Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Zfp384

Cell type

Cell type Class
Blood
Cell type
MEL
Tissue
Blood
Lineage
cellLine
Description
Leukemia (K562 analog)

Attributes by original data submitter

Sample

source_name
MEL
biomaterial_provider
Weissman lab
lab
Stanford-m
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
MEL
cell organism
mouse
cell description
Leukemia (K562 analog)
cell sex
M
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
treatment
None
treatment description
No special treatment or protocol applies
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
age
immortalized
age description
Immortal cells
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
controlid
wgEncodeEM001947
strain
Unknown
strain description
Unknown strain origin

Sequenced DNA Library

library_name
GSM1003797: Stanford_ChipSeq_MEL_ZNF384_(HPA004051)_IgG-rab
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
52802606
Reads aligned (%)
93.5
Duplicates removed (%)
19.7
Number of peaks
51958 (qval < 1E-05)

mm9

Number of total reads
52802606
Reads aligned (%)
93.4
Duplicates removed (%)
19.7
Number of peaks
52033 (qval < 1E-05)

Base call quality data from DBCLS SRA