Complement Genome Annotation Lift Over Using a Weighted Sequence Alignment Strategy.

ABSTRACT: With the broad application of high-throughput sequencing, more whole-genome resequencing data and de novo assemblies of natural populations are becoming available. For a particular species, in general, only the reference genome is well established and annotated. Computational tools based on sequence alignment have been developed to investigate the gene models of individuals belonging to the same or closely related species. During this process, inconsistent alignment often obscures genome annotation lift over and leads to improper functional impact prediction for a genomic variant, especially in plant species. Here, we proposed the zebraic striped dynamic programming algorithm, which provides different weights to genetic features to refine genome annotation lift over. Testing of our

SUBMITTER: Song B 

PROVIDER: S-EPMC6902276 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature