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Hayan Lee

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Hayan Lee, PhD

Assistant Professor

 https://orcid.org/0000-0003-0571-3192
20092026

Research activity per year

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Lee lab focuses on computational epigenetics in cancer and aging. I am interested in identifying somatic epi-mutations in early-stage cancer and molecular-level subtypes using comprehensive multi-omics data analysis. The objective is to use this research to optimize clinically actional biomarkers and develop machine learning models to predict cancer typing, subtyping, matching therapeutics, and predicting relapse or metastasis. We pursue cutting-edge technologies, including single-cell multi-omics data, single-cell spatial transcriptomics, and proteomics, to identify predictive epigenetic signatures and understand the cancer microenvironment. We aim to design machine learning models to predict epigenetic and image biomarkers for early diagnostics and prognostics and recommend therapeutic options in cancer and neurodegenerative diseases.

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  • Polyclonal origins of human premalignant colorectal lesions

    Van Egeren, D., Schenck, R. O., Khan, A., Horning, A. M., Mo, S., Weiß, C. L., Esplin, E. D., Becker, W. R., Wu, S., Hanson, C., Barapour, N., Jiang, L., Contrepois, K., Lee, H., Nevins, S. A., Guha, T. K., Zhang, H., He, Z., Ma, Z. & Monte, E. & 22 others, Karathanos, T. V., Laquindanum, R., Mills, M. A., Chaib, H., Chiu, R., Jian, R., Chan, J., Ellenberger, M., Bahmani, B., Michael, B., Weimer, A. K., Esplin, D. G., Lancaster, S., Shen, J., Ladabaum, U., Longacre, T. A., Kundaje, A., Greenleaf, W. J., Hu, Z., Ford, J. M., Snyder, M. P. & Curtis, C., Feb 26 2026, In: Nature. 650, 8103, p. 1017-1024 8 p.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    2 Scopus citations

  • Whole-genome variant detection in long-read sequencing data from ultra-low input patient samples

    Wang, K., Aex, C. J., Lee, H., Finot, L., Zhu, K., Chang, J. R., Horning, A. M., Rowell, W. J., Li, P., Kingan, S., Snyder, M. P. & Erwin, G. S., Jun 12 2026, (E-pub ahead of print) In: Genome Research.

    Research output: Contribution to journal › Article › peer-review

  • Whole-genome variant detection in long-read sequencing data from ultra-low input patient samples

    Wang, K., Lee, H., Aex, C. J., Finot, L., Zhu, K., Chang, J. R., Horning, A. M., Rowell, W. J., Li, P., Kingan, S. B., Snyder, M. P. & Erwin, G. S., Jun 10 2026, (medRxiv).

    Research output: Working paper › Preprint

  • Comparative genomics of the parasite Trichomonas vaginalis reveals genes involved in spillover from birds to humans

    Sullivan, S. A., Orosco, J. C., Callejas-Hernández, F., Blow, F., Lee, H., Ranallo-Benavidez, T. R., Peters, A., Raidal, S. R., Girard, Y. A., Johnson, C. K., Rogers, K. H., Gerhold, R., Mangelson, H., Liachko, I., Srivastava, H., Chandler, C., Berenberg, D., Bonneau, R. A., Huang, P. J. & Yeh, Y. M. & 7 others, Lee, C. C., Liu, H., Chen, T. W., Tang, P., Chiu, C. H., Schatz, M. C. & Carlton, J. M., Jul 24 2025, In: Nature Communications. 16, 1, p. 6487 6487.

    Research output: Contribution to journal › Article › peer-review

    Open Access
    2 Scopus citations

  • Correction to: Global loss of promoter-enhancer connectivity and rebalancing of gene expression during early colorectal cancer carcinogenesis

    Zhu, Y., Lee, H., White, S., Weimer, A. K., Monte, E., Horning, A., Nevins, S. A., Esplin, E. D., Paul, K., Krieger, G., Shipony, Z., Chiu, R., Laquindanum, R., Karathanos, T. V., Chua, M. W. Y., Mills, M., Ladabaum, U., Longacre, T., Shen, J. & Jaimovich, A. & 6 others, Lipson, D., Kundaje, A., Greenleaf, W. J., Curtis, C., Ford, J. M. & Snyder, M. P., Feb 2025, In: Nature Cancer. 6, 2, p. 404 1 p.

    Research output: Contribution to journal › Comment/debate

    Open Access
View all 34 Research outputs
View all 17 press/media