Author

Patrick Wall

University of California San Diego

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

Click to filter author papers

Systems Biology· 2

Signature Assays, Organisms & Methods

Click to filter · or open tag

Organism:human· 2 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Approach:deep learning· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Assay:spatial transcriptomics· 1 Approach:statistical model· 1

Frequent Co-Authors

Trey E. IdekeriD· 2 shared Akshat SinghaliD· 1 shared Chan‐Young OckiD· 1 shared Chang Ho Ahn· 1 shared Dalia BarkleyiD· 1 shared David LaubiD· 1 shared Dean BoecheriD· 1 shared Fan ZhengiD· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

2 shared papersSystems Biology

Trey E. IdekerORCID

Mutual co-authors in cluster

Author profile →

2 papers

Recent·Most cited

Translating clinical gene sequencing into a foundational representation of tumor subtype

JungHo Kong, Ingoo Lee, Dean Boecher, Akshat Singhal, Marcus R. Kelly, Jimin Moon, Chang Ho Ahn, Chan‐Young Ock, Tannavee Kumar, Timothy J. Sears, David Laub, Sarah N. Wright, Patrick Wall, Hannah K. Carter, Zhen Wang, Trey E. Ideker

This paper introduces MutationProjector, an AI model that converts tumor mutation profiles into cancer subtype representations, achieving strong performance in predicting treatment responses and classifying metastasis.

bioRxiv · Sep 8, 2025 · PreprintSystems Biology

Desmosome mutations impact the tumor microenvironment to promote melanoma proliferation

Maayan Baron, Mohita M. Tagore, Patrick Wall, Fan Zheng, Dalia Barkley, Itai Yanai, Jing Yang, Maija H. Kiuru, Richard Mark White, Trey E. Ideker

The paper shows that desmosome mutations in keratinocytes of the tumor microenvironment promote melanoma proliferation through reduced desmosome gene expression and increased melanoma cell growth.

Nature Genetics · Apr 16, 2025Peer-reviewedSystems Biology