"},{"full_name":"Wang, Lele","last_name":"Wang","first_name":"Lele"},{"last_name":"Chen","first_name":"Xia","full_name":"Chen, Xia"},{"full_name":"Ge, Zengxiang","id":"f43371a3-09ff-11eb-8013-bd0c6a2f6de8","orcid":"0000-0001-9381-3577","last_name":"Ge","first_name":"Zengxiang"},{"full_name":"Mergner, Julia","last_name":"Mergner","first_name":"Julia"},{"full_name":"Li, Xingli","last_name":"Li","first_name":"Xingli"},{"first_name":"Bernhard","last_name":"Küster","full_name":"Küster, Bernhard"},{"first_name":"Gernot","last_name":"Längst","full_name":"Längst, Gernot"},{"last_name":"Qu","first_name":"Li-Jia","full_name":"Qu, Li-Jia"},{"full_name":"Dresselhaus, Thomas","first_name":"Thomas","last_name":"Dresselhaus"}],"date_published":"2024-05-01T00:00:00Z","pmid":1,"publication_status":"published"},{"fulldoi":"https://doi.org/10.1093/mnras/stae012","year":"2024","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"1","article_type":"original","type":"journal_article","month":"01","oa":1,"arxiv":1,"article_processing_charge":"No","publication":"Monthly Notices of the Royal Astronomical Society","external_id":{"arxiv":["2401.04178"]},"publisher":"Oxford University Press","publication_identifier":{"eissn":["1365-2966"],"issn":["0035-8711"]},"abstract":[{"lang":"eng","text":"Cataclysmic variables (CVs) that have evolved past the period minimum during their lifetimes are predicted to be systems with a brown dwarf donor. While population synthesis models predict that around 40–70 per cent of the Galactic CVs are post-period minimum systems referred to as ‘period bouncers’, only a few dozen confirmed systems are known. We report the study and characterization of a new eclipsing CV, SRGeJ041130.3+685350 (SRGeJ0411), discovered from a joint SRG/eROSITA and ZTF programme. The optical spectrum of SRGeJ0411 shows prominent hydrogen and helium emission lines, typical for CVs. We obtained optical high-speed photometry to confirm the eclipse of SRGeJ0411 and determine the orbital period to be Porb ≈ 97.530 min. The spectral energy distribution suggests that the donor has an effective temperature of ≲ 1800 K. We constrain the donor mass with the period–density relationship for Roche lobe-filling stars and find that Mdonor ≲ 0.04 M⊙. The binary parameters are consistent with evolutionary models for post-period minimum CVs, suggesting that SRGeJ0411 is a new period bouncer. The optical emission lines of SRGeJ0411 are single-peaked despite the system being eclipsing, which is typically only seen due to stream-fed accretion in polars. X-ray spectroscopy hints that the white dwarf in SRGeJ0411 could be magnetic, but verifying the magnetic nature of SRGeJ0411 requires further investigation. The lack of optical outbursts has made SRGeJ0411 elusive in previous surveys, and joint X-ray and optical surveys highlight the potential for discovering similar systems in the near future."}],"scopus_import":"1","day":"04","volume":528,"publication_status":"published","date_published":"2024-01-04T00:00:00Z","author":[{"full_name":"Galiullin, Ilkham","first_name":"Ilkham","last_name":"Galiullin"},{"last_name":"Rodriguez","first_name":"Antonio C","full_name":"Rodriguez, Antonio C"},{"full_name":"Kulkarni, Shrinivas R","first_name":"Shrinivas R","last_name":"Kulkarni"},{"last_name":"Sunyaev","first_name":"Rashid","full_name":"Sunyaev, Rashid"},{"full_name":"Gilfanov, Marat","last_name":"Gilfanov","first_name":"Marat"},{"full_name":"Bikmaev, Ilfan","last_name":"Bikmaev","first_name":"Ilfan"},{"full_name":"Yungelson, Lev","first_name":"Lev","last_name":"Yungelson"},{"full_name":"van Roestel, Jan","last_name":"van Roestel","first_name":"Jan"},{"full_name":"Gänsicke, Boris T","last_name":"Gänsicke","first_name":"Boris T"},{"full_name":"Khamitov, Irek","first_name":"Irek","last_name":"Khamitov"},{"full_name":"Szkody, Paula","last_name":"Szkody","first_name":"Paula"},{"full_name":"El-Badry, Kareem","last_name":"El-Badry","first_name":"Kareem"},{"full_name":"Suslikov, Mikhail","last_name":"Suslikov","first_name":"Mikhail"},{"last_name":"Prince","first_name":"Thomas A","full_name":"Prince, Thomas A"},{"full_name":"Buntov, Mikhail","last_name":"Buntov","first_name":"Mikhail"},{"first_name":"Ilaria","id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d","last_name":"Caiazzo","orcid":"0000-0002-4770-5388","full_name":"Caiazzo, Ilaria"},{"last_name":"Gorbachev","first_name":"Mark","full_name":"Gorbachev, Mark"},{"last_name":"Graham","first_name":"Matthew J","full_name":"Graham, Matthew J"},{"full_name":"Gumerov, Rustam","first_name":"Rustam","last_name":"Gumerov"},{"first_name":"Eldar","last_name":"Irtuganov","full_name":"Irtuganov, Eldar"},{"full_name":"Laher, Russ R","first_name":"Russ R","last_name":"Laher"},{"full_name":"Medvedev, Pavel","first_name":"Pavel","last_name":"Medvedev"},{"first_name":"Reed","last_name":"Riddle","full_name":"Riddle, Reed"},{"full_name":"Rusholme, Ben","last_name":"Rusholme","first_name":"Ben"},{"full_name":"Sakhibullin, Nail","last_name":"Sakhibullin","first_name":"Nail"},{"last_name":"Sklyanov","first_name":"Alexander","full_name":"Sklyanov, Alexander"},{"last_name":"Vanderbosch","first_name":"Zachary P","full_name":"Vanderbosch, Zachary P"}],"page":"676-692","keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"title":"A joint SRG/eROSITA + ZTF search: Discovery of a 97-min period eclipsing cataclysmic variable with evidence of a brown dwarf secondary","doi":"10.1093/mnras/stae012","oa_version":"Published Version","extern":"1","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://doi.org/10.1093/mnras/stae012","open_access":"1"}],"citation":{"mla":"Galiullin, Ilkham, et al. “A Joint SRG/EROSITA + ZTF Search: Discovery of a 97-Min Period Eclipsing Cataclysmic Variable with Evidence of a Brown Dwarf Secondary.” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 528, no. 1, Oxford University Press, 2024, pp. 676–92, doi:<a href=\"https://doi.org/10.1093/mnras/stae012\">10.1093/mnras/stae012</a>.","ista":"Galiullin I, Rodriguez AC, Kulkarni SR, Sunyaev R, Gilfanov M, Bikmaev I, Yungelson L, van Roestel J, Gänsicke BT, Khamitov I, Szkody P, El-Badry K, Suslikov M, Prince TA, Buntov M, Caiazzo I, Gorbachev M, Graham MJ, Gumerov R, Irtuganov E, Laher RR, Medvedev P, Riddle R, Rusholme B, Sakhibullin N, Sklyanov A, Vanderbosch ZP. 2024. A joint SRG/eROSITA + ZTF search: Discovery of a 97-min period eclipsing cataclysmic variable with evidence of a brown dwarf secondary. Monthly Notices of the Royal Astronomical Society. 528(1), 676–692.","ama":"Galiullin I, Rodriguez AC, Kulkarni SR, et al. A joint SRG/eROSITA + ZTF search: Discovery of a 97-min period eclipsing cataclysmic variable with evidence of a brown dwarf secondary. <i>Monthly Notices of the Royal Astronomical Society</i>. 2024;528(1):676-692. doi:<a href=\"https://doi.org/10.1093/mnras/stae012\">10.1093/mnras/stae012</a>","ieee":"I. Galiullin <i>et al.</i>, “A joint SRG/eROSITA + ZTF search: Discovery of a 97-min period eclipsing cataclysmic variable with evidence of a brown dwarf secondary,” <i>Monthly Notices of the Royal Astronomical Society</i>, vol. 528, no. 1. Oxford University Press, pp. 676–692, 2024.","chicago":"Galiullin, Ilkham, Antonio C Rodriguez, Shrinivas R Kulkarni, Rashid Sunyaev, Marat Gilfanov, Ilfan Bikmaev, Lev Yungelson, et al. “A Joint SRG/EROSITA + ZTF Search: Discovery of a 97-Min Period Eclipsing Cataclysmic Variable with Evidence of a Brown Dwarf Secondary.” <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/mnras/stae012\">https://doi.org/10.1093/mnras/stae012</a>.","apa":"Galiullin, I., Rodriguez, A. C., Kulkarni, S. R., Sunyaev, R., Gilfanov, M., Bikmaev, I., … Vanderbosch, Z. P. (2024). A joint SRG/eROSITA + ZTF search: Discovery of a 97-min period eclipsing cataclysmic variable with evidence of a brown dwarf secondary. <i>Monthly Notices of the Royal Astronomical Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/mnras/stae012\">https://doi.org/10.1093/mnras/stae012</a>","short":"I. Galiullin, A.C. Rodriguez, S.R. Kulkarni, R. Sunyaev, M. Gilfanov, I. Bikmaev, L. Yungelson, J. van Roestel, B.T. Gänsicke, I. Khamitov, P. Szkody, K. El-Badry, M. Suslikov, T.A. Prince, M. Buntov, I. Caiazzo, M. Gorbachev, M.J. Graham, R. Gumerov, E. Irtuganov, R.R. Laher, P. Medvedev, R. Riddle, B. Rusholme, N. Sakhibullin, A. Sklyanov, Z.P. Vanderbosch, Monthly Notices of the Royal Astronomical Society 528 (2024) 676–692."},"status":"public","intvolume":"       528","date_created":"2024-03-26T09:43:55Z","quality_controlled":"1","_id":"15189","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"date_updated":"2024-04-02T06:50:01Z"},{"keyword":["Space and Planetary Science","Astronomy and Astrophysics"],"publication_status":"published","author":[{"full_name":"Gerasimov, Roman","last_name":"Gerasimov","first_name":"Roman"},{"full_name":"Burgasser, Adam J.","first_name":"Adam J.","last_name":"Burgasser"},{"full_name":"Caiazzo, Ilaria","id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d","orcid":"0000-0002-4770-5388","last_name":"Caiazzo","first_name":"Ilaria"},{"first_name":"Derek","last_name":"Homeier","full_name":"Homeier, Derek"},{"last_name":"Richer","first_name":"Harvey B.","full_name":"Richer, Harvey B."},{"full_name":"Correnti, Matteo","last_name":"Correnti","first_name":"Matteo"},{"first_name":"Jeremy","last_name":"Heyl","full_name":"Heyl, Jeremy"}],"date_published":"2024-01-22T00:00:00Z","doi":"10.3847/1538-4357/ad08bf","title":"Exploring the chemistry and mass function of the globular cluster 47 Tucanae with new theoretical color–magnitude diagrams","language":[{"iso":"eng"}],"extern":"1","oa_version":"Published Version","status":"public","citation":{"apa":"Gerasimov, R., Burgasser, A. J., Caiazzo, I., Homeier, D., Richer, H. B., Correnti, M., &#38; Heyl, J. (2024). Exploring the chemistry and mass function of the globular cluster 47 Tucanae with new theoretical color–magnitude diagrams. <i>The Astrophysical Journal</i>. American Astronomical Society. <a href=\"https://doi.org/10.3847/1538-4357/ad08bf\">https://doi.org/10.3847/1538-4357/ad08bf</a>","chicago":"Gerasimov, Roman, Adam J. Burgasser, Ilaria Caiazzo, Derek Homeier, Harvey B. Richer, Matteo Correnti, and Jeremy Heyl. “Exploring the Chemistry and Mass Function of the Globular Cluster 47 Tucanae with New Theoretical Color–Magnitude Diagrams.” <i>The Astrophysical Journal</i>. American Astronomical Society, 2024. <a href=\"https://doi.org/10.3847/1538-4357/ad08bf\">https://doi.org/10.3847/1538-4357/ad08bf</a>.","short":"R. Gerasimov, A.J. Burgasser, I. Caiazzo, D. Homeier, H.B. Richer, M. Correnti, J. Heyl, The Astrophysical Journal 961 (2024).","ista":"Gerasimov R, Burgasser AJ, Caiazzo I, Homeier D, Richer HB, Correnti M, Heyl J. 2024. Exploring the chemistry and mass function of the globular cluster 47 Tucanae with new theoretical color–magnitude diagrams. The Astrophysical Journal. 961(1), 139.","ama":"Gerasimov R, Burgasser AJ, Caiazzo I, et al. Exploring the chemistry and mass function of the globular cluster 47 Tucanae with new theoretical color–magnitude diagrams. <i>The Astrophysical Journal</i>. 2024;961(1). doi:<a href=\"https://doi.org/10.3847/1538-4357/ad08bf\">10.3847/1538-4357/ad08bf</a>","mla":"Gerasimov, Roman, et al. “Exploring the Chemistry and Mass Function of the Globular Cluster 47 Tucanae with New Theoretical Color–Magnitude Diagrams.” <i>The Astrophysical Journal</i>, vol. 961, no. 1, 139, American Astronomical Society, 2024, doi:<a href=\"https://doi.org/10.3847/1538-4357/ad08bf\">10.3847/1538-4357/ad08bf</a>.","ieee":"R. Gerasimov <i>et al.</i>, “Exploring the chemistry and mass function of the globular cluster 47 Tucanae with new theoretical color–magnitude diagrams,” <i>The Astrophysical Journal</i>, vol. 961, no. 1. American Astronomical Society, 2024."