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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:

ProtGPT2 is a deep unsupervised language model for protein design
Noelia Ferruz, Steffen Schmidt, Birte Höcker
Nature Communications (2022) Vol. 13, Iss. 1
Open Access | Times Cited: 369

Showing 26-50 of 369 citing articles:

IgLM: Infilling language modeling for antibody sequence design
Richard W. Shuai, Jeffrey A. Ruffolo, Jeffrey J. Gray
Cell Systems (2023) Vol. 14, Iss. 11, pp. 979-989.e4
Open Access | Times Cited: 49
Protein structure generation via folding diffusion
Kevin Wu, Kevin Yang, Rianne van den Berg, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 48
Ten quick tips for harnessing the power of ChatGPT in computational biology
Tiago Lubiana, Rafael Lopes Paixão da Silva, Pedro Medeiros, et al.
PLoS Computational Biology (2023) Vol. 19, Iss. 8, pp. e1011319-e1011319
Open Access | Times Cited: 45
Peer review of GPT-4 technical report and systems card
Jack Gallifant, Amelia Fiske, Yulia A. Strekalova, et al.
PLOS Digital Health (2024) Vol. 3, Iss. 1, pp. e0000417-e0000417
Open Access | Times Cited: 29
Sparks of function by de novo protein design
Alexander E. Chu, Tianyu Lu, Po‐Ssu Huang
Nature Biotechnology (2024) Vol. 42, Iss. 2, pp. 203-215
Closed Access | Times Cited: 27
Protein design using structure-based residue preferences
David Ding, Ada Y. Shaw, Sam Sinai, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 22
Applications of machine learning in antibody discovery, process development, manufacturing and formulation: Current trends, challenges, and opportunities
Thanh Tung Khuat, Robert Bassett, Ellen Otte, et al.
Computers & Chemical Engineering (2024) Vol. 182, pp. 108585-108585
Open Access | Times Cited: 19
Protein language models are biased by unequal sequence sampling across the tree of life
Frances Ding, Jacob Steinhardt
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 19
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
EquiPNAS: improved protein–nucleic acid binding site prediction using protein-language-model-informed equivariant deep graph neural networks
Rahmatullah Roche, Bernard Moussad, Md Hossain Shuvo, et al.
Nucleic Acids Research (2024) Vol. 52, Iss. 5, pp. e27-e27
Open Access | Times Cited: 18
Programmable synthetic receptors: the next-generation of cell and gene therapies
Fei Teng, Tongtong Cui, Li Zhou, et al.
Signal Transduction and Targeted Therapy (2024) Vol. 9, Iss. 1
Open Access | Times Cited: 16
PTM-Mamba: A PTM-Aware Protein Language Model with Bidirectional Gated Mamba Blocks
Zhangzhi Peng, Benjamin Schussheim, Pranam Chatterjee
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 14
Addressing the antibody germline bias and its effect on language models for improved antibody design
Tobias Hegelund Olsen, Iain H. Moal, Charlotte M. Deane
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 13
ULDNA: integrating unsupervised multi-source language models with LSTM-attention network for high-accuracy protein–DNA binding site prediction
Yiheng Zhu, Zi Liu, Yan Liu, et al.
Briefings in Bioinformatics (2024) Vol. 25, Iss. 2
Open Access | Times Cited: 12
Large language models in plant biology
Hilbert Yuen In Lam, Xing Er Ong, Marek Mutwil
Trends in Plant Science (2024) Vol. 29, Iss. 10, pp. 1145-1155
Open Access | Times Cited: 12
Simulating 500 million years of evolution with a language model
Thomas Hayes, Roshan Rao, Halil Akin, et al.
Science (2025)
Open Access | Times Cited: 5
Foundation models in bioinformatics
Fei Guo, Renchu Guan, Yaohang Li, et al.
National Science Review (2025)
Open Access | Times Cited: 1
Novel machine learning approaches revolutionize protein knowledge
Nicola Bordin, Christian Dallago, Michael Heinzinger, et al.
Trends in Biochemical Sciences (2022) Vol. 48, Iss. 4, pp. 345-359
Open Access | Times Cited: 45
Structure-informed Language Models Are Protein Designers
Zaixiang Zheng, Yifan Deng, Dongyu Xue, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 33
Generative power of a protein language model trained on multiple sequence alignments
Damiano Sgarbossa, Umberto Lupo, Anne‐Florence Bitbol
eLife (2023) Vol. 12
Open Access | Times Cited: 30
Linguistically inspired roadmap for building biologically reliable protein language models
Mai Ha Vu, Rahmad Akbar, Philippe A. Robert, et al.
Nature Machine Intelligence (2023) Vol. 5, Iss. 5, pp. 485-496
Closed Access | Times Cited: 30
Leveraging transformers‐based language models in proteome bioinformatics
Nguyen Quoc Khanh Le
PROTEOMICS (2023) Vol. 23, Iss. 23-24
Closed Access | Times Cited: 29
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
AlphaFold2 and Deep Learning for Elucidating Enzyme Conformational Flexibility and Its Application for Design
Guillem Casadevall, Cristina Duran, Sílvia Osuna
JACS Au (2023) Vol. 3, Iss. 6, pp. 1554-1562
Open Access | Times Cited: 28
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

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