Yi-Wen Hsiao
Researcher interested in AI, data, and health.
I am building a research path around AI for health, multimodal biomedical data science, and trustworthy AI, with a focus on cancer prognosis, disease risk, and clinical decision support.
💼 Instructor @ Icahn School of Medicine at Mount Sinai
🎓 Postdoc @ Cedars-Sinai
🎓 PhD @ National Taiwan University
yiwen@portfolio - zsh
yiwen@portfolio:~$
News
(Oct ‘26) I recently completed my postdoctoral training at Cedars-Sinai and joined Dr. Huang’s lab as an Instructor at the Icahn School of Medicine at Mount Sinai, where I will continue pursuing my passion for precision omics research.
(Sep ‘26) Our recent work on updating the PREDICT Breast tool and validating PREDICT v3 in US male breast cancer patients received the Golden Paper Award (3rd Place) and Community Award (2nd Place) from the Cedars-Sinai Postdoctoral Society.
(Aug ‘26) Our PREDICT Breast update manuscript was accepted with minor revision at the Journal of the National Comprehensive Cancer Network (IF: 17.5)!
(May ‘26) Our latest study evaluating large language models (LLMs) for chemotherapy recommendations was presented as a poster at Cedars-Sinai Research Day XIV.
(Sep ‘25) Our published paper validating PREDICT v3 using US SEER data received the Golden Paper Award (3rd Place) from the Cedars-Sinai Postdoctoral Society.
Research Interests
I build AI systems for biomedical discovery and clinical decision support, with the goal of making machine learning a useful and trustworthy partner in understanding complex patient data. My research lies at the intersection of AI for health and multimodal biomedical data science, where I develop computational models to predict cancer prognosis and disease risk by integrating genomics, electronic health records, pathology images, and other biomedical data. My long-term vision is to develop agentic AI systems for precision medicine that can synthesize multimodal patient information, support treatment and therapy recommendations, and help identify personalized interventions to improve healthcare decision-making.
Keywords: AI for Science, AI for Health, Machine Learning, Generative Models, Agentic AI, LLM, multimodal biomedical data, genomics, electronic health records, pathology images, cancer prognosis, disease prediction, treatment benefit estimation, intervention planning, clinical decision support.
Selected Projects
- Customized Single-Cell RNA-seq Workflow ('23-'24) - Developed a tailored scRNA-seq pipeline to distinguish CRISPR-transduced from non-transduced retinal cells and characterize RNA editing outcomes following compact CRISPR-Cas13-mediated gene therapy.
- RNA-Editing Analysis Pipeline ('23-'24) - Developed an end-to-end bulk RNA-seq workflow integrating expression quantification, differential expression, A-to-I RNA-editing profiling, variant annotation, and pathway-level interpretation using GSEA/GSVA.
Selected Publications
- Noel, L., Hsiao, Y.W., He, Y., Hung, A., Cui, X., Ray, E., Moore, J.H., Peng, P.C., Huang, X. (2026) Benchmarking large language models for identifying transcription factor regulatory interactions. Bioinformatics. doi:10.1093/bioinformatics/btaf653.
- Pharoah, P.D., Hsiao, Y.W., Wishart, G.C., Peng, P.C. (2025) PREDICT breast v4.0: An update to the PREDICT breast prognostic model. BMC Research Notes. doi:10.1186/s13104-025-07552-1.
- Hsiao, Y.W., Wishart, G.C., Pharoah, P.D., Peng, P.C. (2025) Assessing the Performance of the PREDICT Breast Version 3.0 Prognostic Tool in Patients With Breast Cancer in the United States. Journal of the National Comprehensive Cancer Network. doi:10.6004/jnccn.2025.7014.
Selected Awards
- '26 Golden Paper Award, Cedars-Sinai Postdoctoral Society.
- '26 Community Award, Cedars-Sinai Postdoctoral Society.
- '25 Golden Paper Award, Cedars-Sinai Postdoctoral Society.
- '25 AACR Scholar-in-Training Award, AACR-TOUCH / The Black Breast Cancer Alliance.
- '25 Presidential Membership Award, Genetics Society of America (GSA).
Teaching, Mentorship, and Service
- '26 Seminar planning committee, Variant Effects Seminar Series (VESS).
- '25 & '26 Assistant Coach, National AI Campus @ Cedars-Sinai.
- '26 Reviewer, Social Media Mining for Health/Health Real-World Data (#SMM4H-HeaRD) 2026 Workshop and Shared Tasks.
- '25 Co-mentor, Cedars-Sinai INSPIRE program.
- '25 Reviewer, BMC Cancer.
Contact
I am happy to talk about research, projects, or collaborations.