Haipeng GONG, Ph.D.

Principal Investigator


1993-1997   Department of Biological Science and Biotechnology, Tsinghua University   B.S.
1997-2000   Department of Biological Science and Biotechnology, Tsinghua University   M.S.
2000-2006   Program of Molecular Biophysics, Johns Hopkins University   Ph.D.
2006-2007   Program of Molecular Biophysics, Johns Hopkins University   Postdoc.
2007-2009   Department of Biochemistry and Molecular Biology, University of Chicago   Postdoc.
2009-2014   School of Life Sciences, Tsinghua University   Tenure-track assistant professor
2015-present  School of Life Sciences, Tsinghua University   Tenured associate professor

Research interest


1. Developing computer algorithms for predicting the protein 3D structures from amino acid sequences.
2. Developing methods for quantitatively analyzing the large-scale conformational changes of macromolecules by molecular dynamics simulations.

 

 

Selected publications


1. Wenzhi Mao#, Wenze Ding, Yaoguang Xing, and Haipeng Gong*, “AmoebaContact and GDFold as a pipeline for rapid de novo protein structure prediction”, Nature Machine Intelligence, 2: 25-33, 2020.
2. Tong Wang#, Yanhua Qiao, Wenze Ding, Wenzhi Mao, Yaoqi Zhou*, and Haipeng Gong*, “Improved fragment sampling for ab initio protein structure prediction using deep neural networks”, Nature Machine Intelligence, 1: 347-355, 2019.
3. Wenze Ding#, Wenzhi Mao#, Di Shao#, Wenxuan Zhang, and Haipeng Gong*, “DeepConPred2: an improved method for the prediction of protein residue contacts”, Computational and Structural Biotechnology Journal, 16: 503-510, 2018.
4. Wenzhi Mao#, Tong Wang, Wenxuan Zhang, and Haipeng Gong*, “Identification of residue pairing in interacting β-strands from a predicted residue contact map”, BMC Bioinformatics, 19(1): 146, 2018.
5. Juanrong Zhang#, Wenzhi Mao#, Yanhui Ren#, Rui-Ning Sun, Nieng Yan*, and Haipeng Gong*, “Simulating the ion permeation and ion selection for a eukaryotic voltage-gated sodium channel NavPaS”, Protein & Cell, 9(6): 580-585, 2018.
6. Meng Ke#, Yafei Yuan, Xin Jiang, Nieng Yan*, and Haipeng Gong*, “Molecular determinants for the thermodynamic and functional divergence of uniporter GLUT1 and proton symporter XylE”, PLoS Computational Biology, 13(6): e1005603, 2017.
7. Dapeng Xiong#, Jianyang Zeng*, and Haipeng Gong*, “A deep learning framework for improving long-range residue-residue contact prediction using a hierarchical strategy”, Bioinformatics, 33(17): 2675-2683, 2017.
8. Ruining Sun# and Haipeng Gong*, “Simulating the activation of voltage sensing domain for a voltage-gated sodium channel using polarizable force field”, Journal of Physical Chemistry Letters, 8: 901-908, 2017.
9. Tong Wang#, Yuedong Yang, Yaoqi Zhou, and Haipeng Gong*, “LRFragLib: an effective algorithm to identify fragments for de novo protein structure prediction”, Bioinformatics, 33(5): 677-684, 2017.
10. Yufeng Liu#, Meng Ke, and Haipeng Gong*, “Protonation of Glu135 facilitates the outward-to-inward structural transition of fucose transporter”, Biophysical Journal, 109(3): 542-551, 2015.

Contact information


Email: hgong@tsinghua.edu.cn
Website: http://structpred.life.tsinghua.edu.cn