[{"date_created":"2023-01-16T09:15:44Z","scopus_import":"1","external_id":{"pmid":["32601198"]},"extern":"1","date_published":"2020-05-22T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"XiFe"}],"type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1","publisher":"Proceedings of the National Academy of Sciences","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7368280/"}],"intvolume":"       117","keyword":["Multidisciplinary"],"year":"2020","oa":1,"page":"16660-16666","article_type":"original","date_updated":"2023-05-08T10:53:55Z","publication":"Proceedings of the National Academy of Sciences","oa_version":"Published Version","ddc":["580"],"file_date_updated":"2023-02-07T11:29:55Z","pmid":1,"month":"05","citation":{"chicago":"Bloomer, Rebecca H., Claire E. Hutchison, Isabel Bäurle, James Walker, Xiaofeng Fang, Pumi Perera, Christos N. Velanis, et al. “The  Arabidopsis Epigenetic Regulator ICU11 as an Accessory Protein of Polycomb Repressive Complex 2.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2020. <a href=\"https://doi.org/10.1073/pnas.1920621117\">https://doi.org/10.1073/pnas.1920621117</a>.","mla":"Bloomer, Rebecca H., et al. “The  Arabidopsis Epigenetic Regulator ICU11 as an Accessory Protein of Polycomb Repressive Complex 2.” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 28, Proceedings of the National Academy of Sciences, 2020, pp. 16660–66, doi:<a href=\"https://doi.org/10.1073/pnas.1920621117\">10.1073/pnas.1920621117</a>.","ama":"Bloomer RH, Hutchison CE, Bäurle I, et al. The  Arabidopsis epigenetic regulator ICU11 as an accessory protein of polycomb repressive complex 2. <i>Proceedings of the National Academy of Sciences</i>. 2020;117(28):16660-16666. doi:<a href=\"https://doi.org/10.1073/pnas.1920621117\">10.1073/pnas.1920621117</a>","ista":"Bloomer RH, Hutchison CE, Bäurle I, Walker J, Fang X, Perera P, Velanis CN, Gümüs S, Spanos C, Rappsilber J, Feng X, Goodrich J, Dean C. 2020. The  Arabidopsis epigenetic regulator ICU11 as an accessory protein of polycomb repressive complex 2. Proceedings of the National Academy of Sciences. 117(28), 16660–16666.","short":"R.H. Bloomer, C.E. Hutchison, I. Bäurle, J. Walker, X. Fang, P. Perera, C.N. Velanis, S. Gümüs, C. Spanos, J. Rappsilber, X. Feng, J. Goodrich, C. Dean, Proceedings of the National Academy of Sciences 117 (2020) 16660–16666.","ieee":"R. H. Bloomer <i>et al.</i>, “The  Arabidopsis epigenetic regulator ICU11 as an accessory protein of polycomb repressive complex 2,” <i>Proceedings of the National Academy of Sciences</i>, vol. 117, no. 28. Proceedings of the National Academy of Sciences, pp. 16660–16666, 2020.","apa":"Bloomer, R. H., Hutchison, C. E., Bäurle, I., Walker, J., Fang, X., Perera, P., … Dean, C. (2020). The  Arabidopsis epigenetic regulator ICU11 as an accessory protein of polycomb repressive complex 2. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1920621117\">https://doi.org/10.1073/pnas.1920621117</a>"},"day":"22","volume":117,"article_processing_charge":"No","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"date_created":"2023-02-07T11:29:55Z","file_id":"12526","content_type":"application/pdf","checksum":"cedee184cb12f454f2fba4158ff47db9","access_level":"open_access","date_updated":"2023-02-07T11:29:55Z","success":1,"relation":"main_file","file_size":1105414,"creator":"alisjak","file_name":"2020_PNAS_Bloomer.pdf"}],"doi":"10.1073/pnas.1920621117","abstract":[{"text":"Molecular mechanisms enabling the switching and maintenance of epigenetic states are not fully understood. Distinct histone modifications are often associated with ON/OFF epigenetic states, but how these states are stably maintained through DNA replication, yet in certain situations switch from one to another remains unclear. Here, we address this problem through identification of Arabidopsis INCURVATA11 (ICU11) as a Polycomb Repressive Complex 2 accessory protein. ICU11 robustly immunoprecipitated in vivo with PRC2 core components and the accessory proteins, EMBRYONIC FLOWER 1 (EMF1), LIKE HETEROCHROMATIN PROTEIN1 (LHP1), and TELOMERE_REPEAT_BINDING FACTORS (TRBs). ICU11 encodes a 2-oxoglutarate-dependent dioxygenase, an activity associated with histone demethylation in other organisms, and mutant plants show defects in multiple aspects of the Arabidopsis epigenome. To investigate its primary molecular function we identified the Arabidopsis FLOWERING LOCUS C (FLC) as a direct target and found icu11 disrupted the cold-induced, Polycomb-mediated silencing underlying vernalization. icu11 prevented reduction in H3K36me3 levels normally seen during the early cold phase, supporting a role for ICU11 in H3K36me3 demethylation. This was coincident with an attenuation of H3K27me3 at the internal nucleation site in FLC, and reduction in H3K27me3 levels across the body of the gene after plants were returned to the warm. Thus, ICU11 is required for the cold-induced epigenetic switching between the mutually exclusive chromatin states at FLC, from the active H3K36me3 state to the silenced H3K27me3 state. These data support the importance of physical coupling of histone modification activities to promote epigenetic switching between opposing chromatin states.","lang":"eng"}],"issue":"28","_id":"12188","title":"The  Arabidopsis epigenetic regulator ICU11 as an accessory protein of polycomb repressive complex 2","author":[{"first_name":"Rebecca H.","last_name":"Bloomer","full_name":"Bloomer, Rebecca H."},{"first_name":"Claire E.","full_name":"Hutchison, Claire E.","last_name":"Hutchison"},{"last_name":"Bäurle","full_name":"Bäurle, Isabel","first_name":"Isabel"},{"first_name":"James","full_name":"Walker, James","last_name":"Walker"},{"last_name":"Fang","full_name":"Fang, Xiaofeng","first_name":"Xiaofeng"},{"first_name":"Pumi","last_name":"Perera","full_name":"Perera, Pumi"},{"full_name":"Velanis, Christos N.","last_name":"Velanis","first_name":"Christos N."},{"last_name":"Gümüs","full_name":"Gümüs, Serin","first_name":"Serin"},{"first_name":"Christos","full_name":"Spanos, Christos","last_name":"Spanos"},{"last_name":"Rappsilber","full_name":"Rappsilber, Juri","first_name":"Juri"},{"last_name":"Feng","full_name":"Feng, Xiaoqi","first_name":"Xiaoqi","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234"},{"full_name":"Goodrich, Justin","last_name":"Goodrich","first_name":"Justin"},{"first_name":"Caroline","last_name":"Dean","full_name":"Dean, Caroline"}],"status":"public","publication_status":"published","acknowledgement":"We would like to thank Scott Berry for help with ICU-GFP nuclear localization microscopy, Hao Yu and Lisha Shen for assistance with 6mA DNA methylation analysis, Donna Gibson for graphic design assistance, and members of the C.D. and Howard laboratories for helpful discussions. This work was funded by the European Research Council grants to “MEXTIM” (to C.D.) and “SexMeth” (to X. Feng), by the Biotechnological and Biological Sciences Research Council (BBSRC) Institute Strategic Programmes GRO (BB/J004588/1), GEN (BB/P013511/1), BBSRC grant (to X. Feng) (BB/S009620/1), and the Marie Sklodowska–Curie Postdoctoral Fellowships “UNRAVEL” (to R.H.B.) and \"WISDOM\" (to X. Fang). Additional funding via the Wellcome Trust through a Senior Research Fellowship (to J.R.) (103139) and a multiuser equipment grant (108504). The Wellcome Centre for Cell Biology is