SRX671994
GSM1467729: humanESC H3K4nz 149; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

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

Attributes by original data submitter

Sample

source_name
embryonic stem cells, H3K4me3 ChIP
transchromosomic
no
plasmid
none
chip_or_input
H3K4me3 ChIP
chip antibody
H3K4me3 (Millipore 07-473, lot#2207275)
nickname
H3K4m3 (hESC) r2

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
O'Geen H, Echipare L, Farnham PJ. Using ChIP-seq technology to generatehigh-resolution profiles of histone modifications. Methods Mol Biol. 2011;791:265-86. doi: 10.1007/978-1-61779-316-5_20. PubMed PMID: 21913086. TrueSeq DNA library prep, low input protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
29283637
Reads aligned (%)
97.3
Duplicates removed (%)
1.2
Number of peaks
18894 (qval < 1E-05)

hg19

Number of total reads
29283637
Reads aligned (%)
96.4
Duplicates removed (%)
1.5
Number of peaks
17978 (qval < 1E-05)

Base call quality data from DBCLS SRA