},"main_file_link":[{"url":"https://doi.org/10.3847/1538-4357/ad08bf","open_access":"1"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"date_updated":"2024-04-02T06:52:43Z","_id":"15191","quality_controlled":"1","article_number":"139","date_created":"2024-03-26T09:44:50Z","intvolume":"       961","year":"2024","fulldoi":"https://doi.org/10.3847/1538-4357/ad08bf","issue":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","type":"journal_article","month":"01","publication":"The Astrophysical Journal","external_id":{"arxiv":["2310.11800"]},"article_processing_charge":"No","arxiv":1,"oa":1,"publisher":"American Astronomical Society","volume":961,"day":"22","scopus_import":"1","abstract":[{"lang":"eng","text":"Despite their shared origin, members of globular clusters display star-to-star variations in composition. The observed pattern of element abundances is unique to these stellar environments and cannot be fully explained by any proposed mechanism. It remains unclear whether stars form with chemical heterogeneity or inherit it from interactions with other members. These scenarios may be differentiated by the dependence of chemical spread on stellar mass; however, obtaining a sufficiently large mass baseline requires abundance measurements on the lower main sequence, which is too faint for spectroscopy even in the nearest globular clusters. We developed a stellar modeling method to obtain precise chemical abundances for stars near the end of the main sequence from multiband photometry, and we applied it to the globular cluster 47 Tucanae. The computational efficiency is attained by matching chemical elements to the model components that are most sensitive to their abundance. We determined [O/Fe] for ∼5000 members below the main-sequence knee at the level of accuracy, comparable to the spectroscopic measurements of evolved members in the literature. The inferred distribution disfavors stellar interactions as the origin of chemical spread; however, an accurate theory of accretion is required to draw a more definitive conclusion. We anticipate that future observations of 47 Tucanae with the James Webb Space Telescope will extend the mass baseline of our analysis into the substellar regime. Therefore, we present predicted color–magnitude diagrams and mass–magnitude relations for the brown dwarf members of 47 Tucanae."}],"publication_identifier":{"eissn":["1538-4357"],"issn":["0004-637X"]}},{"month":"07","external_id":{"pmid":["38693811"],"isi":["001214545700001"]},"publication":"BioEssays","OA_place":"publisher","oa":1,"article_processing_charge":"Yes (in subscription journal)","publisher":"Wiley","acknowledgement":"The authors thank Alexander Scrutton and James M. Krieger for comments on the manuscript. The authors also acknowledge Shraddha Nayak for help with Figure 1B design. This work was supported by grants from the Medical Research Council (MC_U105174197), the BBSRC (BB/N002113/1), and the Wellcome Trust (223194/Z/21/Z) to IHG.","has_accepted_license":"1","ddc":["570"],"day":"01","volume":46,"publication_identifier":{"eissn":["1521-1878"],"issn":["0265-9247"]},"abstract":[{"text":"Long-term potentiation (LTP) of excitatory synapses is a leading model to explain the concept of information storage in the brain. Multiple mechanisms contribute to LTP, but central amongst them is an increased sensitivity of the postsynaptic membrane to neurotransmitter release. This sensitivity is predominantly determined by the abundance and localization of AMPA-type glutamate receptors (AMPARs). A combination of AMPAR structural data, super-resolution imaging of excitatory synapses, and an abundance of electrophysiological studies are providing an ever-clearer picture of how AMPARs are recruited and organized at synaptic junctions. Here, we review the latest insights into this process, and discuss how both cytoplasmic and extracellular receptor elements cooperate to tune the AMPAR response at the hippocampal CA1 synapse.","lang":"eng"}],"scopus_import":"1","fulldoi":"https://doi.org/10.1002/bies.202400006","year":"2024","issue":"7","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_type":"review","type":"journal_article","language":[{"iso":"eng"}],"oa_version":"Published Version","status":"public","department":[{"_id":"PeJo"}],"citation":{"mla":"Stockwell, Imogen, et al. “Tuning Synaptic Strength by Regulation of AMPA Glutamate Receptor Localization.” <i>BioEssays</i>, vol. 46, no. 7, 2400006, Wiley, 2024, doi:<a href=\"https://doi.org/10.1002/bies.202400006\">10.1002/bies.202400006</a>.","ista":"Stockwell I, Watson J, Greger IH. 2024. Tuning synaptic strength by regulation of AMPA glutamate receptor localization. BioEssays. 46(7), 2400006.","ama":"Stockwell I, Watson J, Greger IH. Tuning synaptic strength by regulation of AMPA glutamate receptor localization. <i>BioEssays</i>. 2024;46(7). doi:<a href=\"https://doi.org/10.1002/bies.202400006\">10.1002/bies.202400006</a>","ieee":"I. Stockwell, J. Watson, and I. H. Greger, “Tuning synaptic strength by regulation of AMPA glutamate receptor localization,” <i>BioEssays</i>, vol. 46, no. 7. Wiley, 2024.","apa":"Stockwell, I., Watson, J., &#38; Greger, I. H. (2024). Tuning synaptic strength by regulation of AMPA glutamate receptor localization. <i>BioEssays</i>. Wiley. <a href=\"https://doi.org/10.1002/bies.202400006\">https://doi.org/10.1002/bies.202400006</a>","chicago":"Stockwell, Imogen, Jake Watson, and Ingo H. Greger. “Tuning Synaptic Strength by Regulation of AMPA Glutamate Receptor Localization.” <i>BioEssays</i>. Wiley, 2024. <a href=\"https://doi.org/10.1002/bies.202400006\">https://doi.org/10.1002/bies.202400006</a>.","short":"I. Stockwell, J. Watson, I.H. Greger, BioEssays 46 (2024)."},"quality_controlled":"1","article_number":" 2400006","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"_id":"15379","date_updated":"2025-09-08T07:25:02Z","intvolume":"        46","date_created":"2024-05-12T22:01:02Z","OA_type":"hybrid","publication_status":"published","pmid":1,"author":[{"last_name":"Stockwell","first_name":"Imogen","full_name":"Stockwell, Imogen"},{"full_name":"Watson, Jake","first_name":"Jake","id":"63836096-4690-11EA-BD4E-32803DDC885E","last_name":"Watson","orcid":"0000-0002-8698-3823"},{"full_name":"Greger, Ingo H.","first_name":"Ingo H.","last_name":"Greger"}],"file":[{"file_name":"2024_BioEssays_Stockwell.pdf","file_id":"18801","access_level":"open_access","file_size":775825,"content_type":"application/pdf","creator":"dernst","success":1,"date_created":"2025-01-09T09:31:05Z","relation":"main_file","date_updated":"2025-01-09T09:31:05Z","checksum":"dc8be74156657e8aab12a9d613233ee3"}],"date_published":"2024-07-01T00:00:00Z","isi":1,"file_date_updated":"2025-01-09T09:31:05Z","title":"Tuning synaptic strength by regulation of AMPA glutamate receptor localization","doi":"10.1002/bies.202400006"},{"related_material":{"record":[{"id":"17291","status":"public","relation":"used_in_publication"}]},"month":"05","contributor":[{"last_name":"Vallet","first_name":"Alicia","contributor_type":"data_collector"},{"last_name":"Ayala","first_name":"Isabel ","contributor_type":"data_collector"},{"first_name":"Barbara","last_name":"Perrone","contributor_type":"data_collector"},{"last_name":"Hassan","first_name":"Alia","contributor_type":"data_collector"},{"contributor_type":"data_collector","last_name":"Bougault","first_name":"Catherine"}],"oa_version":"Published Version","status":"public","department":[{"_id":"PaSc"}],"oa":1,"article_processing_charge":"No","citation":{"chicago":"Schanda, Paul. “Raw Data to ‘MAS NMR Experiments of Corynebacterial Cell Walls: Complementary 1H- and CPMAS CryoProbe-Enhanced 13C-Detected Experiments.’” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/AT:ISTA:17042\">https://doi.org/10.15479/AT:ISTA:17042</a>.","apa":"Schanda, P. (2024). Raw data to “MAS NMR experiments of corynebacterial cell walls: complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:17042\">https://doi.org/10.15479/AT:ISTA:17042</a>","short":"P. Schanda, (2024).","ista":"Schanda P. 2024. Raw data to ‘MAS NMR experiments of corynebacterial cell walls: complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:17042\">10.15479/AT:ISTA:17042</a>.","ama":"Schanda P. Raw data to “MAS NMR experiments of corynebacterial cell walls: complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments.” 2024. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:17042\">10.15479/AT:ISTA:17042</a>","mla":"Schanda, Paul. <i>Raw Data to “MAS NMR Experiments of Corynebacterial Cell Walls: Complementary 1H- and CPMAS CryoProbe-Enhanced 13C-Detected Experiments.”</i> Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:17042\">10.15479/AT:ISTA:17042</a>.","ieee":"P. Schanda, “Raw data to ‘MAS NMR experiments of corynebacterial cell walls: complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments.’” Institute of Science and Technology Austria, 2024."},"publisher":"Institute of Science and Technology Austria","corr_author":"1","has_accepted_license":"1","ddc":["570"],"day":"22","_id":"17042","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"date_updated":"2025-09-09T12:01:41Z","date_created":"2024-05-22T12:04:54Z","abstract":[{"text":"Bacterial cell walls are gigadalton-large cross-linked polymers with a wide range of motional amplitudes, including rather rigid as well as highly flexible parts. Magic-angle spinning NMR is a powerful method to obtain atomic-level information about intact cell walls. Here we investigate sensitivity and information content of different homonuclear 13C-13C and heteronuclear H-N, H-C and N-C correlation experiments. We demonstrate that a CPMAS CryoProbe yields ca. 8-fold increased signal-to-noise over a room-temperature probe, or a ca. 3-4-fold larger per-mass sensitivity. The increased sensitivity allowed to obtain high-resolution spectra even on intact bacteria. Moreover, we compare resolution and sensitivity of 1H MAS experiments obtained at 100 kHz vs. 55 kHz. Our study provides useful hints for choosing experiments to extract atomic-level details on cell-wall samples. ","lang":"eng"}],"fulldoi":"https://doi.org/10.15479/AT:ISTA:17042","year":"2024","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["nuclear magnetic resonance","NMR","cellwall","structural biology","spectroscopy"],"date_published":"2024-05-22T00:00:00Z","file":[{"file_id":"17043","access_level":"open_access","file_name":"Read_me.txt","creator":"pschanda","success":1,"date_created":"2024-05-22T12:05:13Z","relation":"main_file","date_updated":"2024-05-22T12:05:13Z","checksum":"eb55f0988342d927702353b75e07edfa","content_type":"text/plain","file_size":2132},{"date_updated":"2024-05-22T12:17:10Z","checksum":"3393592acaf5ee1e032052c236780914","relation":"main_file","success":1,"date_created":"2024-05-22T12:17:10Z","creator":"pschanda","content_type":"application/zip","file_size":755704888,"access_level":"open_access","file_id":"17044","file_name":"raw_data_CryoMAS_cyronebacteria.zip"}],"author":[{"full_name":"Schanda, Paul","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606","last_name":"Schanda","first_name":"Paul"}],"type":"research_data","title":"Raw data to \"MAS NMR experiments of corynebacterial cell walls: complementary 1H- and CPMAS CryoProbe-enhanced 13C-detected experiments\"","file_date_updated":"2024-05-22T12:17:10Z","doi":"10.15479/AT:ISTA:17042"},{"article_processing_charge":"No","publication":"Biophysical Journal","external_id":{"pmid":["38462838"]},"month":"06","publication_identifier":{"issn":["0006-3495"]},"scopus_import":"1","abstract":[{"lang":"eng","text":"Membrane-associated protein phase separation plays critical roles in cell biology, driving essential cellular phenomena from immune signaling to membrane traffic. Importantly, by reducing dimensionality from three to two dimensions, lipid bilayers can nucleate phase separation at far lower concentrations compared with those required for phase separation in solution. How might other intracellular lipid substrates, such as lipid droplets, contribute to nucleation of phase separation? Distinct from bilayer membranes, lipid droplets consist of a phospholipid monolayer surrounding a core of neutral lipids, and they are energy storage organelles that protect cells from lipotoxicity and oxidative stress. Here, we show that intrinsically disordered proteins can undergo phase separation on the surface of synthetic and cell-derived lipid droplets. Specifically, we find that the model disordered domains FUS LC and LAF-1 RGG separate into protein-rich and protein-depleted phases on the surfaces of lipid droplets. Owing to the hydrophobic nature of interactions between FUS LC proteins, increasing ionic strength drives an increase in its phase separation on droplet surfaces. The opposite is true for LAF-1 RGG, owing to the electrostatic nature of its interprotein interactions. In both cases, protein-rich phases on the surfaces of synthetic and cell-derived lipid droplets demonstrate molecular mobility indicative of a liquid-like state. Our results show that lipid droplets can nucleate protein condensates, suggesting that protein phase separation could be key in organizing biological processes involving lipid droplets."