Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Pluripotent stem cell
Cell type
iPSC derived fibroblasts
NA
NA

Attributes by original data submitter

Sample

source_name
reprogramming intermediates of hiF-T cells
treatment
DOX days 0-5

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Total RNA, including the small RNA fraction, was obtained by organic extraction followed by miRNeasy purification (Qiagen). ChIP-seq Illumina libraries were prepared and analyzed as previously described (Mikkelsen et al., 2010) starting from one million cells crosslinked in 1% PFA. ChIP-Seq libraries were sequenced with approximately 20 million 50-bp single end reads each.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
13028847
Reads aligned (%)
93.7
Duplicates removed (%)
26.9
Number of peaks
25105 (qval < 1E-05)

hg19

Number of total reads
13028847
Reads aligned (%)
93.3
Duplicates removed (%)
27.3
Number of peaks
24933 (qval < 1E-05)

Base call quality data from DBCLS SRA