Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

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
Fetal erythroblasts_CTCF_ChIP
tissue
Fetal liver
cell type
CD34+ derived erythroblasts
differentiation stage
Day 11
chip antibody
CTCF (Millipore, 07-729, lot 2757161)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked with 1% formaldehyde for 10 minutes at room temperature. Fixed cells were lysised in 1mL Cell Lysis Buffer (10mM Tris-HCl pH 8, 10mM NaCl, 0.2% NP-40/Igepal). Nuclei were collected and lysised in 1mL Nuclear Lysis Buffer (50mM Tris-HCl pH 8, 10mM EDTA pH 8, 1% SDS). Chromatin was sonicated at 4 degrees C (Epishear, Active Motif). Chromatin was incubated with antibody and then decrosslink at 65C overnight. Libraries were prepared using TruSeq ChIP-seq Sample Preparation Kit (Part# IP-202-1012) according to Illumina's instructions.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
31939873
Reads aligned (%)
73.5
Duplicates removed (%)
24.8
Number of peaks
46186 (qval < 1E-05)

hg38

Number of total reads
31939873
Reads aligned (%)
75.0
Duplicates removed (%)
23.6
Number of peaks
46384 (qval < 1E-05)

Base call quality data from DBCLS SRA