Author

Yang Xu

Hospital for Special SurgeryORCID 0000-0002-0664-5251Unclaimed ORCID profile · follow to get notified of new preprints

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Yang Xu9 papers · Hong Kong University of Science and Technology

Biology Disciplines

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Genetics· 1 Genomics· 1

Signature Assays, Organisms & Methods

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Research Focus:benchmarking· 2 Assay:GWAS summary statistics· 2 Research Focus:database / resource· 1 Approach:deep learning· 1 Assay:electronic health records· 1 Research Focus:gene regulatory network inference· 1 Approach:large language model· 1 Approach:transformer / foundation model· 1

Frequent Co-Authors

Anastasia OktarinaiD· 2 shared Mathias P. BostromiD· 2 shared Nicolas Matthew SuhardiiD· 2 shared Vincentius Jeremy SuhardiiD· 2 shared Damanpreet Dhillon· 1 shared Dona Ninan· 1 shared Julia S. RetzkyiD· 1 shared

Activity by Year

2025-2025 · peak 2/yr

Co-Author Collaboration Network

7 top collaborators · 21 mutual co-author links

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2 shared papersGenetics

Anastasia OktarinaORCID

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2 papers

Recent·Most cited

Evaluating Large Language Models for Gene-to-Phenotype Mapping: The Critical Role of Full-Text Database Access

Nicolas Matthew Suhardi, Anastasia Oktarina, Julia S. Retzky, Damanpreet Dhillon, Dona Ninan, Mathias P. Bostrom, Yang Xu, Vincentius Jeremy Suhardi

This study evaluates LLMs for gene-to-phenotype mapping, finding that models with dedicated databases achieve >80% accuracy and provide supporting literature.

bioRxiv · Jun 11, 2025 · PreprintGenetics

Database-Augmented Transformer-Based Large Language Models Achieve High Accuracy in Mapping Gene-Phenotype Relationships

Nicolas Matthew Suhardi, Anastasia Oktarina, Mathias P. Bostrom, Yang Xu, Vincentius Jeremy Suhardi

This study evaluates LLMs for gene-phenotype mapping, finding that fine-tuned models with dedicated databases achieve high accuracy (>80%) in mapping 102 genes to four phenotypes.

bioRxiv · Jan 28, 2025 · PreprintGenomics