Antigen

Antigen Class

Input control

Antigen

Input control

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.

Sample

source_name

bone marrow

chip ab

none

strain

C57BL6

developmental stage

adult

cell isolation markers

CD4-, CD8-, IL7Ra-, CD11b-, Ly6g-, CD45R-, Ter119-, Sca1-, CD41+, CD61+, cKit-

cell type

megakaryocyte

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared according to Illumina's instructions accompanying TruSeq ChIP-seq Sample Preparation Kit. (Part# IP-202-1012). In brief, ChIP-enriched, fragmented DNA was subjected to end repair to generate blunt-end double stranded DNA, adenylation of 3' ends, and adaptor ligation. Following ligation, SPRIselect (Beckman Coulter) beads were used at 0.9X and 0.6X for left and right side selection, respectively, to obtain an average library target size of ~300 bp. After size selection, fragments were amplified for 16 cycles, and PCR products were purified using Agencourt AMPureXP beads (Beckman Coulter).

Sequencing Platform

instrument_model

Illumina HiSeq 2500

mm10

Number of total reads

31409858

Reads aligned (%)

98.0

Duplicates removed (%)

10.6

Number of peaks

473 (qval < 1E-05)

mm9

Number of total reads

31409858

Reads aligned (%)

97.7

Duplicates removed (%)

10.6

Number of peaks

502 (qval < 1E-05)