supported by core funding from the Wellcome Trust (203149).","publication_identifier":{"issn":["0027-8424","1091-6490"]}},{"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","publisher":"Public Library of Science (PLoS)","intvolume":"        16","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7351236/","open_access":"1"}],"date_created":"2023-01-16T09:16:10Z","scopus_import":"1","external_id":{"pmid":["32598340"]},"date_published":"2020-06-29T00:00:00Z","extern":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"XiFe"}],"article_number":"e1008894","article_type":"original","date_updated":"2023-05-08T10:54:39Z","publication":"PLOS Genetics","keyword":["Cancer Research","Genetics (clinical)","Genetics","Molecular Biology","Ecology","Evolution","Behavior and Systematics"],"year":"2020","oa":1,"volume":16,"article_processing_charge":"No","oa_version":"Published Version","month":"06","pmid":1,"citation":{"apa":"Christophorou, N., She, W., Long, J., Hurel, A., Beaubiat, S., Idir, Y., … Mézard, C. (2020). AXR1 affects DNA methylation independently of its role in regulating meiotic crossover localization. <i>PLOS Genetics</i>. Public Library of Science (PLoS). <a href=\"https://doi.org/10.1371/journal.pgen.1008894\">https://doi.org/10.1371/journal.pgen.1008894</a>","ieee":"N. Christophorou <i>et al.</i>, “AXR1 affects DNA methylation independently of its role in regulating meiotic crossover localization,” <i>PLOS Genetics</i>, vol. 16, no. 6. Public Library of Science (PLoS), 2020.","ama":"Christophorou N, She W, Long J, et al. AXR1 affects DNA methylation independently of its role in regulating meiotic crossover localization. <i>PLOS Genetics</i>. 2020;16(6). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1008894\">10.1371/journal.pgen.1008894</a>","short":"N. Christophorou, W. She, J. Long, A. Hurel, S. Beaubiat, Y. Idir, M. Tagliaro-Jahns, A. Chambon, V. Solier, D. Vezon, M. Grelon, X. Feng, N. Bouché, C. Mézard, PLOS Genetics 16 (2020).","ista":"Christophorou N, She W, Long J, Hurel A, Beaubiat S, Idir Y, Tagliaro-Jahns M, Chambon A, Solier V, Vezon D, Grelon M, Feng X, Bouché N, Mézard C. 2020. AXR1 affects DNA methylation independently of its role in regulating meiotic crossover localization. PLOS Genetics. 16(6), e1008894.","mla":"Christophorou, Nicolas, et al. “AXR1 Affects DNA Methylation Independently of Its Role in Regulating Meiotic Crossover Localization.” <i>PLOS Genetics</i>, vol. 16, no. 6, e1008894, Public Library of Science (PLoS), 2020, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1008894\">10.1371/journal.pgen.1008894</a>.","chicago":"Christophorou, Nicolas, Wenjing She, Jincheng Long, Aurélie Hurel, Sébastien Beaubiat, Yassir Idir, Marina Tagliaro-Jahns, et al. “AXR1 Affects DNA Methylation Independently of Its Role in Regulating Meiotic Crossover Localization.” <i>PLOS Genetics</i>. Public Library of Science (PLoS), 2020. <a href=\"https://doi.org/10.1371/journal.pgen.1008894\">https://doi.org/10.1371/journal.pgen.1008894</a>."},"day":"29","acknowledgement":"The authors wish to thank Cécile Raynaud, Eric Jenczewski, Rajeev Kumar, Raphaël Mercier and Jean Molinier for critical reading of the manuscript.","publication_status":"published","status":"public","publication_identifier":{"issn":["1553-7404"]},"doi":"10.1371/journal.pgen.1008894","abstract":[{"text":"Meiotic crossovers (COs) are important for reshuffling genetic information between homologous chromosomes and they are essential for their correct segregation. COs are unevenly distributed along chromosomes and the underlying mechanisms controlling CO localization are not well understood. We previously showed that meiotic COs are mis-localized in the absence of AXR1, an enzyme involved in the neddylation/rubylation protein modification pathway in Arabidopsis thaliana. Here, we report that in axr1-/-, male meiocytes show a strong defect in chromosome pairing whereas the formation of the telomere bouquet is not affected. COs are also redistributed towards subtelomeric chromosomal ends where they frequently form clusters, in contrast to large central regions depleted in recombination. The CO suppressed regions correlate with DNA hypermethylation of transposable elements (TEs) in the CHH context in axr1-/- meiocytes. Through examining somatic methylomes, we found axr1-/- affects DNA methylation in a plant, causing hypermethylation in all sequence contexts (CG, CHG and CHH) in TEs. Impairment of the main pathways involved in DNA methylation is epistatic over axr1-/- for DNA methylation in somatic cells but does not restore regular chromosome segregation during meiosis. Collectively, our findings reveal that the neddylation pathway not only regulates hormonal perception and CO distribution but is also, directly or indirectly, a major limiting pathway of TE DNA methylation in somatic cells.","lang":"eng"}],"issue":"6","_id":"12189","title":"AXR1 affects DNA methylation independently of its role in regulating meiotic crossover localization","author":[{"last_name":"Christophorou","full_name":"Christophorou, Nicolas","first_name":"Nicolas"},{"last_name":"She","full_name":"She, Wenjing","first_name":"Wenjing"},{"first_name":"Jincheng","last_name":"Long","full_name":"Long, Jincheng"},{"first_name":"Aurélie","full_name":"Hurel, Aurélie","last_name":"Hurel"},{"first_name":"Sébastien","last_name":"Beaubiat","full_name":"Beaubiat, Sébastien"},{"first_name":"Yassir","last_name":"Idir","full_name":"Idir, Yassir"},{"first_name":"Marina","full_name":"Tagliaro-Jahns, Marina","last_name":"Tagliaro-Jahns"},{"full_name":"Chambon, Aurélie","last_name":"Chambon","first_name":"Aurélie"},{"full_name":"Solier, Victor","last_name":"Solier","first_name":"Victor"},{"last_name":"Vezon","full_name":"Vezon, Daniel","first_name":"Daniel"},{"last_name":"Grelon","full_name":"Grelon, Mathilde","first_name":"Mathilde"},{"last_name":"Feng","full_name":"Feng, Xiaoqi","first_name":"Xiaoqi","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234"},{"first_name":"Nicolas","full_name":"Bouché, Nicolas","last_name":"Bouché"},{"last_name":"Mézard","full_name":"Mézard, Christine","first_name":"Christine"}]},{"date_created":"2021-07-23T08:59:15Z","oa_version":"Published Version","other_data_license":"CC0 + CC BY (4.0)","date_published":"2020-07-09T00:00:00Z","month":"07","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","citation":{"ista":"Hillary RF, Trejo-Banos D, Kousathanas A, McCartney DL, Harris SE, Stevenson AJ, Patxot M, Ojavee SE, Zhang Q, Liewald DC, Ritchie CW, Evans KL, Tucker-Drob EM, Wray NR, McRae AF, Visscher PM, Deary IJ, Robinson MR, Marioni RE. 2020. Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults, Springer Nature, <a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">10.6084/m9.figshare.12629697.v1</a>.","ama":"Hillary RF, Trejo-Banos D, Kousathanas A, et al. Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. 2020. doi:<a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">10.6084/m9.figshare.12629697.v1</a>","short":"R.F. Hillary, D. Trejo-Banos, A. Kousathanas, D.L. McCartney, S.E. Harris, A.J. Stevenson, M. Patxot, S.E. Ojavee, Q. Zhang, D.C. Liewald, C.W. Ritchie, K.L. Evans, E.M. Tucker-Drob, N.R. Wray, A.F. McRae, P.M. Visscher, I.J. Deary, M.R. Robinson, R.E. Marioni, (2020).","apa":"Hillary, R. F., Trejo-Banos, D., Kousathanas, A., McCartney, D. L., Harris, S. E., Stevenson, A. J., … Marioni, R. E. (2020). Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults. Springer Nature. <a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">https://doi.org/10.6084/m9.figshare.12629697.v1</a>","ieee":"R. F. Hillary <i>et al.</i>, “Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults.” Springer Nature, 2020.","mla":"Hillary, Robert F., et al. <i>Additional File 2 of Multi-Method Genome- and Epigenome-Wide Studies of Inflammatory Protein Levels in Healthy Older Adults</i>. Springer Nature, 2020, doi:<a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">10.6084/m9.figshare.12629697.v1</a>.","chicago":"Hillary, Robert F., Daniel Trejo-Banos, Athanasios Kousathanas, Daniel L. McCartney, Sarah E. Harris, Anna J. Stevenson, Marion Patxot, et al. “Additional File 2 of Multi-Method Genome- and Epigenome-Wide Studies of Inflammatory Protein Levels in Healthy Older Adults.” Springer Nature, 2020. <a href=\"https://doi.org/10.6084/m9.figshare.12629697.v1\">https://doi.org/10.6084/m9.figshare.12629697.v1</a>."},"day":"09","department":[{"_id":"MaRo"}],"article_processing_charge":"No","type":"research_data_reference","has_accepted_license":"1","publisher":"Springer Nature","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.12629697.v1","open_access":"1"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"doi":"10.6084/m9.figshare.12629697.v1","abstract":[{"text":"Additional file 2: Supplementary Tables. The association of pre-adjusted protein levels with biological and technical covariates. Protein levels were adjusted for age, sex, array plate and four genetic principal components (population structure) prior to analyses. Significant associations are emboldened. (Table S1). pQTLs associated with inflammatory biomarker levels from Bayesian penalised regression model (Posterior Inclusion Probability > 95%). (Table S2). All pQTLs associated with inflammatory biomarker levels from ordinary least squares regression model (P < 7.14 × 10− 10). (Table S3). Summary of lambda values relating to ordinary least squares GWAS and EWAS performed on inflammatory protein levels (n = 70) in Lothian Birth Cohort 1936 study. (Table S4). Conditionally significant pQTLs associated with inflammatory biomarker levels from ordinary least squares regression model (P < 7.14 × 10− 10). (Table S5). Comparison of variance explained by ordinary least squares and Bayesian penalised regression models for concordantly identified SNPs. (Table S6). Estimate of heritability for blood protein levels as well as proportion of variance explained attributable to different prior mixtures. (Table S7). Comparison of heritability estimates from Ahsan et al. (maximum likelihood) and Hillary et al. (Bayesian penalised regression). (Table S8). List of concordant SNPs identified by linear model and Bayesian penalised regression and whether they have been previously identified as eQTLs. (Table S9). Bayesian tests of colocalisation for cis pQTLs and cis eQTLs. (Table S10). Sherlock algorithm: Genes whose expression are putatively associated with circulating inflammatory proteins that harbour pQTLs. (Table S11). CpGs associated with inflammatory protein biomarkers as identified by Bayesian model (Bayesian model; Posterior Inclusion Probability > 95%). (Table S12). CpGs associated with inflammatory protein biomarkers as identified by linear model (limma) at P < 5.14 × 10− 10. (Table S13). CpGs associated with inflammatory protein biomarkers as identified by mixed linear model (OSCA) at P < 5.14 × 10− 10. (Table S14). Estimate of variance explained for blood protein levels by DNA methylation as well as proportion of explained attributable to different prior mixtures - BayesR+. (Table S15). Comparison of variance in protein levels explained by genome-wide DNA methylation data by mixed linear model (OSCA) and Bayesian penalised regression model (BayesR+). (Table S16). Variance in circulating inflammatory protein biomarker levels explained by common genetic and methylation data (joint and conditional estimates from BayesR+). Ordered by combined variance explained by genetic and epigenetic data - smallest to largest. Significant results from t-tests comparing distributions for variance explained by methylation or genetics alone versus combined estimate are emboldened. (Table S17). Genetic and epigenetic factors identified by BayesR+ when conditioning on all SNPs and CpGs together. (Table S18). Mendelian Randomisation analyses to assess whether proteins with concordantly identified genetic signals are causally associated with Alzheimer’s disease risk. (Table S19).","lang":"eng"}],"year":"2020","_id":"9706","oa":1,"title":"Additional file 2 of multi-method genome- and epigenome-wide studies of inflammatory protein levels in healthy older adults","author":[{"full_name":"Hillary, Robert F.","last_name":"Hillary","first_name":"Robert F."},{"first_name":"Daniel","full_name":"Trejo-Banos, Daniel","last_name":"Trejo-Banos"},{"first_name":"Athanasios","full_name":"Kousathanas, Athanasios","last_name":"Kousathanas"},{"first_name":"Daniel L.","last_name":"McCartney","full_name":"McCartney, Daniel L."},{"first_name":"Sarah E.","last_name":"Harris","full_name":"Harris, Sarah E."},{"full_name":"Stevenson, Anna J.","last_name":"Stevenson","first_name":"Anna J."},{"full_name":"Patxot, Marion","last_name":"Patxot","first_name":"Marion"},{"first_name":"Sven Erik","last_name":"Ojavee","full_name":"Ojavee, Sven Erik"},{"full_name":"Zhang, Qian","last_name":"Zhang","first_name":"Qian"},{"full_name":"Liewald, David C.","last_name":"Liewald","first_name":"David C."},{"last_name":"Ritchie","full_name":"Ritchie, Craig W.","first_name":"Craig W."},{"full_name":"Evans, Kathryn L.","last_name":"Evans","first_name":"Kathryn L."},{"first_name":"Elliot M.","full_name":"Tucker-Drob, Elliot M.","last_name":"Tucker-Drob"},{"first_name":"Naomi R.","last_name":"Wray","full_name":"Wray, Naomi R."},{"full_name":"McRae, Allan F. ","last_name":"McRae","first_name":"Allan F. "},{"first_name":"Peter M.","last_name":"Visscher","full_name":"Visscher, Peter M."},{"first_name":"Ian J.","full_name":"Deary, Ian J.","last_name":"Deary"},{"last_name":"Robinson","full_name":"Robinson, Matthew Richard","first_name":"Matthew Richard","id":"E5D42276-F5DA-11E9-8E24-6303E6697425","orcid":"0000-0001-8982-8813"},{"first_name":"Riccardo E. ","full_name":"Marioni, Riccardo E. ","last_name":"Marioni"}],"related_material":{"record":[{"id":"8133","status":"public","relation":"used_in_publication"}]},"status":"public","date_updated":"2023-08-22T07:55:36Z"},{"date_updated":"2023-08-21T07:06:48Z","status":"public","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"7942"}]},"author":[{"first_name":"Mate","last_name":"Hartstein","full_name":"Hartstein, Mate"},{"first_name":"Yu-Te","full_name":"Hsu, Yu-Te","last_name":"Hsu"},{"id":"13C26AC0-EB69-11E9-87C6-5F3BE6697425","first_name":"Kimberly A","full_name":"Modic, Kimberly A","last_name":"Modic","orcid":"0000-0001-9760-3147"},{"first_name":"Juan","full_name":"Porras, Juan","last_name":"Porras"},{"first_name":"Toshinao","full_name":"Loew, Toshinao","last_name":"Loew"},{"full_name":"Le Tacon, Matthieu","last_name":"Le Tacon","first_name":"Matthieu"},{"first_name":"Huakun","last_name":"Zuo","full_name":"Zuo, Huakun"},{"first_name":"Jinhua","full_name":"Wang, Jinhua","last_name":"Wang"},{"last_name":"Zhu","full_name":"Zhu, Zengwei","first_name":"Zengwei"},{"last_name":"Chan","full_name":"Chan, Mun","first_name":"Mun"},{"first_name":"Ross","last_name":"McDonald","full_name":"McDonald, Ross"},{"last_name":"Lonzarich","full_name":"Lonzarich, Gilbert","first_name":"Gilbert"},{"first_name":"Bernhard","full_name":"Keimer, Bernhard","last_name":"Keimer"},{"last_name":"Sebastian","full_name":"Sebastian, Suchitra","first_name":"Suchitra"},{"first_name":"Neil","last_name":"Harrison","full_name":"Harrison, Neil"}],"oa":1,"title":"Accompanying dataset for 'Hard antinodal gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors'","_id":"9708","year":"2020","abstract":[{"lang":"eng","text":"This research data supports 'Hard antinodal gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors'. A Readme file for plotting each figure is provided."