Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SP2

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
GSM1010787
antibody antibodydescription
Rabbit polyclonal IgG, epitope mapping near the N-terminus of SP2 of human origin. Antibody Target: SP2
antibody targetdescription
This gene encodes a member of the Sp subfamily of Sp/XKLF transcription factors. Sp family proteins are sequence-specific DNA-binding proteins characterized by an amino-terminal trans-activation domain and three carboxy-terminal zinc finger motifs. This protein contains the least conserved DNA-binding domain within the Sp subfamily of proteins, and its DNA sequence specificity differs from the other Sp proteins. It localizes primarily within subnuclear foci associated with the nuclear matrix, and can activate or in some cases repress expression from different promoters. (provided by RefSeq)
antibody vendorid
sc-643
antibody vendorname
Santa Cruz Biotechnology
antibody
SP2_(SC-643)
cell description
hepatocellular carcinoma
cell karyotype
cancer
cell lineage
endoderm
cell organism
human
cell sex
M
cell
HepG2
controlid
SL6019
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL6006,SL5688
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
GSM1010787: HudsonAlpha_ChipSeq_HepG2_SP2_(SC-643)_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
83464031
Reads aligned (%)
73.9
Duplicates removed (%)
11.6
Number of peaks
2939 (qval < 1E-05)

hg38

Number of total reads
83464031
Reads aligned (%)
75.2
Duplicates removed (%)
10.6
Number of peaks
2852 (qval < 1E-05)

Base call quality data from DBCLS SRA