Author

Serena Chang

Stanford MedicineORCID 0000-0002-5683-2469Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Signature Assays, Organisms & Methods

Click to filter · or open tag

Organism:human· 3 Approach:machine learning (classical)· 3 Assay:spatial transcriptomics· 3 Research Focus:cell type annotation· 2 Research Focus:cell-cell communication· 2 Research Focus:differential expression· 2 Research Focus:spatial domain detection· 2 Assay:bulk RNA-seq· 1

Frequent Co-Authors

John B. SunwooiD· 3 shared Andrew J. GentlesiD· 2 shared Christina S. KongiD· 2 shared Garry P. NolaniD· 2 shared Quynh‐Thu LeiD· 2 shared Sylvia K. PlevritisiD· 2 shared Weiruo ZhangiD· 2 shared Zinaida GoodiD· 2 shared

Activity by Year

2022-2025 · peak 1/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

3 shared papersBioinformatics

John B. SunwooORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

MONTAGE: A Computation Framework to Identify Spatially Resolved Functional Enrichment Gradients in the Tissue Microenvironment via Spatial Communities

Weiruo Zhang, Zinaida Good, Marc‐Andrea Baertsch, Guolan Lu, John W. Hickey, Rachel Hildebrand, Serena Chang, Andrew J. Gentles, John B. Sunwoo, Quynh‐Thu Le, Christina S. Kong, Garry P. Nolan, Sylvia K. Plevritis

MONTAGE identifies spatially resolved functional enrichment gradients in tumor microenvironments by analyzing spatial communities and their clinical relevance.

bioRxiv · Apr 30, 2025 · PreprintSystems Biology

7-UP: generating in silico CODEX from a small set of immunofluorescence markers

Eric Wu, Alexandro E. Trevino, Zhenqin Wu, Kyle Swanson, Honesty Kim, H. Blaize D’Angio, Ryan Preska, Aaron E. Chiou, Gregory W. Charville, Piero D. Dalerba, Umamaheswar Duvvuri, Alexander Dimitrios Colevas, Jelena Levi, Nikita Bedi, Serena Chang, , James Zou

7-UP generates in silico 40-plex CODEX data from a 7-plex mIF panel using cellular morphology, enabling cell type classification and survival prediction across diverse samples.

PNAS Nexus · May 19, 2023Peer-reviewedBioinformatics

Identification of cell types in multiplexed in situ images by combining protein expression and spatial information using CELESTA reveals novel spatial biology

Weiruo Zhang, Irene Li, Nathan Edward Reticker-Flynn, Zinaida Good, Serena Chang, Nikolay Samusik, Saumyaa Saumyaa, Yuanyuan Li, Xin Zhou, Rachel Liang, Christina S. Kong, Quynh‐Thu Le, Andrew J. Gentles, John B. Sunwoo, Garry P. Nolan, , Sylvia K. Plevritis

CELESTA identifies cell types in multiplexed in situ images by integrating protein expression and spatial information, revealing novel spatial biology associated with lymph node metastasis.

bioRxiv · Feb 2, 2022 · PreprintBioinformatics