Antigen

Antigen Class

TFs and others

Antigen

SPDEF

Cell type

Cell type Class

Breast

Cell type

MCF-7

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

MCF-7 breast cancer cell line

cell type

MCF-7 breast cancer cell line

chip antibody

SPDEF (sc67022; Santa Cruz Biotechnology)

chip treatment conditions

Full media

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

ChIP of DNA was performed as described in Schmidt et al., Methods (2009) doi: 10.1016/j.ymeth.2009.03.001 Illumina sequencing libraries were prepared as described in Schmidt et al., Methods (2009) doi: 10.1016/j.ymeth.2009.03.001

Sequencing Platform

instrument_model

Illumina Genome Analyzer IIx

hg38

Number of total reads

38520935

Reads aligned (%)

97.2

Duplicates removed (%)

45.9

Number of peaks

862 (qval < 1E-05)

hg19

Number of total reads

38520935

Reads aligned (%)

96.6

Duplicates removed (%)

46.9

Number of peaks

1026 (qval < 1E-05)