Author

Shuo Chen

University of Maryland, Baltimore

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

Same name, identified by ORCID

Biology Disciplines

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Bioinformatics· 3 Genomics· 1 Neuroscience· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 3 Organism:human· 3 Approach:statistical model· 3 Research Focus:gene regulatory network inference· 2 Approach:Bayesian inference· 1 Assay:bulk RNA-seq· 1 Research Focus:cell-cell communication· 1 Research Focus:database / resource· 1

Frequent Co-Authors

L Elliot Hong· 2 shared Paul M. ThompsoniD· 2 shared Peter V KochunoviD· 2 shared Tianzhou MaiD· 2 shared Yezhi PaniD· 2 shared Zhenyao YeiD· 2 shared Alia R. WarneriD· 1 shared Anilkumar PillaiiD· 1 shared

Activity by Year

2024-2026 · peak 4/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersBioinformatics

L Elliot Hong

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Author profile →

5 papers

Recent·Most cited

Structured cross-omics interaction discovery with a triple-graph model

Jiaao Yu, Lin Huang, Shuo Chen

The paper introduces TriGer, a triple-graph model that identifies cross-omics modules by combining cross-layer associations with dependency structures, showing effectiveness in inflammatory bowel disease and colorectal cancer.

bioRxiv · Sep 16, 2026 · PreprintBioinformatics

FM-GPT: Bayesian fine mapping for phenome-wide transcriptome-wide association studies

Travis A. Canida, Zhenyao Ye, Shao-Hsuan Wang, Hsin-Hsiung Huang, Yezhi Pan, Menglu Liang, Shuo Chen, Tianzhou Ma

FM-GPT is a Bayesian fine mapping method that identifies causal genes in phenome-wide transcriptome-wide association studies, improving accuracy and reducing false positives.

PLoS Genetics · Sep 8, 2026Peer-reviewedBioinformatics

Trustworthy ML/AI for Aging Clocks: Preventing Systematic Prediction Bias in Biological Age Estimation

H Lee, Zhenyao Ye, Yun Yang, Yezhi Pan, Bradley Maron, Z Wang, Peter V Kochunov, Paul M. Thompson, L Elliot Hong, Tianzhou Ma, Chixiang Chen, Shuo Chen

This paper identifies systematic prediction bias in aging clocks and introduces a constrained optimization framework to improve calibration and downstream inference.

bioRxiv · Sep 6, 2026 · PreprintBioinformatics

The Regional Vulnerability Index (RVI) as a Neuroimaging-Based Biomarker for Autism: Associations with Likelihood, Cognition, and Longitudinal Social Outcomes

Antonio F. Pagán, Katherine E. Lawrence, Jan K. Buitelaar, Si Gao, Paul M. Thompson, Yizhou Ma, Kelly T. Cosgrove, Fernanda Laezza, Danella Hafeman, Brian Donohue, Bhim M. Adhikari, Anilkumar Pillai, Neda Jahanshad, Wen Li, Sophia I. Thomopoulos, , Peter V Kochunov

The paper develops and evaluates the Regional Vulnerability Index (RVI-ASD) as a neuroimaging biomarker for autism, showing its stability, heritability, and associations with cognition and social outcomes.

bioRxiv · May 26, 2026 · PreprintNeuroscience

ClOneHORT: Approaches for Improved Fidelity in Generative Models of Synthetic Genomes

Roland Laboulaye, Víctor Borda, Shuo Chen, Kari E. North, Robert C. Kaplan, Timothy D. O’Connor

The paper introduces ClOneHORT, a method to generate synthetic genomes with high fidelity using deep generative models, achieving accurate results in downstream analyses.

bioRxiv · Jun 25, 2024 · PreprintGenomics