Dataset features

Specifications


Application: ChIP-seq analysis
Number of samples: 24
Release date: Jul 10 2018
Last update date: Nov 29 2018
Access: Public
Diseases: Lymphoma, Leukemia-Lymphoma, Adult T-Cell
Dataset link Targeting the HBZ Viral Oncoprotein Transcriptional Network in Adult T-cell leukemia/lymphoma (ChIP-Seq)

Experimental Protocol


For IRF4 ChIP-seq (n=4), KK1 and ST1 cell line chromatins were immuno-precipitated with normal rabbit IgG (Santa Cruz Biotechnology, sc2027) or IRF4 antibody (Santa Cruz Biotechnology, sc6059 and sc11450 (1:1 mix)). For BATF3 ChIP-seq (n=4), KK1 and ST1 cell line chromatins were immuno-precipitated with normal rabbit IgG (Santa Cruz Biotechnology, sc2027) or BATF3 antibody (R&D, AF7437). For BirA ChIP-seq (n=8), KK1 and ST1 cell lines were engineered to express BirA, transduced with Ctrl, HBZ (pRCMV/TO-flag-BIOTIN-HBZ-puro) or BATF3 (pRCMV/TO-flag-BIOTIN-BATF3-puro) Biotag constructs, and ChIP-seq performed using streptavidin to purify chromatin bound to these isoforms. For H3K27ac and BRD4 ChIP-seq (n=8), KK1 and ST1 cells were pre-treated with either DMSO or JQ1 before being cross-linked and chromatins were later immuno-precipitated with BRD4 antibody (Bethyl, Cat No. A301-985A) or H3K27ac antibody (Abcam, ab4729).

Repositories


GEO

GSE94732

ENA

SRP099140

BioProject

PRJNA373891

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Contact


Louis Staudt