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Numt identification and removal with RtN!

NCJ Number
302398
Journal
Bioinformatics Volume: 36 Issue: 20 Dated: October 2020 Pages: 5115-5116
Date Published
October 2020
Length
2 pages
Author(s)
August E. Woerner; Jennifer Churchill Cihlar; Utpal Smart; Bruce Budowle
Agencies
NIJ-Sponsored
Annotation

This article reports on Numt Identification and removal with RtN!

Abstract

Assays in mitochondrial genomics rely on accurate read mapping and variant calling; however, there are known and unknown nuclear paralogs that have fundamentally different genetic properties than that of the mitochondrial genome. Such paralogs complicate the interpretation of mitochondrial genome data and confound variant calling. Remove the Numts! (RtN!) was developed to categorize reads from massively parallel sequencing data not based on the expected properties and sequence identities of paralogous nuclear encoded mitochondrial sequences, but instead using sequence similarity to a large database of publicly available mitochondrial genomes. RtN! removes low-level sequencing noise and mitochondrial paralogs while not impacting variant calling. Competing methods were shown to remove true variants from mitochondrial mixtures. (publisher abstract modified)

Date Created: September 21, 2021