Work

Pv3Rs: Plasmodium vivax relapse, recrudescence, and reinfection statistical genetic inference

Year: 2025

Type: article

Abstract: SUMMARY: A Plasmodium vivax recurrence can be caused by activation of dormant liver-stage hypnozoites (relapse), failure to successfully treat a blood-stage infection (recrudescence), or a new mosquito inoculation (reinfection) (Pv3Rs). Inference of the cause of recurrence is important, especially in clinical trials, where molecular correction is used to improve estimates of antimalarial treatment efficacy. Pv3Rs implements statistical inference of P. vivax recurrence states (recrudescence, relapse, reinfection) from P. vivax genetic data. Under various simplifying assumptions, we model genetic relationships between parasites within and across infections to compute the posterior probabilities of recurrence states. Pv3Rs is applicable to a variety of genetic data types, including length polymorphic loci and amplicon sequencing data. AVAILABILITY AND IMPLEMENTATION: Pv3Rs is freely available on CRAN under the GNU license. Its CRAN DOI is 10.32614/CRAN.package.Pv3Rs. Source code and installation instructions can be found at https://cran.r-project.org/web/packages/Pv3Rs/index.html.

Source: Bioinformatics

DOI: 10.1093/bioinformatics/btaf643

Authors: Yong See Foo, Michael T White, Aimee R Taylor

Institutions: The University of Melbourne, Institut Pasteur, Université Paris Cité

Language: English

Topic: Malaria Research and Control

Subfield: Public Health, Environmental and Occupational Health

Field: Medicine

Domain: Health Sciences

SDG: Good health and well-being

Open Access status: gold

Estimated APC paid: $3,989