}],"day":"04","volume":123,"publisher":"Elsevier","issue":"11","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1016/j.bpj.2024.03.015","year":"2024","type":"journal_article","article_type":"original","citation":{"ieee":"A. Kamatar <i>et al.</i>, “Lipid droplets as substrates for protein phase separation,” <i>Biophysical Journal</i>, vol. 123, no. 11. Elsevier, pp. 1494–1507, 2024.","ama":"Kamatar A, Bravo JPK, Yuan F, et al. Lipid droplets as substrates for protein phase separation. <i>Biophysical Journal</i>. 2024;123(11):1494-1507. doi:<a href=\"https://doi.org/10.1016/j.bpj.2024.03.015\">10.1016/j.bpj.2024.03.015</a>","ista":"Kamatar A, Bravo JPK, Yuan F, Wang L, Lafer EM, Taylor DW, Stachowiak JC, Parekh SH. 2024. Lipid droplets as substrates for protein phase separation. Biophysical Journal. 123(11), 1494–1507.","mla":"Kamatar, Advika, et al. “Lipid Droplets as Substrates for Protein Phase Separation.” <i>Biophysical Journal</i>, vol. 123, no. 11, Elsevier, 2024, pp. 1494–507, doi:<a href=\"https://doi.org/10.1016/j.bpj.2024.03.015\">10.1016/j.bpj.2024.03.015</a>.","short":"A. Kamatar, J.P.K. Bravo, F. Yuan, L. Wang, E.M. Lafer, D.W. Taylor, J.C. Stachowiak, S.H. Parekh, Biophysical Journal 123 (2024) 1494–1507.","apa":"Kamatar, A., Bravo, J. P. K., Yuan, F., Wang, L., Lafer, E. M., Taylor, D. W., … Parekh, S. H. (2024). Lipid droplets as substrates for protein phase separation. <i>Biophysical Journal</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.bpj.2024.03.015\">https://doi.org/10.1016/j.bpj.2024.03.015</a>","chicago":"Kamatar, Advika, Jack Peter Kelly Bravo, Feng Yuan, Liping Wang, Eileen M. Lafer, David W. Taylor, Jeanne C. Stachowiak, and Sapun H. Parekh. “Lipid Droplets as Substrates for Protein Phase Separation.” <i>Biophysical Journal</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.bpj.2024.03.015\">https://doi.org/10.1016/j.bpj.2024.03.015</a>."},"status":"public","oa_version":"None","extern":"1","language":[{"iso":"eng"}],"intvolume":"       123","date_created":"2024-06-04T06:41:03Z","quality_controlled":"1","_id":"17111","date_updated":"2025-01-13T11:03:41Z","title":"Lipid droplets as substrates for protein phase separation","doi":"10.1016/j.bpj.2024.03.015","date_published":"2024-06-04T00:00:00Z","pmid":1,"author":[{"full_name":"Kamatar, Advika","first_name":"Advika","last_name":"Kamatar"},{"full_name":"Bravo, Jack Peter Kelly","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","last_name":"Bravo","orcid":"0000-0003-0456-0753","first_name":"Jack Peter Kelly"},{"full_name":"Yuan, Feng","first_name":"Feng","last_name":"Yuan"},{"first_name":"Liping","last_name":"Wang","full_name":"Wang, Liping"},{"first_name":"Eileen M.","last_name":"Lafer","full_name":"Lafer, Eileen M."},{"full_name":"Taylor, David W.","first_name":"David W.","last_name":"Taylor"},{"full_name":"Stachowiak, Jeanne C.","last_name":"Stachowiak","first_name":"Jeanne C."},{"last_name":"Parekh","first_name":"Sapun H.","full_name":"Parekh, Sapun H."}],"publication_status":"published","page":"1494-1507"},{"month":"02","OA_place":"repository","publication":"Science","external_id":{"pmid":["38301007"]},"article_processing_charge":"No","oa":1,"publisher":"American Association for the Advancement of Science","acknowledgement":"We thank R. Fregoso Ocampo for assistance with negative-stain EM imaging. This work was funded by Dutch Research Council (NWO) VIDI grant VI.Vidi.203.074 (R.H.J.S.), NWO Spinoza grant SPI 93-537 (J.v.d.O.), European Research Council (ERC) Advanced grant ERC-AdG-834279 (J.v.d.O.), ERC CoG grant 817834 (T.J.G.E.), NWO VICI grant VI.C.192.016 (T.J.G.E.), Volkswagen Foundation grant 96725 (T.J.G.E.), National Institute of General Medical Sciences of the National Institutes of Health grant R35GM138348 (D.W.T.), Welch Foundation research grant F-1938 (D.W.T.), a Robert J. Kleberg, Jr. And Helen C. Kleberg Foundation medical research grant (D.W.T.), and American Cancer Society Research Scholar grant RSG-21-050-01-DMC (D.W.T.).","volume":383,"day":"01","scopus_import":"1","abstract":[{"text":"The generation of cyclic oligoadenylates and subsequent allosteric activation of proteins that carry sensory domains is a distinctive feature of type III CRISPR-Cas systems. In this work, we characterize a set of associated genes of a type III-B system from Haliangium ochraceum that contains two caspase-like proteases, SAVED-CHAT and PCaspase (prokaryotic caspase), co-opted from a cyclic oligonucleotide–based antiphage signaling system (CBASS). Cyclic tri–adenosine monophosphate (AMP)–induced oligomerization of SAVED-CHAT activates proteolytic activity of the CHAT domains, which specifically cleave and activate PCaspase. Subsequently, activated PCaspase cleaves a multitude of proteins, which results in a strong interference phenotype in vivo in Escherichia coli. Taken together, our findings reveal how a CRISPR-Cas–based detection of a target RNA triggers a cascade of caspase-associated proteolytic activities.","lang":"eng"}],"publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"year":"2024","fulldoi":"https://doi.org/10.1126/science.adk0378","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"6682","article_type":"original","type":"journal_article","language":[{"iso":"eng"}],"extern":"1","oa_version":"Preprint","status":"public","citation":{"short":"J.A. Steens, J.P.K. Bravo, C.R.P. Salazar, C. Yildiz, A.M. Amieiro, S. Köstlbacher, S.H.P. Prinsen, C. Patinios, A. Bardis, A. Barendregt, R.A. Scheltema, T.J.G. Ettema, J. van der Oost, D.W. Taylor, R.H.J. Staals, Science 383 (2024) 512–519.","chicago":"Steens, Jurre A., Jack Peter Kelly Bravo, Carl Raymund P. Salazar, Caglar Yildiz, Afonso M. Amieiro, Stephan Köstlbacher, Stijn H.P. Prinsen, et al. “Type III-B CRISPR-Cas Cascade of Proteolytic Cleavages.” <i>Science</i>. American Association for the Advancement of Science, 2024. <a href=\"https://doi.org/10.1126/science.adk0378\">https://doi.org/10.1126/science.adk0378</a>.","apa":"Steens, J. A., Bravo, J. P. K., Salazar, C. R. P., Yildiz, C., Amieiro, A. M., Köstlbacher, S., … Staals, R. H. J. (2024). Type III-B CRISPR-Cas cascade of proteolytic cleavages. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.adk0378\">https://doi.org/10.1126/science.adk0378</a>","ieee":"J. A. Steens <i>et al.</i>, “Type III-B CRISPR-Cas cascade of proteolytic cleavages,” <i>Science</i>, vol. 383, no. 6682. American Association for the Advancement of Science, pp. 512–519, 2024.","mla":"Steens, Jurre A., et al. “Type III-B CRISPR-Cas Cascade of Proteolytic Cleavages.” <i>Science</i>, vol. 383, no. 6682, American Association for the Advancement of Science, 2024, pp. 512–19, doi:<a href=\"https://doi.org/10.1126/science.adk0378\">10.1126/science.adk0378</a>.","ama":"Steens JA, Bravo JPK, Salazar CRP, et al. Type III-B CRISPR-Cas cascade of proteolytic cleavages. <i>Science</i>. 2024;383(6682):512-519. doi:<a href=\"https://doi.org/10.1126/science.adk0378\">10.1126/science.adk0378</a>","ista":"Steens JA, Bravo JPK, Salazar CRP, Yildiz C, Amieiro AM, Köstlbacher S, Prinsen SHP, Patinios C, Bardis A, Barendregt A, Scheltema RA, Ettema TJG, van der Oost J, Taylor DW, Staals RHJ. 2024. Type III-B CRISPR-Cas cascade of proteolytic cleavages. Science. 383(6682), 512–519."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2023.06.23.546230"}],"date_updated":"2025-09-24T08:31:45Z","_id":"17112","quality_controlled":"1","date_created":"2024-06-04T06:41:26Z","intvolume":"       383","OA_type":"green","page":"512-519","pmid":1,"date_published":"2024-02-01T00:00:00Z","publication_status":"published","author":[{"full_name":"Steens, Jurre A.","last_name":"Steens","first_name":"Jurre A."},{"first_name":"Jack Peter Kelly","last_name":"Bravo","orcid":"0000-0003-0456-0753","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","full_name":"Bravo, Jack Peter Kelly"},{"last_name":"Salazar","first_name":"Carl Raymund P.","full_name":"Salazar, Carl Raymund P."},{"full_name":"Yildiz, Caglar","last_name":"Yildiz","first_name":"Caglar"},{"last_name":"Amieiro","first_name":"Afonso M.","full_name":"Amieiro, Afonso M."},{"first_name":"Stephan","last_name":"Köstlbacher","full_name":"Köstlbacher, Stephan"},{"full_name":"Prinsen, Stijn H.P.","last_name":"Prinsen","first_name":"Stijn H.P."},{"full_name":"Patinios, Constantinos","first_name":"Constantinos","last_name":"Patinios"},{"first_name":"Andreas","last_name":"Bardis","full_name":"Bardis, Andreas"},{"first_name":"Arjan","last_name":"Barendregt","full_name":"Barendregt, Arjan"},{"last_name":"Scheltema","first_name":"Richard A.","full_name":"Scheltema, Richard A."},{"first_name":"Thijs J.G.","last_name":"Ettema","full_name":"Ettema, Thijs J.G."},{"first_name":"John","last_name":"van der Oost","full_name":"van der Oost, John"},{"full_name":"Taylor, David W.","last_name":"Taylor","first_name":"David W."},{"first_name":"Raymond H.J.","last_name":"Staals","full_name":"Staals, Raymond H.J."}],"doi":"10.1126/science.adk0378","title":"Type III-B CRISPR-Cas cascade of proteolytic cleavages"},{"oa_version":"Published Version","language":[{"iso":"eng"}],"extern":"1","citation":{"ama":"Hibshman GN, Bravo JPK, Hooper MM, et al. Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-024-47830-3\">10.1038/s41467-024-47830-3</a>","ista":"Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW. 2024. Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9. Nature Communications. 15, 3663.","mla":"Hibshman, Grace N., et al. “Unraveling the Mechanisms of PAMless DNA Interrogation by SpRY-Cas9.” <i>Nature Communications</i>, vol. 15, 3663, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-024-47830-3\">10.1038/s41467-024-47830-3</a>.","ieee":"G. N. Hibshman <i>et al.</i>, “Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.","apa":"Hibshman, G. N., Bravo, J. P. K., Hooper, M. M., Dangerfield, T. L., Zhang, H., Finkelstein, I. J., … Taylor, D. W. (2024). Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-024-47830-3\">https://doi.org/10.1038/s41467-024-47830-3</a>","chicago":"Hibshman, Grace N., Jack Peter Kelly Bravo, Matthew M. Hooper, Tyler L. Dangerfield, Hongshan Zhang, Ilya J. Finkelstein, Kenneth A. Johnson, and David W. Taylor. “Unraveling the Mechanisms of PAMless DNA Interrogation by SpRY-Cas9.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-024-47830-3\">https://doi.org/10.1038/s41467-024-47830-3</a>.","short":"G.N. Hibshman, J.P.K. Bravo, M.M. Hooper, T.L. Dangerfield, H. Zhang, I.J. Finkelstein, K.A. Johnson, D.W. Taylor, Nature Communications 15 (2024)."},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41467-024-47830-3"}],"status":"public","date_created":"2024-06-04T06:42:07Z","intvolume":"        15","date_updated":"2024-10-14T12:34:26Z","_id":"17113","article_number":"3663","quality_controlled":"1","author":[{"full_name":"Hibshman, Grace N.","first_name":"Grace N.","last_name":"Hibshman"},{"full_name":"Bravo, Jack Peter Kelly","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","orcid":"0000-0003-0456-0753","last_name":"Bravo","first_name":"Jack Peter Kelly"},{"first_name":"Matthew M.","last_name":"Hooper","full_name":"Hooper, Matthew M."},{"last_name":"Dangerfield","first_name":"Tyler L.","full_name":"Dangerfield, Tyler L."},{"full_name":"Zhang, Hongshan","last_name":"Zhang","first_name":"Hongshan"},{"full_name":"Finkelstein, Ilya J.","last_name":"Finkelstein","first_name":"Ilya J."},{"full_name":"Johnson, Kenneth A.","first_name":"Kenneth A.","last_name":"Johnson"},{"first_name":"David W.","last_name":"Taylor","full_name":"Taylor, David W."}],"pmid":1,"publication_status":"published","date_published":"2024-04-30T00:00:00Z","doi":"10.1038/s41467-024-47830-3","title":"Unraveling the mechanisms of PAMless DNA interrogation by SpRY-Cas9","month":"04","article_processing_charge":"Yes","oa":1,"external_id":{"pmid":["38688943"]},"publication":"Nature Communications","publisher":"Springer Nature","abstract":[{"lang":"eng","text":"CRISPR-Cas9 is a powerful tool for genome editing, but the strict requirement for an NGG protospacer-adjacent motif (PAM) sequence immediately next to the DNA target limits the number of editable genes. Recently developed Cas9 variants have been engineered with relaxed PAM requirements, including SpG-Cas9 (SpG) and the nearly PAM-less SpRY-Cas9 (SpRY). However, the molecular mechanisms of how SpRY recognizes all potential PAM sequences remains unclear. Here, we combine structural and biochemical approaches to determine how SpRY interrogates DNA and recognizes target sites. Divergent PAM sequences can be accommodated through conformational flexibility within the PAM-interacting region, which facilitates tight binding to off-target DNA sequences. Nuclease activation occurs ~1000-fold slower than for <jats:italic>Streptococcus pyogenes</jats:italic> Cas9, enabling us to directly visualize multiple on-pathway intermediate states. Experiments with SpG position it as an intermediate enzyme between Cas9 and SpRY. Our findings shed light on the molecular mechanisms of PAMless genome editing."