Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TBP

Cell type

Cell type Class
Pluripotent stem cell
Cell type
iPS cells
NA
NA

Attributes by original data submitter

Sample

source_name
iPSC
clone
WT_A
differentiation
Undifferentiated
treatment
RNaseAneg
molecule subtype
DNA pulldown by TBP

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Total RNA or RNA samples in fRIP-seq were extracted with Trizol following manufactuer's protocol. DNA samples in ChIP-seq was extracted using phenol-chloroform. KAPA RNA Hyperprep kit with riboerase (RNA-seq and fRIP-seq), KAPA HyperPlus Kit (ChIP-seq)

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
34161231
Reads aligned (%)
61.8
Duplicates removed (%)
36.6
Number of peaks
1758 (qval < 1E-05)

hg38

Number of total reads
34161231
Reads aligned (%)
63.6
Duplicates removed (%)
35.2
Number of peaks
1911 (qval < 1E-05)

Base call quality data from DBCLS SRA