VAPPER: High-throughput variant antigen profiling in African trypanosomes of livestock.

ABSTRACT:

Background

Analysing variant antigen gene families on a population scale is a difficult challenge for conventional methods of read mapping and variant calling due to the great variability in sequence, copy number, and genomic loci. In African trypanosomes, hemoparasites of humans and animals, this is complicated by variant antigen repertoires containing hundreds of genes subject to various degrees of sequence recombination.

Findings

We introduce Variant Antigen Profiler (VAPPER), a tool that allows automated analysis of the variant surface glycoprotein repertoires of the most prevalent livestock African trypanosomes. VAPPER produces variant antigen profiles for any isolate of the veterinary pathogens Trypanosoma congolense and Trypanosoma vivax from genomic and transcriptomi

SUBMITTER: Silva Pereira S 

PROVIDER: S-EPMC6735694 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature