Author

Ahmed Roman

Broad InstituteORCID 0000-0003-2007-3269Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Organism:human· 2 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Research Focus:drug response / drug discovery· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Eliezer M. Van AlleniD· 2 shared Haitham ElmarakebyiD· 2 shared Gwen MilleriD· 1 shared Jihye Park· 1 shared Marc GlettigiD· 1 shared Riccardo ConciiD· 1 shared Ryan L. CollinsiD· 1 shared Saud H. AlDubayaniD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

9 top collaborators · 26 mutual co-author links

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2 shared papersBioinformatics

Eliezer M. Van AllenORCID

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2 papers

Recent·Most cited

BioinformaticsMachine Learning with ApplicationsPeer-reviewedFeb 28, 2026

Simulation and empirical evaluation of biologically-informed neural network performance

Gwen Miller, Ahmed Roman, Marc Glettig…·Eliezer M. Van Allen

The paper evaluates how dataset characteristics affect biologically-informed neural network performance using simulations and empirical testing with prostate cancer data.

DOI 10.1016/j.mlwa.2026.100876

humanwhole-exome sequencing

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Cancer BiologybioRxivPreprintOct 31, 2025

Empirical Evaluation of Single-Cell Foundation Models for Predicting Cancer Outcomes

Ahmed Roman, Shreya Johri, Riccardo Conci…·Haitham Elmarakeby

This study evaluates twelve single-cell foundation models for cancer-related tasks and finds they offer limited clinical outcome prediction advantages over simpler models.

1 citation

humanscRNA-seq

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