Professional Education


  • Bachelor of Engineering, Xiamen University (2012)
  • Master of Science, Columbia University (2014)
  • Doctor of Philosophy, University of Washington (2020)
  • Doctor of philosophy, University of Washington (2020)
  • Master of Science, Columbia University (2014)
  • Bachelor of Engineering, Xiamen University (2012)

Stanford Advisors


All Publications


  • Human 5 ' UTR design and variant effect prediction from a massively parallel translation assay NATURE BIOTECHNOLOGY Sample, P. J., Wang, B., Reid, D. W., Presnyak, V., McFadyen, I. J., Morris, D. R., Seelig, G. 2019; 37 (7): 803-+

    Abstract

    The ability to predict the impact of cis-regulatory sequences on gene expression would facilitate discovery in fundamental and applied biology. Here we combine polysome profiling of a library of 280,000 randomized 5' untranslated regions (UTRs) with deep learning to build a predictive model that relates human 5' UTR sequence to translation. Together with a genetic algorithm, we use the model to engineer new 5' UTRs that accurately direct specified levels of ribosome loading, providing the ability to tune sequences for optimal protein expression. We show that the same approach can be extended to chemically modified RNA, an important feature for applications in mRNA therapeutics and synthetic biology. We test 35,212 truncated human 5' UTRs and 3,577 naturally occurring variants and show that the model predicts ribosome loading of these sequences. Finally, we provide evidence of 45 single-nucleotide variants (SNVs) associated with human diseases that substantially change ribosome loading and thus may represent a molecular basis for disease.

    View details for DOI 10.1038/s41587-019-0164-5

    View details for Web of Science ID 000478028700026

    View details for PubMedID 31267113

    View details for PubMedCentralID PMC7100133