VarMap: a web tool for mapping genomic coordinates to protein sequence and structure and retrieving protein structural annotations.

ABSTRACT:

Motivation

Understanding the protein structural context and patterning on proteins of genomic variants can help to separate benign from pathogenic variants and reveal molecular consequences. However, mapping genomic coordinates to protein structures is non-trivial, complicated by alternative splicing and transcript evidence.

Results

Here we present VarMap, a web tool for mapping a list of chromosome coordinates to canonical UniProt sequences and associated protein 3D structures, including validation checks, and annotating them with structural information.

Availability and implementation

https://www.ebi.ac.uk/thornton-srv/databases/VarMap.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Stephenson JD 

PROVIDER: S-EPMC6853667 | biostudies-literature | 2019 Nov

REPOSITORIES: biostudies-literature