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For hg19
Colocalization
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For hg38
Colocalization
Target Genes (TSS ± 1kb)
Target Genes (TSS ± 5kb)
Target Genes (TSS ± 10kb)
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For hg19
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
For hg38
BigWig
Peak-call (q < 1E-05)
Peak-call (q < 1E-10)
Peak-call (q < 1E-20)
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Sequence Read Archive
DBCLS SRA
NCBI SRA
ENA
Antigen: FOXA1
wikigenes
PDBj
CellType: T-47D
ATCC
MeSH
RIKEN BRC
Variation
TogoVar
SRX1161206
GSM1858658: E2 rep#1 FoxA1 ChIP-seq GH1072; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
FOXA1
Cell type
Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal
Attributes by original data submitter
Sample
source_name
T-47D breast cancer cell line
cell line
T-47D
cell type
Pleural effusion from a ductal carcinoma of the breast
treatment
17β-estradiol
concentration
100nM
time
30 minutes
replicate
replicate 1
antibody
FoxA1 ab23738 Abcam
growth proptocol
For maintenance cells were cultured in RPMI containing 2mM L-glutamine supplemented 10% calf serum, 1mM sodium pyruvate, 1X non-essential amino acids, and 1% penicillin-streptomycin
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and GR/DNA, ER/DNA, of FoxA1/DNA complexes were isolated with antibody.
Sequencing Platform
instrument_model
Illumina HiSeq 2000
Where can I get the processing logs?
Read processing pipeline
log
hg19
Number of total reads
33361541
Reads aligned (%)
87.8
Duplicates removed (%)
9.8
Number of peaks
26237 (qval < 1E-05)
hg38
Number of total reads
33361541
Reads aligned (%)
89.4
Duplicates removed (%)
8.6
Number of peaks
26202 (qval < 1E-05)
Base call quality data from
DBCLS SRA