Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Lef1

Cell type

Cell type Class
Blood
Cell type
Naive T cells
NA
NA

Attributes by original data submitter

Sample

source_name
all CD4 T cells
strain
C57BL/6
genotype
Lef1 deficient
tissue
naive CD4 T cells
cell phenotype
TCRb+, CD4+
chip antibody
anti-Lef1 antibody (C18A7, Cell Signaling Technology)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Conventional CD4+ T cells were sort-purified from WT C57BL/6 mice, and the Lef1-deficient CD4+ T cells were sorted from CD4-Cre+ Lef1 fl/fl mice. The cells were then fixed and sonicated to generate chromatin fragments, followed by immunoprecipitation with an anti-Lef1 antibody (C18A7, Cell Signaling Technology), 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
16753512
Reads aligned (%)
91.3
Duplicates removed (%)
20.2
Number of peaks
499 (qval < 1E-05)

mm9

Number of total reads
16753512
Reads aligned (%)
91.1
Duplicates removed (%)
20.3
Number of peaks
480 (qval < 1E-05)

Base call quality data from DBCLS SRA