Widespread reorganisation of pluripotent factor binding and gene regulatory interactions between human pluripotent states von Chovanec, Peter, Collier, Amanda J., Krueger, Christel, Várnai, Csilla, Semprich, Claudia I., Schoenfelder, Stefan, Corcoran, Anne E., Rugg-Gunn, Peter J.

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ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesinSTAG1 from WAPL von Wutz, Gordana, Ladurner, Rene, St Hilaire, Brian Glenn, Stocsits, Roman R, Nagasaka, Kota, Pignard, Benoit, Sanborn, Adrian, Tang, Wen, Várnai, Csilla, Ivanov, Miroslav P, Schoenfelder, Stefan, van der Lelij, Petra, Huang, Xingfan, Dürnberger, Gerhard, Roitinger, Elisabeth, Mechtler, Karl, Davidson, Iain Finley, Fraser, Peter, Lieberman-Aiden, Erez, Peters, Jan-Michael

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Severity of COVID-19 in children with cancer: Report from the United Kingdom Paediatric Coronavirus Cancer Monitoring Project von Millen, Gerard C., Arnold, Roland, Cazier, Jean-Baptiste, Curley, Helen, Feltbower, Richard G., Gamble, Ashley, Glaser, Adam W., Grundy, Richard G., Lee, Lennard Y. W., McCabe, Martin G., Phillips, Robert S., Stiller, Charles A., Várnai, Csilla, Kearns, Pamela R.

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Global reorganisation of cis -regulatory units upon lineage commitment of human embryonic stem cells von Freire-Pritchett, Paula, Schoenfelder, Stefan, Várnai, Csilla, Wingett, Steven W, Cairns, Jonathan, Collier, Amanda J, García-Vílchez, Raquel, Furlan-Magaril, Mayra, Osborne, Cameron S, Fraser, Peter, Rugg-Gunn, Peter J, Spivakov, Mikhail

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Tests of an Adaptive QM/MM Calculation on Free Energy Profiles of Chemical Reactions in Solution von Várnai, Csilla, Bernstein, Noam, Mones, Letif, Csányi, Gábor

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Cell-cycle dynamics of chromosomal organization at single-cell resolution von Nagano, Takashi, Lubling, Yaniv, Várnai, Csilla, Dudley, Carmel, Leung, Wing, Baran, Yael, Mendelson Cohen, Netta, Wingett, Steven, Fraser, Peter, Tanay, Amos

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Improving protein-protein interaction prediction using evolutionary information from low-quality MSAs von Várnai, Csilla, Burkoff, Nikolas S, Wild, David L

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Efficient Parameter Estimation of Generalizable Coarse-Grained Protein Force Fields Using Contrastive Divergence: A Maximum Likelihood Approach von Várnai, Csilla, Burkoff, Nikolas S, Wild, David L

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Topologically associating domains and chromatin loops depend on cohesin and are regulated by CTCF, WAPL, and PDS5 proteins von Wutz, Gordana, Várnai, Csilla, Nagasaka, Kota, Cisneros, David A, Stocsits, Roman R, Tang, Wen, Schoenfelder, Stefan, Jessberger, Gregor, Muhar, Matthias, Hossain, M Julius, Walther, Nike, Koch, Birgit, Kueblbeck, Moritz, Ellenberg, Jan, Zuber, Johannes, Fraser, Peter, Peters, Jan‐Michael

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CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data von Cairns, Jonathan, Freire-Pritchett, Paula, Wingett, Steven W, Várnai, Csilla, Dimond, Andrew, Plagnol, Vincent, Zerbino, Daniel, Schoenfelder, Stefan, Javierre, Biola-Maria, Osborne, Cameron, Fraser, Peter, Spivakov, Mikhail

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Comparison of Hi-C results using in-solution versus in-nucleus ligation von Nagano, Takashi, Várnai, Csilla, Schoenfelder, Stefan, Javierre, Biola-Maria, Wingett, Steven W, Fraser, Peter

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COVID-19 mortality in patients with cancer on chemotherapy or other anticancer treatments: a prospective cohort study von Lee, Lennard YW, Cazier, Jean-Baptiste, Angelis, Vasileios, Arnold, Roland, Bisht, Vartika, Campton, Naomi A, Chackathayil, Julia, Cheng, Vinton WT, Curley, Helen M, Fittall, Matthew W, Freeman-Mills, Luke, Gennatas, Spyridon, Goel, Anshita, Hartley, Simon, Hughes, Daniel J, Kerr, David, Lee, Alvin JX, Lee, Rebecca J, McGrath, Sophie E, Middleton, Christopher P, Murugaesu, Nirupa, Newsom-Davis, Thomas, Okines, Alicia FC, Olsson-Brown, Anna C, Palles, Claire, Pan, Yi, Pettengell, Ruth, Powles, Thomas, Protheroe, Emily A, Purshouse, Karin, Sharma-Oates, Archana, Sivakumar, Shivan, Smith, Ashley J, Starkey, Thomas, Turnbull, Chris D, Várnai, Csilla, Yousaf, Nadia, Kerr, Rachel, Middleton, Gary

