Author

Amir Ebrahimi

University of Ottawa

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Cell Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:clustering· 2 Research Focus:batch correction / integration· 1 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Assay:CITE-seq· 1 Approach:contrastive learning· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Ahmed Sadeknury· 1 shared Alireza Fotuhi SiahpiraniiD· 1 shared Arvind Singh MeriD· 1 shared Dean A. FergussoniD· 1 shared Duncan John StewartiD· 1 shared Eva Kuhar· 1 shared Forough JahandidehiD· 1 shared Hesam MontazeriiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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1 shared paperCell Biology

Ahmed Sadeknury

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Artificial Intelligence-enabled Histological Analysis in Preclinical Respiratory Disease Models: A Scoping Review

Eva Kuhar, Junsoo Park, Forough Jahandideh, Majid Komeili, Ahmed Sadeknury, Navneet Kang, Prarthna Karunamurthy, Mohammad Reza Zarei, Amir Ebrahimi, Sean E. Gill, Patricia C. Liaw, Dean A. Fergusson, Duncan John Stewart, Arvind Singh Mer, Manoj Mathew Lalu

This paper reviews AI applications in histological analysis of preclinical respiratory disease models, finding high performance but gaps in validation, transparency, and standardization.

European Respiratory Review · Apr 1, 2026Peer-reviewedCell Biology

sCIN: A Contrastive Learning Framework for Single-Cell Multi-omics Data Integration

Amir Ebrahimi, Alireza Fotuhi Siahpirani, Hesam Montazeri

sCIN integrates single-cell multi-omics data using contrastive learning, outperforming existing methods on paired and unpaired datasets.

Briefings in Bioinformatics · Jul 1, 2025Peer-reviewedBioinformatics