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followers: 10.0 following: 29.0 repos: 104.0 gists: 0.0

Name: ChuNan Liu

Type: User

Company: University College London

Bio: PhD student at UCL Computational Biology. Research focuses on developing deep learning tools for antibody development. Geometric Deep Learning, Protein LMs.

Twitter: LiuChunan

Location: London, UK

Hi there 👋

My name is Chu'nan Liu (刘楚南). 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.

🔭 I’m currently working on

Mar 13, 2024: our paper on the analysis of antibody CDR loop conformational change while binding to antigens is published on mAbs
- 📃 You can find the paper at doi.org/10.1080/19420862.2024.2322533.
- 🤖 The code is available at CDR Conformation Classification
- 🗂️ The dataset is downloadable from 🔗 abYbank (to download, right-click the link and choose Save link as...)

Nov 13-16, 2023: I present the above work at PEGS Europe 2023 in Lisbon, Portugal 🇵🇹.
- 📊 Check out the poster here

I host a 3D viewer for antibody-antigen interface analysis.
- 👀 Check it out at AsEP

ChuNan Liu's Projects

3dmol.js

WebGL accelerated JavaScript molecular graphics library

ab-docking-scripts

abdockgen

abpackingangle

absplit

Code to split an antibody PDB file into Fv fragments with their antigens

acaca

Canonical assignment code from our 1996 paper [PMID: 8947577]

alphafold

Open source code for AlphaFold.

alphafold2

To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released

alphafoldv1

anarci

Antibody Numbering and Antigen Receptor ClassIfication

antibody_benchmark

Antibody-Antigen Docking and Affinity Benchmark

attnpacker

Code and Pre-Trained Models for "AttnPacker: An end-to-end deep learning method for protein side-chain packing"

autopack

awesome-diffusion-models

A collection of resources and papers on Diffusion Models

bds-files

Supplementary files for my book, "Bioinformatics Data Skills"

bert

TensorFlow code and pre-trained models for BERT

binance

A full-featured .NET Binance API library.

binding-ddg-predictor

open source repository

biochunan

biochunan.github.io

bioplib

The bioplib library

bioptools

Tools making use of BiopLib

cdrconformationclassification

Antibody CDR loop conformation clusteirng using Affinity Propagation

chunan.github.io

convert2vscsnippet

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

d2l-en

Interactive deep learning book with multi-framework code, math, and discussions. Adopted at 400 universities from 60 countries including Stanford, MIT, Harvard, and Cambridge.

d2l-zh

《动手学深度学习》：面向中文读者、能运行、可讨论。中英文版被60多个国家的400多所大学用于教学。

d3

Bring data to life with SVG, Canvas and HTML. :bar_chart::chart_with_upwards_trend::tada:

deep-learning-project-template

A best practice for deep learning project template architecture.

deepmind-research

This repository contains implementations and illustrative code to accompany DeepMind publications

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