}],"scopus_import":"1","publication_identifier":{"issn":["2041-1723"]},"volume":15,"day":"30","year":"2024","fulldoi":"https://doi.org/10.1038/s41467-024-47830-3","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","type":"journal_article"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2024","fulldoi":"https://doi.org/10.1038/s41467-024-47506-y","type":"journal_article","article_type":"original","external_id":{"pmid":["38637512"]},"publication":"Nature Communications","article_processing_charge":"Yes","oa":1,"month":"04","volume":15,"day":"18","scopus_import":"1","abstract":[{"text":"CRISPR-Cas are adaptive immune systems in bacteria and archaea that utilize CRISPR RNA-guided surveillance complexes to target complementary RNA or DNA for destruction<jats:sup>1–5</jats:sup>. Target RNA cleavage at regular intervals is characteristic of type III effector complexes<jats:sup>6–8</jats:sup>. Here, we determine the structures of the <jats:italic>Synechocystis</jats:italic> type III-Dv complex, an apparent evolutionary intermediate from multi-protein to single-protein type III effectors<jats:sup>9,10</jats:sup>, in pre- and post-cleavage states. The structures show how multi-subunit fusion proteins in the effector are tethered together in an unusual arrangement to assemble into an active and programmable RNA endonuclease and how the effector utilizes a distinct mechanism for target RNA seeding from other type III effectors. Using structural, biochemical, and quantum/classical molecular dynamics simulation, we study the structure and dynamics of the three catalytic sites, where a 2′-OH of the ribose on the target RNA acts as a nucleophile for in line self-cleavage of the upstream scissile phosphate. Strikingly, the arrangement at the catalytic residues of most type III complexes resembles the active site of ribozymes, including the hammerhead, pistol, and Varkud satellite ribozymes. Our work provides detailed molecular insight into the mechanisms of RNA targeting and cleavage by an important intermediate in the evolution of type III effector complexes.","lang":"eng"}],"publication_identifier":{"issn":["2041-1723"]},"publisher":"Springer Nature","doi":"10.1038/s41467-024-47506-y","title":"RNA targeting and cleavage by the type III-Dv CRISPR effector complex","publication_status":"published","pmid":1,"author":[{"full_name":"Schwartz, Evan A.","first_name":"Evan A.","last_name":"Schwartz"},{"full_name":"Bravo, Jack Peter Kelly","first_name":"Jack Peter Kelly","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","orcid":"0000-0003-0456-0753","last_name":"Bravo"},{"first_name":"Mohd","last_name":"Ahsan","full_name":"Ahsan, Mohd"},{"full_name":"Macias, Luis A.","first_name":"Luis A.","last_name":"Macias"},{"last_name":"McCafferty","first_name":"Caitlyn L.","full_name":"McCafferty, Caitlyn L."},{"first_name":"Tyler L.","last_name":"Dangerfield","full_name":"Dangerfield, Tyler L."},{"first_name":"Jada N.","last_name":"Walker","full_name":"Walker, Jada N."},{"full_name":"Brodbelt, Jennifer S.","last_name":"Brodbelt","first_name":"Jennifer S."},{"full_name":"Palermo, Giulia","first_name":"Giulia","last_name":"Palermo"},{"full_name":"Fineran, Peter C.","last_name":"Fineran","first_name":"Peter C."},{"full_name":"Fagerlund, Robert D.","first_name":"Robert D.","last_name":"Fagerlund"},{"full_name":"Taylor, David W.","last_name":"Taylor","first_name":"David W."}],"date_published":"2024-04-18T00:00:00Z","status":"public","citation":{"mla":"Schwartz, Evan A., et al. “RNA Targeting and Cleavage by the Type III-Dv CRISPR Effector Complex.” <i>Nature Communications</i>, vol. 15, 3324, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-024-47506-y\">10.1038/s41467-024-47506-y</a>.","ama":"Schwartz EA, Bravo JPK, Ahsan M, et al. RNA targeting and cleavage by the type III-Dv CRISPR effector complex. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-024-47506-y\">10.1038/s41467-024-47506-y</a>","ista":"Schwartz EA, Bravo JPK, Ahsan M, Macias LA, McCafferty CL, Dangerfield TL, Walker JN, Brodbelt JS, Palermo G, Fineran PC, Fagerlund RD, Taylor DW. 2024. RNA targeting and cleavage by the type III-Dv CRISPR effector complex. Nature Communications. 15, 3324.","ieee":"E. A. Schwartz <i>et al.</i>, “RNA targeting and cleavage by the type III-Dv CRISPR effector complex,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.","apa":"Schwartz, E. A., Bravo, J. P. K., Ahsan, M., Macias, L. A., McCafferty, C. L., Dangerfield, T. L., … Taylor, D. W. (2024). RNA targeting and cleavage by the type III-Dv CRISPR effector complex. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-024-47506-y\">https://doi.org/10.1038/s41467-024-47506-y</a>","chicago":"Schwartz, Evan A., Jack Peter Kelly Bravo, Mohd Ahsan, Luis A. Macias, Caitlyn L. McCafferty, Tyler L. Dangerfield, Jada N. Walker, et al. “RNA Targeting and Cleavage by the Type III-Dv CRISPR Effector Complex.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-024-47506-y\">https://doi.org/10.1038/s41467-024-47506-y</a>.","short":"E.A. Schwartz, J.P.K. Bravo, M. Ahsan, L.A. Macias, C.L. McCafferty, T.L. Dangerfield, J.N. Walker, J.S. Brodbelt, G. Palermo, P.C. Fineran, R.D. Fagerlund, D.W. Taylor, Nature Communications 15 (2024)."},"main_file_link":[{"url":"https://doi.org/10.1038/s41467-024-47506-y","open_access":"1"}],"language":[{"iso":"eng"}],"extern":"1","oa_version":"Published Version","date_updated":"2024-06-04T07:05:26Z","_id":"17114","quality_controlled":"1","article_number":"3324","date_created":"2024-06-04T06:43:02Z","intvolume":"        15"},{"date_created":"2024-06-09T22:01:01Z","intvolume":"        24","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"date_updated":"2025-04-23T07:51:51Z","_id":"17122","quality_controlled":"1","article_number":"401","oa_version":"Published Version","language":[{"iso":"eng"}],"citation":{"short":"H. Ramming, L. Theuerkauf, O. Hoos, K. Lichter, S. Kittel-Schneider, BMC Psychiatry 24 (2024).","chicago":"Ramming, Hannah, Linda Theuerkauf, Olaf Hoos, Katharina Lichter, and Sarah Kittel-Schneider. “The Association between Maximal Muscle Strength, Disease Severity and Psychopharmacotherapy among Young to Middle-Aged Inpatients with Affective Disorders – a Prospective Pilot Study.” <i>BMC Psychiatry</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1186/s12888-024-05849-2\">https://doi.org/10.1186/s12888-024-05849-2</a>.","apa":"Ramming, H., Theuerkauf, L., Hoos, O., Lichter, K., &#38; Kittel-Schneider, S. (2024). The association between maximal muscle strength, disease severity and psychopharmacotherapy among young to middle-aged inpatients with affective disorders – a prospective pilot study. <i>BMC Psychiatry</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s12888-024-05849-2\">https://doi.org/10.1186/s12888-024-05849-2</a>","ieee":"H. Ramming, L. Theuerkauf, O. Hoos, K. Lichter, and S. Kittel-Schneider, “The association between maximal muscle strength, disease severity and psychopharmacotherapy among young to middle-aged inpatients with affective disorders – a prospective pilot study,” <i>BMC Psychiatry</i>, vol. 24. Springer Nature, 2024.","mla":"Ramming, Hannah, et al. “The Association between Maximal Muscle Strength, Disease Severity and Psychopharmacotherapy among Young to Middle-Aged Inpatients with Affective Disorders – a Prospective Pilot Study.” <i>BMC Psychiatry</i>, vol. 24, 401, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1186/s12888-024-05849-2\">10.1186/s12888-024-05849-2</a>.","ista":"Ramming H, Theuerkauf L, Hoos O, Lichter K, Kittel-Schneider S. 2024. The association between maximal muscle strength, disease severity and psychopharmacotherapy among young to middle-aged inpatients with affective disorders – a prospective pilot study. BMC Psychiatry. 24, 401.","ama":"Ramming H, Theuerkauf L, Hoos O, Lichter K, Kittel-Schneider S. The association between maximal muscle strength, disease severity and psychopharmacotherapy among young to middle-aged inpatients with affective disorders – a prospective pilot study. <i>BMC Psychiatry</i>. 2024;24. doi:<a href=\"https://doi.org/10.1186/s12888-024-05849-2\">10.1186/s12888-024-05849-2</a>"},"department":[{"_id":"PeJo"}],"status":"public","publication_status":"published","author":[{"full_name":"Ramming, Hannah","first_name":"Hannah","last_name":"Ramming"},{"full_name":"Theuerkauf, Linda","last_name":"Theuerkauf","first_name":"Linda"},{"full_name":"Hoos, Olaf","last_name":"Hoos","first_name":"Olaf"},{"id":"39302e62-fcfc-11ec-8196-8b01447dbd3d","orcid":"0000-0002-1485-0351","last_name":"Lichter","first_name":"Katharina","full_name":"Lichter, Katharina"},{"last_name":"Kittel-Schneider","first_name":"Sarah","full_name":"Kittel-Schneider, Sarah"}],"pmid":1,"date_published":"2024-05-29T00:00:00Z","file":[{"file_size":2320147,"content_type":"application/pdf","date_created":"2024-06-10T10:44:26Z","success":1,"creator":"dernst","checksum":"5df60d3c9388955c5b682ea34748d59d","date_updated":"2024-06-10T10:44:26Z","relation":"main_file","file_name":"2024_BMCPsychiatry_Ramming.pdf","file_id":"17131","access_level":"open_access"}],"doi":"10.1186/s12888-024-05849-2","file_date_updated":"2024-06-10T10:44:26Z","title":"The association between maximal muscle strength, disease severity and psychopharmacotherapy among young to middle-aged inpatients with affective disorders – a prospective pilot study","has_accepted_license":"1","ddc":["570"],"acknowledgement":"This work was supported by the project ‘Fellows Ride’ of the Thomas Lurz und Dieter Schneider Stiftung and by the ‘Würzburger Bündnis gegen Depression’ (to S.K.-S).\r\nOpen Access funding enabled and organized by Projekt DEAL.","publisher":"Springer Nature","abstract":[{"text":"Background: Motor alterations and lowered physical activity are common in affective disorders. Previous research has indicated a link between depressive symptoms and declining muscle strength primarily focusing on the elderly but not younger individuals. Thus, we aimed to evaluate the relationship between mood and muscle strength in a sample of N = 73 young to middle-aged hospitalized patients (18–49 years, mean age 30.7 years) diagnosed with major depressive, bipolar and schizoaffective disorder, with a focus on moderating effects of psychopharmacotherapy. The study was carried out as a prospective observational study at a German psychiatric university hospital between September 2021 and March 2022.\r\nMethods: Employing a standardized strength circuit consisting of computerized strength training devices, we measured the maximal muscle strength (Fmax) using three repetitions maximum across four muscle regions (abdomen, arm, back, leg) at three time points (t1-t3) over four weeks accompanied by psychometric testing (MADRS, BPRS, YRMS) and blood lipid profiling in a clinical setting. For analysis of psychopharmacotherapy, medication was split into activating (AM) and inhibiting (IM) medication and dosages were normalized by the respective WHO defined daily dose.\r\nResults: While we observed a significant decrease of the MADRS score and increase of the relative total Fmax (rTFmax) in the first two weeks (t1-t2) but not later (both p < .001), we did not reveal a significant bivariate correlation between disease severity (MADRS) and muscle strength (rTFmax) at any of the timepoints. Individuals with longer disease history displayed reduced rTFmax (p = .048). IM was significantly associated with decreased rTFmax (p = .032). Regression models provide a more substantial effect of gender, age, and IM on muscle strength than the depressive episode itself (p < .001).