Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RELA

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
Coriell
lab
Stanford
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
GM12878
cell organism
human
cell description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype
normal
cell lineage
mesoderm
cell sex
F
treatment
TNFa
treatment description
human recombinant TNF-alpha from eBioscience [product# 14-8329-62] (Snyder)
antibody
NFKB
antibody antibodydescription
Rabbit polyclonal. Antibody Target: NFKB
antibody targetdescription
Epitope mapping at the C-terminus of NF-kappa-B p65 of human origin, recommended for detection of NFkB p65 of m, r and h origin by WB, IP, IF and ELISA
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-372
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
controlid
wgEncodeEH002034
labversion
remapped from hg18, Illumina 2.0, low confidence sequences excluded
replicate
1

Sequenced DNA Library

library_name
GSM935478: Stanford_ChipSeq_GM12878_TNFa_NFKB_IgG-rab
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
61451423
Reads aligned (%)
63.8
Duplicates removed (%)
3.9
Number of peaks
20311 (qval < 1E-05)

hg38

Number of total reads
61451423
Reads aligned (%)
65.4
Duplicates removed (%)
3.7
Number of peaks
19874 (qval < 1E-05)

Base call quality data from DBCLS SRA