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OpenAlex Citation Counts

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OpenAlex is a bibliographic catalogue of scientific papers, authors and institutions accessible in open access mode, named after the Library of Alexandria. It's citation coverage is excellent and I hope you will find utility in this listing of citing articles!

If you click the article title, you'll navigate to the article, as listed in CrossRef. If you click the Open Access links, you'll navigate to the "best Open Access location". Clicking the citation count will open this listing for that article. Lastly at the bottom of the page, you'll find basic pagination options.

Requested Article:

DeepRank: a deep learning framework for data mining 3D protein-protein interfaces
Nicolas Renaud, Cunliang Geng, Sonja Georgievska, et al.
Nature Communications (2021) Vol. 12, Iss. 1
Open Access | Times Cited: 83

Showing 1-25 of 83 citing articles:

ScanNet: an interpretable geometric deep learning model for structure-based protein binding site prediction
Jérôme Tubiana, Dina Schneidman‐Duhovny, Haim J. Wolfson
Nature Methods (2022) Vol. 19, Iss. 6, pp. 730-739
Open Access | Times Cited: 137
DeepRank-GNN: a graph neural network framework to learn patterns in protein–protein interfaces
Manon Réau, Nicolas Renaud, Li C. Xue, et al.
Bioinformatics (2022) Vol. 39, Iss. 1
Open Access | Times Cited: 94
Hierarchical graph learning for protein–protein interaction
Ziqi Gao, Chenran Jiang, Jiawen Zhang, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 91
Artificial intelligence in drug development
Kang Zhang, Xin Yang, Yifei Wang, et al.
Nature Medicine (2025) Vol. 31, Iss. 1, pp. 45-59
Closed Access | Times Cited: 11
Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery
Wiktoria Wilman, Sonia Wróbel, Weronika Bielska, et al.
Briefings in Bioinformatics (2022) Vol. 23, Iss. 4
Open Access | Times Cited: 59
Critical Assessment of Methods for Predicting the 3D Structure of Proteins and Protein Complexes
Shoshana J. Wodak, Sándor Vajda, Marc F. Lensink, et al.
Annual Review of Biophysics (2023) Vol. 52, Iss. 1, pp. 183-206
Open Access | Times Cited: 39
Metal3D: a general deep learning framework for accurate metal ion location prediction in proteins
Simon Dürr, Andrea Levy, Ursula Röthlisberger
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 37
Protein–protein interfaces in molecular glue-induced ternary complexes: classification, characterization, and prediction
Huan Rui, Kate S. Ashton, Jaeki Min, et al.
RSC Chemical Biology (2023) Vol. 4, Iss. 3, pp. 192-215
Open Access | Times Cited: 36
Computational Methods in Immunology and Vaccinology: Design and Development of Antibodies and Immunogens
Federica Guarra, Giorgio Colombo
Journal of Chemical Theory and Computation (2023) Vol. 19, Iss. 16, pp. 5315-5333
Open Access | Times Cited: 32
Open-Source Machine Learning in Computational Chemistry
Alexander Hagg, Karl N. Kirschner
Journal of Chemical Information and Modeling (2023) Vol. 63, Iss. 15, pp. 4505-4532
Open Access | Times Cited: 28
GeoBind: segmentation of nucleic acid binding interface on protein surface with geometric deep learning
Pengpai Li, Zhi‐Ping Liu
Nucleic Acids Research (2023) Vol. 51, Iss. 10, pp. e60-e60
Open Access | Times Cited: 24
Accelerating therapeutic protein design with computational approaches toward the clinical stage
Zhidong Chen, Xinpei Wang, Xu Chen, et al.
Computational and Structural Biotechnology Journal (2023) Vol. 21, pp. 2909-2926
Open Access | Times Cited: 22
Optimization strategies and advances in the research and development of AAV‐based gene therapy to deliver large transgenes
Valeria V. Kolesnik, Ruslan F. Nurtdinov, Ezekiel S. Oloruntimehin, et al.
Clinical and Translational Medicine (2024) Vol. 14, Iss. 3
Open Access | Times Cited: 12
Benchmarking the robustness of the correct identification of flexible 3D objects using common machine learning models
Yang Zhang, Andreas Vitalis
Patterns (2025) Vol. 6, Iss. 1, pp. 101147-101147
Open Access | Times Cited: 1
Recent advances in predicting protein–protein interactions with the aid of artificial intelligence algorithms
Shiwei Li, Sanan Wu, Lin Wang, et al.
Current Opinion in Structural Biology (2022) Vol. 73, pp. 102344-102344
Closed Access | Times Cited: 35
PANDORA: A Fast, Anchor-Restrained Modelling Protocol for Peptide: MHC Complexes
Dario F. Marzella, Farzaneh M. Parizi, Derek van Tilborg, et al.
Frontiers in Immunology (2022) Vol. 13
Open Access | Times Cited: 31
Low-data interpretable deep learning prediction of antibody viscosity using a biophysically meaningful representation
K. Brajesh, James R. Apgar, Eric M. Bennett
Scientific Reports (2023) Vol. 13, Iss. 1
Open Access | Times Cited: 17
Accelerating antibody discovery and design with artificial intelligence: Recent advances and prospects
Ganggang Bai, Chuance Sun, Ziang Guo, et al.
Seminars in Cancer Biology (2023) Vol. 95, pp. 13-24
Closed Access | Times Cited: 16
DeepRank-GNN-esm: a graph neural network for scoring protein–protein models using protein language model
Xiaotong Xu, Alexandre M. J. J. Bonvin
Bioinformatics Advances (2024) Vol. 4, Iss. 1
Open Access | Times Cited: 7
Discriminating physiological from non‐physiological interfaces in structures of protein complexes: A community‐wide study
Hugo Schweke, Qifang Xu, Gerardo Tauriello, et al.
PROTEOMICS (2023) Vol. 23, Iss. 17
Open Access | Times Cited: 14
Petascale Homology Search for Structure Prediction
Sewon Lee, Gyuri Kim, Eli Levy Karin, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 14
Evaluating protein binding interfaces with transformer networks
Vitalii Stebliankin, Azam Shirali, Prabin Baral, et al.
Nature Machine Intelligence (2023) Vol. 5, Iss. 9, pp. 1042-1053
Closed Access | Times Cited: 13
A comprehensive survey of scoring functions for protein docking models
Azam Shirali, Vitalii Stebliankin, Ukesh Karki, et al.
BMC Bioinformatics (2025) Vol. 26, Iss. 1
Open Access
Compact Assessment of Molecular Surface Complementarities Enhances Neural Network-Aided Prediction of Key Binding Residues
Greta Grassmann, Lorenzo Di Rienzo, G. Ruocco, et al.
Journal of Chemical Information and Modeling (2025)
Open Access
Pickering emulsions stabilized by soybean protein–based nanoparticles: A review of formulation, characterization, and food‐grade applications
Zhen Yang, Yuanyang Song, Hui Chen, et al.
Comprehensive Reviews in Food Science and Food Safety (2025) Vol. 24, Iss. 2
Closed Access
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