Antigen

Antigen Class

Bisulfite-Seq

Antigen

Bisulfite-Seq

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.

Sample

source_name

normal healthy donor

tissue

bone marrow hematopoietic stem cell

cell type

normal bone marrow

age

NA

gender

NA

cytogenetics

NA

human dnmt3a

NA

human flt3itd

NA

human flt3tkd

NA

human idh1

NA

human idh2

NA

human tet2

NA

Sequenced DNA Library

library_strategy

Bisulfite-Seq

library_source

GENOMIC

library_selection

RANDOM

library_construction_protocol

DNA was isolated from c-Kit+ splenocytes or single cell suspensions from CFU using the Qiagen Puregene kit according to manufacturer’s instructions. For small cell numbers glycogen was added to help precipitate DNA. Enhanced Reduced Representation Bisulfite Sequencing (ERRBS) libraries were generated from 25 ng of genomic DNA as previously described (Akalin et al., 2012) for the human specimens, and sequenced on a HiSeq-2000 sequencer. Murine libraries were prepared in the same way but using the indexed adaptors and sequenced with two libraries per lane on a HiSeq-2500 sequencer (Garrett-Bakelman et al., 2015).

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

190940097

Reads aligned (%)

59.8

Coverage rate (×)

4.6

Number of hyper MRs

191608 (qval < 1E-05)

hg19

Number of total reads

190940097

Reads aligned (%)

59.9

Coverage rate (×)

5.2

Number of hyper MRs

196074 (qval < 1E-05)