Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ESR1

Cell type

Cell type Class
Breast
Cell type
SUM 44PE
Primary Tissue
Breast
Tissue Diagnosis
Unknown

Attributes by original data submitter

Sample

Alias
1288_rep3_SUM44_shWHSC1L1short_estrogen-treated_ERa_ChIP
Description
SUM-44PE cells lentivirally transduced with sh RNA specific for WHSC1L1 short isoform cultured in estrogen-free conditions then treated with 10nM beta-estradiol for 45 minutes before fixing, then chromatin immunoprecipitation performed with anti-estrogen receptor alpha antibody followed by 35bp single-end Illumina sequencing
ENA checklist
ERC000011
INSDC center name
Medical University of South Carolina
INSDC first public
2015-10-10T17:01:14Z
INSDC last update
2015-08-11T04:22:01Z
INSDC status
public
SRA accession
ERS808601
Sample Name
ERS808601
Title
1288_rep3_SUM44_shWHSC1L1short_estrogen-treated_ERa_ChIP
cell_line
SUM-44PE

Sequenced DNA Library

library_name
unspecified
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Rubicon Genomics Thru-PlexFD standard protocol

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
78274690
Reads aligned (%)
37.8
Duplicates removed (%)
61.4
Number of peaks
8500 (qval < 1E-05)

hg38

Number of total reads
78274690
Reads aligned (%)
39.6
Duplicates removed (%)
59.9
Number of peaks
8598 (qval < 1E-05)

Base call quality data from DBCLS SRA