\r\nConclusions: The results of the study indicate that disease severity and muscle strength are not associated in young to middle-aged inpatients with affective disorders using a strength circuit as observational measurement. Future research will be needed to differentiate the effect of medication, gender, and age on muscle strength and to develop interventions for prevention of muscle weakness, especially in younger patients with chronic affective illnesses.","lang":"eng"}],"scopus_import":"1","publication_identifier":{"eissn":["1471-244X"]},"volume":24,"day":"29","month":"05","article_processing_charge":"Yes (via OA deal)","oa":1,"publication":"BMC Psychiatry","external_id":{"pmid":["38811916"]},"article_type":"original","type":"journal_article","year":"2024","fulldoi":"https://doi.org/10.1186/s12888-024-05849-2","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"page":"46","author":[{"full_name":"Schlögl, Alois","orcid":"0000-0002-5621-8100","last_name":"Schlögl","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","first_name":"Alois"},{"last_name":"Khalid","id":"097c0562-3cf0-11ee-8fd3-e7a79c1e2fd1","first_name":"Waleed","full_name":"Khalid, Waleed"},{"last_name":"Elefante","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","first_name":"Stefano","full_name":"Elefante, Stefano"},{"full_name":"Stadlbauer, Stephan","id":"4D0BC184-F248-11E8-B48F-1D18A9856A87","last_name":"Stadlbauer","first_name":"Stephan"}],"publication_status":"published","file":[{"relation":"main_file","date_updated":"2024-06-17T09:36:51Z","checksum":"f7d3dded6df2dcdb4818904cf2e1c183","creator":"dernst","success":1,"date_created":"2024-06-17T09:36:51Z","file_size":206746,"content_type":"application/pdf","access_level":"open_access","file_id":"17153","file_name":"2024_ASHPC_Schloegl.pdf"}],"date_published":"2024-06-13T00:00:00Z","doi":"10.25365/phaidra.463","file_date_updated":"2024-06-17T09:36:51Z","title":"How much memory per CPU core is requested?","language":[{"iso":"eng"}],"oa_version":"Published Version","status":"public","citation":{"ieee":"A. Schlögl, W. Khalid, S. Elefante, and S. Stadlbauer, “How much memory per CPU core is requested?,” in <i>ASHPC24 - Austrian-Slovenian HPC Meeting 2024</i>, Grundlsee, Austria, 2024, p. 46.","mla":"Schlögl, Alois, et al. “How Much Memory per CPU Core Is Requested?” <i>ASHPC24 - Austrian-Slovenian HPC Meeting 2024</i>, EuroCC Austria, 2024, p. 46, doi:<a href=\"https://doi.org/10.25365/phaidra.463\">10.25365/phaidra.463</a>.","ama":"Schlögl A, Khalid W, Elefante S, Stadlbauer S. How much memory per CPU core is requested? In: <i>ASHPC24 - Austrian-Slovenian HPC Meeting 2024</i>. EuroCC Austria; 2024:46. doi:<a href=\"https://doi.org/10.25365/phaidra.463\">10.25365/phaidra.463</a>","ista":"Schlögl A, Khalid W, Elefante S, Stadlbauer S. 2024. How much memory per CPU core is requested? ASHPC24 - Austrian-Slovenian HPC Meeting 2024. ASHPC: Austrian-Slovenian HPC Meeting, 46.","short":"A. Schlögl, W. Khalid, S. Elefante, S. Stadlbauer, in:, ASHPC24 - Austrian-Slovenian HPC Meeting 2024, EuroCC Austria, 2024, p. 46.","apa":"Schlögl, A., Khalid, W., Elefante, S., &#38; Stadlbauer, S. (2024). How much memory per CPU core is requested? In <i>ASHPC24 - Austrian-Slovenian HPC Meeting 2024</i> (p. 46). Grundlsee, Austria: EuroCC Austria. <a href=\"https://doi.org/10.25365/phaidra.463\">https://doi.org/10.25365/phaidra.463</a>","chicago":"Schlögl, Alois, Waleed Khalid, Stefano Elefante, and Stephan Stadlbauer. “How Much Memory per CPU Core Is Requested?” In <i>ASHPC24 - Austrian-Slovenian HPC Meeting 2024</i>, 46. EuroCC Austria, 2024. <a href=\"https://doi.org/10.25365/phaidra.463\">https://doi.org/10.25365/phaidra.463</a>."},"department":[{"_id":"ScienComp"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"_id":"17139","date_updated":"2024-06-17T09:40:37Z","quality_controlled":"1","date_created":"2024-06-14T09:06:36Z","year":"2024","fulldoi":"https://doi.org/10.25365/phaidra.463","conference":{"start_date":"2024-06-10","end_date":"2024-06-13","location":"Grundlsee, Austria","name":"ASHPC: Austrian-Slovenian HPC Meeting"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference_abstract","month":"06","publication":"ASHPC24 - Austrian-Slovenian HPC Meeting 2024","article_processing_charge":"No","oa":1,"publisher":"EuroCC Austria","has_accepted_license":"1","ddc":["000"],"day":"13","publication_identifier":{"isbn":["9783200096455"]}},{"publisher":"Wiley","acknowledgement":"This work has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (Grant Agreement No. 101002258). The authors acknowledge the provision of facilities and technical support by Aalto University Bioeconomy Facilities and OtaNanoNanomicroscopy Center (Aalto-NMC). This work was carried out under the Academy of Finland's Centers of Excellence Programme, Life Inspired Hybrid Materials (LIBER) Center of Excellence (2022–2029), project number 346110 and 346112.","ddc":["540"],"has_accepted_license":"1","day":"04","volume":11,"publication_identifier":{"eissn":["2198-3844"]},"scopus_import":"1","abstract":[{"text":"Inorganic nanoparticles can be assembled into superlattices with unique optical and magnetic properties arising from collective behavior. Protein cages can be utilized to guide this assembly by encapsulating nanoparticles and promoting their assembly into ordered structures. However, creating ordered multi-component structures with different protein cage types and sizes remains a challenge. Here, the co-crystallization of two different protein cages (cowpea chlorotic mottle virus and ferritin) characterized by opposing surface charges and unequal diameter is shown. Precise tuning of the electrostatic attraction between the cages enabled the preparation of binary crystals with dimensions up to several tens of micrometers. Additionally, binary metal nanoparticle superlattices are achieved by loading gold and iron oxide nanoparticles inside the cavities of the protein cages. The resulting structure adopts an AB2FCC configuration that also impacts the dipolar coupling between the particles and hence the optical properties of the crystals, providing key insight for the future preparation of plasmonic and magnetic nanoparticle metamaterials.","lang":"eng"}],"month":"12","publication":"Advanced Science","OA_place":"publisher","external_id":{"isi":["001330745600001"],"pmid":["39401426"]},"DOAJ_listed":"1","oa":1,"article_processing_charge":"Yes","article_type":"original","type":"journal_article","fulldoi":"https://doi.org/10.1002/advs.202408416","year":"2024","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","issue":"45","article_number":"2408416","quality_controlled":"1","_id":"18451","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"date_updated":"2025-09-08T14:20:31Z","intvolume":"        11","date_created":"2024-10-20T22:02:07Z","language":[{"iso":"eng"}],"oa_version":"Published Version","status":"public","department":[{"_id":"RaKl"}],"citation":{"apa":"Zhou, Y., Shaukat, A., Seitsonen, J., Rigoni, C., Timonen, J. V. I., &#38; Kostiainen, M. A. (2024). Protein cage directed assembly of binary nanoparticle superlattices. <i>Advanced Science</i>. Wiley. <a href=\"https://doi.org/10.1002/advs.202408416\">https://doi.org/10.1002/advs.202408416</a>","chicago":"Zhou, Yu, Ahmed Shaukat, Jani Seitsonen, Carlo Rigoni, Jaakko V.I. Timonen, and Mauri A. Kostiainen. “Protein Cage Directed Assembly of Binary Nanoparticle Superlattices.” <i>Advanced Science</i>. Wiley, 2024. <a href=\"https://doi.org/10.1002/advs.202408416\">https://doi.org/10.1002/advs.202408416</a>.","short":"Y. Zhou, A. Shaukat, J. Seitsonen, C. Rigoni, J.V.I. Timonen, M.A. Kostiainen, Advanced Science 11 (2024).","ama":"Zhou Y, Shaukat A, Seitsonen J, Rigoni C, Timonen JVI, Kostiainen MA. Protein cage directed assembly of binary nanoparticle superlattices. <i>Advanced Science</i>. 2024;11(45). doi:<a href=\"https://doi.org/10.1002/advs.202408416\">10.1002/advs.202408416</a>","ista":"Zhou Y, Shaukat A, Seitsonen J, Rigoni C, Timonen JVI, Kostiainen MA. 2024. Protein cage directed assembly of binary nanoparticle superlattices. Advanced Science. 11(45), 2408416.","mla":"Zhou, Yu, et al. “Protein Cage Directed Assembly of Binary Nanoparticle Superlattices.” <i>Advanced Science</i>, vol. 11, no. 45, 2408416, Wiley, 2024, doi:<a href=\"https://doi.org/10.1002/advs.202408416\">10.1002/advs.202408416</a>.","ieee":"Y. Zhou, A. Shaukat, J. Seitsonen, C. Rigoni, J. V. I. Timonen, and M. A. Kostiainen, “Protein cage directed assembly of binary nanoparticle superlattices,” <i>Advanced Science</i>, vol. 11, no. 45. Wiley, 2024."},"pmid":1,"author":[{"last_name":"Zhou","first_name":"Yu","full_name":"Zhou, Yu"},{"first_name":"Ahmed","last_name":"Shaukat","full_name":"Shaukat, Ahmed"},{"full_name":"Seitsonen, Jani","last_name":"Seitsonen","first_name":"Jani"},{"full_name":"Rigoni, Carlo","first_name":"Carlo","id":"c5df3b62-5f9e-11ef-ba3c-b97f5b5b5ef0","last_name":"Rigoni"},{"first_name":"Jaakko V.I.","last_name":"Timonen","full_name":"Timonen, Jaakko V.I."},{"first_name":"Mauri A.","last_name":"Kostiainen","full_name":"Kostiainen, Mauri A."}],"publication_status":"published","date_published":"2024-12-04T00:00:00Z","file":[{"file_id":"18834","access_level":"open_access","file_name":"2024_AdvancedScience_Zhou.pdf","date_created":"2025-01-13T09:16:25Z","success":1,"creator":"dernst","checksum":"00451eeb2c9eecf1ff41ad243c793a51","date_updated":"2025-01-13T09:16:25Z","relation":"main_file","content_type":"application/pdf","file_size":7040083}],"isi":1,"file_date_updated":"2025-01-13T09:16:25Z","title":"Protein cage directed assembly of binary nanoparticle superlattices","doi":"10.1002/advs.202408416","OA_type":"gold"},{"OA_type":"gold","doi":"10.1038/s41467-024-53418-8","title":"Engineered PsCas9 enables therapeutic genome editing in mouse liver with lipid nanoparticles","file_date_updated":"2024-11-12T10:18:32Z","publication_status":"published","date_published":"2024-11-07T00:00:00Z","author":[{"full_name":"Degtev, Dmitrii","last_name":"Degtev","first_name":"Dmitrii"},{"full_name":"Bravo, Jack Peter Kelly","id":"96aecfa5-8931-11ee-af30-aa6a5d6eee0e","orcid":"0000-0003-0456-0753","last_name":"Bravo","first_name":"Jack Peter Kelly"},{"full_name":"Emmanouilidi, Aikaterini","first_name":"Aikaterini","last_name":"Emmanouilidi"},{"full_name":"Zdravković, Aleksandar","last_name":"Zdravković","first_name":"Aleksandar"},{"first_name":"Oi Kuan","last_name":"Choong","full_name":"Choong, Oi Kuan"},{"full_name":"Liz Touza, Julia","last_name":"Liz Touza","first_name":"Julia"},{"full_name":"Selfjord, Niklas","first_name":"Niklas","last_name":"Selfjord"},{"last_name":"Weisheit","first_name":"Isabel","full_name":"Weisheit, Isabel"},{"full_name":"Francescatto, Margherita","last_name":"Francescatto","first_name":"Margherita"},{"first_name":"Pinar","last_name":"Akcakaya","full_name":"Akcakaya, Pinar"},{"full_name":"Porritt, Michelle","last_name":"Porritt","first_name":"Michelle"},{"full_name":"Maresca, Marcello","last_name":"Maresca","first_name":"Marcello"},{"full_name":"Taylor, David","last_name":"Taylor","first_name":"David"},{"first_name":"Grzegorz","last_name":"Sienski","full_name":"Sienski, Grzegorz"}],"file":[{"creator":"jbravo","date_created":"2024-11-12T10:18:32Z","success":1,"relation":"main_file","checksum":"dcfadc806f4144d065eb8e2032554782","date_updated":"2024-11-12T10:18:32Z","file_size":2967001,"content_type":"application/pdf","file_id":"18546","access_level":"open_access","file_name":"s41467-024-53418-8.pdf"}],"status":"public","citation":{"short":"D. Degtev, J.P.K. Bravo, A. Emmanouilidi, A. Zdravković, O.K. Choong, J. Liz Touza, N. Selfjord, I. Weisheit, M. Francescatto, P. Akcakaya, M. Porritt, M. Maresca, D. Taylor, G. Sienski, Nature Communications 15 (2024).","apa":"Degtev, D., Bravo, J. P. K., Emmanouilidi, A., Zdravković, A., Choong, O. K., Liz Touza, J., … Sienski, G. (2024). Engineered PsCas9 enables therapeutic genome editing in mouse liver with lipid nanoparticles. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-024-53418-8\">https://doi.org/10.1038/s41467-024-53418-8</a>","chicago":"Degtev, Dmitrii, Jack Peter Kelly Bravo, Aikaterini Emmanouilidi, Aleksandar Zdravković, Oi Kuan Choong, Julia Liz Touza, Niklas Selfjord, et al. “Engineered PsCas9 Enables Therapeutic Genome Editing in Mouse Liver with Lipid Nanoparticles.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-024-53418-8\">https://doi.org/10.1038/s41467-024-53418-8</a>.","ieee":"D. Degtev <i>et al.</i>, “Engineered PsCas9 enables therapeutic genome editing in mouse liver with lipid nanoparticles,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024.","mla":"Degtev, Dmitrii, et al. “Engineered PsCas9 Enables Therapeutic Genome Editing in Mouse Liver with Lipid Nanoparticles.” <i>Nature Communications</i>, vol. 15, 9173, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-024-53418-8\">10.1038/s41467-024-53418-8</a>.","ista":"Degtev D, Bravo JPK, Emmanouilidi A, Zdravković A, Choong OK, Liz Touza J, Selfjord N, Weisheit I, Francescatto M, Akcakaya P, Porritt M, Maresca M, Taylor D, Sienski G. 2024. Engineered PsCas9 enables therapeutic genome editing in mouse liver with lipid nanoparticles. Nature Communications. 