Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
JUND

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
GSM1010847
antibody antibodydescription
rabbit polyclonal IgG. Antibody Target: JunD
antibody targetdescription
The protein encoded by this intronless gene is a member of the JUN family, and a functional component of the AP1 transcription factor complex. It has been proposed to protect cells from p53-dependent senescence and apoptosis. Alternate translation initiation site usage results in the production of different isoforms. (provided by RefSeq)
antibody vendorid
sc-74
antibody vendorname
Santa Cruz Biotechnology
antibody
JunD
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
SL13069,SL12233
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
GSM1010847: HudsonAlpha_ChipSeq_HCT-116_JunD_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
59477294
Reads aligned (%)
81.6
Duplicates removed (%)
7.8
Number of peaks
46879 (qval < 1E-05)

hg38

Number of total reads
59477294
Reads aligned (%)
82.3
Duplicates removed (%)
7.3
Number of peaks
46911 (qval < 1E-05)

Base call quality data from DBCLS SRA