Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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
Input
antibody description
Control signal which may be subtracted from experimental raw signal before peaks are called.
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
replicate
1

Sequenced DNA Library

library_name
GSM935564: Stanford_ChipSeq_GM12878_TNFa_Input_IgG-rab
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
45752144
Reads aligned (%)
74.2
Duplicates removed (%)
4.1
Number of peaks
509 (qval < 1E-05)

hg19

Number of total reads
45752144
Reads aligned (%)
73.3
Duplicates removed (%)
5.2
Number of peaks
948 (qval < 1E-05)

Base call quality data from DBCLS SRA