Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
Pre-B cells
NA
NA

Attributes by original data submitter

Sample

source_name
small pre-B cells
strain background
C57BL/6
antibodies
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The DNA for ChIP-Seq libraries was purified by Qiagen PCR Purification Kit and the ATAC-Seq libraries were purified using a Qiagen PCR cleanup kit. For ChIP-Seq DNA libraries were prepared from the sheared chromatin (200–600 bp) by University of Chicago sore facility at Institute for Genomics and Systems Biology, Department of Human Genetics. For ATAC-Seq, following purification of transposed DNA, we amplified library fragments using Nextera PCR Primers (Illumina Nextera Index kit) and NEBnext PCR master mix (New England lab, 0541) for a total of 10-12 cycles. The libraries were then purified using a Qiagen PCR cleanup kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
28446399
Reads aligned (%)
98.7
Duplicates removed (%)
10.7
Number of peaks
411 (qval < 1E-05)

mm9

Number of total reads
28446399
Reads aligned (%)
98.5
Duplicates removed (%)
10.7
Number of peaks
444 (qval < 1E-05)

Base call quality data from DBCLS SRA