Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMAD2

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC WA09
NA
NA

Attributes by original data submitter

Sample

source_name
WA09
cell type
Human embryonic stem cells
cell line
WA09
growth conditions
Grown on matrigel/MEF conditioned DMEM/F12, 20% KO serum
treatment
4h DMSO treated
chip antibody
SMAD2 (Cell Signaling)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed for 10min with 1% Formaldehyde, nuclei were extracted (hypotonic lysis), DNA sheared by sonication Libraries were prepared according to Illumina's instructions accompanying the DNA Sample Kit (Part# 0801-0303).

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
42395794
Reads aligned (%)
18.6
Duplicates removed (%)
77.7
Number of peaks
940 (qval < 1E-05)

hg38

Number of total reads
42395794
Reads aligned (%)
20.5
Duplicates removed (%)
75.7
Number of peaks
944 (qval < 1E-05)

Base call quality data from DBCLS SRA