}],"doi":"10.17863/cam.50169","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.17863/CAM.50169"}],"publisher":"Apollo - University of Cambridge","has_accepted_license":"1","type":"research_data_reference","article_processing_charge":"No","department":[{"_id":"KiMo"}],"day":"29","citation":{"ieee":"M. Hartstein <i>et al.</i>, “Accompanying dataset for ‘Hard antinodal gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors.’” Apollo - University of Cambridge, 2020.","apa":"Hartstein, M., Hsu, Y.-T., Modic, K. A., Porras, J., Loew, T., Le Tacon, M., … Harrison, N. (2020). Accompanying dataset for “Hard antinodal gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors.” Apollo - University of Cambridge. <a href=\"https://doi.org/10.17863/cam.50169\">https://doi.org/10.17863/cam.50169</a>","short":"M. Hartstein, Y.-T. Hsu, K.A. Modic, J. Porras, T. Loew, M. Le Tacon, H. Zuo, J. Wang, Z. Zhu, M. Chan, R. McDonald, G. Lonzarich, B. Keimer, S. Sebastian, N. Harrison, (2020).","ista":"Hartstein M, Hsu Y-T, Modic KA, Porras J, Loew T, Le Tacon M, Zuo H, Wang J, Zhu Z, Chan M, McDonald R, Lonzarich G, Keimer B, Sebastian S, Harrison N. 2020. Accompanying dataset for ‘Hard antinodal gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors’, Apollo - University of Cambridge, <a href=\"https://doi.org/10.17863/cam.50169\">10.17863/cam.50169</a>.","ama":"Hartstein M, Hsu Y-T, Modic KA, et al. Accompanying dataset for “Hard antinodal gap revealed by quantum oscillations in the pseudogap regime of underdoped high-Tc superconductors.” 2020. doi:<a href=\"https://doi.org/10.17863/cam.50169\">10.17863/cam.50169</a>","chicago":"Hartstein, Mate, Yu-Te Hsu, Kimberly A Modic, Juan Porras, Toshinao Loew, Matthieu Le Tacon, Huakun Zuo, et al. “Accompanying Dataset for ‘Hard Antinodal Gap Revealed by Quantum Oscillations in the Pseudogap Regime of Underdoped High-Tc Superconductors.’” Apollo - University of Cambridge, 2020. <a href=\"https://doi.org/10.17863/cam.50169\">https://doi.org/10.17863/cam.50169</a>.","mla":"Hartstein, Mate, et al. <i>Accompanying Dataset for “Hard Antinodal Gap Revealed by Quantum Oscillations in the Pseudogap Regime of Underdoped High-Tc Superconductors.”</i> Apollo - University of Cambridge, 2020, doi:<a href=\"https://doi.org/10.17863/cam.50169\">10.17863/cam.50169</a>."},"month":"05","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","date_published":"2020-05-29T00:00:00Z","oa_version":"Published Version","date_created":"2021-07-23T10:00:35Z"},{"year":"2020","abstract":[{"text":"Additional analyses of the trajectories","lang":"eng"}],"doi":"10.1021/jacs.9b13450.s001","author":[{"first_name":"Chitrak","full_name":"Gupta, Chitrak","last_name":"Gupta"},{"last_name":"Khaniya","full_name":"Khaniya, Umesh","first_name":"Umesh"},{"last_name":"Chan","full_name":"Chan, Chun Kit","first_name":"Chun Kit"},{"last_name":"Dehez","full_name":"Dehez, Francois","first_name":"Francois"},{"full_name":"Shekhar, Mrinal","last_name":"Shekhar","first_name":"Mrinal"},{"first_name":"M.R.","full_name":"Gunner, M.R.","last_name":"Gunner"},{"last_name":"Sazanov","full_name":"Sazanov, Leonid A","first_name":"Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0977-7989"},{"last_name":"Chipot","full_name":"Chipot, Christophe","first_name":"Christophe"},{"full_name":"Singharoy, Abhishek","last_name":"Singharoy","first_name":"Abhishek"}],"title":"Supporting information","_id":"9713","status":"public","related_material":{"record":[{"id":"8040","relation":"used_in_publication","status":"public"}]},"date_updated":"2023-08-22T07:49:38Z","date_published":"2020-05-20T00:00:00Z","date_created":"2021-07-23T12:02:39Z","oa_version":"Published Version","department":[{"_id":"LeSa"}],"day":"20","citation":{"chicago":"Gupta, Chitrak, Umesh Khaniya, Chun Kit Chan, Francois Dehez, Mrinal Shekhar, M.R. Gunner, Leonid A Sazanov, Christophe Chipot, and Abhishek Singharoy. “Supporting Information.” American Chemical Society , 2020. <a href=\"https://doi.org/10.1021/jacs.9b13450.s001\">https://doi.org/10.1021/jacs.9b13450.s001</a>.","mla":"Gupta, Chitrak, et al. <i>Supporting Information</i>. American Chemical Society , 2020, doi:<a href=\"https://doi.org/10.1021/jacs.9b13450.s001\">10.1021/jacs.9b13450.s001</a>.","apa":"Gupta, C., Khaniya, U., Chan, C. K., Dehez, F., Shekhar, M., Gunner, M. R., … Singharoy, A. (2020). Supporting information. American Chemical Society . <a href=\"https://doi.org/10.1021/jacs.9b13450.s001\">https://doi.org/10.1021/jacs.9b13450.s001</a>","ieee":"C. Gupta <i>et al.</i>, “Supporting information.” American Chemical Society , 2020.","ama":"Gupta C, Khaniya U, Chan CK, et al. Supporting information. 2020. doi:<a href=\"https://doi.org/10.1021/jacs.9b13450.s001\">10.1021/jacs.9b13450.s001</a>","short":"C. Gupta, U. Khaniya, C.K. Chan, F. Dehez, M. Shekhar, M.R. Gunner, L.A. Sazanov, C. Chipot, A. Singharoy, (2020).","ista":"Gupta C, Khaniya U, Chan CK, Dehez F, Shekhar M, Gunner MR, Sazanov LA, Chipot C, Singharoy A. 2020. Supporting information, American Chemical Society , <a href=\"https://doi.org/10.1021/jacs.9b13450.s001\">10.1021/jacs.9b13450.s001</a>."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","month":"05","type":"research_data_reference","article_processing_charge":"No","publisher":"American Chemical Society "},{"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"SSU"}],"date_created":"2021-07-29T11:29:50Z","oa_version":"Preprint","date_published":"2020-11-20T00:00:00Z","month":"11","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","department":[{"_id":"CaHe"},{"_id":"EM-Fac"},{"_id":"Bio"}],"day":"20","citation":{"apa":"Slovakova, J., Sikora, M. K., Caballero Mancebo, S., Krens, G., Kaufmann, W., Huljev, K., &#38; Heisenberg, C.-P. J. (2020). Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion. <i>bioRxiv</i>. Cold Spring Harbor Laboratory. <a href=\"https://doi.org/10.1101/2020.11.20.391284\">https://doi.org/10.1101/2020.11.20.391284</a>","ieee":"J. Slovakova <i>et al.</i>, “Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion,” <i>bioRxiv</i>. Cold Spring Harbor Laboratory, 2020.","ista":"Slovakova J, Sikora MK, Caballero Mancebo S, Krens G, Kaufmann W, Huljev K, Heisenberg C-PJ. 2020. Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion. bioRxiv, <a href=\"https://doi.org/10.1101/2020.11.20.391284\">10.1101/2020.11.20.391284</a>.","ama":"Slovakova J, Sikora MK, Caballero Mancebo S, et al. Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion. <i>bioRxiv</i>. 