SRX150392
GSM935312: Yale ChipSeq HepG2 pravastatin Pol2 std

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
RNA polymerase
Antigen
RNA polymerase II

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
Yale
lab description
Snyder - Yale 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
pravastatin
treatment description
For sterol deprivation, cells were cultured with pravastatin (2 uM, Sigma) in DMEM with 0.5% BSA for 16 h. (Snyder)
antibody
Pol2
antibody antibodydescription
mouse monoclonal, clone 8WG16. Antibody Target: POL2
antibody targetdescription
RNA Polymerase II
antibody vendorname
Covance
antibody vendorid
MMS-126R
control
std
control description
Standard input signal for most experiments.
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000640
labversion
remapped from hg18
replicate
1

Sequenced DNA Library

library_name
GSM935312: Yale_ChipSeq_HepG2_pravastatin_Pol2_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

hg38

Number of total reads
12749321
Reads aligned (%)
87.0
Duplicates removed (%)
8.6
Number of peaks
6405 (qval < 1E-05)

hg19

Number of total reads
12749321
Reads aligned (%)
85.9
Duplicates removed (%)
8.8
Number of peaks
6394 (qval < 1E-05)

Base call quality data from DBCLS SRA