Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ZNF384

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
ZNF384_(HPA004051)
antibody antibodydescription
Rabbit polyclonal generated using the immunogen: Zinc finger protein 384 recombinant protein epitope signature tag (PrEST)
antibody targetdescription
This gene encodes a C2H2-type zinc finger protein, which may function as a transcription factor. This gene also contains long CAG trinucleotide repeats that encode consecutive glutamine residues. The protein appears to bind and regulate the promoters of the extracellular matrix genes MMP1, MMP3, MMP7 and COL1A1. Studies in mouse suggest that nuclear matrix transcription factors (NP/NMP4) may be part of a general mechanical pathway that couples cell construction and function during extracellular matrix remodeling. Alternative splicing results in multiple transcript variants. Recurrent rearrangements of this gene with the Ewing's sarcoma gene, EWSR1 on chromosome 22, or with the TAF15 gene on chromosome 17, or with the TCF3 (E2A) gene on chromosome 19, have been observed in acute leukemia. A related pseudogene has been identified on chromosome 7.
antibody vendorname
SIGMA
antibody vendorid
HPA004051
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
labversion
PeakSeq1.0

Sequenced DNA Library

library_name
GSM1003602: Stanford_ChipSeq_GM12878_ZNF384_(HPA004051)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
58633421
Reads aligned (%)
84.6
Duplicates removed (%)
9.3
Number of peaks
16162 (qval < 1E-05)

hg38

Number of total reads
58633421
Reads aligned (%)
86.3
Duplicates removed (%)
8.2
Number of peaks
15475 (qval < 1E-05)

Base call quality data from DBCLS SRA