Author

Vida Shokoohi

Stanford Medicine

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 Immunology· 1

Signature Assays, Organisms & Methods

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Assay:bulk RNA-seq· 2 Organism:human· 2 Approach:statistical model· 2 Assay:ATAC-seq· 1 Research Focus:benchmarking· 1 Assay:CITE-seq· 1 Research Focus:deconvolution· 1 Approach:deep learning· 1

Frequent Co-Authors

Aaron M. NewmaniD· 1 shared Aashi Jain· 1 shared Adam Ashkar-Masarwa· 1 shared Alberto ValdeolivasiD· 1 shared Alexander ScholziD· 1 shared Andrew E. LambiD· 1 shared Andrew J. GentlesiD· 1 shared Arwa S. Kathiria· 1 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 29 mutual co-author links

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1 shared paperBioinformatics

Aaron M. NewmanORCID

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Author profile →

2 papers

Recent·Most cited

Repeated malaria exposure reprograms Vδ2+ γδT cell chromatin accessibility and immune function toward a reversible hyporesponsive state

Kathleen D. Press, Midhuna Immaculate Joseph Maran, Adam Ashkar-Masarwa, Kylie Camanag, Derek C. Chen, Vida Shokoohi, Arwa S. Kathiria, Maureen Ty, Jason Nideffer, John Rek, Joaniter Nankabirwa, Felistas Nankya, Julia Schulze-Hentrich, Isaac Ssewanyana, Moses Kamya, , Prasanna Jagannathan

bioRxiv · Oct 9, 2026 · PreprintImmunology

Community assessment of methods to deconvolve cellular composition from bulk gene expression

Brian S. White, Aurélien de Reyniès, Aaron M. Newman, Joshua J. Waterfall, Andrew E. Lamb, Florent Petitprez, Yating Lin, Rongshan Yu, Martin E. Guerrero-Gimenez, Sergii Domanskyi, Gianni Monaco, Verena Chung, Jineta Banerjee, Daniel S. Derrick, Alberto Valdeolivas, , Andrew J. Gentles

The paper evaluates deconvolution methods for inferring immune infiltration from bulk gene expression using a DREAM Challenge, finding that some community-contributed methods, especially deep learning-based ones, perform well.

Nature Communications · Aug 27, 2024Peer-reviewedBioinformatics