ExTraMapper: exon- and transcript-level mappings for orthologous gene pairs.

ABSTRACT:

Motivation

Access to large-scale genomics and transcriptomics data from various tissues and cell lines allowed the discovery of wide-spread alternative splicing events and alternative promoter usage in mammalians. Between human and mouse, gene-level orthology is currently present for nearly 16k protein-coding genes spanning a diverse repertoire of over 200k total transcript isoforms.

Results

Here, we describe a novel method, ExTraMapper, which leverages sequence conservation between exons of a pair of organisms and identifies a fine-scale orthology mapping at the exon and then transcript level. ExTraMapper identifies more than 350k exon mappings, as well as 30k transcript mappings between human and mouse using only sequence and gene annotation information. We demonstrate tha

SUBMITTER: Chakraborty A 

PROVIDER: S-EPMC8545320 | biostudies-literature | 2021 Oct

REPOSITORIES: biostudies-literature