15, 9173.","ama":"Degtev D, Bravo JPK, Emmanouilidi A, et al. Engineered PsCas9 enables therapeutic genome editing in mouse liver with lipid nanoparticles. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-024-53418-8\">10.1038/s41467-024-53418-8</a>"},"language":[{"iso":"eng"}],"extern":"1","oa_version":"Published Version","_id":"18545","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"date_updated":"2024-11-13T08:19:50Z","quality_controlled":"1","article_number":"9173","date_created":"2024-11-12T10:18:04Z","intvolume":"        15","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2024","fulldoi":"https://doi.org/10.1038/s41467-024-53418-8","type":"journal_article","article_type":"original","OA_place":"publisher","publication":"Nature Communications","article_processing_charge":"Yes","oa":1,"DOAJ_listed":"1","month":"11","volume":15,"day":"07","abstract":[{"lang":"eng","text":"Clinical implementation of therapeutic genome editing relies on efficient in vivo delivery and the safety of CRISPR-Cas tools. Previously, we identified PsCas9 as a Type II-B family enzyme capable of editing mouse liver genome upon adenoviral delivery without detectable off-targets and reduced chromosomal translocations. Yet, its efficacy remains insufficient with non-viral delivery, a common challenge for many Cas9 orthologues. Here, we sought to redesign PsCas9 for in vivo editing using lipid nanoparticles. We solve the PsCas9 ribonucleoprotein structure with cryo-EM and characterize it biochemically, providing a basis for its rational engineering. Screening over numerous guide RNA and protein variants lead us to develop engineered PsCas9 (ePsCas9) with up to 20-fold increased activity across various targets and preserved safety advantages. We apply the same design principles to boost the activity of FnCas9, an enzyme phylogenetically relevant to PsCas9. Remarkably, a single administration of mRNA encoding ePsCas9 and its guide formulated with lipid nanoparticles results in high levels of editing in the Pcsk9 gene in mouse liver, a clinically relevant target for hypercholesterolemia treatment. Collectively, our findings introduce ePsCas9 as a highly efficient, and precise tool for therapeutic genome editing, in addition to the engineering strategy applicable to other Cas9 orthologues."}],"scopus_import":"1","publication_identifier":{"issn":["2041-1723"]},"publisher":"Springer Nature","ddc":["572"],"has_accepted_license":"1"},{"status":"public","department":[{"_id":"MaJö"}],"citation":{"ieee":"T. A. Vega Zuniga, A. L. Sumser, O. Symonova, P. Koppensteiner, F. Schmidt, and M. A. Jösch, “A thalamic hub-and-spoke network enables visual perception during action by coordinating visuomotor dynamics.” Institute of Science and Technology Austria, 2024.","mla":"Vega Zuniga, Tomas A., et al. <i>A Thalamic Hub-and-Spoke Network Enables Visual Perception during Action by Coordinating Visuomotor Dynamics</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:18579\">10.15479/AT:ISTA:18579</a>.","ama":"Vega Zuniga TA, Sumser AL, Symonova O, Koppensteiner P, Schmidt F, Jösch MA. A thalamic hub-and-spoke network enables visual perception during action by coordinating visuomotor dynamics. 2024. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:18579\">10.15479/AT:ISTA:18579</a>","ista":"Vega Zuniga TA, Sumser AL, Symonova O, Koppensteiner P, Schmidt F, Jösch MA. 2024. A thalamic hub-and-spoke network enables visual perception during action by coordinating visuomotor dynamics, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:18579\">10.15479/AT:ISTA:18579</a>.","short":"T.A. Vega Zuniga, A.L. Sumser, O. Symonova, P. Koppensteiner, F. Schmidt, M.A. Jösch, (2024).","apa":"Vega Zuniga, T. A., Sumser, A. L., Symonova, O., Koppensteiner, P., Schmidt, F., &#38; Jösch, M. A. (2024). A thalamic hub-and-spoke network enables visual perception during action by coordinating visuomotor dynamics. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:18579\">https://doi.org/10.15479/AT:ISTA:18579</a>","chicago":"Vega Zuniga, Tomas A, Anton L Sumser, Olga Symonova, Peter Koppensteiner, Florian Schmidt, and Maximilian A Jösch. “A Thalamic Hub-and-Spoke Network Enables Visual Perception during Action by Coordinating Visuomotor Dynamics.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/AT:ISTA:18579\">https://doi.org/10.15479/AT:ISTA:18579</a>."},"ec_funded":1,"oa_version":"Published Version","date_updated":"2026-06-18T18:12:08Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"_id":"18579","date_created":"2024-11-22T13:48:12Z","file_date_updated":"2024-12-09T12:54:55Z","title":"A thalamic hub-and-spoke network enables visual perception during action by coordinating visuomotor dynamics","doi":"10.15479/AT:ISTA:18579","date_published":"2024-12-09T00:00:00Z","file":[{"relation":"main_file","date_updated":"2024-12-09T10:24:25Z","checksum":"8b13990ca1a458ae3f3ae54c2e888564","creator":"symonova","date_created":"2024-12-06T13:28:18Z","content_type":"application/x-zip-compressed","file_size":800647957,"access_level":"open_access","file_id":"18625","file_name":"electro_physiology_data.zip"},{"success":1,"date_created":"2024-12-09T10:21:10Z","creator":"symonova","checksum":"c5a4d71c5f29c009c3d96a3244532afa","date_updated":"2024-12-09T10:21:10Z","relation":"main_file","content_type":"application/x-zip-compressed","file_size":828410832,"file_id":"18636","access_level":"open_access","file_name":"NN_vLGN_Ca_data.zip"},{"file_name":"readme.txt","access_level":"open_access","file_id":"18637","file_size":505,"content_type":"text/plain","relation":"main_file","date_updated":"2024-12-09T12:54:55Z","checksum":"63651df0186196969553dc48b467f6ab","creator":"symonova","date_created":"2024-12-09T12:54:55Z","success":1}],"author":[{"first_name":"Tomas A","last_name":"Vega Zuniga","id":"2E7C4E78-F248-11E8-B48F-1D18A9856A87","full_name":"Vega Zuniga, Tomas A"},{"first_name":"Anton L","id":"3320A096-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4792-1881","last_name":"Sumser","full_name":"Sumser, Anton L"},{"first_name":"Olga","orcid":"0000-0003-2012-9947","last_name":"Symonova","id":"3C0C7BC6-F248-11E8-B48F-1D18A9856A87","full_name":"Symonova, Olga"},{"full_name":"Koppensteiner, Peter","first_name":"Peter","id":"3B8B25A8-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3509-1948","last_name":"Koppensteiner"},{"last_name":"Schmidt","id":"A2EF226A-AF19-11E9-924C-0525E6697425","first_name":"Florian","full_name":"Schmidt, Florian"},{"full_name":"Jösch, Maximilian A","id":"2BD278E6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3937-1330","last_name":"Jösch","first_name":"Maximilian A"}],"OA_place":"publisher","oa":1,"article_processing_charge":"No","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"19076"}]},"month":"12","day":"09","abstract":[{"lang":"eng","text":"Electrophysiological, calcium two-photon recordings and behavioral data for Vega-Zuniga et al.  Relevant information can be found in the 'README.txt' files. "}],"corr_author":"1","publisher":"Institute of Science and Technology Austria","acknowledgement":"Freyja Lange, Michael Schunn, and Todor Asenov","ddc":["570"],"has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","project":[{"grant_number":"ALTF 1098-2017","name":"Connecting sensory with motor processing in the superior colliculus","_id":"264FEA02-B435-11E9-9278-68D0E5697425"},{"_id":"266D407A-B435-11E9-9278-68D0E5697425","name":"Neuronal networks of salience and spatial detection in the murine superior colliculus","grant_number":"LT000256"},{"grant_number":"756502","call_identifier":"H2020","_id":"2634E9D2-B435-11E9-9278-68D0E5697425","name":"Circuits of Visual Attention"},{"_id":"bdaf81a8-d553-11ed-ba76-c95961984540","name":"Action Selection in the Midbrain: Neuromodulation of Visuomotor Senses","grant_number":"101086580"}],"fulldoi":"https://doi.org/10.15479/AT:ISTA:18579","year":"2024","type":"research_data","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"PreCl"},{"_id":"M-Shop"},{"_id":"Bio"},{"_id":"LifeSc"}]},{"oa_version":"Published Version","extern":"1","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41594-024-01239-0"}],"citation":{"mla":"Kobayashi, Wataru, et al. “Nucleosome-Bound NR5A2 Structure Reveals Pioneer Factor Mechanism by DNA Minor Groove Anchor Competition.” <i>Nature Structural &#38; Molecular Biology</i>, vol. 31, Springer Nature, 2024, pp. 757–66, doi:<a href=\"https://doi.org/10.1038/s41594-024-01239-0\">10.1038/s41594-024-01239-0</a>.","ista":"Kobayashi W, Sappler AH, Bollschweiler D, Kümmecke M, Basquin J, Arslantas EN, Ruangroengkulrith S, Hornberger R, Duderstadt K, Tachibana K. 2024. Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition. Nature Structural &#38; Molecular Biology. 31, 757–766.","ama":"Kobayashi W, Sappler AH, Bollschweiler D, et al. Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition. <i>Nature Structural &#38; Molecular Biology</i>. 2024;31:757-766. doi:<a href=\"https://doi.org/10.1038/s41594-024-01239-0\">10.1038/s41594-024-01239-0</a>","ieee":"W. Kobayashi <i>et al.</i>, “Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition,” <i>Nature Structural &#38; Molecular Biology</i>, vol. 31. Springer Nature, pp. 757–766, 2024.","chicago":"Kobayashi, Wataru, Anna H. Sappler, Daniel Bollschweiler, Maximilian Kümmecke, Jérôme Basquin, Eda Nur Arslantas, Siwat Ruangroengkulrith, Renate Hornberger, Karl Duderstadt, and Kikuë Tachibana. “Nucleosome-Bound NR5A2 Structure Reveals Pioneer Factor Mechanism by DNA Minor Groove Anchor Competition.” <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41594-024-01239-0\">https://doi.org/10.1038/s41594-024-01239-0</a>.","apa":"Kobayashi, W., Sappler, A. H., Bollschweiler, D., Kümmecke, M., Basquin, J., Arslantas, E. N., … Tachibana, K. (2024). Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition. <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41594-024-01239-0\">https://doi.org/10.1038/s41594-024-01239-0</a>","short":"W. Kobayashi, A.H. Sappler, D. Bollschweiler, M. Kümmecke, J. Basquin, E.N. Arslantas, S. Ruangroengkulrith, R. Hornberger, K. Duderstadt, K. Tachibana, Nature Structural &#38; Molecular Biology 31 (2024) 757–766."},"status":"public","intvolume":"        31","date_created":"2024-12-11T09:10:54Z","quality_controlled":"1","_id":"18645","date_updated":"2024-12-11T10:56:35Z","OA_type":"hybrid","date_published":"2024-05-01T00:00:00Z","publication_status":"published","author":[{"full_name":"Kobayashi, Wataru","first_name":"Wataru","last_name":"Kobayashi"},{"last_name":"Sappler","first_name":"Anna H.","full_name":"Sappler, Anna H."},{"first_name":"Daniel","last_name":"Bollschweiler","full_name":"Bollschweiler, Daniel"},{"first_name":"Maximilian","last_name":"Kümmecke","full_name":"Kümmecke, Maximilian"},{"first_name":"Jérôme","last_name":"Basquin","full_name":"Basquin, Jérôme"},{"full_name":"Arslantas, Eda Nur","first_name":"Eda Nur","id":"36978b4e-2966-11ef-a72f-b3740ef1cd11","last_name":"Arslantas"},{"last_name":"Ruangroengkulrith","first_name":"Siwat","full_name":"Ruangroengkulrith, Siwat"},{"last_name":"Hornberger","first_name":"Renate","full_name":"Hornberger, Renate"},{"full_name":"Duderstadt, Karl","last_name":"Duderstadt","first_name":"Karl"},{"full_name":"Tachibana, Kikuë","last_name":"Tachibana","first_name":"Kikuë"}],"page":"757-766","title":"Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition","doi":"10.1038/s41594-024-01239-0","month":"05","oa":1,"article_processing_charge":"Yes (in subscription journal)","OA_place":"publisher","publication":"Nature Structural & Molecular Biology","acknowledgement":"We are very grateful to K. Abe, L. G. Hernandez, C. Kobayashi, K. Straßer and M. Zaczek for their contributions and technical support. We thank N. Thomä for advice on SeEN-seq. We are grateful to A. Musacchio for insightful discussions. We thank J.