2020. doi:<a href=\"https://doi.org/10.1101/2020.11.20.391284\">10.1101/2020.11.20.391284</a>","short":"J. Slovakova, M.K. Sikora, S. Caballero Mancebo, G. Krens, W. Kaufmann, K. Huljev, C.-P.J. Heisenberg, BioRxiv (2020).","chicago":"Slovakova, Jana, Mateusz K Sikora, Silvia Caballero Mancebo, Gabriel Krens, Walter Kaufmann, Karla Huljev, and Carl-Philipp J Heisenberg. “Tension-Dependent Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion.” <i>BioRxiv</i>. Cold Spring Harbor Laboratory, 2020. <a href=\"https://doi.org/10.1101/2020.11.20.391284\">https://doi.org/10.1101/2020.11.20.391284</a>.","mla":"Slovakova, Jana, et al. “Tension-Dependent Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion.” <i>BioRxiv</i>, Cold Spring Harbor Laboratory, 2020, doi:<a href=\"https://doi.org/10.1101/2020.11.20.391284\">10.1101/2020.11.20.391284</a>."},"type":"preprint","language":[{"iso":"eng"}],"article_processing_charge":"No","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2020.11.20.391284"}],"publisher":"Cold Spring Harbor Laboratory","doi":"10.1101/2020.11.20.391284","year":"2020","abstract":[{"text":"Tension of the actomyosin cell cortex plays a key role in determining cell-cell contact growth and size. The level of cortical tension outside of the cell-cell contact, when pulling at the contact edge, scales with the total size to which a cell-cell contact can grow1,2. Here we show in zebrafish primary germ layer progenitor cells that this monotonic relationship only applies to a narrow range of cortical tension increase, and that above a critical threshold, contact size inversely scales with cortical tension. This switch from cortical tension increasing to decreasing progenitor cell-cell contact size is caused by cortical tension promoting E-cadherin anchoring to the actomyosin cytoskeleton, thereby increasing clustering and stability of E-cadherin at the contact. Once tension-mediated E-cadherin stabilization at the contact exceeds a critical threshold level, the rate by which the contact expands in response to pulling forces from the cortex sharply drops, leading to smaller contacts at physiologically relevant timescales of contact formation. Thus, the activity of cortical tension in expanding cell-cell contact size is limited by tension stabilizing E-cadherin-actin complexes at the contact.","lang":"eng"}],"_id":"9750","author":[{"full_name":"Slovakova, Jana","last_name":"Slovakova","id":"30F3F2F0-F248-11E8-B48F-1D18A9856A87","first_name":"Jana"},{"id":"2F74BCDE-F248-11E8-B48F-1D18A9856A87","first_name":"Mateusz K","full_name":"Sikora, Mateusz K","last_name":"Sikora"},{"id":"2F1E1758-F248-11E8-B48F-1D18A9856A87","first_name":"Silvia","full_name":"Caballero Mancebo, Silvia","last_name":"Caballero Mancebo","orcid":"0000-0002-5223-3346"},{"last_name":"Krens","full_name":"Krens, Gabriel","first_name":"Gabriel","id":"2B819732-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4761-5996"},{"orcid":"0000-0001-9735-5315","first_name":"Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","last_name":"Kaufmann","full_name":"Kaufmann, Walter"},{"id":"44C6F6A6-F248-11E8-B48F-1D18A9856A87","first_name":"Karla","full_name":"Huljev, Karla","last_name":"Huljev"},{"first_name":"Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566"}],"title":"Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion","oa":1,"ec_funded":1,"page":"41","publication_status":"published","acknowledgement":"We would like to thank Edouard Hannezo for discussions, Shayan Shami Pour and Daniel Capek for help with data analysis, Vanessa Barone and other members of the Heisenberg laboratory for thoughtful discussions and comments on the manuscript. We also thank Jack Merrin for preparing the microwells, and the Scientific Service Units at IST Austria, specifically Bioimaging and Electron Microscopy, and the Zebrafish Facility for continuous support. We acknowledge Hitoshi Morita for the kind gift of VinculinB-GFP plasmid. This research was supported by an ERC Advanced Grant (MECSPEC) to C.-P.H, EMBO Long Term grant (ALTF 187-2013) to M.S and IST Fellow Marie-Curie COFUND No. P_IST_EU01 to J.S.","status":"public","related_material":{"record":[{"id":"10766","relation":"later_version","status":"public"},{"id":"9623","relation":"dissertation_contains","status":"public"}]},"date_updated":"2024-03-25T23:30:10Z","project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","call_identifier":"H2020","_id":"260F1432-B435-11E9-9278-68D0E5697425","grant_number":"742573"},{"_id":"2521E28E-B435-11E9-9278-68D0E5697425","grant_number":"187-2013","name":"Modulation of adhesion function in cell-cell contact formation by cortical tension"}],"publication":"bioRxiv"},{"year":"2020","doi":"10.1371/journal.pcbi.1007642.s001","author":[{"orcid":"0000-0003-2539-3560","full_name":"Grah, Rok","last_name":"Grah","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","first_name":"Rok"},{"last_name":"Friedlander","full_name":"Friedlander, Tamar","first_name":"Tamar"}],"title":"Supporting information","_id":"9776","status":"public","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"7569"}]},"date_updated":"2023-08-18T06:47:47Z","date_published":"2020-02-25T00:00:00Z","date_created":"2021-08-06T07:15:04Z","oa_version":"Published Version","day":"25","department":[{"_id":"GaTk"}],"citation":{"chicago":"Grah, Rok, and Tamar Friedlander. “Supporting Information.” Public Library of Science, 2020. <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s001\">https://doi.org/10.1371/journal.pcbi.1007642.s001</a>.","mla":"Grah, Rok, and Tamar Friedlander. <i>Supporting Information</i>. Public Library of Science, 2020, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s001\">10.1371/journal.pcbi.1007642.s001</a>.","apa":"Grah, R., &#38; Friedlander, T. (2020). Supporting information. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s001\">https://doi.org/10.1371/journal.pcbi.1007642.s001</a>","ieee":"R. Grah and T. Friedlander, “Supporting information.” Public Library of Science, 2020.","ama":"Grah R, Friedlander T. Supporting information. 2020. doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s001\">10.1371/journal.pcbi.1007642.s001</a>","short":"R. Grah, T. Friedlander, (2020).","ista":"Grah R, Friedlander T. 2020. Supporting information, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s001\">10.1371/journal.pcbi.1007642.s001</a>."},"month":"02","user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","type":"research_data_reference","article_processing_charge":"No","publisher":"Public Library of Science"},{"date_published":"2020-02-25T00:00:00Z","date_created":"2021-08-06T07:21:51Z","oa_version":"None","department":[{"_id":"GaTk"}],"day":"25","citation":{"chicago":"Grah, Rok, and Tamar Friedlander. “Maximizing Crosstalk.” Public Library of Science, 2020. <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s002\">https://doi.org/10.1371/journal.pcbi.1007642.s002</a>.","mla":"Grah, Rok, and Tamar Friedlander. <i>Maximizing Crosstalk</i>. Public Library of Science, 2020, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s002\">10.1371/journal.pcbi.1007642.s002</a>.","ama":"Grah R, Friedlander T. Maximizing crosstalk. 