Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Ctcf

Cell type

Cell type Class
Blood
Cell type
Bone Marrow Cells
MeSH Description
Cells contained in the bone marrow including fat cells (see ADIPOCYTES); STROMAL CELLS; MEGAKARYOCYTES; and the immediate precursors of most blood cells.

Attributes by original data submitter

Sample

source_name
bone marrow
tissue
bone marrow
culture
primary cells (short term)
antibody
CTCF (Millipore/07-729)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were collected and seperated from feeders by pre-plating. Crosslinked and sonicated chromatin was immunoprecipitated with H3K4me2 or CTCF antibodies. CTCF ChIP-Seq libraries were constructed using the Illumina TruSeq ChIP Library Preparation Kit; H3K4me2 ChIPm-Seq libraries were generated using the Illumina Nextera DNA Library Prep Kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
60307372
Reads aligned (%)
31.9
Duplicates removed (%)
19.3
Number of peaks
10198 (qval < 1E-05)

mm9

Number of total reads
60307372
Reads aligned (%)
31.9
Duplicates removed (%)
19.4
Number of peaks
10585 (qval < 1E-05)

Base call quality data from DBCLS SRA