-M. Peters for critical reading of the manuscript and all members of K.T.’s laboratory for discussions. We thank T. Schäfer at the cryo-EM facility for assistance in cryo-EM data collection, and R. H. Kim for sequencing at the NGS facility, MPIB. K.T. is an Honorary Professor at the Department of Biology, Ludwig-Maximilians-University, Munich. Funding: European Research Council grant ERC-CoG-818556 TotipotentZygotChrom (K.T.). European Research Council grant ERC-StG-804098 ReplisomeBypass (K.D.). Max Planck Society (K.T., K.D.).","publisher":"Springer Nature","publication_identifier":{"issn":["1545-9993"],"eissn":["1545-9985"]},"scopus_import":"1","abstract":[{"lang":"eng","text":"Gene expression during natural and induced reprogramming is controlled by pioneer transcription factors that initiate transcription from closed chromatin. Nr5a2 is a key pioneer factor that regulates zygotic genome activation in totipotent embryos, pluripotency in embryonic stem cells and metabolism in adult tissues, but the mechanism of its pioneer activity remains poorly understood. Here, we present a cryo-electron microscopy structure of human NR5A2 bound to a nucleosome. The structure shows that the conserved carboxy-terminal extension (CTE) loop of the NR5A2 DNA-binding domain competes with a DNA minor groove anchor of the nucleosome and releases entry-exit site DNA. Mutational analysis showed that NR5A2 D159 of the CTE is dispensable for DNA binding but required for stable nucleosome association and persistent DNA ‘unwrapping’. These findings suggest that NR5A2 belongs to an emerging class of pioneer factors that can use DNA minor groove anchor competition to destabilize nucleosomes and facilitate gene expression during reprogramming."}],"day":"01","volume":31,"fulldoi":"https://doi.org/10.1038/s41594-024-01239-0","year":"2024","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"original","type":"journal_article"},{"scopus_import":"1","abstract":[{"lang":"eng","text":"The evasive LWE assumption, proposed by Wee [Eurocrypt’22 Wee] for constructing a lattice-based optimal broadcast encryption, has shown to be a powerful assumption, adopted by subsequent works to construct advanced primitives ranging from ABE variants to obfuscation for null circuits. However, a closer look reveals significant differences among the precise assumption statements involved in different works, leading to the fundamental question of how these assumptions compare to each other. In this work, we initiate a more systematic study on evasive LWE assumptions:\r\n(i) Based on the standard LWE assumption, we construct simple counterexamples against three private-coin evasive LWE variants, used in [Crypto’22 Tsabary, Asiacrypt’22 VWW, Crypto’23 ARYY] respectively, showing that these assumptions are unlikely to hold.\r\n\r\n(ii) Based on existing evasive LWE variants and our counterexamples, we propose and define three classes of plausible evasive LWE assumptions, suitably capturing all existing variants for which we are not aware of non-obfuscation-based counterexamples.\r\n\r\n(iii) We show that under our assumption formulations, the security proofs of [Asiacrypt’22 VWW] and [Crypto’23 ARYY] can be recovered, and we reason why the security proof of [Crypto’22 Tsabary] is also plausibly repairable using an appropriate evasive LWE assumption."}],"publication_identifier":{"eissn":["1611-3349"],"issn":["0302-9743"],"isbn":["9789819608935"]},"volume":15487,"day":"13","acknowledgement":"The authors thank the anonymous reviewers for insightful comments which very much improved this work, in particular, sharing with us the counterexamples against a prior version of Hiding Evasive LWE, and against public-coin Evasive LWE when the sampler inputs B. Chris Brzuska and Ivy K. Y. Woo are supported by Research Council of Finland grant 358950. We thank Russell W. F. Lai and Hoeteck Wee for helpful discussions.","publisher":"Springer Nature","article_processing_charge":"No","oa":1,"external_id":{"isi":["001443890800014"]},"OA_place":"repository","publication":"30th International Conference on the Theory and Application of Cryptology and Information Security","month":"12","type":"conference","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2024","fulldoi":"https://doi.org/10.1007/978-981-96-0894-2_14","conference":{"start_date":"2024-12-09","end_date":"2024-12-13","location":"Kolkata, India","name":"ASIACRYPT: Conference on the Theory and Application of Cryptology and Information Security"},"date_created":"2025-01-05T23:01:56Z","intvolume":"     15487","_id":"18756","date_updated":"2025-09-09T12:00:51Z","quality_controlled":"1","alternative_title":["LNCS"],"citation":{"ista":"Brzuska C, Ünal A, Woo IKY. 2024. Evasive LWE assumptions: Definitions, classes, and counterexamples. 30th International Conference on the Theory and Application of Cryptology and Information Security. ASIACRYPT: Conference on the Theory and Application of Cryptology and Information Security, LNCS, vol. 15487, 418–449.","ama":"Brzuska C, Ünal A, Woo IKY. Evasive LWE assumptions: Definitions, classes, and counterexamples. In: <i>30th International Conference on the Theory and Application of Cryptology and Information Security</i>. Vol 15487. Springer Nature; 2024:418-449. doi:<a href=\"https://doi.org/10.1007/978-981-96-0894-2_14\">10.1007/978-981-96-0894-2_14</a>","mla":"Brzuska, Chris, et al. “Evasive LWE Assumptions: Definitions, Classes, and Counterexamples.” <i>30th International Conference on the Theory and Application of Cryptology and Information Security</i>, vol. 15487, Springer Nature, 2024, pp. 418–49, doi:<a href=\"https://doi.org/10.1007/978-981-96-0894-2_14\">10.1007/978-981-96-0894-2_14</a>.","ieee":"C. Brzuska, A. Ünal, and I. K. Y. Woo, “Evasive LWE assumptions: Definitions, classes, and counterexamples,” in <i>30th International Conference on the Theory and Application of Cryptology and Information Security</i>, Kolkata, India, 2024, vol. 15487, pp. 418–449.","chicago":"Brzuska, Chris, Akin Ünal, and Ivy K.Y. Woo. “Evasive LWE Assumptions: Definitions, Classes, and Counterexamples.” In <i>30th International Conference on the Theory and Application of Cryptology and Information Security</i>, 15487:418–49. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/978-981-96-0894-2_14\">https://doi.org/10.1007/978-981-96-0894-2_14</a>.","apa":"Brzuska, C., Ünal, A., &#38; Woo, I. K. Y. (2024). Evasive LWE assumptions: Definitions, classes, and counterexamples. In <i>30th International Conference on the Theory and Application of Cryptology and Information Security</i> (Vol. 15487, pp. 418–449). Kolkata, India: Springer Nature. <a href=\"https://doi.org/10.1007/978-981-96-0894-2_14\">https://doi.org/10.1007/978-981-96-0894-2_14</a>","short":"C. Brzuska, A. Ünal, I.K.Y. Woo, in:, 30th International Conference on the Theory and Application of Cryptology and Information Security, Springer Nature, 2024, pp. 418–449."},"department":[{"_id":"KrPi"}],"main_file_link":[{"url":"https://eprint.iacr.org/2024/2000","open_access":"1"}],"status":"public","oa_version":"Preprint","language":[{"iso":"eng"}],"doi":"10.1007/978-981-96-0894-2_14","isi":1,"title":"Evasive LWE assumptions: Definitions, classes, and counterexamples","page":"418-449","author":[{"full_name":"Brzuska, Chris","first_name":"Chris","last_name":"Brzuska"},{"id":"f6b56fb6-dc63-11ee-9dbf-f6780863a85a","orcid":"0000-0002-8929-0221","last_name":"Ünal","first_name":"Akin","full_name":"Ünal, Akin"},{"full_name":"Woo, Ivy K.Y.","last_name":"Woo","first_name":"Ivy K.Y."}],"date_published":"2024-12-13T00:00:00Z","publication_status":"published","OA_type":"green"},{"intvolume":"         8","date_created":"2025-01-21T15:35:17Z","quality_controlled":"1","_id":"18867","date_updated":"2025-01-27T10:52:16Z","citation":{"apa":"Heyl, J., Doroshenko, V., González-Caniulef, D., Caiazzo, I., Poutanen, J., Mushtukov, A., … Zane, S. (2024). Complex rotational dynamics of the neutron star in Hercules X-1 revealed by X-ray polarization. <i>Nature Astronomy</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41550-024-02295-8\">https://doi.org/10.1038/s41550-024-02295-8</a>","chicago":"Heyl, Jeremy, Victor Doroshenko, Denis González-Caniulef, Ilaria Caiazzo, Juri Poutanen, Alexander Mushtukov, Sergey S. Tsygankov, et al. “Complex Rotational Dynamics of the Neutron Star in Hercules X-1 Revealed by X-Ray Polarization.” <i>Nature Astronomy</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41550-024-02295-8\">https://doi.org/10.1038/s41550-024-02295-8</a>.","short":"J. Heyl, V. Doroshenko, D. González-Caniulef, I. Caiazzo, J. Poutanen, A. Mushtukov, S.S. Tsygankov, D. Kirmizibayrak, M. Bachetti, G.G. Pavlov, S.V. Forsblom, C. Malacaria, V.F. Suleimanov, I. Agudo, L.A. Antonelli, L. Baldini, W.H. Baumgartner, R. Bellazzini, S. Bianchi, S.D. Bongiorno, R. Bonino, A. Brez, N. Bucciantini, F. Capitanio, S. Castellano, E. Cavazzuti, C.-T. Chen, S. Ciprini, E. Costa, A. De Rosa, E. Del Monte, L. Di Gesu, N. Di Lalla, A. Di Marco, I. Donnarumma, M. Dovčiak, S.R. Ehlert, T. Enoto, Y. Evangelista, S. Fabiani, R. Ferrazzoli, J.A. Garcia, S. Gunji, K. Hayashida, W. Iwakiri, S.G. Jorstad, P. Kaaret, V. Karas, F. Kislat, T. Kitaguchi, J.J. Kolodziejczak, H. Krawczynski, F. La Monaca, L. Latronico, I. Liodakis, S. Maldera, A. Manfreda, F. Marin, A. Marinucci, A.P. Marscher, H.L. Marshall, F. Massaro, G. Matt, I. Mitsuishi, T. Mizuno, F. Muleri, M. Negro, C.-Y. Ng, S.L. O’Dell, N. Omodei, C. Oppedisano, A. Papitto, A.L. Peirson, M. Perri, M. Pesce-Rollins, P.-O. Petrucci, M. Pilia, A. Possenti, S. Puccetti, B.D. Ramsey, J. Rankin, A. Ratheesh, O.J. Roberts, R.W. Romani, C. Sgrò, P. Slane, P. Soffitta, G. Spandre, D.A. Swartz, T. Tamagawa, F. Tavecchio, R. Taverna, Y. Tawara, A.F. Tennant, N.E. Thomas, F. Tombesi, A. Trois, R. Turolla, J. Vink, M.C. Weisskopf, K. Wu, F. Xie, S. Zane, Nature Astronomy 8 (2024) 1047–1053.","mla":"Heyl, Jeremy, et al. “Complex Rotational Dynamics of the Neutron Star in Hercules X-1 Revealed by X-Ray Polarization.” <i>Nature Astronomy</i>, vol. 8, Springer Nature, 2024, pp. 1047–53, doi:<a href=\"https://doi.org/10.1038/s41550-024-02295-8\">10.1038/s41550-024-02295-8</a>.","ista":"Heyl J et al. 2024. Complex rotational dynamics of the neutron star in Hercules X-1 revealed by X-ray polarization. Nature Astronomy. 8, 1047–1053.","ama":"Heyl J, Doroshenko V, González-Caniulef D, et al. Complex rotational dynamics of the neutron star in Hercules X-1 revealed by X-ray polarization. <i>Nature Astronomy</i>. 2024;8:1047-1053. doi:<a href=\"https://doi.org/10.1038/s41550-024-02295-8\">10.1038/s41550-024-02295-8</a>","ieee":"J. Heyl <i>et al.</i>, “Complex rotational dynamics of the neutron star in Hercules X-1 revealed by X-ray polarization,” <i>Nature Astronomy</i>, vol. 8. Springer Nature, pp. 1047–1053, 2024."},"status":"public","oa_version":"None","extern":"1","language":[{"iso":"eng"}],"title":"Complex rotational dynamics of the neutron star in Hercules X-1 revealed by X-ray polarization","doi":"10.1038/s41550-024-02295-8","publication_status":"published","author":[{"full_name":"Heyl, Jeremy","first_name":"Jeremy","last_name":"Heyl"},{"first_name":"Victor","last_name":"Doroshenko","full_name":"Doroshenko, Victor"},{"first_name":"Denis","last_name":"González-Caniulef","full_name":"González-Caniulef, Denis"},{"id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d","orcid":"0000-0002-4770-5388","last_name":"Caiazzo","first_name":"Ilaria","full_name":"Caiazzo, Ilaria"},{"last_name":"Poutanen","first_name":"Juri","full_name":"Poutanen, Juri"},{"first_name":"Alexander","last_name":"Mushtukov","full_name":"Mushtukov, Alexander"},{"full_name":"Tsygankov, Sergey S.","first_name":"Sergey S.","last_name":"Tsygankov"},{"last_name":"Kirmizibayrak","first_name":"Demet","full_name":"Kirmizibayrak, Demet"},{"last_name":"Bachetti","first_name":"Matteo","full_name":"Bachetti, Matteo"},{"full_name":"Pavlov, George G.","first_name":"George G.","last_name":"Pavlov"},{"last_name":"Forsblom","first_name":"Sofia V.","full_name":"Forsblom, Sofia V."},{"last_name":"Malacaria","first_name":"Christian","full_name":"Malacaria, Christian"},{"last_name":"Suleimanov","first_name":"Valery F.","full_name":"Suleimanov, Valery F."},{"first_name":"Iván","last_name":"Agudo","full_name":"Agudo, Iván"},{"full_name":"Antonelli, Lucio Angelo","last_name":"Antonelli","first_name":"Lucio Angelo"},{"full_name":"Baldini, Luca","last_name":"Baldini","first_name":"Luca"},{"first_name":"Wayne H.","last_name":"Baumgartner","full_name":"Baumgartner, Wayne H."},{"first_name":"Ronaldo","last_name":"Bellazzini","full_name":"Bellazzini, Ronaldo"},{"first_name":"Stefano","last_name":"Bianchi","full_name":"Bianchi, 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Michela"},{"full_name":"Ng, C.-Y.","last_name":"Ng","first_name":"C.-Y."},{"full_name":"O’Dell, Stephen L.","last_name":"O’Dell","first_name":"Stephen L."