Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Rag1

Cell type

Cell type Class
Blood
Cell type
B cells
NA
NA

Attributes by original data submitter

Sample

source_name
preB
cell type
B cell; CD19+ bone marrow cell
genotype
R1-/-B
strain
C57BL/6
chip antibody
RAG1
age
4 weeks
Sex
pooled male and female

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
cells were crosslinked with 1% HCHO, quenched with 0.125 M glycine, washed and resuspended in RIPA buffer (10 mM Tris pH 7.4, 1 mM EDTA, 1% tritonX-100, 0.1% sodium deoxycholate, 0.1% SDS) containing 0.8 M NaCl and sonicated using a water bath sonicator (Diagenode) to obtain DNA of ≈ 300–500 bp. libraries were prepared and sequenced following standard Illumina protocols

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
27578879
Reads aligned (%)
23.1
Duplicates removed (%)
41.5
Number of peaks
385 (qval < 1E-05)

mm9

Number of total reads
27578879
Reads aligned (%)
23.0
Duplicates removed (%)
41.7
Number of peaks
391 (qval < 1E-05)

Base call quality data from DBCLS SRA