3 papers
q-bio.GN2026
Tool Choice Matters: Evaluating edgeR vs. DESeq2 for Sensitivity, Robustness, and Cross-Study Performance
Mostafa Rezapour
Differential gene expression (DGE) analysis is foundational to transcriptomic research, yet tool selection can substantially influence results. This study presents a comprehensive…
cs.CV2025
Hyperparameter Optimization and Reproducibility in Deep Learning Model Training
Usman Afzaal, Ziyu Su, Usama Sajjad +4
Reproducibility remains a critical challenge in foundation model training for histopathology, often hindered by software randomness, hardware non-determinism, and inconsistent hype…
q-bio.GN2024
Assessing Concordance between RNA-Seq and NanoString Technologies in Ebola-Infected Nonhuman Primates Using Machine Learning
Mostafa Rezapour, Aarthi Narayanan, Wyatt H. Mowery +1
This study evaluates the concordance between RNA sequencing (RNA-Seq) and NanoString technologies for gene expression analysis in non-human primates (NHPs) infected with Ebola viru…