Author

Matthieu Najm

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Open access Aug 2026

scROMA: batch-aware pathway-activity inference and a ground-truth simulation framework for single-cell transcriptomics

Background Pathway-activity analysis summarizes gene-level single-cell measurements into interpretable functional modules, but widely used methods lack an integrated significance framework, do not account for the batch effects that pervade multi-sample studies, and are not natively interoperable with Python-based workf...

Altynbek Zhubanchaliyev, Matthieu Najm, V. Laigle et al. · bioRxiv · 0 citations

Open access Jul 2026

Multi-modal data integration reveals functionally credible predictive biomarkers in ovarian cancer.

An integrated whole-genome and transcriptome workflow is developed to systematically distinguish functionally credible, predictive driver aberrations from non-functional alterations across all classes of genomic events in ovarian high-grade serous carcinoma.

T. Muranen, A. Hainari, D. Afenteva et al. · Genome Medicine · 0 citations