Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HCFC1

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

dev stage
adult
cell line
MCF-7
sex
female
sample type
immortalized cell line
donor ID
ENCDO000AAE
age
69 year
health state
breast cancer (adenocarcinoma)
lab
Michael Snyder, Stanford

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
general protocol: https://www.encodeproject.org/documents/d6c4ad11-71ce-4cf4-97f1-7f635d2de09b/@@download/attachment/ChIP-Seq_protocol_Snyder_lab_HiSeq.pdf

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg38

Number of total reads
34284992
Reads aligned (%)
99.0
Duplicates removed (%)
4.8
Number of peaks
6479 (qval < 1E-05)

hg19

Number of total reads
34284992
Reads aligned (%)
98.0
Duplicates removed (%)
5.1
Number of peaks
5562 (qval < 1E-05)

Base call quality data from DBCLS SRA