Lim Group

Department of Biochemistry, University of Otago

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Welcome to the website of Dr Chun Shen Lim’s computational genomics group. We aim to delineate molecular factors that control gene expression using high-throughput techniques and computational pipelines we develop. Our goal is to address health issues and infectious diseases, e.g., hepatitis B virus infection.

news

Apr 13, 2025 Our paper on combining long- and short-read sequencing to detect novel translational events has been published :tada:
Feb 27, 2025 Congratulations Anh on winning the RNA Society Research Presentation Fellowship :confetti_ball:
Dec 01, 2023 Congratulations Gabrielle on her well-deserved PhD scholarship! :sparkles: :smile:
Sep 25, 2023 Gabrielle won the travel award from the Molecular Biosystems Fellows Program and attended the conference in Puerto Varas, Chile. Well done! :beers:
May 25, 2023 We have successfully secured a HRC Explorer Grant :partying_face:

selected publications

  1. The exon–intron gene structure upstream of the initiation codon predicts translation efficiency
    Chun Shen Lim, Samuel J T Wardell , Torsten Kleffmann , and 1 more author
    Nucleic Acids Research, 2018
  2. Solubility-Weighted Index: fast and accurate prediction of protein solubility
    Bikash K Bhandari , Paul P Gardner , and Chun Shen Lim
    Bioinformatics, 2020
  3. Quantitative analysis of the splice variants expressed by the major hepatitis B virus genotypes
    Chun Shen Lim, Vitina Sozzi , Margaret Littlejohn , and 5 more authors
    Microbial Genomics, 2021
  4. Analysis of 11,430 recombinant protein production experiments reveals that protein yield is tunable by synonymous codon changes of translation initiation sites
    Bikash K Bhandari , Chun Shen Lim, Daniela M Remus , and 3 more authors
    PLOS Computational Biology, 2021
  5. TISIGNER.com: web services for improving recombinant protein production
    Bikash K Bhandari , Chun Shen Lim, and Paul P Gardner
    Nucleic Acids Research, 2021
  6. Analysis of fungal genomes reveals commonalities of intron gain or loss and functions in intron-poor species
    Chun Shen Lim, Brooke N Weinstein , Scott W Roy , and 1 more author
    Molecular Biology and Evolution, 2021