Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
LDB1

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
human erythroid progenitor (HEP)
cell type
human erythroid progenitor (HEP)
antibodies
LDB1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were harvested at day 7-8 of culture and crosslinked using formaldehyde (1% final volume for ChIP-Seq, 2% final volume for 3C-Seq) and nuclei were isolated. For ChIP-Seq, nuclei were sonicated and protein-DNA complexes isolated using antibodies. For 3C-Seq, nuclei were digested and ligated under dilute conditions with primary and secondary restriction enzymes. ChIP-Seq libraries were prepared for sequencing using standard Illumina protocols. 3C-seq library preparation was described in detail in Stadhouders et al. Nature Protocols (2013).

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
31443074
Reads aligned (%)
55.5
Duplicates removed (%)
42.9
Number of peaks
16152 (qval < 1E-05)

hg38

Number of total reads
31443074
Reads aligned (%)
57.3
Duplicates removed (%)
41.4
Number of peaks
16028 (qval < 1E-05)

Base call quality data from DBCLS SRA