Yu-Cheng LIN

  • Publish Date：2026-07-09
  • Update Date：2026-07-13
  • Units：Department of Dentistry
Yu-Cheng LIN
 
Yu-Cheng LIN, Associate Professor

Email: ylin@nycu.edu.tw

Phone: +886-2-2826-7130

Office Location: Room 211, Dentistry Building

Specialties: Bioinformatics, Machine Learning, Genomics, Microbiology, Genetics

Introduction:
  • Our laboratory operates at the intersection of machine learning, genomics, and oral medicine. But basically, what we do every day is turn coffee into code 😃.
  • We believe that the essence of biology is the science of being "small." Therefore, we adopt agile software development methods and integrate both "dry and wet" experiments to uncover new biological insights.
Education:
  • 2018: Ph.D., Department of Biological Sciences, Columbia University, USA
  • 2010: M.S., Graduate Institute of Microbiology and Biochemistry, National Taiwan University
  • 2008: B.D.S. (Bachelor of Dental Surgery), School of Dentistry, National Taiwan University

Experience:
  • 2021 – Present: Associate Professor, National Yang Ming Chiao Tung University
  • 2019 – 2021: Computational Biology Researcher, Data Science Department, LifeMine Therapeutics, USA
  • 2018 – 2019: Postdoctoral Researcher, Research Department, New England Biolabs, USA
Research Interests: Oral cancer genomics, oral microbiota, AI disease modeling

Representative Publications in the Past Five Years
 
  1. Yang C-C, Washio J, Lin Y-C, Hsu M-L, Wang D-H, Tsai F-T, Lin Y-M, Tu H-F, Chang H-C & Takahashi N (2025) Microbiome Signatures and Dysbiotic Patterns in Oral Cancer and Precancerous Lesions. Oral Diseases, https://doi.org/10.1111/odi.15317.
  2. Florek LC, Lin X, Lin Y-C, Lin M-H, Chakraborty A, Price-Whelan A, Tong L, Rahme L & Dietrich LEP (2024) The L-lactate dehydrogenases of Pseudomonas aeruginosa are conditionally regulated but both contribute to survival during macrophage infection. mBio, https://doi.org/10.1128/mbio.00852-24.
  3. Chang H-C, Yang C-C, Loi L-K, Hung C-H, Wu C-H & Lin Y-C (2024) Interplay of p62-mTORC1 and EGFR Signaling Promotes Cisplatin Resistance in Oral Cancer. Heliyon, https://doi.org/10.1016/j.heliyon.2024.e28406.
  4. Tsai F-T, Yang C-C, Lin Y-C, Hsu M-L, Hong G, Yang M-C, Wang D-H, Huang L-J, Lin C-T, Hsu W-E & Tu H-F (2024) Temporal stability of tongue microbiota in older patients – A pilot study. Journal of Dental Sciences, https://doi.org/10.1016/j.jds.2024.01.012.
  5. *Loi L-K, *Yang C-C, Lin Y-C, Su Y-F, Juan Y-C, Chen Y-H & Chang H-C (2023) Decoy peptides effectively inhibit the binding of SARS-CoV-2 to ACE2 on oral epithelial cells. Heliyon, 9(12): e22614. *These authors contributed equally.
  6. Huang P-C, Chang C-W, Lin Y-C, Chen C-Y, Chen T-Y, Chuang L-T, Liu C-J, Huang C-L & Li W-C (2023) Pyruvate Kinase Differentially Alters Metabolic Signatures during Head and Neck Carcinogenesis. International Journal of Molecular Sciences, 24(23): 16639.
  7. Chansaenroj A, Kornsuthisopon C, Suwittayarak R, Rochanavibhata S, Loi L-K, Lin Y-C & Osathanon T (2023) IWP-2 modulates the immunomodulatory properties of human dental pulp stem cells in vitro. International Endodontic Journal, 2023;00:1–18.
  8. Wang D-H, Tsai F-T, Tu H-F, Yang C-C, Hsu M-L, Huang L-J, Lin C-T, Hsu W-E & Lin Y-C (2023) Profiles of oral microbiome associated with nasogastric tube feeding. Journal of Oral Microbiology, doi.org/10.1080/20002297.2023.2200898.
  9. Chang S-R, Chou C-H, Liu C-J, Lin Y-C, Tu H-F, Chang K-W & Lin S-C (2023) The Concordant Disruption of B7/CD28 Immune Regulators Predicts the Prognosis of Oral Carcinomas. International Journal of Molecular Sciences, 2023 Mar 21;24(6):5931.
  10. Tsai F-T, Wang D-H, Yang C-C, Lin Y-C, Huang L-J, Tsai W-Y, Li C-W, Hsu W-E, Tu H-F & Hsu M-L (2022) Locational effects on oral microbiota among long-term care patients. Journal of Oral Microbiology, 14(1): 2033003.
  11. *Yang W, *Lin Y-C, Johnson W, Dai N, Vaisvila R, Weigele PR, Lee Y-J, Corrêa IR Jr, Schildkraut I & Ettwiller L (2021) A Genome-Phenome Association study in native microbiomes identifies a mechanism for cytosine modification in DNA and RNA. eLife, 10:e70021. *These authors contributed equally.
  12. Lee Y-J, Dai N, Muller SI, Guan C, Parker MJ, Fraser ME, Walsh SE, Sridar J, Mulholland A, Nayak K, Sun Z, Lin Y-C, Comb DG, Marks K, Gonzalez R, Dowling DP, Bandarian V, Saleh L, Corrêa IR Jr & Weigele PR (2021) Pathways of thymidine hypermodification. Nucleic Acids Research, 50(6), 3001–3017.
  13. Baum C, Lin Y-C, Fomenkov A, Anton BP, Chen L, Yan B, Evans TC, Roberts RJ, Tolonen AC, Ettwiller L (2021) Rapid identification of methylase specificity (RIMS-seq) jointly identifies methylated motifs and generates shotgun sequencing of bacterial genomes. Nucleic Acids Research, gkab705.
  14. Wang B, Lin Y-C, Vasquez-Rifo A, Jo J, Price-Whelan A, McDonald ST, Brown LM, Sieben C, Dietrich LEP (2021) Pseudomonas aeruginosa PA14 produces R-bodies, extendable protein polymers with roles in host colonization and virulence. Nature Communications, 12(1): 4613.
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