Jianyi Yang

ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 27

Top Venues

Nature communications

Bioinformatics (Oxford, England)

Genomics, proteomics & bioinformatics

Nature computational science

Nankai University

Nanyang Technological University (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Nankai University Jan 01 2015

China

Associate Professor :: School of Mathematical Sciences

University of Michigan Mar 01 2014 - Dec 31 2014

United States

Research Investigator :: Computational Medicine and Bioinformatics

University of Michigan Aug 01 2011 - Mar 03 2014

United States

Research Fellow :: Computational Medicine and Bioinformatics

Education History

Nanyang Technological University Jan 05 2009 - Jul 31 2011

Singapore

PHD :: Division of Mathematical Sciences

Xiangtan University Sep 10 2005 - Jun 12 2008

China

MSC :: School of Mathematics and Computing Science

Publications

Zongyang Du, Zhenling Peng, Jianyi Yang
RNA threading with secondary structure and sequence profile. Bioinformatics (Oxford, England) 40 (2) (2024)
Zongyang Du, Zhenling Peng, Jianyi Yang
RNA threading with secondary structure and sequence profile. Bioinformatics (Oxford, England) 40 (2) (2024)
Wei Liu, Ziye Wang, Ronghui You, Chenghan Xie, Hong Wei, Yi Xiong, Jianyi Yang, Shanfeng Zhu
Author Correction: PLMSearch: Protein language model powers accurate and fast sequence search for remote homology. Nature communications 15 (1) (2024)
Zongyang Du, Zhenling Peng, Jianyi Yang
RNA threading with secondary structure and sequence profile. Bioinformatics (Oxford, England) 40 (2) (2024)
Wei Liu, Ziye Wang, Ronghui You, Chenghan Xie, Hong Wei, Yi Xiong, Jianyi Yang, Shanfeng Zhu
PLMSearch: Protein language model powers accurate and fast sequence search for remote homology. Nature communications 15 (1) (2024)
Bintao He, Fa Zhang, Chenjie Feng, Jianyi Yang, Xin Gao, Renmin Han
Accurate global and local 3D alignment of cryo-EM density maps using local spatial structural features. Nature communications 15 (1) (2024)
Hong Wei, Wenkai Wang, Zhenling Peng, Jianyi Yang
Q-BioLiP: A Comprehensive Resource for Quaternary Structure-based Protein-ligand Interactions. Genomics, proteomics & bioinformatics 22 (1) (2024)
Junhai Qi, Chenjie Feng, Yulin Shi, Jianyi Yang, Fa Zhang, Guojun Li, Renmin Han
FP-Zernike: An Open-source Structural Database Construction Toolkit for Fast Structure Retrieval. Genomics, proteomics & bioinformatics 22 (1) (2024)
Wei Liu, Ziye Wang, Ronghui You, Chenghan Xie, Hong Wei, Yi Xiong, Jianyi Yang, Shanfeng Zhu
PLMSearch: Protein language model powers accurate and fast sequence search for remote homology. Nature communications 15 (1) (2024)
Hong Wei, Wenkai Wang, Zhenling Peng, Jianyi Yang
Q-BioLiP: A Comprehensive Resource for Quaternary Structure-based Protein-ligand Interactions. Genomics, proteomics & bioinformatics 22 (1) (2024)
Bintao He, Fa Zhang, Chenjie Feng, Jianyi Yang, Xin Gao, Renmin Han
Accurate global and local 3D alignment of cryo-EM density maps using local spatial structural features. Nature communications 15 (1) (2024)
Wei Liu, Ziye Wang, Ronghui You, Chenghan Xie, Hong Wei, Yi Xiong, Jianyi Yang, Shanfeng Zhu
PLMSearch: Protein language model powers accurate and fast sequence search for remote homology. Nature communications 15 (1) (2024)
Junhai Qi, Chenjie Feng, Yulin Shi, Jianyi Yang, Fa Zhang, Guojun Li, Renmin Han
FP-Zernike: An Open-source Structural Database Construction Toolkit for Fast Structure Retrieval. Genomics, proteomics & bioinformatics 22 (1) (2024)
Bintao He, Fa Zhang, Chenjie Feng, Jianyi Yang, Xin Gao, Renmin Han
Accurate global and local 3D alignment of cryo-EM density maps using local spatial structural features. Nature communications 15 (1) (2024)
Kun Zhu, Hong Su, Zhenling Peng, Jianyi Yang
A unified approach to protein domain parsing with inter-residue distance matrix. Bioinformatics (Oxford, England) 39 (2) (2023)
Xiao-Chen Bai, Tamir Gonen, Angela M Gronenborn, Anastassis Perrakis, Andrea Thorn, Jianyi Yang
Challenges and opportunities in macromolecular structure determination. Nature reviews. Molecular cell biology (2023)
Wenkai Wang, Chenjie Feng, Renmin Han, Ziyi Wang, Lisha Ye, Zongyang Du, Hong Wei, Fa Zhang, Zhenling Peng, Jianyi Yang
trRosettaRNA: automated prediction of RNA 3D structure with transformer network. Nature communications 14 (1) (2023)
Kun Zhu, Hong Su, Zhenling Peng, Jianyi Yang
A unified approach to protein domain parsing with inter-residue distance matrix. Bioinformatics (Oxford, England) 39 (2) (2023)
Wenkai Wang, Zhenling Peng, Jianyi Yang
Single-sequence protein structure prediction using supervised transformer protein language models. Nature computational science 2 (12) (2022)
Wenkai Wang, Zhenling Peng, Jianyi Yang
Single-sequence protein structure prediction using supervised transformer protein language models. Nature computational science 2 (12) (2022)
Wenkai Wang, Zhenling Peng, Jianyi Yang
Single-sequence protein structure prediction using supervised transformer protein language models. Nature computational science 2 (12) (2022)
Zongyang Du, Hong Su, Wenkai Wang, Lisha Ye, Hong Wei, Zhenling Peng, David Baker, David Baker, Jianyi Yang
The trRosetta server for fast and accurate protein structure prediction. Nature protocols 16 (12) (2021)
Saisai Sun, Wenkai Wang, Zhenling Peng, Jianyi Yang
RNA inter-nucleotide 3D closeness prediction by deep residual neural networks. Bioinformatics (Oxford, England) 37 (8) (2021)
Hong Su, Wenkai Wang, Zongyang Du, Zhenling Peng, Shang-Hua Gao, Ming-Ming Cheng, Jianyi Yang
Improved Protein Structure Prediction Using a New Multi-Scale Network and Homologous Templates. Advanced science (Weinheim, Baden-Wurttemberg, Germany) (2021)
Jianyi Yang, David Baker, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, Julien S Baker
Improved protein structure prediction using predicted interresidue orientations. Proceedings of the National Academy of Sciences of the United States of America 117 (3) (2020)
Zijuan Zhao, Zhenling Peng, Jianyi Yang
Improving Sequence-Based Prediction of Protein-Peptide Binding Residues by Introducing Intrinsic Disorder and a Consensus Method. Journal of chemical information and modeling 58 (7) (2018)
Yang Li, Jianyi Yang
Structural and Sequence Similarity Makes a Significant Impact on Machine-Learning-Based Scoring Functions for Protein-Ligand Interactions. Journal of chemical information and modeling 57 (4) (2017)

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Publication Activity (10 Years)

Top Topics

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Jianyi Yang