Antigen

Antigen Class

TFs and others

Antigen

KDM5B

Cell type

Cell type Class

Breast

Cell type

MCF-7

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

breast cancer cells

cell line

MCF7

cell type

breast cancer cells

chip antibody

JARID1B (Novus Biologicals, 22260002)

transfection

siCTCF

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

155615959

Reads aligned (%)

72.7

Duplicates removed (%)

42.3

Number of peaks

46969 (qval < 1E-05)

hg19

Number of total reads

155615959

Reads aligned (%)

72.3

Duplicates removed (%)

43.4

Number of peaks

47787 (qval < 1E-05)