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Lineage-Specific Genome Architecture Links Enhancers and Non-coding Disease Variants to Target Gene Promoters von Javierre, Biola M., Burren, Oliver S., Wilder, Steven P., Kreuzhuber, Roman, Hill, Steven M., Sewitz, Sven, Cairns, Jonathan, Wingett, Steven W., Várnai, Csilla, Thiecke, Michiel J., Burden, Frances, Farrow, Samantha, Cutler, Antony J., Rehnström, Karola, Downes, Kate, Grassi, Luigi, Kostadima, Myrto, Freire-Pritchett, Paula, Wang, Fan, Martens, Joost H., Kim, Bowon, Sharifi, Nilofar, Janssen-Megens, Eva M., Yaspo, Marie-Laure, Linser, Matthias, Kovacsovics, Alexander, Clarke, Laura, Richardson, David, Datta, Avik, Flicek, Paul, Stunnenberg, Hendrik G., Todd, John A., Zerbino, Daniel R., Stegle, Oliver, Ouwehand, Willem H., Frontini, Mattia, Wallace, Chris, Spivakov, Mikhail, Fraser, Peter

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Short- and long-range cis interactions between integrated HPV genomes and cellular chromatin dysregulate host gene expression in early cervical carcinogenesis von Groves, Ian J., Drane, Emma L. A., Michalski, Marco, Monahan, Jack M., Scarpini, Cinzia G., Smith, Stephen P., Bussotti, Giovanni, Varnai, Csilla, Schoenfelder, Stefan, Fraser, Peter, Enright, Anton J., Coleman, Nicholas, Munger, Karl, Gewurz, Benjamin E., Munger, Karl, Gewurz, Benjamin E., Munger, Karl, Gewurz, Benjamin E., Munger, Karl, Gewurz, Benjamin E.

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The global and promoter-centric 3D genome organization temporally resolved during a circadian cycle von Furlan-Magaril, Mayra, Ando-Kuri, Masami, Arzate-Mejia, Rodrigo G., Morf, Jorg, Cairns, Jonathan, Roman-Figueroa, Abraham, Tenorio-Hernandez, Luis, Poot-Hernandez, A. Cesar, Andrews, Simon, Varnai, Csilla, Virk, Boo, Wingett, Steven W., Fraser, Peter

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Cohesin and CTCF do not assemble TADs in Xenopus sperm and male pronuclei von Jessberger, Gregor, Várnai, Csilla, Stocsits, Roman R, Tang, Wen, Stary, Georg, Peters, Jan-Michael

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Parental-to-embryo switch of chromosome organization in early embryogenesis von Collombet, Samuel, Ranisavljevic, Noémie, Nagano, Takashi, Varnai, Csilla, Shisode, Tarak, Leung, Wing, Piolot, Tristan, Galupa, Rafael, Borensztein, Maud, Servant, Nicolas, Fraser, Peter, Ancelin, Katia, Heard, Edith

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CTCF regulates hepatitis B virus cccDNA chromatin topology von Dobrica, Mihaela Olivia, Varghese, Christy Susan, Harris, James Michael, Ferguson, Jack, Magri, Andrea, Arnold, Roland, Várnai, Csilla, Parish, Joanna L, McKeating, Jane A

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Genome organization and chromatin analysis identify transcriptional downregulation of insulin-like growth factor signaling as a hallmark of aging in developing B cells von Koohy, Hashem, Bolland, Daniel J, Matheson, Louise S, Schoenfelder, Stefan, Stellato, Claudia, Dimond, Andrew, Várnai, Csilla, Chovanec, Peter, Chessa, Tamara, Denizot, Jeremy, Manzano Garcia, Raquel, Wingett, Steven W, Freire-Pritchett, Paula, Nagano, Takashi, Hawkins, Phillip, Stephens, Len, Elderkin, Sarah, Spivakov, Mikhail, Fraser, Peter, Corcoran, Anne E, Varga-Weisz, Patrick D

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Intra- and interchromosomal contact mapping reveals the Igh locus has extensive conformational heterogeneity and interacts with B-lineage genes von Mielczarek, Olga, Rogers, Carolyn H., Zhan, Yinxiu, Matheson, Louise S., Stubbington, Michael J.T., Schoenfelder, Stefan, Bolland, Daniel J., Javierre, Biola M., Wingett, Steven W., Várnai, Csilla, Segonds-Pichon, Anne, Conn, Simon J., Krueger, Felix, Andrews, Simon, Fraser, Peter, Giorgetti, Luca, Corcoran, Anne E.

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