Antigen

Antigen Class

TFs and others

Antigen

CDK9

Cell type

Cell type Class

Breast

Cell type

T-47D

Primary Tissue

Breast

Tissue Diagnosis

Adenocarcinoma Ductal

Sample

source_name

T47D cells

r5020 treatment

Untreated

chip antibody

CDK9

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

T47D-MTVL cells, without treatment or transfected with alpha-amanitin resistant HA-tagged wild type (WTr) versus R1810Ar mutant RNAP2 were cross-linked for 10 minutes with 1% formaldehyde. Lysate were sonicated to a DNA fragment size range of 200-300bp using a Biorupter sonicator (Diagenode). CDK9 Immunoprecipitated from , 150 μg chromatin with 15μg of anti-CDK9 (H-169.SC-8338)) antibody followed by 42μl of Protein A-Agarose Beads (Diagenode). Libraries were prepared using standadr Illumina instruction of NEBNext® ChIP-Seq Library Prep Reagent.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

89307088

Reads aligned (%)

77.1

Duplicates removed (%)

43.0

Number of peaks

3588 (qval < 1E-05)

hg19

Number of total reads

89307088

Reads aligned (%)

76.5

Duplicates removed (%)

43.5

Number of peaks

2615 (qval < 1E-05)