2020. doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s002\">10.1371/journal.pcbi.1007642.s002</a>","short":"R. Grah, T. Friedlander, (2020).","ista":"Grah R, Friedlander T. 2020. Maximizing crosstalk, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s002\">10.1371/journal.pcbi.1007642.s002</a>.","ieee":"R. Grah and T. Friedlander, “Maximizing crosstalk.” Public Library of Science, 2020.","apa":"Grah, R., &#38; Friedlander, T. (2020). Maximizing crosstalk. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s002\">https://doi.org/10.1371/journal.pcbi.1007642.s002</a>"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","month":"02","type":"research_data_reference","article_processing_charge":"No","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1371/journal.pcbi.1007642.s002"}],"publisher":"Public Library of Science","year":"2020","doi":"10.1371/journal.pcbi.1007642.s002","author":[{"orcid":"0000-0003-2539-3560","full_name":"Grah, Rok","last_name":"Grah","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","first_name":"Rok"},{"last_name":"Friedlander","full_name":"Friedlander, Tamar","first_name":"Tamar"}],"title":"Maximizing crosstalk","oa":1,"_id":"9777","status":"public","related_material":{"record":[{"id":"7569","relation":"used_in_publication","status":"public"}]},"date_updated":"2023-09-12T11:02:25Z"},{"publisher":"Public Library of Science","type":"research_data_reference","article_processing_charge":"No","department":[{"_id":"GaTk"}],"day":"25","citation":{"chicago":"Grah, Rok, and Tamar Friedlander. “Distribution of Crosstalk Values.” Public Library of Science, 2020. <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s003\">https://doi.org/10.1371/journal.pcbi.1007642.s003</a>.","mla":"Grah, Rok, and Tamar Friedlander. <i>Distribution of Crosstalk Values</i>. Public Library of Science, 2020, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s003\">10.1371/journal.pcbi.1007642.s003</a>.","ista":"Grah R, Friedlander T. 2020. Distribution of crosstalk values, Public Library of Science, <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s003\">10.1371/journal.pcbi.1007642.s003</a>.","ama":"Grah R, Friedlander T. Distribution of crosstalk values. 2020. doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s003\">10.1371/journal.pcbi.1007642.s003</a>","short":"R. Grah, T. Friedlander, (2020).","apa":"Grah, R., &#38; Friedlander, T. (2020). Distribution of crosstalk values. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1007642.s003\">https://doi.org/10.1371/journal.pcbi.1007642.s003</a>","ieee":"R. Grah and T. Friedlander, “Distribution of crosstalk values.” Public Library of Science, 2020."},"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","month":"02","date_published":"2020-02-25T00:00:00Z","oa_version":"Published Version","date_created":"2021-08-06T07:24:37Z","date_updated":"2023-08-18T06:47:47Z","status":"public","related_material":{"record":[{"status":"public","relation":"research_data","id":"7569"}]},"author":[{"last_name":"Grah","full_name":"Grah, Rok","first_name":"Rok","id":"483E70DE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2539-3560"},{"full_name":"Friedlander, Tamar","last_name":"Friedlander","first_name":"Tamar"}],"title":"Distribution of crosstalk values","_id":"9779","year":"2020","doi":"10.1371/journal.pcbi.1007642.s003"},{"title":"CCDC 1991959: Experimental Crystal Structure Determination","oa":1,"author":[{"last_name":"Schlemmer","full_name":"Schlemmer, Werner","first_name":"Werner"},{"last_name":"Nothdurft","full_name":"Nothdurft, Philipp","first_name":"Philipp"},{"first_name":"Alina","full_name":"Petzold, Alina","last_name":"Petzold"},{"full_name":"Riess, Gisbert","last_name":"Riess","first_name":"Gisbert"},{"full_name":"Frühwirt, Philipp","last_name":"Frühwirt","first_name":"Philipp"},{"full_name":"Schmallegger, Max","last_name":"Schmallegger","first_name":"Max"},{"first_name":"Georg","full_name":"Gescheidt-Demner, Georg","last_name":"Gescheidt-Demner"},{"full_name":"Fischer, Roland","last_name":"Fischer","first_name":"Roland"},{"orcid":"0000-0003-2902-5319","first_name":"Stefan Alexander","id":"A8CA28E6-CE23-11E9-AD2D-EC27E6697425","last_name":"Freunberger","full_name":"Freunberger, Stefan Alexander"},{"full_name":"Kern, Wolfgang","last_name":"Kern","first_name":"Wolfgang"},{"first_name":"Stefan","full_name":"Spirk, Stefan","last_name":"Spirk"}],"_id":"9780","abstract":[{"text":"PADREV : 4,4'-dimethoxy[1,1'-biphenyl]-2,2',5,5'-tetrol\r\nSpace Group: C 2 (5), Cell: a 24.488(16)Å b 5.981(4)Å c 3.911(3)Å, α 90° β 91.47(3)° γ 90°","lang":"eng"}],"year":"2020","doi":"10.5517/ccdc.csd.cc24vsrk","date_updated":"2023-09-05T16:03:47Z","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"8329"}]},"status":"public","citation":{"chicago":"Schlemmer, Werner, Philipp Nothdurft, Alina Petzold, Gisbert Riess, Philipp Frühwirt, Max Schmallegger, Georg Gescheidt-Demner, et al. “CCDC 1991959: Experimental Crystal Structure Determination.” CCDC, 2020. <a href=\"https://doi.org/10.5517/ccdc.csd.cc24vsrk\">https://doi.org/10.5517/ccdc.csd.cc24vsrk</a>.","mla":"Schlemmer, Werner, et al. <i>CCDC 1991959: Experimental Crystal Structure Determination</i>. CCDC, 2020, doi:<a href=\"https://doi.org/10.5517/ccdc.csd.cc24vsrk\">10.5517/ccdc.csd.cc24vsrk</a>.","short":"W. Schlemmer, P. Nothdurft, A. Petzold, G. Riess, P. Frühwirt, M. Schmallegger, G. Gescheidt-Demner, R. Fischer, S.A. Freunberger, W. Kern, S. Spirk, (2020).","ama":"Schlemmer W, Nothdurft P, Petzold A, et al. CCDC 1991959: Experimental Crystal Structure Determination. 2020. doi:<a href=\"https://doi.org/10.5517/ccdc.csd.cc24vsrk\">10.5517/ccdc.csd.cc24vsrk</a>","ista":"Schlemmer W, Nothdurft P, Petzold A, Riess G, Frühwirt P, Schmallegger M, Gescheidt-Demner G, Fischer R, Freunberger SA, Kern W, Spirk S. 2020. CCDC 1991959: Experimental Crystal Structure Determination, CCDC, <a href=\"https://doi.org/10.5517/ccdc.csd.cc24vsrk\">10.5517/ccdc.csd.cc24vsrk</a>.","apa":"Schlemmer, W., Nothdurft, P., Petzold, A., Riess, G., Frühwirt, P., Schmallegger, M., … Spirk, S. (2020). CCDC 1991959: Experimental Crystal Structure Determination. 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Wiley, 2019. <a href=\"https://doi.org/10.1111/jnc.14601\">https://doi.org/10.1111/jnc.14601</a>.","short":"N. Amberg, S. Laukoter, S. Hippenmeyer, Journal of Neurochemistry 149 (2019) 12–26.","ama":"Amberg N, Laukoter S, Hippenmeyer S. Epigenetic cues modulating the generation of cell type diversity in the cerebral cortex. <i>Journal of Neurochemistry</i>. 2019;149(1):12-26. doi:<a href=\"https://doi.org/10.1111/jnc.14601\">10.1111/jnc.14601</a>","ista":"Amberg N, Laukoter S, Hippenmeyer S. 2019. Epigenetic cues modulating the generation of cell type diversity in the cerebral cortex. Journal of Neurochemistry. 149(1), 12–26.","ieee":"N. Amberg, S. Laukoter, and S. Hippenmeyer, “Epigenetic cues modulating the generation of cell type diversity in the cerebral cortex,” <i>Journal of Neurochemistry</i>, vol. 149, no. 1. Wiley, pp. 12–26, 2019.","apa":"Amberg, N., Laukoter, S., &#38; Hippenmeyer, S. (2019). Epigenetic cues modulating the generation of cell type diversity in the cerebral cortex. <i>Journal of Neurochemistry</i>. Wiley. <a href=\"https://doi.org/10.1111/jnc.14601\">https://doi.org/10.1111/jnc.14601</a>"},"day":"01","ec_funded":1,"publication_status":"published","status":"public","acknowledgement":" This work was supported by IST Austria institutional funds; NÖ Forschung und Bildung \r\nn[f+b]   (C13-002)   to   SH;   a   program   grant   from   the   Human   Frontiers   Science   Program (RGP0053/2014)  to SH;  the  People  Programme  (Marie  Curie  Actions)  of  the  European  Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement No 618444 to SH, and the  European  Research  Council  (ERC)  under  the  European  Union’s  Horizon  2020  research  and innovation programme (grant agreement No 725780 LinPro)to SH.