Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
YBX1

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

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
general protocol: https://www.encodeproject.org/documents/a6e8aca1-c1e5-4ad7-bceb-8ca2e661b909/@@download/attachment/ChIP-Seq%20Biorupter%20Pico%20BravoTruSeq%20protocol%20for%20Syapse.pdf

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg38

Number of total reads
64537914
Reads aligned (%)
92.4
Duplicates removed (%)
6.7
Number of peaks
4800 (qval < 1E-05)

hg19

Number of total reads
64537914
Reads aligned (%)
91.2
Duplicates removed (%)
7.1
Number of peaks
3181 (qval < 1E-05)

Base call quality data from DBCLS SRA