Author

Ali Hashmi

Centre National de la Recherche ScientifiqueORCID 0000-0001-9946-7679Unclaimed ORCID profile · follow to get notified of new preprints

Additional preprints under this name without ORCID

Ali Hashmi3 papers · University of Helsinki

Biology Disciplines

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Bioinformatics· 1 Developmental Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 2 Research Focus:spatial domain detection· 2 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:cell-cell communication· 1 Research Focus:clustering· 1 Research Focus:database / resource· 1 Organism:mouse· 1

Frequent Co-Authors

Alfonso Martínez AriasiD· 1 shared Ayomide Michael OshinjoiD· 1 shared Hanna Peradziryi· 1 shared Jiahui WuiD· 1 shared Johanna I. EnglundiD· 1 shared Joshua M. BrickmaniD· 1 shared Molly LowndesiD· 1 shared Petar B. PetroviD· 1 shared

Activity by Year

2022-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 21 mutual co-author links

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1 shared paperDevelopmental Biology

Alfonso Martínez AriasORCID

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2 papers

Recent·Most cited

NaVis: a virtual microscopy framework for interactive histological interrogation of spatial transcriptomics data

Ayomide Michael Oshinjo, Jiahui Wu, Petar B. Petrov, Ali Javed Hashmi, Johanna I. Englund, Valerio Izzi

NaVis provides an interactive virtual microscopy framework for analyzing spatial transcriptomics data by integrating gene expression with histological morphology.

bioRxiv · Jun 9, 2026 · PreprintBioinformatics

Cell-state transitions and collective cell movement generate an endoderm-like region in gastruloids

Ali Hashmi, Sham Tlili, Pierre Perrin, Molly Lowndes, Hanna Peradziryi, Joshua M. Brickman, Alfonso Martínez Arias, Pierre‐François Lenne

This study shows how cell-state transitions and collective movement create an endoderm-like region in mouse gastruloids without requiring epithelial-to-mesenchymal transition.

eLife · Apr 11, 2022Peer-reviewedDevelopmental Biology