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biochunan/README.md

Hi there πŸ‘‹

My name is Chu'nan Liu (刘ζ₯šε—). I am a PhD student in bioinformatics at the University College London. I develop computational tools and build datasets to study antibody-antigen interactions. I am also interested in the application of deep learning in structural bioinformatics.

I am open to collaborations on structural bioinformatics, protein datasets, geometric deep learning, etc. Feel free to reach out via email, LinkedIn, or Twitter.

πŸ”­ I’m currently working on



  • Nov 13-16, 2023: I present the above work at PEGS Europe 2023 in Lisbon, Portugal πŸ‡΅πŸ‡Ή.
    • πŸ“Š Check out the poster here





  • I host a 3D viewer for antibody-antigen interface analysis.
    • πŸ‘€ Check it out at AsEP

Pinned Loading

  1. esmfold-docker-image esmfold-docker-image Public

    Create a docker image for running ESMFold, solved conflicts between ESMFold and OpenFold dependencies

    Dockerfile 11 4

  2. seqres2atmseq seqres2atmseq Public

    Align the SEQRES sequence with the ATMSEQ sequence of a protein chain and output a list of mask (0: a missing residue in the ATMSEQ; 1: match)

    Python

  3. CDRConformationClassification CDRConformationClassification Public

    Antibody CDR loop conformation clusteirng using Affinity Propagation

    Python 1

  4. graphein graphein Public

    Forked from a-r-j/graphein

    Protein Graph Library

    Jupyter Notebook

  5. Convert2vscSnippet Convert2vscSnippet Public

    a simple shell script to convert a piece of code to vscode snippet

    Python

  6. AsEP-dataset AsEP-dataset Public

    NeurIPS 2024 Dataset and Benchmark Submission "AsEP: Benchmarking Deep Learning Methods for Antibody-specific Epitope Prediction"

    Jupyter Notebook 9 3