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Heidelberg"},{"DOI":"10.13039\/100008316","name":"Baden\u2010W\u00fcrttemberg Stiftung","doi-asserted-by":"crossref","id":[{"id":"10.13039\/100008316","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["EMBO Mol Med"],"published-print":{"date-parts":[[2020,9,7]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>\n                    We aimed at identifying the developmental stage at which leukemic cells of pediatric T\u2010ALLs are arrested and at defining leukemogenic mechanisms based on ATAC\u2010Seq. Chromatin accessibility maps of seven developmental stages of human healthy T cells revealed progressive chromatin condensation during T\u2010cell maturation. Developmental stages were distinguished by 2,823 signature chromatin regions with 95% accuracy. Open chromatin surrounding\n                    <jats:italic>SAE1<\/jats:italic>\n                    was identified to best distinguish thymic developmental stages suggesting a potential role of SUMOylation in T\u2010cell development. Deconvolution using signature regions revealed that T\u2010ALLs, including those with mature immunophenotypes, resemble the most immature populations, which was confirmed by TF\u2010binding motif profiles. We integrated ATAC\u2010Seq and RNA\u2010Seq and found\n                    <jats:italic>DAB1<\/jats:italic>\n                    , a gene not related to leukemia previously, to be overexpressed, abnormally spliced and hyper\u2010accessible in T\u2010ALLs.\n                    <jats:italic>DAB1<\/jats:italic>\n                    \u2010negative patients formed a distinct subgroup with particularly immature chromatin profiles and hyper\u2010accessible binding sites for\n                    <jats:italic>SPI1<\/jats:italic>\n                    (\n                    <jats:italic>PU.1<\/jats:italic>\n                    ), a TF crucial for normal T\u2010cell maturation. In conclusion, our analyses of chromatin accessibility and TF\u2010binding motifs showed that pediatric T\u2010ALL cells are most similar to immature thymic precursors, indicating an early developmental arrest.\n                  <\/jats:p>","DOI":"10.15252\/emmm.202012104","type":"journal-article","created":{"date-parts":[[2020,8,5]],"date-time":"2020-08-05T03:51:12Z","timestamp":1596599472000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":18,"title":["Chromatin accessibility landscape of pediatric T\u2010lymphoblastic leukemia and human T\u2010cell precursors"],"prefix":"10.1038","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7135-2201","authenticated-orcid":false,"given":"B\u00fc\u015fra","family":"Erarslan\u2010Uysal","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Joachim B","family":"Kunz","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5773-5620","authenticated-orcid":false,"given":"Tobias","family":"Rausch","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paulina","family":"Richter\u2010Pecha\u0144ska","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ianthe AEM","family":"van Belzen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Viktoras","family":"Frismantas","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Beat","family":"Bornhauser","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Diana","family":"Ordo\u00f1ez\u2010Rueada","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Malte","family":"Paulsen","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vladimir","family":"Benes","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Martin","family":"Stanulla","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Martin","family":"Schrappe","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gunnar","family":"Cario","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Gabriele","family":"Escherich","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kseniya","family":"Bakharevich","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Renate","family":"Kirschner\u2010Schwabe","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Cornelia","family":"Eckert","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tsvetomir","family":"Loukanov","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Matthias","family":"Gorenflo","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sebastian M","family":"Waszak","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jean\u2010Pierre","family":"Bourquin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Martina U","family":"Muckenthaler","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2798-3794","authenticated-orcid":false,"given":"Jan O","family":"Korbel","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1953-0848","authenticated-orcid":false,"given":"Andreas E","family":"Kulozik","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","published-online":{"date-parts":[[2020,8,5]]},"reference":[{"key":"BFEMMM202012104_CR1","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1006\/dbio.2002.0674","volume":"246","author":"MK Anderson","year":"2002","unstructured":"Anderson MK, Hernandez\u2010Hoyos G, Dionne CJ, Arias AM, Chen D, Rothenberg EV (2002a) Definition of regulatory network elements for T cell development by perturbation analysis with PU.1 and GATA\u20103. 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