Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Digestive tract

Cell type

Gastrointestinal Stromal Tumors

MeSH Description

All tumors in the GASTROINTESTINAL TRACT arising from mesenchymal cells (MESODERM) except those of smooth muscle cells (LEIOMYOMA) or Schwann cells (SCHWANNOMA).

Sample

source_name

KIT-dependent GIST cell line

chip antibody

None

treatment

500 nM of JQ1

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. Libraries for single-end 75 bp sequencing on an Illumina NextSeq 500 were prepared with a ThruPLEX DNA-seq Kit (Rubicon).

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

59686775

Reads aligned (%)

97.3

Duplicates removed (%)

4.5

Number of peaks

1784 (qval < 1E-05)

hg19

Number of total reads

59686775

Reads aligned (%)

96.7

Duplicates removed (%)

6.0

Number of peaks

1135 (qval < 1E-05)