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

disease state

MLL-AF9 leukemia

tissue

Bone marrow

genotype

Kat2a WT

chip antibody

none

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

5.10^5 (H3K27ac and H3K4me1) - 5.10^6 (H3K9ac and H3K4me3) cells per condition were cross-linked in 1% formaldehyde, lysed and sonicated as described (Tzelepis et al, 2016), using 33 cycles of 30'' ON/30''OFF. Chromatin was immunoprecipitated with anti-H3K9ac (Millipore 07-352), anti-H3K27ac (abcam -ab4729), anti-H3K4me1 (abcam ab8895) or anti-H3K4me3 (abcam ab8580) antibodies and captured with 1:1 protein A and protein G magnetic beads. After reverse cross-linking, immunoprecipitated and input DNA were purified using a Zymo DNA clean and concentrator5 kit. Standard Illumina ChIP library protocols with Nextera indices

Sequencing Platform

instrument_model

Illumina HiSeq 4000

mm10

Number of total reads

37006523

Reads aligned (%)

98.7

Duplicates removed (%)

32.3

Number of peaks

457 (qval < 1E-05)

mm9

Number of total reads

37006523

Reads aligned (%)

98.5

Duplicates removed (%)

32.3

Number of peaks

504 (qval < 1E-05)