Author

Aly O. Abdelkareem

University of CalgaryORCID 0000-0002-2203-9577Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Approach:deep learning· 2 Organism:human· 2 Organism:mouse· 2 Research Focus:cell-cell communication· 1 Research Focus:deconvolution· 1 Research Focus:drug response / drug discovery· 1 Approach:machine learning (classical)· 1

Frequent Co-Authors

A. Sorana MorrissyiD· 2 shared Theodore B. VerheyiD· 2 shared Ali H. A. ElbeheryiD· 1 shared Athish Marutharaj· 1 shared Courtney F. Hall· 1 shared Gurveer S. Gill· 1 shared Hazem M. AbbasiD· 1 shared Kiran NartaiD· 1 shared

Activity by Year

2020-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 18 mutual co-author links

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2 shared papersBioinformatics

A. Sorana MorrissyORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

XenoSignal: Investigating Intra- and Inter-Species Ligand-Receptor Interactions Using AlphaFold3

Aly O. Abdelkareem, Courtney F. Hall, Athish Marutharaj, Kiran Narta, Theodore B. Verhey, A. Sorana Morrissy

XenoSignal assesses ligand-receptor interactions across species using AlphaFold3 predictions to improve understanding of tumor-microenvironment crosstalk in xenograft models.

bioRxiv · Aug 13, 2025 · PreprintBioinformatics

spOT-NMF: Optimal Transport-Based Matrix Factorization for Accurate Deconvolution of Spatial Transcriptomics

Aly O. Abdelkareem, Gurveer S. Gill, Varsha Thoppey Manoharan, Theodore B. Verhey, A. Sorana Morrissy

spOT-NMF improves spatial transcriptomics deconvolution by using optimal transport, outperforming existing methods in accuracy and scalability across various resolutions and species.

bioRxiv · Aug 2, 2025 · PreprintBioinformatics

Viral Sequence Identification in Metagenomes using Natural Language Processing Techniques

Aly O. Abdelkareem, Mahmoud I. Khalil, Ali H. A. Elbehery, Hazem M. Abbas

This paper applies natural language processing techniques to identify viral sequences in metagenomes, comparing machine learning models with existing tools on simulated and real data.

bioRxiv · Jan 10, 2020 · PreprintBioinformatics