Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Blood

Cell type

K-562

Primary Tissue

Blood

Tissue Diagnosis

Leukemia Chronic Myelogenous

Sample

source_name

human K562 cell_input_amp

biomaterial_provider

ATCC CCL 243

cell line

K562

replicate

1

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Ten million vehicle or TOP2 poison-treated K562 cells were lysed with RIPA buffer and the lysates sonicated to fragment the DNA to 250-750bp. TOP2A was immunocaptured with anti-TOP2A IgG and Protein G magnetic beads, the bead-bound fraction separated, and immunoprecipitation repeated twice on non-bound fractions. The bead-bound fractions were combined and treated with CIP (NEB) to detach the TOP2A-bound DNA from cleavage complexes. The released DNA and input DNA from sonicated lysates were purified and used directly for library synthesis with an IlluminaTruSeq ChIP library kitor pre-amplified with a SEQXE kit (Sigma) before library preparation. Sequencing was performed on an Illumina HiSeq2500 (SE50 protocol)

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

63033447

Reads aligned (%)

97.3

Duplicates removed (%)

31.8

Number of peaks

1934 (qval < 1E-05)

hg19

Number of total reads

63033447

Reads aligned (%)

96.3

Duplicates removed (%)

34.0

Number of peaks

1441 (qval < 1E-05)