Author

Zeinab Navidi

University Health Network

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· 3

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Approach:diffusion model· 1 Research Focus:dimensionality reduction· 1 Research Focus:drug response / drug discovery· 1 Organism:human· 1

Frequent Co-Authors

Bo WangiD· 2 shared Akshaya Thoutam· 1 shared Anne Elizabeth CarpenteriD· 1 shared Ava P. AminiiD· 1 shared Benjamin Haibe‐KainsiD· 1 shared Beth A. CiminiiD· 1 shared Esteban Alberto MigliettaiD· 1 shared Jun MaiD· 1 shared

Activity by Year

2021-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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2 shared papersBioinformatics

Bo WangORCID

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3 papers

Recent·Most cited

Adaptive resampling for improved machine learning in imbalanced single-cell datasets

Zeinab Navidi, Akshaya Thoutam, Madeline Hughes, Srivatsan Raghavan, Peter S. Winter, Lorin A. Crawford, Ava P. Amini

This paper introduces an adaptive resampling method to improve machine learning performance on imbalanced single-cell datasets, showing better results in gene expression reconstruction, cell type classification, and perturbation response prediction.

bioRxiv · Nov 4, 2025 · PreprintBioinformatics

MorphoDiff: Cellular Morphology Painting with Diffusion Models

Zeinab Navidi, Jun Ma, Esteban Alberto Miglietta, Le Liu, Anne Elizabeth Carpenter, Beth A. Cimini, Benjamin Haibe‐Kains, Bo Wang

MorphoDiff predicts high-resolution cell morphology changes under different interventions using diffusion models and perturbation embeddings.

bioRxiv · Dec 19, 2024 · PreprintBioinformatics

simATAC: A single-cell ATAC-seq simulation framework

Zeinab Navidi, Lin Zhang, Bo Wang

simATAC generates synthetic scATAC-seq datasets with known cell labels to benchmark analytical pipelines.

Genome biology · Mar 4, 2021Peer-reviewedBioinformatics