Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CUX1

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
CDP_(sc-6327)
antibody antibodydescription
CDP (C-20) is an affinity purified goat polyclonal antibody raised against a peptide mapping at the C-terminus of CDP of mouse origin.
antibody targetdescription
CDP (for CCAAT displacement protein) was identified as a repressor for tran- scription of developmentally regulated genes. It is a homeodomain protein that appears to compete with transcriptional activating proteins for binding to the promoter regions of various genes. CDP contains three cut repeats which function as DNA binding domains. It has been demonstrated that cut repeat domains have the capacity to bind to DNA in conjunction with or independently of homeodomain DNA binding. CDP has been shown to be the DNA-binding subunit of the HiNF-D complex, which contains cyclin A, Cdc2 and an Rb-related protein in addition to CDP. Histone expression is required for the transition to S phase in the cell cycle. The HiNF-D complex regulates the transcription of Histone H4, H3 and H1 genes, allowing cells to progress from G1 to S phase.
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-6327
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
GSM1003604: Stanford_ChipSeq_GM12878_CDP_(sc-6327)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
62492520
Reads aligned (%)
81.7
Duplicates removed (%)
8.5
Number of peaks
6235 (qval < 1E-05)

hg38

Number of total reads
62492520
Reads aligned (%)
83.6
Duplicates removed (%)
7.5
Number of peaks
6230 (qval < 1E-05)

Base call quality data from DBCLS SRA