Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SRF

Cell type

Cell type Class
Blood
Cell type
GM12878
Tissue
blood
Lineage
mesoderm
Description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

Attributes by original data submitter

Sample

source_name
GM12878
biomaterial_provider
GM12878
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
antibody antibodydescription
Rabbit polyclonal. Antibody Target: SRF
antibody targetdescription
Serum response transcription factor
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-335
protocol description
a 25-cycle round of PCR and an additional 15-cycle round of PCR after gel size selection (Myers)
controlid
SL217,SL218
labexpid
SL292,SL291
labversion
PCR2x
labversion description
a 25-cycle round of PCR and an additional 15-cycle round of PCR after gel size selection (Myers)
replicate
1,2
softwareversion
MACS
antibody vendorid
sc-335
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR2x
protocol description
2-cycles of PCR (Myers)
controlid
SL217
labexpid
SL291
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803350: HudsonAlpha_ChipSeq_GM12878_SRF_PCR2x
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
126136003
Reads aligned (%)
38.7
Duplicates removed (%)
8.9
Number of peaks
8939 (qval < 1E-05)

hg38

Number of total reads
126136003
Reads aligned (%)
39.5
Duplicates removed (%)
9.2
Number of peaks
8041 (qval < 1E-05)

Base call quality data from DBCLS SRA