SRX3256864
GSM2805869: PCGF1 ChIP Sample from Wild Type Cells; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PCGF1

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC H1
NA
NA

Attributes by original data submitter

Sample

source_name
Cultured Human Embryonic Stem Cells
cell type
H1 hESC
genotype
WT
media
mTeSR (StemCell Technolgies)
media supplement
NA
antibody
PCGF1 (Oliviero, 2015, Gearhart et al, 2006)
fixation strategy
ethylene glycol bis(succinimidyl succinate) + formaldehyde
sonication strategy
Covaris S220

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNAeasy Micro Kit (Qiagen) was used to prepare RNA from the samples described above. TruSeq (Illumina) RNA libraries were prepared from the recovered RNA.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

hg19

Number of total reads
21187649
Reads aligned (%)
79.0
Duplicates removed (%)
16.3
Number of peaks
25160 (qval < 1E-05)

hg38

Number of total reads
21187649
Reads aligned (%)
80.2
Duplicates removed (%)
15.4
Number of peaks
25241 (qval < 1E-05)

Base call quality data from DBCLS SRA