Antigen

Antigen Class

Histone

Antigen

H3K36me3

Cell type

Cell type Class

Blood

Cell type

SEM

Primary Tissue

Blood

Tissue Diagnosis

Leukemia

Sample

source_name

Leukemia cell line (SEM)

cell line

Leukemia cell line; SEM

cell type

Paediatric pro B-cell line derived from ALL with t(4;11)(q21;q23) translocation

chip antibody

H3K36me3 (Diagenode, pAb-192-050, lot A1847-001P)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

ChIP-seq: Fixed cells were lysed in 1% SDS lysis buffer. Samples were sonicated and protein-DNA complexes were isolated with antibody. Nascent RNA-seq: 108 4sU-treated cells were lysed in 10ml Trizol. RNA was extracted using chloroform and precipitated with EtOH. 4sU RNA was biotinylated with 1mg/ml Biotin-HPDP and nascent RNA was enriched for using streptavidin-coated beads. Libraries were prepared according to Illumina's protocol accompanying the DNA Library Prep Master Mix Set (Part# E6040) or Ultra RNA Library Prep Master Mix Set (Part# E7530).

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

28068165

Reads aligned (%)

96.3

Duplicates removed (%)

1.3

Number of peaks

599 (qval < 1E-05)

hg19

Number of total reads

28068165

Reads aligned (%)

95.6

Duplicates removed (%)

1.4

Number of peaks

499 (qval < 1E-05)