Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ATF3

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

GEO Accession
GSM1010757
antibody antibodydescription
Rabbit polyclonal IgG, epitope mapping at the C-terminus of ATF3 of human origin. Antibody Target: ATF3
antibody targetdescription
Activating transcription factor 3. A bZIP transcription factor and member of the Ca2+/cAMP response element-binding (CREB) protein family. ATF3 is found to act both as an activator and repressor of transcription.
antibody vendorid
sc-188
antibody vendorname
Santa Cruz Biotechnology
antibody
ATF3
cell description
colorectal carcinoma (PMID: 7214343)
cell karyotype
cancer
cell lineage
endoderm
cell organism
human
cell sex
M
cell
HCT-116
controlid
SL12247,SL12246
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL16874,SL12234
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
GSM1010757: HudsonAlpha_ChipSeq_HCT-116_ATF3_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
63554320
Reads aligned (%)
86.3
Duplicates removed (%)
5.6
Number of peaks
27348 (qval < 1E-05)

hg38

Number of total reads
63554320
Reads aligned (%)
87.2
Duplicates removed (%)
5.0
Number of peaks
27505 (qval < 1E-05)

Base call quality data from DBCLS SRA