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SizheQiu/README.md

你好 👋

Keywords: Computational biology🖥️/Systems biology🔢/Microbiology🦠/Machine learning⚙️

Projects🌟:

  • DLTKcat⚗️
    • Deep learning-based prediction of temperature dependent enzyme kcat.
  • LbPtEPS🦠🧪
    • Multi-omics analysis of L. plantarum at different pH values.
    • RPCFBA: regulatory proteome constrained flux balance analysis
  • IM-ML🦠
    • Regulon inference of E. coli based on gene sequences.
  • LPiModulons🧬
    • Independent component analysis of L. plantarum transcriptomes.
    • In-silico reconstruction of transcriptional regulatory network.
  • MetaStLbCom🧫
    • Metagenomic analysis of yogurt starter culture.
    • Dynamic metabolic modeling of major species in yogurt starter.
  • YogAromaCLF🥛
    • Classification of yogurt aroma types based on flavoromics.

Education

  • PhD Engineering Science University of Oxford
  • BSMS Bioengineering University of California, San Diego

Learning in progress🌱:

  • Generative AI
  • Bio-electrochemistry

Contact📫:

If you would like to discuss collaborations👯 on genome-scale metabolic modeling/metagenomic analysis/application of ML on biological problems, feel free to contact me: [email protected]

Pinned Loading

  1. DLTKcat DLTKcat Public

    Deep learning based prediction of temperature dependent enzyme turnover rates

    Jupyter Notebook 11 7

  2. MetaStLbCom MetaStLbCom Public

    Dynamic community-level metabolic modeling for fermentation kinetics and metabolic interactions of the yogurt starter culture based on metagenomic analysis

    Jupyter Notebook 4

  3. LPiModulons LPiModulons Public

    Independent component analysis (ICA) of Lactobacillus plantarum transcriptomes

    HTML 1

  4. YogAromaCLF YogAromaCLF Public

    Yogurt aroma classification

    Jupyter Notebook 1

  5. SBRG/IM-ML SBRG/IM-ML Public

    Jupyter Notebook 1 1

  6. LbPtEPS LbPtEPS Public

    Jupyter Notebook