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  1. Article

    Open Access

    Accurate Prediction of Protein Structural Flexibility by Deep Learning Integrating Intricate Atomic Structures and Cryo-EM Density Information

    The dynamics of proteins are crucial for understanding their mechanisms. However, computationally predicting protein dynamic information has proven challenging. Here, we propose a neural network model, RMSF-ne...

    **ntao Song, Lei Bao, Chenjie Feng, Qiang Huang, Fa Zhang, **n Gao in Nature Communications (2024)

  2. Article

    Open Access

    Accurate global and local 3D alignment of cryo-EM density maps using local spatial structural features

    Advances in cryo-electron microscopy (cryo-EM) imaging technologies have led to a rapidly increasing number of cryo-EM density maps. Alignment and comparison of density maps play a crucial role in interpreting...

    Bintao He, Fa Zhang, Chenjie Feng, Jianyi Yang, **n Gao in Nature Communications (2024)

  3. Article

    Open Access

    trRosettaRNA: automated prediction of RNA 3D structure with transformer network

    RNA 3D structure prediction is a long-standing challenge. Inspired by the recent breakthrough in protein structure prediction, we developed trRosettaRNA, an automated deep learning-based approach to RNA 3D str...

    Wenkai Wang, Chenjie Feng, Renmin Han, Ziyi Wang, Lisha Ye in Nature Communications (2023)