Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR2C2

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

source_name
K562
biomaterial_provider
ATCC
lab
USC
lab description
Farnham - University of Southern California
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
K562
cell organism
human
cell description
leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC
cell karyotype
cancer
cell lineage
mesoderm
cell sex
F
treatment
None
treatment description
No special treatment or protocol applies
antibody
TR4
antibody antibodydescription
Rabbit polyclonal. Antibody Target: TR4
antibody targetdescription
(Also: NR2C2) Members of the nuclear hormone receptor family, such as NR2C2, act as ligand-activated transcription factors. The proteins have an N-terminal transactivation domain, a central DNA-binding domain with 2 zinc fingers, and a ligand-binding domain at the C terminus.
antibody vendorname
Donated by Dr. J.D.Engel, University of Michigan
antibody vendorid
TR4
control
UCDavis
control description
Input library was prepared at UC Davis.
control
UCDavis
control description
Input library was prepared at UC Davis.
controlid
wgEncodeEH000672
labversion
Fragmented using Bioruptor, precipitated with protein A agarose beads,
replicate
1
softwareversion
PeakSeq1.0 (fdr 0.001)

Sequenced DNA Library

library_name
GSM935374: USC_ChipSeq_K562_TR4_UCDavis
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
27042733
Reads aligned (%)
69.1
Duplicates removed (%)
2.6
Number of peaks
989 (qval < 1E-05)

hg38

Number of total reads
27042733
Reads aligned (%)
70.5
Duplicates removed (%)
1.6
Number of peaks
808 (qval < 1E-05)

Base call quality data from DBCLS SRA