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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:

From sequence to function through structure: Deep learning for protein design
Noelia Ferruz, Michael Heinzinger, Mehmet Akdel, et al.
Computational and Structural Biotechnology Journal (2022) Vol. 21, pp. 238-250
Open Access | Times Cited: 72

Showing 1-25 of 72 citing articles:

Machine Learning-Guided Protein Engineering
Petr Kouba, Pavel Kohout, Faraneh Haddadi, et al.
ACS Catalysis (2023) Vol. 13, Iss. 21, pp. 13863-13895
Open Access | Times Cited: 65
De novo protein design—From new structures to programmable functions
Tanja Kortemme
Cell (2024) Vol. 187, Iss. 3, pp. 526-544
Open Access | Times Cited: 63
Bilingual Language Model for Protein Sequence and Structure
Michael Heinzinger, Konstantin Weißenow, Joaquin Gomez Sanchez, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 58
Opportunities and Challenges for Machine Learning-Assisted Enzyme Engineering
Jason Yang, Francesca-Zhoufan Li, Frances H. Arnold
ACS Central Science (2024) Vol. 10, Iss. 2, pp. 226-241
Open Access | Times Cited: 51
Protein generation with evolutionary diffusion: sequence is all you need
Sarah Alamdari, Nitya Thakkar, Rianne van den Berg, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 49
Computational scoring and experimental evaluation of enzymes generated by neural networks
Sean R. Johnson, Xiaozhi Fu, Sandra Viknander, et al.
Nature Biotechnology (2024)
Open Access | Times Cited: 19
Embedding-based alignment: combining protein language models with dynamic programming alignment to detect structural similarities in the twilight-zone
Lorenzo Pantolini, Gabriel Studer, Joana Pereira, et al.
Bioinformatics (2024) Vol. 40, Iss. 1
Open Access | Times Cited: 14
Accelerating Biocatalysis Discovery with Machine Learning: A Paradigm Shift in Enzyme Engineering, Discovery, and Design
Braun Markus, Gruber Christian C, Krassnigg Andreas, et al.
ACS Catalysis (2023) Vol. 13, Iss. 21, pp. 14454-14469
Open Access | Times Cited: 29
Computational Scoring and Experimental Evaluation of Enzymes Generated by Neural Networks
Sean R. Johnson, Xiaozhi Fu, Sandra Viknander, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 22
Network of epistatic interactions in an enzyme active site revealed by large-scale deep mutational scanning
Allison Judge, Banumathi Sankaran, Liya Hu, et al.
Proceedings of the National Academy of Sciences (2024) Vol. 121, Iss. 12
Open Access | Times Cited: 8
Bilingual language model for protein sequence and structure
Michael Heinzinger, Konstantin Weißenow, Joaquin Gomez Sanchez, et al.
NAR Genomics and Bioinformatics (2024) Vol. 6, Iss. 4
Open Access | Times Cited: 8
Protein Design Using Structure-Prediction Networks: AlphaFold and RoseTTAFold as Protein Structure Foundation Models
Jue Wang, Joseph L. Watson, Sidney L. Lisanza
Cold Spring Harbor Perspectives in Biology (2024) Vol. 16, Iss. 7, pp. a041472-a041472
Closed Access | Times Cited: 7
Conditional language models enable the efficient design of proficient enzymes
Geraldene Munsamy, R. Illanes, Silvia Fruncillo, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 7
What does it take for an ‘AlphaFold Moment’ in functional protein engineering and design?
Roberto A. Chica, Noelia Ferruz
Nature Biotechnology (2024) Vol. 42, Iss. 2, pp. 173-174
Closed Access | Times Cited: 6
Machine learning-aided design and screening of an emergent protein function in synthetic cells
Shunshi Kohyama, Béla P. Frohn, Leon Babl, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 6
Advances in microbial exoenzymes bioengineering for improvement of bioplastics degradation
Farzad Rahmati, Debadatta Sethi, Weixi Shu, et al.
Chemosphere (2024) Vol. 355, pp. 141749-141749
Open Access | Times Cited: 6
Rationally seeded computational protein design of ɑ-helical barrels
Katherine I. Albanese, Rokas Petrenas, Fabio Pirro, et al.
Nature Chemical Biology (2024) Vol. 20, Iss. 8, pp. 991-999
Open Access | Times Cited: 6
A De Novo Design Strategy to Convert FAcD from Dimer to Active Monomer
Ke-Wei Chen, Cuizhen Wang, Hsu-Nan Huang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2025)
Open Access
GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics
Maxim Zvyagin, Alexander Brace, Kyle Hippe, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 26
Machine learning methods for predicting protein structure from single sequences
Shaun M. Kandathil, Andy M. Lau, David T. Jones
Current Opinion in Structural Biology (2023) Vol. 81, pp. 102627-102627
Open Access | Times Cited: 15
Accelerating the Discovery and Design of Antimicrobial Peptides with Artificial Intelligence
Mariana del Carmen Aguilera‐Puga, Natalia L. Cancelarich, Mariela M. Marani, et al.
Methods in molecular biology (2023), pp. 329-352
Closed Access | Times Cited: 14
Multi-indicator comparative evaluation for deep learning-based protein sequence design methods
Jinyu Yu, Junxi Mu, Ting Wei, et al.
Bioinformatics (2024) Vol. 40, Iss. 2
Open Access | Times Cited: 5
Accurate prediction of protein function using statistics-informed graph networks
Yaan J. Jang, Qi-Qi Qin, Siyu Huang, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 5
Large language models in bioinformatics: applications and perspectives
Jiajia Liu, Mengyuan Yang, Yankai Yu, et al.
arXiv (Cornell University) (2024)
Open Access | Times Cited: 4
Domain loss enabled evolution of novel functions in the snake three-finger toxin gene superfamily
Ivan Koludarov, Tobias Senoner, Timothy N. W. Jackson, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 12
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