\r\n","project":[{"grant_number":"LS13-002","_id":"25D92700-B435-11E9-9278-68D0E5697425","name":"Mapping Cell-Type Specificity of the Genomic Imprintome in the Brain"},{"_id":"25D7962E-B435-11E9-9278-68D0E5697425","grant_number":"RGP0053/2014","name":"Quantitative Structure-Function Analysis of Cerebral Cortex Assembly at Clonal Level"},{"name":"Molecular Mechanisms of Cerebral Cortex Development","call_identifier":"FP7","grant_number":"618444","_id":"25D61E48-B435-11E9-9278-68D0E5697425"},{"name":"Principles of Neural Stem Cell Lineage Progression in Cerebral Cortex Development","call_identifier":"H2020","grant_number":"725780","_id":"260018B0-B435-11E9-9278-68D0E5697425"}],"doi":"10.1111/jnc.14601","abstract":[{"text":"The cerebral cortex is composed of a large variety of distinct cell-types including projection neurons, interneurons and glial cells which emerge from distinct neural stem cell (NSC) lineages. The vast majority of cortical projection neurons and certain classes of glial cells are generated by radial glial progenitor cells (RGPs) in a highly orchestrated manner. Recent studies employing single cell analysis and clonal lineage tracing suggest that NSC and RGP lineage progression are regulated in a profound deterministic manner. In this review we focus on recent advances based mainly on correlative phenotypic data emerging from functional genetic studies in mice. We establish hypotheses to test in future research and outline a conceptual framework how epigenetic cues modulate the generation of cell-type diversity during cortical development. This article is protected by copyright. All rights reserved.","lang":"eng"}],"issue":"1","_id":"27","title":"Epigenetic cues modulating the generation of cell type diversity in the cerebral cortex","author":[{"first_name":"Nicole","id":"4CD6AAC6-F248-11E8-B48F-1D18A9856A87","last_name":"Amberg","full_name":"Amberg, Nicole","orcid":"0000-0002-3183-8207"},{"last_name":"Laukoter","full_name":"Laukoter, Susanne","first_name":"Susanne","id":"2D6B7A9A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7903-3010"},{"last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061"}]},{"arxiv":1,"volume":129,"article_processing_charge":"No","month":"03","day":"01","citation":{"apa":"Gerencser, M., &#38; Gyöngy, I. (2019). A Feynman–Kac formula for stochastic Dirichlet problems. <i>Stochastic Processes and Their Applications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.spa.2018.04.003\">https://doi.org/10.1016/j.spa.2018.04.003</a>","ieee":"M. Gerencser and I. Gyöngy, “A Feynman–Kac formula for stochastic Dirichlet problems,” <i>Stochastic Processes and their Applications</i>, vol. 129, no. 3. Elsevier, pp. 995–1012, 2019.","short":"M. Gerencser, I. Gyöngy, Stochastic Processes and Their Applications 129 (2019) 995–1012.","ista":"Gerencser M, Gyöngy I. 2019. A Feynman–Kac formula for stochastic Dirichlet problems. Stochastic Processes and their Applications. 129(3), 995–1012.","ama":"Gerencser M, Gyöngy I. A Feynman–Kac formula for stochastic Dirichlet problems. <i>Stochastic Processes and their Applications</i>. 2019;129(3):995-1012. doi:<a href=\"https://doi.org/10.1016/j.spa.2018.04.003\">10.1016/j.spa.2018.04.003</a>","mla":"Gerencser, Mate, and István Gyöngy. “A Feynman–Kac Formula for Stochastic Dirichlet Problems.” <i>Stochastic Processes and Their Applications</i>, vol. 129, no. 3, Elsevier, 2019, pp. 995–1012, doi:<a href=\"https://doi.org/10.1016/j.spa.2018.04.003\">10.1016/j.spa.2018.04.003</a>.","chicago":"Gerencser, Mate, and István Gyöngy. “A Feynman–Kac Formula for Stochastic Dirichlet Problems.” <i>Stochastic Processes and Their Applications</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.spa.2018.04.003\">https://doi.org/10.1016/j.spa.2018.04.003</a>."},"oa_version":"Preprint","status":"public","publication_status":"published","_id":"301","author":[{"last_name":"Gerencser","full_name":"Gerencser, Mate","first_name":"Mate","id":"44ECEDF2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Gyöngy, István","last_name":"Gyöngy","first_name":"István"}],"title":"A Feynman–Kac formula for stochastic Dirichlet problems","doi":"10.1016/j.spa.2018.04.003","issue":"3","abstract":[{"lang":"eng","text":"A representation formula for solutions of stochastic partial differential equations with Dirichlet boundary conditions is proved. The scope of our setting is wide enough to cover the general situation when the backward characteristics that appear in the usual formulation are not even defined in the Itô sense."}],"intvolume":"       129","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1611.04177"}],"publisher":"Elsevier","language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JaMa"}],"scopus_import":"1","date_created":"2018-12-11T11:45:42Z","external_id":{"isi":["000458945300012"],"arxiv":["1611.04177"]},"date_published":"2019-03-01T00:00:00Z","date_updated":"2023-08-24T14:20:49Z","publication":"Stochastic Processes and their Applications","article_type":"original","page":"995-1012","oa":1,"year":"2019"},{"oa":1,"year":"2019","publication":"Probability Theory and Related Fields","date_updated":"2023-08-24T14:38:32Z","page":"697–758","article_type":"original","department":[{"_id":"JaMa"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publist_id":"7546","date_published":"2019-04-01T00:00:00Z","external_id":{"isi":["000463613800001"]},"date_created":"2018-12-11T11:45:48Z","scopus_import":"1","publisher":"Springer","intvolume":"       173","isi":1,"type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"title":"Singular SPDEs in domains with boundaries","author":[{"id":"44ECEDF2-F248-11E8-B48F-1D18A9856A87","first_name":"Mate","full_name":"Gerencser, Mate","last_name":"Gerencser"},{"last_name":"Hairer","full_name":"Hairer, Martin","first_name":"Martin"}],"_id":"319","abstract":[{"lang":"eng","text":"We study spaces of modelled distributions with singular behaviour near the boundary of a domain that, in the context of the theory of regularity structures, allow one to give robust solution theories for singular stochastic PDEs with boundary conditions. The calculus of modelled distributions established in Hairer (Invent Math 198(2):269–504, 2014. https://doi.org/10.1007/s00222-014-0505-4) is extended to this setting. We formulate and solve fixed point problems in these spaces with a class of kernels that is sufficiently large to cover in particular the Dirichlet and Neumann heat kernels. These results are then used to provide solution theories for the KPZ equation with Dirichlet and Neumann boundary conditions and for the 2D generalised parabolic Anderson model with Dirichlet boundary conditions. In the case of the KPZ equation with Neumann boundary conditions, we show that, depending on the class of mollifiers one considers, a “boundary renormalisation” takes place. In other words, there are situations in which a certain boundary condition is applied to an approximation to the KPZ equation, but the limiting process is the Hopf–Cole solution to the KPZ equation with a different boundary condition."