SRX4159309
GSM3173717: Gm14410; Mus musculus; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Epitope tags

Cell type

Cell type Class
Pluripotent stem cell
Cell type
F9
Tissue
Testis
Disease
Embryonal Carcinoma; Testicular Teratoma

Attributes by original data submitter

Sample

source_name
F9 EC cells
cell type
F9 EC cells
overexpression
Gm14410
chip antibody
HA (ab9110)
tag
C-3XHA
ChIP
O'Geen et al. 2010
mapping
Bowtie2
peak calling parameters
p-value < 1e-10, enrichment > 10
input
Gm14296_control

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was purified and immunoprecipitated according to previously described protocols as indicated in the sample information. DNA SMART kit (Takara) or Truseq (Illumina)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
31590765
Reads aligned (%)
94.2
Duplicates removed (%)
5.2
Number of peaks
1016 (qval < 1E-05)

mm9

Number of total reads
31590765
Reads aligned (%)
94.0
Duplicates removed (%)
5.3
Number of peaks
1020 (qval < 1E-05)

Base call quality data from DBCLS SRA