},{"full_name":"Omodei, Nicola","first_name":"Nicola","last_name":"Omodei"},{"full_name":"Oppedisano, Chiara","last_name":"Oppedisano","first_name":"Chiara"},{"full_name":"Papitto, Alessandro","last_name":"Papitto","first_name":"Alessandro"},{"full_name":"Peirson, Abel Lawrence","first_name":"Abel Lawrence","last_name":"Peirson"},{"last_name":"Perri","first_name":"Matteo","full_name":"Perri, Matteo"},{"first_name":"Melissa","last_name":"Pesce-Rollins","full_name":"Pesce-Rollins, Melissa"},{"first_name":"Pierre-Olivier","last_name":"Petrucci","full_name":"Petrucci, Pierre-Olivier"},{"full_name":"Pilia, Maura","last_name":"Pilia","first_name":"Maura"},{"last_name":"Possenti","first_name":"Andrea","full_name":"Possenti, Andrea"},{"full_name":"Puccetti, Simonetta","first_name":"Simonetta","last_name":"Puccetti"},{"last_name":"Ramsey","first_name":"Brian D.","full_name":"Ramsey, Brian D."},{"first_name":"John","last_name":"Rankin","full_name":"Rankin, John"},{"full_name":"Ratheesh, Ajay","last_name":"Ratheesh","first_name":"Ajay"},{"first_name":"Oliver J.","last_name":"Roberts","full_name":"Roberts, Oliver J."},{"full_name":"Romani, Roger W.","last_name":"Romani","first_name":"Roger W."},{"full_name":"Sgrò, Carmelo","first_name":"Carmelo","last_name":"Sgrò"},{"full_name":"Slane, Patrick","first_name":"Patrick","last_name":"Slane"},{"full_name":"Soffitta, Paolo","last_name":"Soffitta","first_name":"Paolo"},{"full_name":"Spandre, Gloria","last_name":"Spandre","first_name":"Gloria"},{"full_name":"Swartz, Douglas A.","first_name":"Douglas A.","last_name":"Swartz"},{"last_name":"Tamagawa","first_name":"Toru","full_name":"Tamagawa, Toru"},{"last_name":"Tavecchio","first_name":"Fabrizio","full_name":"Tavecchio, Fabrizio"},{"first_name":"Roberto","last_name":"Taverna","full_name":"Taverna, Roberto"},{"full_name":"Tawara, Yuzuru","first_name":"Yuzuru","last_name":"Tawara"},{"full_name":"Tennant, Allyn F.","last_name":"Tennant","first_name":"Allyn F."},{"first_name":"Nicholas E.","last_name":"Thomas","full_name":"Thomas, Nicholas E."},{"full_name":"Tombesi, Francesco","first_name":"Francesco","last_name":"Tombesi"},{"first_name":"Alessio","last_name":"Trois","full_name":"Trois, Alessio"},{"first_name":"Roberto","last_name":"Turolla","full_name":"Turolla, Roberto"},{"full_name":"Vink, Jacco","last_name":"Vink","first_name":"Jacco"},{"last_name":"Weisskopf","first_name":"Martin C.","full_name":"Weisskopf, Martin C."},{"first_name":"Kinwah","last_name":"Wu","full_name":"Wu, Kinwah"},{"last_name":"Xie","first_name":"Fei","full_name":"Xie, Fei"},{"full_name":"Zane, Silvia","last_name":"Zane","first_name":"Silvia"}],"date_published":"2024-08-01T00:00:00Z","page":"1047-1053","OA_type":"closed access","publication_identifier":{"issn":["2397-3366"]},"scopus_import":"1","abstract":[{"lang":"eng","text":"In an accreting X-ray pulsar, a neutron star accretes matter from a companion star through an accretion disk. The magnetic field of the rotating neutron star disrupts the inner edge of the disk, funnelling the gas to flow onto the poles on its surface. Hercules X-1 is a prototypical persistent X-ray pulsar about 7 kpc from Earth. Its emission varies on three distinct timescales: the neutron star rotates every 1.2 s, it is eclipsed by its companion each 1.7 d, and the system exhibits a superorbital period of 35 d, which has remained stable since its discovery. Several lines of evidence point to the source of this variation as the precession of the accretion disk or that of the neutron star. Despite the many hints over the past 50 yr, the precession of the neutron star itself has yet not been confirmed or refuted. X-ray polarization measurements (probing the spin geometry of Her X-1) with the Imaging X-ray Polarimetry Explorer suggest that free precession of the neutron star crust sets the 35 d period; this has the important implication that its crust is somewhat asymmetric by a few parts per ten million."}],"day":"01","volume":8,"publisher":"Springer Nature","article_processing_charge":"No","publication":"Nature Astronomy","month":"08","type":"journal_article","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1038/s41550-024-02295-8","year":"2024"},{"publisher":"Maynooth Academic Publishing","volume":7,"day":"01","abstract":[{"text":"We develop two new highly efficient estimators to measure the polarization (Stokes parameters) in experiments that constrain the position angle of individual photons such as scattering and gas-pixel-detector polarimeters, and analyse in detail a previously proposed estimator. All three of these estimators are at least fifty percent more efficient on typical datasets than the standard estimator used in the field. We present analytic estimates of the variance of these estimators and numerical experiments to verify these estimates. Two of the three estimators can be calculated quickly and directly through summations over the measurements of individual photons.","lang":"eng"}],"scopus_import":"1","publication_identifier":{"issn":["2565-6120"]},"month":"05","external_id":{"arxiv":["2311.07805"]},"OA_place":"publisher","publication":"The Open Journal of Astrophysics","article_processing_charge":"No","arxiv":1,"oa":1,"DOAJ_listed":"1","article_type":"original","type":"journal_article","year":"2024","fulldoi":"https://doi.org/10.33232/001c.117476","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2025-01-27T10:48:19Z","_id":"18868","quality_controlled":"1","date_created":"2025-01-21T15:54:16Z","intvolume":"         7","language":[{"iso":"eng"}],"extern":"1","oa_version":"Published Version","status":"public","citation":{"chicago":"Heyl, Jeremy, Denis González-Caniulef, and Ilaria Caiazzo. “Optimal Summary Statistics for X-Ray Polarization.” <i>The Open Journal of Astrophysics</i>. Maynooth Academic Publishing, 2024. <a href=\"https://doi.org/10.33232/001c.117476\">https://doi.org/10.33232/001c.117476</a>.","apa":"Heyl, J., González-Caniulef, D., &#38; Caiazzo, I. (2024). Optimal summary statistics for X-ray polarization. <i>The Open Journal of Astrophysics</i>. Maynooth Academic Publishing. <a href=\"https://doi.org/10.33232/001c.117476\">https://doi.org/10.33232/001c.117476</a>","short":"J. Heyl, D. González-Caniulef, I. Caiazzo, The Open Journal of Astrophysics 7 (2024).","mla":"Heyl, Jeremy, et al. “Optimal Summary Statistics for X-Ray Polarization.” <i>The Open Journal of Astrophysics</i>, vol. 7, Maynooth Academic Publishing, 2024, doi:<a href=\"https://doi.org/10.33232/001c.117476\">10.33232/001c.117476</a>.","ista":"Heyl J, González-Caniulef D, Caiazzo I. 2024. Optimal summary statistics for X-ray polarization. The Open Journal of Astrophysics. 7.","ama":"Heyl J, González-Caniulef D, Caiazzo I. Optimal summary statistics for X-ray polarization. <i>The Open Journal of Astrophysics</i>. 2024;7. doi:<a href=\"https://doi.org/10.33232/001c.117476\">10.33232/001c.117476</a>","ieee":"J. Heyl, D. González-Caniulef, and I. Caiazzo, “Optimal summary statistics for X-ray polarization,” <i>The Open Journal of Astrophysics</i>, vol. 7. Maynooth Academic Publishing, 2024."},"main_file_link":[{"url":"https://doi.org/10.33232/001c.117476","open_access":"1"}],"publication_status":"published","date_published":"2024-05-01T00:00:00Z","author":[{"full_name":"Heyl, Jeremy","first_name":"Jeremy","last_name":"Heyl"},{"first_name":"Denis","last_name":"González-Caniulef","full_name":"González-Caniulef, Denis"},{"full_name":"Caiazzo, Ilaria","last_name":"Caiazzo","orcid":"0000-0002-4770-5388","id":"8ae5b6e7-2a03-11ee-914d-b58ed7a3b47d","first_name":"Ilaria"}],"doi":"10.33232/001c.117476","title":"Optimal summary statistics for X-ray polarization","OA_type":"gold"},{"OA_type":"gold","publication_status":"published","author":[{"full_name":"Draganov, Ondrej","id":"2B23F01E-F248-11E8-B48F-1D18A9856A87","last_name":"Draganov","orcid":"0000-0003-0464-3823","first_name":"Ondrej"},{"last_name":"Skiena","first_name":"Steven","full_name":"Skiena, Steven"}],"date_published":"2024-11-01T00:00:00Z","file":[{"file_name":"2024_EMNLP_Draganov.pdf","file_id":"19016","access_level":"open_access","file_size":1312638,"content_type":"application/pdf","success":1,"date_created":"2025-02-10T08:20:34Z","creator":"dernst","date_updated":"2025-02-10T08:20:34Z","checksum":"f4416a5962194f0181ab0dc7f9ef93c0","relation":"main_file"}],"page":"12080-12099","file_date_updated":"2025-02-10T08:20:34Z","title":"The shape of word embeddings: Quantifying non-isometry with topological data analysis","doi":"10.18653/v1/2024.findings-emnlp.705","oa_version":"Published Version","language":[{"iso":"eng"}],"department":[{"_id":"GradSch"},{"_id":"HeEd"}],"citation":{"ieee":"O. Draganov and S. Skiena, “The shape of word embeddings: Quantifying non-isometry with topological data analysis,” in <i>Findings of the Association for Computational Linguistics: EMNLP 2024</i>, Miami, FL, United States, 2024, pp. 12080–12099.","mla":"Draganov, Ondrej, and Steven Skiena. “The Shape of Word Embeddings: Quantifying Non-Isometry with Topological Data Analysis.” <i>Findings of the Association for Computational Linguistics: EMNLP 2024</i>, Association for Computational Linguistics, 2024, pp. 12080–99, doi:<a href=\"https://doi.org/10.18653/v1/2024.findings-emnlp.705\">10.18653/v1/2024.findings-emnlp.705</a>.","ama":"Draganov O, Skiena S. The shape of word embeddings: Quantifying non-isometry with topological data analysis. In: <i>Findings of the Association for Computational Linguistics: EMNLP 2024</i>. Association for Computational Linguistics; 2024:12080-12099. doi:<a href=\"https://doi.org/10.18653/v1/2024.findings-emnlp.705\">10.18653/v1/2024.findings-emnlp.705</a>","ista":"Draganov O, Skiena S. 2024. The shape of word embeddings: Quantifying non-isometry with topological data analysis. Findings of the Association for Computational Linguistics: EMNLP 2024. EMNLP: Conference on Empirical Methods in Natural Language Processing, 12080–12099.","short":"O. Draganov, S. Skiena, in:, Findings of the Association for Computational Linguistics: EMNLP 2024, Association for Computational Linguistics, 2024, pp. 12080–12099.","apa":"Draganov, O., &#38; Skiena, S. (2024). The shape of word embeddings: Quantifying non-isometry with topological data analysis. In <i>Findings of the Association for Computational Linguistics: EMNLP 2024</i> (pp. 12080–12099). Miami, FL, United States: Association for Computational Linguistics. <a href=\"https://doi.org/10.18653/v1/2024.findings-emnlp.705\">https://doi.org/10.18653/v1/2024.findings-emnlp.705</a>","chicago":"Draganov, Ondrej, and Steven Skiena. “The Shape of Word Embeddings: Quantifying Non-Isometry with Topological Data Analysis.” In <i>Findings of the Association for Computational Linguistics: EMNLP 2024</i>, 12080–99. Association for Computational Linguistics, 2024. <a href=\"https://doi.org/10.18653/v1/2024.findings-emnlp.705\">https://doi.org/10.18653/v1/2024.findings-emnlp.705</a>."},"status":"public","date_created":"2025-02-04T16:19:28Z","quality_controlled":"1","date_updated":"2025-02-10T08:21:37Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)"},"_id":"18998","fulldoi":"https://doi.org/10.18653/v1/2024.findings-emnlp.705","conference":{"location":"Miami, FL, United States","name":"EMNLP: Conference on Empirical Methods in Natural Language Processing","end_date":"2024-11-16","start_date":"2024-11-12"},"year":"2024","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference","month":"11","oa":1,"arxiv":1,"article_processing_charge":"No","external_id":{"arxiv":["2404.00500"]},"OA_place":"publisher","publication":"Findings of the Association for Computational Linguistics: EMNLP 2024","ddc":["500"],"has_accepted_license":"1","publisher":"Association for Computational Linguistics","corr_author":"1","abstract":[{"text":"Word embeddings represent language vocabularies as clouds of d-dimensional points. We investigate how information is conveyed by the general shape of these clouds, instead of representing the semantic meaning of each token. Specifically, we use the notion of persistent homology from topological data analysis (TDA) to measure the distances between language pairs from the shape of their unlabeled embeddings. These distances quantify the degree of non-isometry of the embeddings. To distinguish whether these differences are random training errors or capture real information about the languages, we use the computed distance matrices to construct language phylogenetic trees over 81 Indo-European languages. Careful evaluation shows that our reconstructed trees exhibit strong and statistically-significant similarities to the reference.","lang":"eng"}],"scopus_import":"1","day":"01"}]