Journal Article

DKFZ-2019-00496

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Comprehensive Analysis of Chromatin States in Atypical Teratoid/Rhabdoid Tumor Identifies Diverging Roles for SWI/SNF and Polycomb in Gene Regulation.

Erkek, S. (First author)DKFZ* ; Johann, P. (First author)DKFZ* ; Finetti, M. A. ; Drosos, Y. ; Chou, H.-C. ; Zapatka, M.DKFZ* ; Sturm, D.DKFZ* ; Jones, D.DKFZ* ; Korshunov, A.DKFZ* ; Rhyzova, M. ; Wolf, S.DKFZ* ; Mallm, J.-P.DKFZ* ; Beck, K.DKFZ* ; Witt, O.DKFZ* ; Kulozik, A. E. ; Frühwald, M. C. ; Northcott, P. A. ; Korbel, J. O. ; Lichter, P.DKFZ* ; Eils, R.DKFZ* ; Gajjar, A. ; Roberts, C. W. M. ; Williamson, D. ; Hasselblatt, M. ; Chavez, L. (Last author)DKFZ* ; Pfister, S. (Last author)DKFZ* ; Kool, M. (Last author)DKFZ*

2019
Elsevier New York, NY

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Please use a persistent id in citations: doi:10.1016/j.ccell.2018.11.014

Abstract: Biallelic inactivation of SMARCB1, encoding a member of the SWI/SNF chromatin remodeling complex, is the hallmark genetic aberration of atypical teratoid rhabdoid tumors (ATRT). Here, we report how loss of SMARCB1 affects the epigenome in these tumors. Using chromatin immunoprecipitation sequencing (ChIP-seq) on primary tumors for a series of active and repressive histone marks, we identified the chromatin states differentially represented in ATRTs compared with other brain tumors and non-neoplastic brain. Re-expression of SMARCB1 in ATRT cell lines enabled confirmation of our genome-wide findings for the chromatin states. Additional generation of ChIP-seq data for SWI/SNF and Polycomb group proteins and the transcriptional repressor protein REST determined differential dependencies of SWI/SNF and Polycomb complexes in regulation of diverse gene sets in ATRTs.

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Contributing Institute(s):

1. B062 Pädiatrische Neuroonkologie (B062)
2. B060 Molekulare Genetik (B060)
3. Pediatric Glioma (B360)
4. KKE Neuropathologie (B300)
5. W190 Hochdurchsatz-Sequenzierung (W190)
6. KKE Pädiatrische Onkologie (B310)
7. Theoretische Bioinformatik (B080)
8. B066 Chromatin-Netzwerke (B066)
9. DKTK Heidelberg (L101)

Research Program(s):

1. 312 - Functional and structural genomics (POF3-312) (POF3-312)

Appears in the scientific report 2019

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Database coverage:
; BIOSIS Previews ; Clarivate Analytics Master Journal List ; Current Contents - Clinical Medicine ; Current Contents - Life Sciences ; Ebsco Academic Search ; IF >= 20 ; JCR ; NCBI Molecular Biology Database ; SCOPUS ; Science Citation Index ; Science Citation Index Expanded ; Web of Science Core Collection

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