Pierre‐Luc Germain

This paper develops a simulation platform and analysis tools for multi-condition differential state analysis in scRNA-seq data, comparing cell-level mixed models and pseudobulk approaches.

The paper reanalyzes TRAP-seq data on acute stress response in hippocampal neurons, finding limited translational changes and no effect of sex or early life stress.

The paper shows that paternal trauma alters blood metabolites and sperm transcriptomes, which can be transmitted to offspring via PPAR-mediated mechanisms.

pipeComp evaluates scRNA-seq pipelines using simulated and real data to identify efficient preprocessing tools and recommend comprehensive analysis workflows.

The paper examines chromatin remodeling and gene expression dynamics in mouse spermatogonial cells across postnatal development using RNA-seq and ATAC-seq.

The paper shows that alterations in sperm long RNA contribute to the inheritance of trauma-induced behavioral and metabolic effects.

This study quantifies genomic, proteomic, and phenotypic variability in HeLa cells across laboratories and passages, revealing implications for research reproducibility.

The paper identifies EDC mixtures linked to adverse health outcomes and shows they disrupt gene regulatory networks in vitro and in vivo.