Antigen

Antigen Class

TFs and others

Antigen

KDM5B

Cell type

Cell type Class

Breast

Cell type

MDA-MB-231

Primary Tissue

Breast

Site of Extraction

Effusion, Pleural

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

breast cancer cells

cell line

MDA-MB-231

cell type

breast cancer cells

chip antibody

JARID1B (Novus Biologicals, 22260002)

transfection

siControl

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

To isolate chromatin, formaldehyde-cross-linked nuclei were sonicated using a Covaris focused-ultrasonicator. Following ChIP performed with specific antibodies and Dynabeads® Protein G (Invitrogen) ChIP DNA was subjected to end repair, A-tailing, ligation of Illumia single end adaptor. Following PCR amplification for 18 cycles, the final library underwent gel purification.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

160554495

Reads aligned (%)

64.7

Duplicates removed (%)

40.2

Number of peaks

51879 (qval < 1E-05)

hg19

Number of total reads

160554495

Reads aligned (%)

64.2

Duplicates removed (%)

41.2

Number of peaks

51370 (qval < 1E-05)