Author

Jessica W. Chen

Broad InstitutePrimary ORCID profile (0000-0003-4425-6369 · 2 papers)Unclaimed ORCID profile · follow to get notified of new preprints

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Jessica W. CheniD2 papers · Stanford Medicine

Biology Disciplines

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Bioinformatics· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Research Focus:clustering· 1 Approach:comparative / phylogenetic analysis· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1

Frequent Co-Authors

Duane R. WesemanniD· 2 shared Shahab SaghaeiiD· 2 shared Bing CheniD· 1 shared Duck Kyun YooiD· 1 shared Gaspar A. Pacheco· 1 shared Hildreth Robert FrostiD· 1 shared Jason Hwang· 1 shared John G DingusiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 30 mutual co-author links

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2 shared papersBioinformatics

Duane R. WesemannORCID

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2 papers

Recent·Most cited

Biological foundation models illuminate annotation blind spots in evolutionarily divergent genomes

Toby B. Lanser, Sydney K. Caldwell, Gaspar A. Pacheco, Jessica W. Chen, Shahab Saghaei, Mariah Hassan, Meydan Kronrod, Duane R. Wesemann, Hildreth Robert Frost

The paper introduces a hybrid annotation framework that improves cross-species protein similarity assignment and gene annotation in evolutionarily divergent genomes, expanding structural catalogs and improving single-cell immune cell state annotation in sea lamprey.

bioRxiv · May 16, 2026 · PreprintBioinformatics

Affinity Maturation and Light-Chain-Mediated Paratope Diversification Anticipate Viral Evolution

John G Dingus, Duck Kyun Yoo, Sachin Kumar, Yajuan Wang, Md. Golam Kibria, Shahab Saghaei, Zahra Allahyari, Jessica W. Chen, Natalie Caputo, Jason Hwang, Bing Chen, Duane R. Wesemann

The paper investigates how antibody affinity maturation and light-chain pairing contribute to neutralizing evolved SARS-CoV-2 variants, identifying mechanisms that enable anticipatory immune breadth.

Cell Reports · Dec 30, 2025Peer-reviewedImmunology