SRX150705
GSM935626: Stanford ChipSeq HepG2 forskolin HSF1 std

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HSF1

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
lab
Stanford
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HepG2
cell organism
human
cell description
hepatocellular carcinoma
cell karyotype
cancer
cell lineage
endoderm
cell sex
M
treatment
forskolin
treatment description
low-glucose DMEM with 0.5% BSA supplemented with 1uM forskolin and 1mM pyruvate for 6h. (Snyder)
antibody
HSF1
antibody antibodydescription
Rabbit polyclonal IgG. Antibody Target: HSF1
antibody targetdescription
epitope corresponding to amino acids 219-529 of heat shock transcription factor 1 (HSF1) of human origin
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-9144
control
std
control description
Standard input signal for most experiments.
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000755
labversion
Illumina 2.0, low confidence sequences excluded. Data paired with HepG2_Forskolin_Control.
replicate
1

Sequenced DNA Library

library_name
GSM935626: Stanford_ChipSeq_HepG2_forskolin_HSF1_std
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg19

Number of total reads
11781272
Reads aligned (%)
92.2
Duplicates removed (%)
2.5
Number of peaks
2525 (qval < 1E-05)

hg38

Number of total reads
11781272
Reads aligned (%)
92.8
Duplicates removed (%)
2.0
Number of peaks
2447 (qval < 1E-05)

Base call quality data from DBCLS SRA