transToTSS: A data frame with Ensemble transcript IDs and transcriptional...

Description Usage Format Details Source Examples

Description

The data frame stores Ensemble transcript IDs and repective chromosomes, transcriptional start sites and strands for mus musculus (mm10).

Usage

1

Format

A data frame with 277 mouse transcripts with the following 4 variables:

ensembl_transcript_id

A character giving the Ensemble transcript ID.

chromosome_name

A character with the respective chromomse name.

transcript_start

An integer storing the respective transcriptional start site.

strand

An integer storing the respective strand information.

Details

Given a character vector transcripts with the Ensemble transcript IDs, a data frame like this can be obtained via biomaRt:

library("biomaRt") mart <- useMart("ensembl", dataset="mmusculus_gene_ensembl") transToTSS <- getBM(attributes=c("ensembl_transcript_id", "chromosome_name", "transcript_start", "transcript_end", "strand"), filters="ensembl_transcript_id", values=transcripts, mart=mart)

Source

http://www.ensembl.org

Examples

1
2

epigenomix documentation built on May 6, 2019, 2:17 a.m.