Author

Shaamil Karim

Dartmouth College

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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Assay:scRNA-seq· 2 Research Focus:benchmarking· 1 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Approach:deep learning· 1 Approach:diffusion model· 1 Research Focus:gene regulatory network inference· 1 Research Focus:perturbation response prediction· 1

Frequent Co-Authors

Christian Gensbigler· 2 shared Jonathan Gill LeesiD· 2 shared Sanjukta Bhattacharya· 2 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

3 top collaborators · 3 mutual co-author links

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2 shared papersBioinformatics

Christian Gensbigler

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2 papers

Recent·Most cited

Elucidating the Design Space of Generative Models for Single-Cell Perturbation Prediction

Sanjukta Bhattacharya, Christian Gensbigler, Shaamil Karim, Jonathan Gill Lees

This paper introduces eVAE, a discrete-latent model for single-cell perturbation prediction, achieving state-of-the-art results on multiple metrics and outperforming existing methods in perturbation ranking.

bioRxiv · Jun 18, 2026 · PreprintBioinformatics

Discrete Diffusion for Single-Cell Gene Expression Modeling

Sanjukta Bhattacharya, Christian Gensbigler, Shaamil Karim, Jonathan Gill Lees

This paper introduces Discrete Cell Models (DCM), a diffusion-based framework for single-cell gene expression modeling that operates in the discrete domain, achieving strong performance on benchmark datasets.

bioRxiv · Feb 20, 2026 · PreprintCell Biology