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Series GSE137459 Query DataSets for GSE137459
Status Public on Sep 17, 2019
Title Identification of a unique subtype of lung squamous cell carcinoma defined by SOX2 and a neural differentiation factor BRN2 [ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Lineage-specific transcriptional regulators control differentiation states not only during normal development but also during cancer evolution. By investigating super-enhancer landscape of lung squamous cell carcinoma (LUSC), we identified a unique ‘neural’ subtype defined by Sox2 and a neural lineage factor Brn2. Robust protein-protein interaction and genomic co-occupancy of these factors indicated their transcriptional cooperation in this ‘neural’ LUSC in contrast to the cooperation of Sox2 and p63 in the classical LUSC. Introduction of p63 expression in the “neural’ LUSC invoked the classical LUSC lineage accompanied by Brn2 downregulation and increased activities of ErbB/Akt and MAPK-ERK pathways. Collectively, our data demonstrate a unique LUSC lineage featured by Sox2 cooperation with Brn2 instead of p63, for which distinct therapeutic approaches may be warranted.
 
Overall design Genome-wide profiles of histone H3K27 acetylation, Sox2 binding, p63 binding and Brn2 binding in LUSC cell lines
 
Contributor(s) Sato T, Watanabe H
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Submission date Sep 16, 2019
Last update date Sep 20, 2019
Contact name Hideo Watanabe
E-mail(s) hideo.watanabe@mssm.edu
Organization name Icahn School of Medicine at Mount Sinai
Department Department of Medicine, Division of Pulmonary, Critical Care and Sleep Medicine
Lab Hideo Watanabe
Street address One Gustave L. Levy Place
City New York
State/province NY
ZIP/Postal code 10029
Country USA
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (43)
GSM4079747 H3K27ac ChIP for HCC95
GSM4079748 H3K27ac ChIP for HARA
GSM4079749 H3K27ac ChIP for KNS62
This SubSeries is part of SuperSeries:
GSE137461 Identification of a unique subtype of lung squamous cell carcinoma defined by SOX2 and a neural differentiation factor BRN2
Relations
BioProject PRJNA565677
SRA SRP221711

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE137459_RAW.tar 9.2 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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