Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ZEB1

Cell type

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

Attributes by original data submitter

Sample

GEO Accession
GSM1010809
antibody antibodydescription
Rabbit polyclonal IgG, epitope corresponding to amino acids 39-140 mapping near the N-terminus of ZEB1 of human origin. Antibody Target: ZEB1
antibody targetdescription
This gene encodes a zinc finger transcription factor. The encoded protein likely plays a role in transcriptional repression of interleukin 2. Mutations in this gene have ben associated with posterior polymorphous corneal dystrophy-3 and late-onset Fuchs endothelial corneal dystrophy. Alternatively spliced transcript variants encoding different isoforms have been described. (provided by RefSeq).
antibody vendorid
sc-25388
antibody vendorname
Santa Cruz Biotechnology
antibody
ZEB1_(SC-25388)
cell description
hepatocellular carcinoma
cell karyotype
cancer
cell lineage
endoderm
cell organism
human
cell sex
M
cell
HepG2
controlid
SL12050,SL12795
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL16318,SL13301
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
softwareversion
MACS
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010809: HudsonAlpha_ChipSeq_HepG2_ZEB1_(SC-25388)_v042211.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
56918081
Reads aligned (%)
77.1
Duplicates removed (%)
10.9
Number of peaks
27118 (qval < 1E-05)

hg38

Number of total reads
56918081
Reads aligned (%)
78.0
Duplicates removed (%)
10.2
Number of peaks
27227 (qval < 1E-05)

Base call quality data from DBCLS SRA