Author

Matthew M. Ryals

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 Molecular Biology· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 3 Assay:spatial transcriptomics· 2 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Organism:mouse· 1

Frequent Co-Authors

Jake Gagnon· 3 shared Baohong ZhangiD· 2 shared Sarbottam PiyaiD· 2 shared Shaolong CaoiD· 2 shared Wenxing HuiD· 2 shared Zhengyu Ouyang· 2 shared Amanda J. GuiseiD· 1 shared Andrew R. GehrkeiD· 1 shared

Activity by Year

2026-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 42 mutual co-author links

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3 shared papersNeuroscience

Jake Gagnon

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Spatial transcriptomics reveals heterogeneous cell-cell interactions among brain regions in a cuprizone model consistent with multiple sclerosis lesions

Hui‐Hsin Tsai, Sarbottam Piya, Jing Wang, Jing Zhu, Wenxing Hu, Andrew R. Gehrke, Shaolong Cao, Amanda J. Guise, Su Jing Chan, Mark J. Sheehan, Jenhwa Chu, Zhengyu Ouyang, Matthew M. Ryals, Michelle Lee, Wanli Wang, , Baohong Zhang

The paper uses spatial transcriptomics to analyze cell-cell interactions in a cuprizone model, finding region-specific changes and partial translatability to multiple sclerosis lesions.

Frontiers in Bioinformatics · Aug 6, 2026Peer-reviewedNeuroscience

A Poisson-multinomial model for quantifying gene therapy vector integrity using quadplex digital PCR

Lauren Tereshko, Matthew M. Ryals, Cullen Mason, Romi Admanit, Jake Gagnon

This paper introduces a Poisson-multinomial model for quantifying gene therapy vector integrity using quadplex digital PCR, enabling accurate analysis of sequence integrity and genetic linkage across four targets.

bioRxiv · Apr 11, 2026 · PreprintMolecular Biology

SpaceSequest: A unified pipeline for spatial transcriptomics data analysis

Yu Henry Sun, Sarbottam Piya, Zhengyu Ouyang, Yirui Chen, Jake Gagnon, Shaolong Cao, Haotian Zhang, Baobao Song, Jing Ke Zhu, Khyati Raghunath Chandratre, Houlin Yu, Wenxing Hu, Matthew M. Ryals, Fergal Casey, Dann Huh, Baohong Zhang

SpaceSequest provides a unified pipeline for analyzing spatial transcriptomics data from multiple platforms, enabling standardized processing, analysis, and visualization.

Journal of Advance Research in Pharmacy & Biological Science · Jan 19, 2026Peer-reviewedBioinformatics