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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:

Learning the protein language: Evolution, structure, and function
Tristan Bepler, Bonnie Berger
Cell Systems (2021) Vol. 12, Iss. 6, pp. 654-669.e3
Open Access | Times Cited: 330

Showing 1-25 of 330 citing articles:

Evolutionary-scale prediction of atomic-level protein structure with a language model
Zeming Lin, Halil Akin, Roshan Rao, et al.
Science (2023) Vol. 379, Iss. 6637, pp. 1123-1130
Open Access | Times Cited: 1867
On the Opportunities and Risks of Foundation Models
Rishi Bommasani, Drew A. Hudson, Ehsan Adeli, et al.
arXiv (Cornell University) (2021)
Open Access | Times Cited: 1477
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
High-resolutionde novostructure prediction from primary sequence
Ruidong Wu, Fan Ding, Rui Wang, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 258
Evolutionary-scale prediction of atomic level protein structure with a language model
Zeming Lin, Halil Akin, Roshan Rao, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 251
Efficient evolution of human antibodies from general protein language models
Brian Hie, Varun R. Shanker, Duo Xu, et al.
Nature Biotechnology (2023) Vol. 42, Iss. 2, pp. 275-283
Open Access | Times Cited: 203
Rhea, the reaction knowledgebase in 2022
Parit Bansal, Anne Morgat, Kristian B. Axelsen, et al.
Nucleic Acids Research (2021) Vol. 50, Iss. D1, pp. D693-D700
Open Access | Times Cited: 141
Before and after AlphaFold2: An overview of protein structure prediction
Letícia M. F. Bertoline, Angélica N. Lima, José Eduardo Krieger, et al.
Frontiers in Bioinformatics (2023) Vol. 3
Open Access | Times Cited: 130
D-SCRIPT translates genome to phenome with sequence-based, structure-aware, genome-scale predictions of protein-protein interactions
Samuel Sledzieski, Rohit Singh, Lenore Cowen, et al.
Cell Systems (2021) Vol. 12, Iss. 10, pp. 969-982.e6
Open Access | Times Cited: 119
Embeddings from protein language models predict conservation and variant effects
Céline Marquet, Michael Heinzinger, Tobias Olenyi, et al.
Human Genetics (2021) Vol. 141, Iss. 10, pp. 1629-1647
Open Access | Times Cited: 99
Protein language-model embeddings for fast, accurate, and alignment-free protein structure prediction
Konstantin Weißenow, Michael Heinzinger, Burkhard Rost
Structure (2022) Vol. 30, Iss. 8, pp. 1169-1177.e4
Open Access | Times Cited: 97
Evolutionary velocity with protein language models predicts evolutionary dynamics of diverse proteins
Brian Hie, Kevin Yang, Peter S. Kim
Cell Systems (2022) Vol. 13, Iss. 4, pp. 274-285.e6
Open Access | Times Cited: 84
Transformer-based deep learning for predicting protein properties in the life sciences
Abel Chandra, Laura Tünnermann, Tommy Löfstedt, et al.
eLife (2023) Vol. 12
Open Access | Times Cited: 81
Machine learning modeling of family wide enzyme-substrate specificity screens
Samuel Goldman, Ria Das, Kevin Yang, et al.
PLoS Computational Biology (2022) Vol. 18, Iss. 2, pp. e1009853-e1009853
Open Access | Times Cited: 73
Machine learning to navigate fitness landscapes for protein engineering
Chase R. Freschlin, Sarah A. Fahlberg, Philip A. Romero
Current Opinion in Biotechnology (2022) Vol. 75, pp. 102713-102713
Open Access | Times Cited: 73
Contrastive learning in protein language space predicts interactions between drugs and protein targets
Rohit Singh, Samuel Sledzieski, Bryan D. Bryson, et al.
Proceedings of the National Academy of Sciences (2023) Vol. 120, Iss. 24
Open Access | Times Cited: 71
Contrastive learning on protein embeddings enlightens midnight zone
Michael Heinzinger, Maria Littmann, Ian Sillitoe, et al.
NAR Genomics and Bioinformatics (2022) Vol. 4, Iss. 2
Open Access | Times Cited: 69
BioSeq-Diabolo: Biological sequence similarity analysis using Diabolo
Hongliang Li, Bin Liu
PLoS Computational Biology (2023) Vol. 19, Iss. 6, pp. e1011214-e1011214
Open Access | Times Cited: 53
NetGO 3.0: Protein Language Model Improves Large-Scale Functional Annotations
Shaojun Wang, Ronghui You, Yunjia Liu, et al.
Genomics Proteomics & Bioinformatics (2023) Vol. 21, Iss. 2, pp. 349-358
Open Access | Times Cited: 43
Gut microbiome and metabolome profiling in Framingham heart study reveals cholesterol-metabolizing bacteria
Chenhao Li, Martin Stražar, Ahmed Mohamed, et al.
Cell (2024) Vol. 187, Iss. 8, pp. 1834-1852.e19
Closed Access | Times Cited: 42
AttentionMGT-DTA: A multi-modal drug-target affinity prediction using graph transformer and attention mechanism
Hongjie Wu, Junkai Liu, Tengsheng Jiang, et al.
Neural Networks (2023) Vol. 169, pp. 623-636
Open Access | Times Cited: 40
A new age in protein design empowered by deep learning
Hamed Khakzad, Ilia Igashov, Arne Schneuing, et al.
Cell Systems (2023) Vol. 14, Iss. 11, pp. 925-939
Open Access | Times Cited: 40
Machine learning optimization of candidate antibody yields highly diverse sub-nanomolar affinity antibody libraries
Lin Li, Esther Gupta, John Spaeth, et al.
Nature Communications (2023) Vol. 14, Iss. 1
Open Access | Times Cited: 37
State-specific protein–ligand complex structure prediction with a multiscale deep generative model
Zhuoran Qiao, Weili Nie, Arash Vahdat, et al.
Nature Machine Intelligence (2024) Vol. 6, Iss. 2, pp. 195-208
Closed Access | Times Cited: 37
Large language models improve annotation of prokaryotic viral proteins
Zachary Flamholz, Steven J. Biller, Libusha Kelly
Nature Microbiology (2024) Vol. 9, Iss. 2, pp. 537-549
Open Access | Times Cited: 28
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