Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
CD8+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
mouse splenic CD8 T cells
strain
C57BL/6
tissue
spleen
cell type
splenic CD8 T cells
chip antibody
rabbit IgG (pre-immune rabbit serum)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
CD8 T cells were then crosslinked, sonicated with Covaris instrument, and ChIP was done with either Tcf1 antibody or control IgG. For control IgG, pre-immune rabbit serum that we obtained from a different antibody production project was used to match the anti-Tcf1 (which is unfractionated rabbit antiserum rather than IgG).The immunoprecipitated fragments were reverse-crosslinked and purified. chromatin DNA fragments were end-repaired, and ligated with Illumina adaptors. The DNA was then PCR amplified with for 18 cycles and library fragments of 220-400 bp were purified from gel. The purified DNA was captured on an Illumina flow cell for cluster generation. Libraries were sequenced on the Genome Analyzer following the manufacturer's protocols.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

mm10

Number of total reads
48752154
Reads aligned (%)
97.4
Duplicates removed (%)
8.2
Number of peaks
1056 (qval < 1E-05)

mm9

Number of total reads
48752154
Reads aligned (%)
97.2
Duplicates removed (%)
8.3
Number of peaks
1109 (qval < 1E-05)

Base call quality data from DBCLS SRA