Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BHLHE40

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
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
None
treatment description
No special treatment or protocol applies
antibody
BHLHE40_(NB100-1800)
antibody antibodydescription
Rabbit polyclonal, maps to a region between residues 350 and the C-terminus (residue 412). Antibody Target: BHLHE40
antibody targetdescription
This gene encodes a basic helix-loop-helix protein expressed in various tissues. Expression in the chondrocytes is responsive to the addition of Bt2cAMP. The encoded protein is believed to be involved in the control of cell differentiation.
antibody vendorname
Novus
antibody vendorid
NB100-1800
control
IgG-mus
control description
Input signal from Normal Mouse IgG ChIP-seq.
control
IgG-mus
control description
Input signal from Normal Mouse IgG ChIP-seq.
controlid
wgEncodeEH000706
replicate
1

Sequenced DNA Library

library_name
GSM935430: Stanford_ChipSeq_GM12878_BHLHE40_(NB100-1800)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
49363538
Reads aligned (%)
83.8
Duplicates removed (%)
7.4
Number of peaks
37245 (qval < 1E-05)

hg38

Number of total reads
49363538
Reads aligned (%)
85.5
Duplicates removed (%)
6.5
Number of peaks
36361 (qval < 1E-05)

Base call quality data from DBCLS SRA