SRX590337
GSM1410405: dY-Foxd3CKO-Tam-H3K4me1 ChIP-rep1; Mus musculus; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me1

Cell type

Cell type Class
Pluripotent stem cell
Cell type
EpiLC
NA
NA

Attributes by original data submitter

Sample

source_name
dY-Foxd3CKO-Tam-H3K4me1 ChIP
strain background
C57BL/6
genotype/variation
Foxd3 conditional knockout
cell type
EpiLC (dY cells); epiblast-like cells
cell line of origin
Foxd3 conditional knockout C57BL/6 ESCs
treatment
-Lif -2i day 3
chip antibody
H3K4me1
chip antibody vendor
Abcam

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DNA was extracted using a standard ChIP protocol Library was constructed using a standard Illumina protocol

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
48154503
Reads aligned (%)
97.7
Duplicates removed (%)
33.0
Number of peaks
346 (qval < 1E-05)

mm9

Number of total reads
48154503
Reads aligned (%)
97.6
Duplicates removed (%)
33.1
Number of peaks
366 (qval < 1E-05)

Base call quality data from DBCLS SRA