ChIP-Atlas: SRX590336

Sample information curated by ChIP-Atlas

Antigen

Antigen Class: Input control
Antigen: Input control

Cell type

Cell type Class: Pluripotent stem cell
Cell type: EpiLC
NA: NA

Attributes by original data submitter

Sample

source_name: dY-Foxd3CKO-Tam-IgG 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: IgG (normal rabbit)
chip antibody vendor: Invitrogen

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: 36837006
Reads aligned (%): 91.4
Duplicates removed (%): 42.1
Number of peaks: 385 (qval < 1E-05)

mm9

Number of total reads: 36837006
Reads aligned (%): 91.2
Duplicates removed (%): 42.2
Number of peaks: 418 (qval < 1E-05)

Base call quality data from DBCLS SRA