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蛋白质领域深度学习的论文列表

  • Generative models for graph-based protein design
    描述：蛋白质设计领域，利用基于图的transformer结构生成蛋白质的序列
    [NIPS 2019] [Github]

  • Learning protein sequence embeddings using information from structure
    描述：蛋白质表示，利用多任务模型学习蛋白质序列嵌入
    [ICLR 2019] [Github]

  • Evaluating protein transfer learning with TAPE
    描述：蛋白质语言模型比较
    [NIPS 2019] [Github]

  • SignalP 5.0 improves signal peptide predictions using deep neural networks
    Almagro Armenteros, J.J., Tsirigos, K.D., Sønderby, C.K. et al. 2019
    描述：利用卷积神经网络预测信号肽
    [Nature Methods] [Web server]

  • Unified rational protein engineering with sequence-based deep representation learning
    Alley, E.C., Khimulya, G., Biswas, S. et al. 2019
    描述：利用LSTM构建蛋白质语言模型
    [Nature Methods] [Github]

  • CogMol: Target-Specific and Selective Drug Design for COVID-19 Using Deep Generative Models
    Das P, Sercu T, Wadhawan K, et al. 2020
    描述：利用深度生成网络加快抗菌素的发现
    [NIPS 2020] [Web server]

  • End-to-End Learning on 3D Protein Structure for Interface Prediction
    Townshend R, Bedi R, Suriana P, et al. 2019
    描述：用于接口预测的3D蛋白质结构的端到端学习
    [NIPS 2019] [Github]

  • Energy-based models for atomic-resolution protein conformations
    Du Y, Meier J, Ma J, et al. 2020
    描述：基于能量模型预测原子分辨率级别的蛋白质构象
    [ICLR 2020] [Github]

  • Learning Protein Structure with a Differentiable Simulator
    Ingraham J, Riesselman A J, Sander C, et al. 2019
    描述：基于Langevin动力学的新型高效模拟器来构成神经能量函数，以在给定氨基酸序列信息的情况下构建蛋白质结构的端到端模型
    [ICLR 2019] [Github]

  • Human-level Protein Localization with Convolutional Neural Networks
    Rumetshofer E, Hofmarcher M, Röhrl C, et al. 2019
    描述：使用卷积神经网络预测人类蛋白定位
    [ICLR 2019] [Github]

  • Learning Data-Driven Drug-Target-Disease Interaction via Neural Tensor Network
    Chen H, Li J 2020
    描述：预测药物蛋白疾病关联关系
    [IJCAI 2020]

  • Deep Learning of High-Order Interactions for Protein Interface Prediction
    Liu Y, Yuan H, Cai L, et al. 2020
    描述：使用深度学习预测蛋白质接口的高阶相互作用
    [KDD 2020]

  • DeepGS: Deep Representation Learning of Graphs and Sequences for Drug-Target Binding Affinity Prediction
    Lin X, Zhao K, Xiao T, et al. 2020
    描述：使用深度学习预测药物和蛋白质靶标的亲和性
    [ECAI 2020] [Github]

  • Improved protein structure prediction using potentials from deep learning
    Senior A W, Evans R, Jumper J, et al. 2020
    描述：alphafold:主要是改进预测contact的距离分布来提升蛋白质结构的预测
    [Nature] [Github]

Contribution

Feel free to send a pull request.

License

MIT