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Jianyi Yang

Jianyi Yang

D-Index & Metrics

Computer Science

D-Index
35
Citations
18025
World Ranking
11418
National Ranking
1415

Overview

Jianyi Yang is affiliated with Nankai University in China and has a significant research presence in the intersection of biochemistry, molecular biology, and computer science. Their work primarily spans the fields of Biochemistry, Genetics and Molecular Biology, with 123 publications, and Computer Science with 59 publications. Within these broad domains, Jianyi Yang has contributed notably to subfields including Molecular Biology, Artificial Intelligence, Materials Chemistry, Electrical and Electronic Engineering, and Computer Vision and Pattern Recognition.

Their research topics focus extensively on Machine Learning applications in Bioinformatics, Protein Structure and Dynamics, RNA and protein synthesis mechanisms, Genomics and Phylogenetic Studies, Enzyme Structure and Function, RNA modifications and cancer, and Computational Drug Discovery Methods.

Jianyi Yang has coauthored numerous studies with frequent collaborators such as Zhenling Peng, Wenkai Wang, Shaolei Ren, Hong Wei, and Zongyang Du. These partnerships underline a collaborative approach to advancing their fields of study.

Their publication record includes contributions to several high-impact journals and repositories. Some of the main venues where Jianyi Yang's work appears are arXiv (Cornell University) with 17 publications, bioRxiv (Cold Spring Harbor Laboratory) with 12, Bioinformatics with 7, Nature Communications with 4, and Proteins Structure Function and Bioinformatics with 4.

Key recent papers authored or coauthored by Jianyi Yang include:

  • Improved protein structure prediction using predicted interresidue orientations (2020), published in Proceedings of the National Academy of Sciences
  • The trRosetta server for fast and accurate protein structure prediction (2021), published in Nature Protocols
  • trRosettaRNA: automated prediction of RNA 3D structure with transformer network (2023), published in Nature Communications
  • Single-sequence protein structure prediction using supervised transformer protein language models (2022), published in Nature Computational Science
  • SARS-CoV-2 nucleocapsid protein binds host mRNAs and attenuates stress granules to impair host stress response (2021), published in iScience

Best Publications

  • The I-TASSER Suite: protein structure and function prediction

    Jianyi Yang;Renxiang Yan;Ambrish Roy;Dong Xu

  • I-TASSER server: new development for protein structure and function predictions

    Jianyi Yang;Yang Zhang

  • Improved protein structure prediction using predicted interresidue orientations

    Jianyi Yang;Ivan Anishchenko;Hahnbeom Park;Zhenling Peng

  • Protein–ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment

    Jianyi Yang;Ambrish Roy;Yang Zhang

  • COFACTOR: an accurate comparative algorithm for structure-based protein function annotation

    Ambrish Roy;Jianyi Yang;Yang Zhang

  • BioLiP: a semi-manually curated database for biologically relevant ligand–protein interactions

    Jianyi Yang;Ambrish Roy;Yang Zhang

  • Protein Structure and Function Prediction Using I‐TASSER

    Jianyi Yang;Jianyi Yang;Yang Zhang

  • PotentialNet for Molecular Property Prediction

    Evan N. Feinberg;Debnil Sur;Zhenqin Wu;Brooke E. Husic

  • COACH-D: improved protein-ligand binding sites prediction with refined ligand-binding poses through molecular docking.

    Qi Wu;Zhenling Peng;Yang Zhang;Jianyi Yang

  • A comparative assessment and analysis of 20 representative sequence alignment methods for protein structure prediction

    Renxiang Yan;Dong Xu;Jianyi Yang;Sara Walker

  • GPCR-I-TASSER: A Hybrid Approach to G Protein-Coupled Receptor Structure Modeling and the Application to the Human Genome.

    Jian Zhang;Jianyi Yang;Jianyi Yang;Richard Jang;Yang Zhang

  • ResQ: An Approach to Unified Estimation of B-Factor and Residue-Specific Error in Protein Structure Prediction.

    Jianyi Yang;Yan Wang;Yang Zhang

  • Prediction of protein structural classes by recurrence quantification analysis based on chaos game representation.

    Jian-Yi Yang;Zhen-Ling Peng;Zu-Guo Yu;Zu-Guo Yu;Rui-Jie Zhang

  • Recognizing metal and acid radical ion-binding sites by integrating ab initio modeling with template-based transferals

    Xiuzhen Hu;Qiwen Dong;Jianyi Yang;Yang Zhang

  • mTM-align: an algorithm for fast and accurate multiple protein structure alignment.

    Runze Dong;Zhenling Peng;Yang Zhang;Jianyi Yang

  • GLASS: a comprehensive database for experimentally validated GPCR-ligand associations

    Wallace K. B. Chan;Hongjiu Zhang;Jianyi Yang;Jeffrey R. Brender

  • Prediction of protein structural classes for low-homology sequences based on predicted secondary structure

    Jian-Yi Yang;Zhen-Ling Peng;Xin Chen

  • mTM-align: a server for fast protein structure database search and multiple protein structure alignment.

    Runze Dong;Shuo Pan;Zhenling Peng;Yang Zhang

  • Structural and Sequence Similarity Makes a Significant Impact on Machine-Learning-Based Scoring Functions for Protein-Ligand Interactions.

    Yang Li;Jianyi Yang

  • Integration of QUARK and I‐TASSER for Ab Initio Protein Structure Prediction in CASP11

    Wenxuan Zhang;Jianyi Yang;Baoji He;Sara Elizabeth Walker

  • Protein contact prediction using metagenome sequence data and residual neural networks.

    Qi Wu;Zhenling Peng;Ivan Anishchenko;Qian Cong

  • Improved protein structure prediction using predicted inter-residue orientations

    Jianyi Yang;Ivan Anishchenko;Hahnbeom Park;Zhenling Peng

Frequent Co-Authors

Yang Zhang
Yang Zhang University of Michigan–Ann Arbor
Lukasz Kurgan
Lukasz Kurgan Virginia Commonwealth University
David Baker
David Baker University of Washington
Vladimir N. Uversky
Vladimir N. Uversky University of South Florida
Chaim Gilon
Chaim Gilon Hebrew University of Jerusalem
James C. A. Bardwell
James C. A. Bardwell University of Michigan–Ann Arbor
Kim A. Brogden
Kim A. Brogden University of Iowa
Christoph H. Borchers
Christoph H. Borchers McGill University
Hong-Bin Shen
Hong-Bin Shen Shanghai Jiao Tong University
Zhaolei Zhang
Zhaolei Zhang University of Toronto

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