Matthew L. Bendall

This study develops a tool to analyze transposable element expression in single-cell RNA sequencing data and builds an atlas showing TEs delineate cell types in human PBMCs.

This study investigates the role of transposable elements in HIV-1 elite controllers, finding distinct transcriptomic profiles and differential TE expression associated with antiviral resistance.

This study constructs epigenetic clocks using retroelement DNA methylation states to predict chronological age across human tissues and species, showing their reversibility and responsiveness to HIV treatment.

This study evaluates twelve haplotype callers for NGS viral sequencing, finding they perform poorly under high genetic diversity, with PredictHaplo and PEHaplo showing better accuracy for HIV-like diversity levels.

The paper identifies 148 HERVs associated with schizophrenia risk using comprehensive annotation and RNA-sequencing data from brain samples.

Telescope accurately estimates transposable element expression in RNA-seq data by resolving ambiguously mapped fragments using a Bayesian model, revealing cell-type specific retrotranscriptome differences.