M. A. Huynen

Temporal composition of the cervicovaginal microbiome associates with hrHPV infection outcomes in a longitudinal study

This study links cervicovaginal microbiome composition to hrHPV infection outcomes in a longitudinal cohort, showing specific microbial patterns associated with SIL development.

Quantifying the deformability of malaria-infected red blood cells using deep learning trained on synthetic cells

This paper uses deep learning trained on synthetic data to quantify deformability differences in malaria-infected red blood cells, revealing strain-specific virulence variations.

Novel functional insights from the Plasmodium falciparum sporozoite-specific proteome by probabilistic integration of 26 studies

This paper identifies sporozoite-specific and enriched proteins in Plasmodium falciparum by integrating 26 transcriptomic and proteomic studies, revealing key pathways and potential vaccine targets.

Genome-wide analysis in Escherichia coli unravels an unprecedented level of genetic homoplasy associated with cefotaxime resistance.

The paper identifies a −42 C>T mutation in the ampC promoter as significantly associated with cefotaxime resistance in E. coli through genome-wide homoplasy analysis.

A dual function of TMEM70 in OXPHOS: assembly of complexes I and V

This study identifies TMEM70's dual role in OXPHOS complex I and V assembly through BioID, complexome profiling, and evolutionary analyses, showing its impact on intermediate accumulation and stability.

Contribution of Lateral Gene Transfer to the evolution of the eukaryotic fungus Piromyces sp. E2: Massive bacterial transfer of genes involved in carbohydrate metabolism

This study identifies 704 lateral gene transfer candidates in Piromyces sp. E2, mostly from gut bacteria, with a significant over-representation in carbohydrate metabolism functions.

The Tudor protein Veneno assembles the ping-pong amplification complex that produces viral piRNAs in Aedes mosquitoes

The paper identifies Veneno, a Tudor protein in Aedes aegypti, as essential for viral piRNA production via its role in assembling the ping-pong amplification complex with Ago3 and Piwi5.

Probabilistic data integration identifies reliable gametocyte-specific proteins and transcripts in malaria parasites

The paper integrates omics data to identify gametocyte-specific genes and transcripts in malaria parasites, finding novel biomarkers and validating their expression in natural infections.

Genome-scale detection of positive selection in 9 primates predicts human-virus evolutionary conflicts

The paper identifies 331 positively selected genes in nine primates, highlighting immune-related functions and virus-host interactions, and provides a curated dataset of these genes.

Regulatory remodeling in the allo-tetraploid frog Xenopus laevis

This study investigates the genomic and epigenomic consequences of whole genome duplication in Xenopus laevis, finding that subgenome degradation and regulatory element innovation are linked to repeats and non-allelic homologous recombination.