}],"issue":"3-4","doi":"10.1007/s00440-018-0841-1","publication_identifier":{"issn":["01788051"],"eissn":["14322064"]},"project":[{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"status":"public","acknowledgement":"MG thanks the support of the LMS Postdoctoral Mobility Grant.\r\n\r\n","publication_status":"published","citation":{"apa":"Gerencser, M., &#38; Hairer, M. (2019). Singular SPDEs in domains with boundaries. <i>Probability Theory and Related Fields</i>. Springer. <a href=\"https://doi.org/10.1007/s00440-018-0841-1\">https://doi.org/10.1007/s00440-018-0841-1</a>","ieee":"M. Gerencser and M. Hairer, “Singular SPDEs in domains with boundaries,” <i>Probability Theory and Related Fields</i>, vol. 173, no. 3–4. Springer, pp. 697–758, 2019.","ama":"Gerencser M, Hairer M. Singular SPDEs in domains with boundaries. <i>Probability Theory and Related Fields</i>. 2019;173(3-4):697–758. doi:<a href=\"https://doi.org/10.1007/s00440-018-0841-1\">10.1007/s00440-018-0841-1</a>","ista":"Gerencser M, Hairer M. 2019. Singular SPDEs in domains with boundaries. Probability Theory and Related Fields. 173(3–4), 697–758.","short":"M. Gerencser, M. Hairer, Probability Theory and Related Fields 173 (2019) 697–758.","chicago":"Gerencser, Mate, and Martin Hairer. “Singular SPDEs in Domains with Boundaries.” <i>Probability Theory and Related Fields</i>. Springer, 2019. <a href=\"https://doi.org/10.1007/s00440-018-0841-1\">https://doi.org/10.1007/s00440-018-0841-1</a>.","mla":"Gerencser, Mate, and Martin Hairer. “Singular SPDEs in Domains with Boundaries.” <i>Probability Theory and Related Fields</i>, vol. 173, no. 3–4, Springer, 2019, pp. 697–758, doi:<a href=\"https://doi.org/10.1007/s00440-018-0841-1\">10.1007/s00440-018-0841-1</a>."},"day":"01","ddc":["510"],"month":"04","file_date_updated":"2020-07-14T12:46:03Z","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"date_updated":"2020-07-14T12:46:03Z","access_level":"open_access","content_type":"application/pdf","checksum":"288d16ef7291242f485a9660979486e3","file_name":"2018_ProbTheory_Gerencser.pdf","file_size":893182,"relation":"main_file","creator":"dernst","file_id":"5722","date_created":"2018-12-17T16:25:24Z"}],"has_accepted_license":"1","volume":173,"article_processing_charge":"Yes (via OA deal)"},{"article_processing_charge":"No","volume":5,"arxiv":1,"oa_version":"Preprint","day":"02","citation":{"chicago":"Ionica, Sorina, Pınar Kılıçer, Kristin Lauter, Elisa Lorenzo García, Maria-Adelina Manzateanu, Maike Massierer, and Christelle Vincent. “Modular Invariants for Genus 3 Hyperelliptic Curves.” <i>Research in Number Theory</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1007/s40993-018-0146-6\">https://doi.org/10.1007/s40993-018-0146-6</a>.","mla":"Ionica, Sorina, et al. “Modular Invariants for Genus 3 Hyperelliptic Curves.” <i>Research in Number Theory</i>, vol. 5, 9, Springer Nature, 2019, doi:<a href=\"https://doi.org/10.1007/s40993-018-0146-6\">10.1007/s40993-018-0146-6</a>.","ama":"Ionica S, Kılıçer P, Lauter K, et al. Modular invariants for genus 3 hyperelliptic curves. <i>Research in Number Theory</i>. 2019;5. doi:<a href=\"https://doi.org/10.1007/s40993-018-0146-6\">10.1007/s40993-018-0146-6</a>","short":"S. Ionica, P. Kılıçer, K. Lauter, E. Lorenzo García, M.-A. Manzateanu, M. Massierer, C. Vincent, Research in Number Theory 5 (2019).","ista":"Ionica S, Kılıçer P, Lauter K, Lorenzo García E, Manzateanu M-A, Massierer M, Vincent C. 2019. Modular invariants for genus 3 hyperelliptic curves. Research in Number Theory. 5, 9.","apa":"Ionica, S., Kılıçer, P., Lauter, K., Lorenzo García, E., Manzateanu, M.-A., Massierer, M., &#38; Vincent, C. (2019). Modular invariants for genus 3 hyperelliptic curves. <i>Research in Number Theory</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s40993-018-0146-6\">https://doi.org/10.1007/s40993-018-0146-6</a>","ieee":"S. Ionica <i>et al.</i>, “Modular invariants for genus 3 hyperelliptic curves,” <i>Research in Number Theory</i>, vol. 5. Springer Nature, 2019."},"month":"01","status":"public","acknowledgement":"The authors would like to thank the Lorentz Center in Leiden for hosting the Women in Numbers Europe 2 workshop and providing a productive and enjoyable environment for our initial work on this project. We are grateful to the organizers of WIN-E2, Irene Bouw, Rachel Newton and Ekin Ozman, for making this conference and this collaboration possible. We\r\nthank Irene Bouw and Christophe Ritzenhaler for helpful discussions. Ionica acknowledges support from the Thomas Jefferson Fund of the Embassy of France in the United States and the FACE Foundation. Most of Kılıçer’s work was carried out during her stay in Universiteit Leiden and Carl von Ossietzky Universität Oldenburg. Massierer was supported by the Australian Research Council (DP150101689). Vincent is supported by the National Science Foundation under Grant No. DMS-1802323 and by the Thomas Jefferson Fund of the Embassy of France in the United States and the FACE Foundation. ","publication_status":"published","publication_identifier":{"eissn":["2363-9555"],"issn":["2522-0160"]},"abstract":[{"text":"In this article we prove an analogue of a theorem of Lachaud, Ritzenthaler, and Zykin, which allows us to connect invariants of binary octics to Siegel modular forms of genus 3. We use this connection to show that certain modular functions, when restricted to the hyperelliptic locus, assume values whose denominators are products of powers of primes of bad reduction for the associated hyperelliptic curves. We illustrate our theorem with explicit computations. This work is motivated by the study of the values of these modular functions at CM points of the Siegel upper half-space, which, if their denominators are known, can be used to effectively compute models of (hyperelliptic, in our case) curves with CM.","lang":"eng"}],"doi":"10.1007/s40993-018-0146-6","author":[{"last_name":"Ionica","full_name":"Ionica, Sorina","first_name":"Sorina"},{"last_name":"Kılıçer","full_name":"Kılıçer, Pınar","first_name":"Pınar"},{"full_name":"Lauter, Kristin","last_name":"Lauter","first_name":"Kristin"},{"first_name":"Elisa","last_name":"Lorenzo García","full_name":"Lorenzo García, Elisa"},{"last_name":"Manzateanu","full_name":"Manzateanu, Maria-Adelina","first_name":"Maria-Adelina","id":"be8d652e-a908-11ec-82a4-e2867729459c"},{"first_name":"Maike","last_name":"Massierer","full_name":"Massierer, Maike"},{"last_name":"Vincent","full_name":"Vincent, Christelle","first_name":"Christelle"}],"title":"Modular invariants for genus 3 hyperelliptic curves","_id":"10874","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"intvolume":"         5","main_file_link":[{"url":"https://arxiv.org/abs/1807.08986","open_access":"1"}],"publisher":"Springer Nature","external_id":{"arxiv":["1807.08986"]},"date_published":"2019-01-02T00:00:00Z","scopus_import":"1","date_created":"2022-03-18T12:09:48Z","department":[{"_id":"TiBr"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_type":"original","article_number":"9","publication":"Research in Number Theory","date_updated":"2023-09-05T15:39:31Z","year":"2019","keyword":["Algebra and Number Theory"],"oa":1}]