Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SRF

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
GSM1010851
antibody antibodydescription
Rabbit polyclonal. Antibody Target: SRF
antibody targetdescription
Serum response transcription factor
antibody vendorid
sc-335
antibody vendorname
Santa Cruz Biotechnology
antibody
SRF
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
SL13070,SL12237
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
GSM1010851: HudsonAlpha_ChipSeq_HCT-116_SRF_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
54245089
Reads aligned (%)
85.4
Duplicates removed (%)
6.7
Number of peaks
36076 (qval < 1E-05)

hg38

Number of total reads
54245089
Reads aligned (%)
86.2
Duplicates removed (%)
6.1
Number of peaks
36113 (qval < 1E-05)

Base call quality data from DBCLS SRA