Antigen

Antigen Class

Unclassified

Antigen

Unclassified

Cell type

Cell type Class

Breast

Cell type

Breast cancer

NA

NA

Sample

source_name

Primary breast cancer

tissue

FFPE

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIPseq:ThruPLEX-FD kits (Rubicon Genomics) was used and 75 bp single-end reads were sequenced on a NextSeq 500 instrument (Illumina). For RNAseq: TruSeq RNA Sample Preparation Kit (Illumina) was used according to the manufacturer's instructions and 75 bp single-end reads were sequenced on an Illumina NextSeq 500 instrument.

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

38848006

Reads aligned (%)

88.8

Duplicates removed (%)

4.0

Number of peaks

1067 (qval < 1E-05)

hg19

Number of total reads

38848006

Reads aligned (%)

88.2

Duplicates removed (%)

5.1

Number of peaks

998 (qval < 1E-05)