Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NR2C2

Cell type

Cell type Class
Blood
Cell type
Erythroblasts
MeSH Description
Immature, nucleated ERYTHROCYTES occupying the stage of ERYTHROPOIESIS that follows formation of ERYTHROID PRECURSOR CELLS and precedes formation of RETICULOCYTES. The normal series is called normoblasts. Cells called MEGALOBLASTS are a pathologic series of erythroblasts.

Attributes by original data submitter

Sample

source_name
D11-erythroid cells, TR4 ChIP
cell type
erythroid cells
time point
day 11 of differentiation
developmental stage
basophilic ~ polychromatic erythroblast
disease status
healthy
chip antibody
rabbit anti-TR4 antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
1X10^8 cells were harvested on culture days 8, 11 or 14 and cross-linked with 1% formaldehyde. Chromatin in complex with TR4 was then sonicated and incubated with rabbit anti-TR4 antibody (generated in-house) at 4 ºC overnight in IP dilution buffer. Library construction was performed using the IntegenX ChIP-seq sample preparation kit as per manufacturer's instructions. The libraries were amplified by PCR (15 cycles) and then purified using Agencourt XP beads with a DNA fragment size selection of 500 - 700 bp. ChIP DNA libraries were analyzed on a Bioanalzyer and qPCR assay was used to assess the library quality and pooled in equimolar ratios before sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
62529655
Reads aligned (%)
79.1
Duplicates removed (%)
6.9
Number of peaks
1400 (qval < 1E-05)

hg38

Number of total reads
62529655
Reads aligned (%)
81.1
Duplicates removed (%)
5.5
Number of peaks
1400 (qval < 1E-05)

Base call quality data from DBCLS SRA