Xinxia Peng

Mycoplasmal endosymbionts of Trichomonas vaginalis are associated with reduced risk for Chlamydia trachomatis endometrial infection in asymptomatic, coinfected, women.

A comprehensive assessment of tandem repeat genotyping methods for Nanopore long-read genomes

This paper benchmarks 7 TR genotyping tools using Nanopore long-read data, finding that no single tool is best across all metrics, and that sequence-level accuracy is crucial for clinical and population studies.

VILMIR is a trans-acting long noncoding RNA that enhances the host interferon response in human epithelial cells

This study identifies VILMIR as a long noncoding RNA that enhances the host interferon response by interacting with transcriptional and translational regulators in human epithelial cells.

Cervicovaginal microbial features predict Chlamydia trachomatis spread to the upper genital tract of infected women

Human long noncoding RNA, VILMIR, is induced by major respiratory viral infections and modulates the host interferon response

This study identifies VILMIR, a novel lncRNA upregulated by respiratory viral infections and IFN-β, which modulates the host interferon response.

Development of ferret immune repertoire reference resources and single-cell-based high-throughput profiling assays

The paper develops ferret immune repertoire reference resources and assays using long-read transcriptome sequencing and genome annotation.

Pre-challenge gut microbial signature predicts RhCMV/SIV vaccine efficacy in rhesus macaques

The paper identifies a gut microbial signature predictive of RhCMV/SIV vaccine efficacy in rhesus macaques using 16S rRNA analysis and compositional data techniques.

Sustained IL-15 response signature predicts RhCMV/SIV vaccine efficacy

The paper identifies an IL-15 response signature in vaccinated rhesus macaques that correlates with protection against SIV challenge following RhCMV/SIV vaccination.

Isolator: accurate and stable analysis of isoform-level expression in RNA-Seq experiments

Isolator improves isoform-level RNA-Seq analysis by reducing variance and increasing agreement between samples through a Bayesian hierarchical model and bias correction.