Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Cebpa

Cell type

Cell type Class
Blood
Cell type
Hematopoietic Stem Cells
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

Sample

source_name
LSK_CebpaWT
cell type
Haematopoietic progenitor cells
strain
C57BL/6 cebpa flox/flox
gender
male
antibody
Cebpa: Santa Cruz 14-AA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin 500.000 FACS sorted LSKs or GMPs was incubated with antibodies recognizing C/EBPa. For histone modification 100.000 FACS sorted cells were used for ChIP. The antibody-bound chromatin was captured with Protein-A sepharose beads, washed, de-cross-linked and precipitated. DNA was extracted using standard phenol-chloroform extraction Precipitated DNA were mixed with 2 ng E. Coli DNA and amplified using NEB Next ChIP-seq sample prep reagent set 1 (New England Biolabs) according to manufacturers protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
218682084
Reads aligned (%)
83.5
Duplicates removed (%)
61.5
Number of peaks
1504 (qval < 1E-05)

mm9

Number of total reads
218682084
Reads aligned (%)
83.3
Duplicates removed (%)
61.5
Number of peaks
1630 (qval < 1E-05)

Base call quality data from DBCLS SRA