Curated Sample Data


Genome
mm9
Antigen Class
Input control
Antigen
Input control
Cell type Class
Blood
Cell type
Hematopoietic Stem Cells

Cell type information


MeSH Description
Progenitor cells from which all blood cells derived. They are found primarily in the bone marrow and also in small numbers in the peripheral blood.

Attributes by Original Data Submitter


source_name
haematopoietic stem and progenitor cell (HSC)
strain
C57BL/6J
chip antibody
none
cell type
haematopoietic stem and progenitor cell (HSC)

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation was performed with 1x10^7 cells per experiment. The cells were collected and cross-linked for 15min in 1% paraformaldehyde, washed and lysed. Chromatin was sheared using a Bioruptor to create fragments of approximately 150 base pairs, incubated with about 2–5 μg antibody bound to 75 μl Dynabeads M-280 (Invitrogen) and rotated overnight at 4 °C, then washed and eluted. The eluted chromatin was reverse-cross-linked and column purified. ChIP samples were prepared for sequencing using Illumina TruSeq DNA Sample Preparation Kit according to the standard preparation protocol.

Platform Information


instrument_model
Illumina HiSeq 1000

External Database Query

Logs in read processing pipeline


Number of total reads
37857852
Reads aligned (%)
84.3
Duplicates removed (%)
13.6
Number of peaks
744 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA