Author

David Seong

Stanford MedicineORCID 0000-0002-8980-5731Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Approach:benchmark study· 1 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:cell type annotation· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Approach:machine learning (classical)· 1

Frequent Co-Authors

A.D. Choudhury· 1 shared Ahmad SalehiiD· 1 shared Alan Gi-Lun ChengiD· 1 shared Ali Reza Rais Sadati· 1 shared Alifiya KapasiiD· 1 shared Alperen AslaniD· 1 shared Amber Casillas· 1 shared Andres Gottfried‐BlackmoreiD· 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 paperBioinformatics

A.D. Choudhury

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2 papers

Recent·Most cited

Blood-brain barrier dysfunction predicts cognitive trajectory after ischemic stroke

Lei Xue, Olivia A Jones, Lauren L. Drag, Kristy A. Zera, Li Zhu, Michael Mlynash, Natasha S. Carmichael, Chi-Hung Shu, Zuzanna Biesiada, David Seong, Owen Thomas, Epiphani C. Simmons, Emily Huang, Kacey Berry, Philip Chung, , Marion S. Buckwalter

The paper identifies a plasma proteomic signature linked to blood-brain barrier dysfunction, which predicts cognitive decline after ischemic stroke.

bioRxiv · Mar 2, 2026 · PreprintNeuroscience

Benchmarking Cell Type and Gene Set Annotation by Large Language Models with AnnDictionary

George Crowley, Robert C. Jones, Mark A. Krasnow, Angela Oliveira Pisco, Julia Salzman, Nir Yosef, Siyu He, Madhav Mantri, Jessie Aguirre, Ron Garner, Sal Guerrero, William Harper, Resham Irfan, Sophia Mahfouz, Ravi Ponnusamy, , David Seong

The paper benchmarks large language models for cell-type and gene set annotation using AnnDictionary, finding high accuracy in cell-type annotation and strong functional gene set recovery.

Nature Communications · Oct 28, 2025Peer-reviewedBioinformatics