Ultrafast and scalable variant annotation and prioritization with big functional genomics data.

ABSTRACT: The advances of large-scale genomics studies have enabled compilation of cell type-specific, genome-wide DNA functional elements at high resolution. With the growing volume of functional annotation data and sequencing variants, existing variant annotation algorithms lack the efficiency and scalability to process big genomic data, particularly when annotating whole-genome sequencing variants against a huge database with billions of genomic features. Here, we develop VarNote to rapidly annotate genome-scale variants in large and complex functional annotation resources. Equipped with a novel index system and a parallel random-sweep searching algorithm, VarNote shows substantial performance improvements (two to three orders of magnitude) over existing algorithms at different scales. It support

SUBMITTER: Huang D 

PROVIDER: S-EPMC7706736 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature