Defining data-driven primary transcript annotations with primaryTranscriptAnnotation in R.

ABSTRACT:

Summary

Nascent transcript measurements derived from run-on sequencing experiments are critical for the investigation of transcriptional mechanisms and regulatory networks. However, conventional mRNA gene annotations significantly differ from the boundaries of primary transcripts. New primary transcript annotations are needed to accurately interpret run-on data. We developed the primaryTranscriptAnnotation R package to infer the transcriptional start and termination sites of primary transcripts from genomic run-on data. We then used these inferred coordinates to annotate transcriptional units identified de novo. This package provides the novel utility to integrate data-driven primary transcript annotations with transcriptional unit coordinates identified in an unbiased manner. High

SUBMITTER: Anderson WD 

PROVIDER: S-EPMC7203734 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature