Correction
OPUS-Rota4: a gradient-based protein side-chain modeling framework assisted by deep learning-based predictors
Paper Information
Record ID:
42986
Author(s):
Journal:
Publication Date:
December 15, 2021
Retraction Date:
May 18, 2022
(3.5 years years ago)
Subjects:
Broad Categories:
Biology
Biology
Institutions:
- Multiscale Research Institute of Complex Systems, Fudan University, Shanghai 200433, China
- Zhangjiang Fudan International Innovation Center, Fudan University, Shanghai 201210, China
- Shanghai AI Laboratory, Shanghai 200030, China
- Verna and Marrs Mclean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston 77030, Texas USA
Countries:
Article Type:
Publisher:
Oxford Academic
Open Access:
Yes
DOI:
PubMed ID:
Retraction PubMed ID:
Correction Details
Citations (26)
26
Total Citations21
Post-Retraction(80.8%)
4
Pre-Retraction0
Same DayPost-Retraction Citation Analysis
0
Within 30 days
9
Within 1 year
5
After 2+ years
1110
Days since retraction (latest)
Paper citing OPUS-Rota4: a gradient-based protein side-chain mo...
Unknown Authors
Unknown Journal
Published: Unknown
Recent Advances in Machine Learning and Coarse-Grained Potentials for Biomolecular Simulations and Their Applications
Adolfo B. Poma, Alejandra Hinostroza Caldas, Luis Fernando Cofas‐Vargas et al. (6 authors)
Biophysical Journal
Open Access
Published: Jun 2025
1110 days after retraction
To pack or not to pack: revisiting protein side-chain packing in the post-AlphaFold era
Sriniketh Vangaru, Debswapna Bhattacharya
Briefings in Bioinformatics
Open Access
Published: May 2025
1079 days after retraction
Beyond AlphaFold2: The Impact of AI for the Further Improvement of Protein Structure Prediction
Ahmet G. Genc, Liam J. McGuffin
Methods in molecular biology
Published: Nov 2024
3 citations
3 citations
919 days after retraction
Amino-Acid Characteristics in Protein Native State Structures
Tatjana Škrbić, Achille Giacometti, Trinh Xuan Hoang et al. (5 authors)
Biomolecules
Open Access
Published: Jul 2024
1 citation
1 citation
781 days after retraction
Invariant point message passing for protein side chain packing
Nicholas Z. Randolph, Brian Kuhlman
Proteins Structure Function and Bioinformatics
Published: May 2024
7 citations
7 citations
737 days after retraction
Deep Manifold Transformation for Protein Representation Learning
Bozhen Hu, Zelin Zang, Cheng Tan et al. (4 authors)
ICASSP 2022 - 2022 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP)
Open Access
Published: Mar 2024
670 days after retraction
Ab Initio Prediction of 3-D Conformations for Protein Long Loops with High Accuracy and Applications to Antibody CDRH3 Modeling
Shide Liang, Chi Zhang, Mingfu Zhu
Journal of Chemical Information and Modeling
Published: Nov 2023
560 days after retraction
H-Packer: Holographic Rotationally Equivariant Convolutional Neural Network for Protein Side-Chain Packing.
Gian Marco Visani, William Galvin, Michael N. Pun et al. (4 authors)
PubMed
Published: Nov 2023
559 days after retraction
<scp>zPoseScore</scp> model for accurate and robust protein–ligand docking pose scoring in <scp>CASP15</scp>
Tao Shen, Fuxu Liu, Zechen Wang et al. (14 authors)
Proteins Structure Function and Bioinformatics
Open Access
Published: Aug 2023
6 citations
6 citations
461 days after retraction
Invariant point message passing for protein side chain packing
Nicholas Z. Randolph, Brian Kuhlman
bioRxiv (Cold Spring Harbor Laboratory)
Open Access
Published: Aug 2023
1 citation
1 citation
442 days after retraction
Learning Complete Protein Representation by Deep Coupling of Sequence and Structure
Bozhen Hu, Cheng Tan, Jun Xia et al. (9 authors)
bioRxiv (Cold Spring Harbor Laboratory)
Open Access
Published: Jul 2023
7 citations
7 citations
415 days after retraction
An end-to-end deep learning method for protein side-chain packing and inverse folding
Matt McPartlon, Jinbo Xu
Proceedings of the National Academy of Sciences
Open Access
Published: May 2023
35 citations
35 citations
377 days after retraction
ZymePackNet: rotamer-sampling free graph neural network method for protein sidechain prediction
Abhishek Mukhopadhyay, Amit Kadan, Benjamin McMaster et al. (5 authors)
bioRxiv (Cold Spring Harbor Laboratory)
Open Access
Published: May 2023
6 citations
6 citations
353 days after retraction
zPoseScore model for accurate and robust protein-ligand docking pose scoring in CASP15
Liangzhen Zheng, Tao Shen, Fuxu Liu et al. (13 authors)
Authorea (Authorea)
Open Access
Published: Apr 2023
3 citations
3 citations
334 days after retraction
AlphaFold2 and its applications in the fields of biology and medicine
Zhenyu Yang, Xiaoxi Zeng, Yi Zhao et al. (4 authors)
Signal Transduction and Targeted Therapy
Open Access
Published: Mar 2023
295 citations
295 citations
300 days after retraction
Leveraging neural differential equations and adaptive delayed feedback to detect unstable periodic orbits based on irregularly sampled time series
Qunxi Zhu, Xin Li, Wei Lin
Chaos An Interdisciplinary Journal of Nonlinear Science
Published: Mar 2023
5 citations
5 citations
287 days after retraction
OPUS-Mut: Studying the Effect of Protein Mutation through Side-Chain Modeling
Gang Xu, Qinghua Wang, Jianpeng Ma
Journal of Chemical Theory and Computation
Open Access
Published: Feb 2023
9 citations
9 citations
280 days after retraction
<scp>GeoPacker</scp>: A novel deep learning framework for protein side‐chain modeling
Jiale Liu, Changsheng Zhang, Luhua Lai
Protein Science
Open Access
Published: Oct 2022
6 citations
6 citations
165 days after retraction
Paper citing OPUS-Rota4: a gradient-based protein side-chain mo...
Unknown Authors
Unknown Journal
Published: Sep 2022
108 days after retraction
Studying protein–protein interaction through side-chain modeling method OPUS-Mut
Gang Xu, Yilin Wang, Qinghua Wang et al. (4 authors)
Briefings in Bioinformatics
Open Access
Published: Aug 2022
7 citations
7 citations
86 days after retraction
Quality Evaluation and Satisfaction Analysis of Online Learning of College Students Based on Artificial Intelligence
Shangzi Yun, Yongfeng Bai, Jongnam Baek
Security and Communication Networks
Open Access
Published: Aug 2022
2 citations
2 citations
82 days after retraction
OPUS-Mut: studying the effect of protein mutation through side-chain modeling
Gang Xu, Qinghua Wang, Jianpeng Ma
bioRxiv (Cold Spring Harbor Laboratory)
Open Access
Published: May 2022
2 citations
2 citations
7 days before retraction
Paper citing OPUS-Rota4: a gradient-based protein side-chain mo...
Unknown Authors
Unknown Journal
Published: May 2022
7 days before retraction
Accurate Sampling of Macromolecular Conformations Using Adaptive Deep Learning and Coarse-Grained Representation
Amr H. Mahmoud, Matthew R. Masters, Soo Jung Lee et al. (4 authors)
Journal of Chemical Information and Modeling
Published: Mar 2022
7 citations
7 citations
49 days before retraction
WITHDRAWN: GPCR Dock 2021: a blind docking competition in the post AlphaFold2 era
Suwen Zhao
Artificial Intelligence in the Life Sciences
Open Access
Published: Nov 2021
198 days before retraction
Related Records
This article has multiple records in the database due to different notices:
Record #42967
Mar 21, 2022Quick Stats
Total Citations:
26
Years Since Retraction:
3.5 years
Open Access:
Yes
Last Checked:
Jul 24, 2025