Antigen

Antigen Class

TFs and others

Antigen

BRD4

Cell type

Cell type Class

Breast

Cell type

SUM 229PE

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Carcinoma

Sample

source_name

EpCAM/CD49f negative SUM229 breast carcinoma subpopulation

cell line

SUM229 breast carcinoma cell line, EpCAM/CD49f negative subpopulation

treatment

30nM trametinib

time

24h

chip antibody

BRD4 Bethyl Laboratories A301-985A

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Whole cell lysates were sonicated resulting in an average chromatin fragment size of ~300 bp and immunoprecipiated with the indicated antibodies. All libraries were constructed using KAPA Hyper Prep kits with Illumina TruSeq adapters, 18 cycles of amplification and dual SPRI size selection post-amplification, except where indicated, whereby the libraries were constructed using DNA SMART ChIP Seq kit (Clontech) with dual SPRI size selection following 18 cycles of amplification. library preparation kit: KAPA Hyper Prep

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

37018076

Reads aligned (%)

100.0

Duplicates removed (%)

2.6

Number of peaks

23585 (qval < 1E-05)

hg19

Number of total reads

37018076

Reads aligned (%)

100.0

Duplicates removed (%)

2.9

Number of peaks

23558 (qval < 1E-05)