Author

Ryan M. J. Genga

University of Massachusetts Chan Medical School

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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Bioinformatics· 1 Genomics· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Organism:human· 2 Assay:scRNA-seq· 2 Approach:statistical model· 2 Research Focus:cell type annotation· 1 Research Focus:differential expression· 1 Approach:experimental assay· 1 Assay:Hi-C· 1

Frequent Co-Authors

René MaehriD· 2 shared Aimée Bastidas-PonceiD· 1 shared Alexandra Grella· 1 shared Andre Kurlovs· 1 shared Ankita NandiD· 1 shared Anna Fiedler· 1 shared Betül Akgöl OksuziD· 1 shared Bruno FigueroaiD· 1 shared

Activity by Year

2019-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 15 mutual co-author links

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2 shared papersGenomics

René MaehrORCID

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Author profile →

3 papers

Recent·Most cited

Single-cell neural network classifiers reveal that PM21 NK cell expansion is dependent on B cell signaling

Michael Tsabar, Shaoline Sheppard, Sarah Sturtevant, Yinyin Huang, Ryan M. J. Genga, Margaret E. Magaletta, Matthew P. Kodrasov, Elizabeth Tran, Kyle Smith, Juhyung Jung, Matthew Sullivan, Andre Kurlovs, Virginia Savova, Diana Stoycheva, Bruno Figueroa, , Giorgio Gaglia

The paper uses single-cell transcriptomics and neural network classifiers to identify B cell signaling as critical for NK cell expansion in allogenic therapy.

bioRxiv · Sep 23, 2025 · PreprintSystems Biology

Systematic evaluation of chromosome conformation capture assays

Betül Akgöl Oksuz, Liyan Yang, Sameer Abraham, Sergey V. Venev, Nils Krietenstein, Krishna Mohan Parsi, Hakan Özadam, Marlies E. Oomen, Ankita Nand, Hui Z. Mao, Ryan M. J. Genga, René Maehr, Oliver J. Rando, Leonid A. Mirny, Johan Harmen Gibcus, Job Dekker

This study evaluates 3C-based assays to understand how experimental parameters affect chromatin interaction detection and quantification, leading to the development of Hi-C 3.0.

Nature Methods · Sep 1, 2021Peer-reviewedGenomics

Beyond pseudotime: Following T-cell maturation in single-cell RNAseq time series

David S. Fischer, Anna Fiedler, Eric M. Kernfeld, Ryan M. J. Genga, Aimée Bastidas-Ponce, Mostafa Bakhti, Heiko Lickert, Jan Hasenauer, René Maehr, Fabian Joachim Theis

The paper introduces pseudodynamics, a framework to model real-time cellular development using time-series and genetic knock-out data, applied to thymic T-cell maturation.

Nature Biotechnology · Apr 1, 2019Peer-reviewedBioinformatics