9 Result(s)

Article

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)

Article

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)

Article

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)

Article

HycDemux: a hybrid unsupervised approach for accurate barcoded sample demultiplexing in nanopore sequencing

DNA barcodes enable Oxford Nanopore sequencing to sequence multiple barcoded DNA samples on a single flow cell. DNA sequences with the same barcode need to be grouped together through demultiplexing. As the nu...

Renmin Han, Junhai Qi, Yang Xue, **ujuan Sun, Fa Zhang, **n Gao… in Genome Biology (2023)

Article

Structure of the full-length human Pannexin1 channel and insights into its role in pyroptosis

Pannexin1 (PANX1) is a large-pore ATP efflux channel with a broad distribution, which allows the exchange of molecules and ions smaller than 1 kDa between the cytoplasm and extracellular space. In this study, ...

Sensen Zhang, Baolei Yuan, Jordy Homing Lam, Jun Zhou, Xuan Zhou… in Cell Discovery (2021)

Article

Compressed sensing improved iterative reconstruction-reprojection algorithm for electron tomography

Electron tomography (ET) is an important technique for the study of complex biological structures and their functions. Electron tomography reconstructs the interior of a three-dimensional object from its proje...

Lun Li, Renmin Han, Zhaotian Zhang, Tiande Guo, Zhiyong Liu, Fa Zhang in BMC Bioinformatics (2020)

Article

PIXER: an automated particle-selection method based on segmentation using a deep neural network

Cryo-electron microscopy (cryo-EM) has become a widely used tool for determining the structures of proteins and macromolecular complexes. To acquire the input for single-particle cryo-EM reconstruction, resear...

**grong Zhang, Zihao Wang, Yu Chen, Renmin Han, Zhiyong Liu, Fei Sun… in BMC Bioinformatics (2019)

Article

Live cell single molecule-guided Bayesian localization super resolution microscopy

Fan Xu, Mingshu Zhang, Wenting He, Renmin Han, Fudong Xue, Zhiyong Liu… in Cell Research (2017)

Article

Drift correction for single-molecule imaging by molecular constraint field, a distance minimum metric

The recent developments of far-field optical microscopy (single molecule imaging techniques) have overcome the diffraction barrier of light and improve image resolution by a factor of ten compared with convent...

Renmin Han, Liansan Wang, Fan Xu, Yongdeng Zhang, Mingshu Zhang… in BMC Biophysics (2015)