Author

Stephen Y. Zhang

The University of Melbourne

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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Systems Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Research Focus:gene regulatory network inference· 2 Assay:scRNA-seq· 2 Approach:statistical model· 2 Approach:Bayesian inference· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Organism:mouse· 1 Research Focus:protein design· 1

Frequent Co-Authors

Michael P. H. StumpfiD· 3 shared Agnese BarbensiiD· 1 shared Alessia DavidiD· 1 shared Christian Degnbol MadseniD· 1 shared Douglas E. V. PiresiD· 1 shared Istvan T. KleijniD· 1 shared Lucy HamiD· 1 shared Yujing LiuiD· 1 shared

Activity by Year

2024-2025 · peak 2/yr

Co-Author Collaboration Network

8 top collaborators · 18 mutual co-author links

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3 shared papersSystems Biology

Michael P. H. StumpfORCID

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3 papers

Recent·Most cited

Learning cell-specific networks from dynamics and geometry of single cells

Stephen Y. Zhang, Michael P. H. Stumpf

The paper introduces locaTE, a method to infer cell-specific gene regulatory networks using single-cell dynamics and geometry, showing improved performance over existing methods.

Cell Systems · Oct 1, 2025Peer-reviewedSystems Biology

The Topological Properties of the Protein Universe

Christian Degnbol Madsen, Agnese Barbensi, Stephen Y. Zhang, Lucy Ham, Alessia David, Douglas E. V. Pires, Michael P. H. Stumpf

The paper uses topology to analyze the protein universe, identifying structural and functional features and their implications for mutations and evolution.

Nature Communications · Aug 13, 2025Peer-reviewedBioinformatics

Approximate Bayesian Computation for Inferring Waddington Landscapes from Single Cell Data

Yujing Liu, Stephen Y. Zhang, Istvan T. Kleijn, Michael P. H. Stumpf

This study uses approximate Bayesian computation to infer Waddington landscapes from single cell data by evaluating distance measures and parameter sensitivity.

Royal Society Open Science · Jul 1, 2024Peer-reviewedSystems Biology