hg19DBNM: hg19-RefSeq

In iGC: An integrated analysis package of Gene expression and Copy number alteration

Description

The human genome reference used here is RefSeq transcripts in version hg19 from UCSC Genome Browser. The transcripts with NM marker ID, which are protein-codeing, were selected to be our reference database and provided as hg19DBNM.rda.

Usage

hg19DBNM

Format

A data frame with 39997 rows and 7 variables:

Marker.ID

RefSeq name with its corrsponding gene symbol

Chromosome

1-22, X and Y

Start

starting position, in basepair number

Stop

ending position, in basepair number

Strand

positive or negative strand, in + or - symbols

Gene.Symbol

Gene name

Transcript

RefSeq name

Details

This reference provides region information, including chromosome number, starting position, ending position, strand and gene symbols, for converting copy number alteration data into human genes.

Value

data.table

Source

UCSC Genome Browser: http://hgdownload.cse.ucsc.edu/downloads.html

iGC documentation built on Nov. 8, 2020, 6:49 p.m.