Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA1

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
HepG2
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
hepatocellular carcinoma
antibody antibodydescription
Mouse monoclonal IgG, raised against recombinant HNF-3a of human origin. Antibody Target: FOXA1
antibody targetdescription
This gene encodes a member of the forkhead class of DNA-binding proteins. These hepatocyte nuclear factors are transcriptional activators for liver-specific transcripts such as albumin and transthyretin, and they also interact with chromatin. Similar family members in mice have roles in the regulation of metabolism and in the differentiation of the pancreas and liver. (provided by RefSeq)
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-101058
controlid
SL1400,SL1781
labexpid
SL2194,SL1788
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Mouse monoclonal IgG, raised against recombinant HNF-3a of human origin.
antibody targetdescription
This gene encodes a member of the forkhead class of DNA-binding proteins. These hepatocyte nuclear factors are transcriptional activators for liver-specific transcripts such as albumin and transthyretin, and they also interact with chromatin. Similar family members in mice have roles in the regulation of metabolism and in the differentiation of the pancreas and liver. (provided by RefSeq)
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-101058
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.1
protocol description
2x10^7 cells, fragmentation by bioruptor, one 15-cycle round of PCR (Myers)
controlid
SL1400
labexpid
SL1788
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803432: HudsonAlpha_ChipSeq_HepG2_FOXA1_(SC-101058)_v041610.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
38957654
Reads aligned (%)
78.3
Duplicates removed (%)
13.6
Number of peaks
62485 (qval < 1E-05)

hg38

Number of total reads
38957654
Reads aligned (%)
79.0
Duplicates removed (%)
13.1
Number of peaks
62371 (qval < 1E-05)

Base call quality data from DBCLS SRA