Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Brd2

Cell type

Cell type Class
Blood
Cell type
T cells
NA
NA

Attributes by original data submitter

Sample

source_name
primary T cells
strain
C57BL/6
cell type
primary T cells
chip-antibody
Brd2 (Bethyl; IHC-00612)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq: Whole cell lysates were sonicated and protein-DNA complexes were isolated with antibodies. For RNA-Seq: Compound treated cells were collected and RNA was extracted using a Nucleospin RNA kit (Clontech). ChIP-Seq: ChIP-DNA was end repaired with T4 DNA polymerase and polynucleotide kinase. An A-base was added to the end-repaired DNA fragments. Solexa adaptors were ligated to the ChIP DNA fragments and 200-300bp size fractions were excised from 2% agarose gel stained with GelStar. Adaptor-modified fragments were enriched by 16 cycles of PCR amplification. The DNA library prep was validated in Bioanalyzer for quantity and size. RNA-Seq: Extracted RNA was subjected to polyA selection and standard Illumina RNA-seq library prep procedures.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
58908095
Reads aligned (%)
9.3
Duplicates removed (%)
25.3
Number of peaks
2727 (qval < 1E-05)

mm9

Number of total reads
58908095
Reads aligned (%)
9.3
Duplicates removed (%)
25.6
Number of peaks
2779 (qval < 1E-05)

Base call quality data from DBCLS SRA