promoters_f5_core: Core promoters GenomicRanges object

In mcjmigdal/xcoredata: data package for xcore

Core promoters GenomicRanges object

Description

Core promoters selected from promoters_f5. Selection criteria were GENCODE confirmation and ENCODE ROADMAP confirmation. Further for each gene single promoter with highest FANTOM5 score was selected.

Usage

promoters_f5_core

Format

A GenomicRanges object of length 14191, with 16 metadata columns:

name

Promotor name.

score

Numeric vector.

gene_type_gencode

Gene type of associated gene as defined by GENCODE annotation.

ENTREZID

ENTREZ ID of associated gene as defined by all three annotation sources. Prevalence of annotations: UCSC > GENCODE > FANTOM5.

SYMBOL

Gene symbol of associated gene as defined by all three annotation sources. Prevalence of annotations: UCSC > GENCODE > FANTOM5.

Examples

promoters_f5_core()

mcjmigdal/xcoredata documentation built on Aug. 27, 2022, 11:03 p.m.