Antigen

Antigen Class

Input control

Antigen

Input control

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.

Sample

source_name

D14-erythroid cells, input

cell type

erythroid cells

time point

day 14 of differentiation

developmental stage

polychromatic ~ orthochromatic erythroblast

disease status

healthy

chip antibody

none

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

hg38

Number of total reads

61607669

Reads aligned (%)

87.1

Duplicates removed (%)

8.9

Number of peaks

2270 (qval < 1E-05)

hg19

Number of total reads

61607669

Reads aligned (%)

85.6

Duplicates removed (%)

11.8

Number of peaks

1752 (qval < 1E-05)