Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Tcf7

Cell type

Cell type Class
Blood
Cell type
CD4+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
conventional CD4+ T cells
genotype
wild type
tissue
effector CD4 T cells
cell phenotype
TCRb+, CD4+, CD25-, Foxp3-Cre-GFP-
antibody
anti-Tcf1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Conventional or regulatory CD4+ T cells were sort-purified from WT Foxp3-cre-GFP mice, and the Tcf1-deficient CD4+ T cells were sorted from CD4-Cre+ Tcf1 fl/fl mice. The cells were then fixed and sonicated to generate chromatin fragments, followed by immunoprecipitation with antiserum against Tcf1, which were then properly washed and immunoprecipitated DNA extracted. The DNA segments from ChIP were end-repaired and ligated to indexed Illumina adaptors, followed by amplification by PCR with a low number of cells (18-21 cycles). The resulting libraries were seqeunced with Illumina Hiseq-2000 platform.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
11229830
Reads aligned (%)
90.0
Duplicates removed (%)
14.7
Number of peaks
959 (qval < 1E-05)

mm9

Number of total reads
11229830
Reads aligned (%)
89.9
Duplicates removed (%)
14.7
Number of peaks
952 (qval < 1E-05)

Base call quality data from DBCLS SRA