Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RCOR1

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
COREST_(sc-30189)
antibody antibodydescription
Rabbit polyclonal, epitope corresponding to amino acids 246-310 mapping within an internal region of CoREST of human origin recommended for detection of CoREST of mouse, rat and human origin. Antibody Target: COREST (sc30189)
antibody targetdescription
Essential component of the BHC complex, a corepressor complex that represses transcription of neuron-specific genes in non-neuronal cells. In the BHC complex, it serves as a molecular beacon for the recruitment of molecular machinery, including MeCP2 and SUV39H1, that imposes silencing across a chromosomal interval. Plays a central role in demethylation of Lys-4 of histone H3 by promoting demethylase activity of KDM1A on core histones and nucleosomal substrates.
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-30189
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
GSM935583: Stanford_ChipSeq_GM12878_COREST_(sc-30189)_IgG-mus
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
45547474
Reads aligned (%)
87.7
Duplicates removed (%)
5.2
Number of peaks
8156 (qval < 1E-05)

hg38

Number of total reads
45547474
Reads aligned (%)
89.6
Duplicates removed (%)
4.3
Number of peaks
8450 (qval < 1E-05)

Base call quality data from DBCLS SRA