Deconvolution of multiple infections in Plasmodium falciparum from high throughput sequencing data.

ABSTRACT:

Motivation

The presence of multiple infecting strains of the malarial parasite Plasmodium falciparum affects key phenotypic traits, including drug resistance and risk of severe disease. Advances in protocols and sequencing technology have made it possible to obtain high-coverage genome-wide sequencing data from blood samples and blood spots taken in the field. However, analyzing and interpreting such data is challenging because of the high rate of multiple infections present.

Results

We have developed a statistical method and implementation for deconvolving multiple genome sequences present in an individual with mixed infections. The software package DEploid uses haplotype structure within a reference panel of clonal isolates as a prior for haplotypes present in a given samp

SUBMITTER: Zhu SJ 

PROVIDER: S-EPMC5870807 | biostudies-literature | 2018 Jan

REPOSITORIES: biostudies-literature