Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Ctcf

Cell type

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

Attributes by original data submitter

Sample

sample_type
cell line
sex
male
dev_stage
embryonic
age
3.5 day
donor ID
ENCDO015AAA
lab
Ross Hardison, PennState
cell_line
E14TG2a.4
health state
unknown

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
extraction method: see document general protocol: https://www.encodeproject.org/documents/d5680f64-80da-4bf1-b79d-dbcf0774a23b/@@download/attachment/HardisonLabChIPseqf.pdf, general protocol: https://www.encodeproject.org/documents/bd84d10f-f22d-4c69-bc0f-6deff87d84c6/@@download/attachment/Cross-linking%20cells%20for%20ChIP-seq.pdf, general protocol: https://www.encodeproject.org/documents/3bafcc94-f4e0-4285-ac91-59963f8a4633/@@download/attachment/SonicationBiorupter.pdf

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
51741399
Reads aligned (%)
96.9
Duplicates removed (%)
12.0
Number of peaks
31239 (qval < 1E-05)

mm9

Number of total reads
51741399
Reads aligned (%)
96.6
Duplicates removed (%)
11.9
Number of peaks
31221 (qval < 1E-05)

Base call quality data from DBCLS SRA