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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:

The language of proteins: NLP, machine learning & protein sequences
Dan Ofer, Nadav Brandes, Michal Linial
Computational and Structural Biotechnology Journal (2021) Vol. 19, pp. 1750-1758
Open Access | Times Cited: 262

Showing 1-25 of 262 citing articles:

ProteinBERT: a universal deep-learning model of protein sequence and function
Nadav Brandes, Dan Ofer, Yam Peleg, et al.
Bioinformatics (2022) Vol. 38, Iss. 8, pp. 2102-2110
Open Access | Times Cited: 445
Genome-wide prediction of disease variant effects with a deep protein language model
Nadav Brandes, Grant Goldman, Charlotte H. Wang, et al.
Nature Genetics (2023) Vol. 55, Iss. 9, pp. 1512-1522
Open Access | Times Cited: 181
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
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
Applications of transformer-based language models in bioinformatics: a survey
Shuang Zhang, Rui Fan, Yuti Liu, et al.
Bioinformatics Advances (2023) Vol. 3, Iss. 1
Open Access | Times Cited: 81
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
Progress and challenges for the machine learning-based design of fit-for-purpose monoclonal antibodies
Rahmad Akbar, Habib Bashour, Puneet Rawat, et al.
mAbs (2022) Vol. 14, Iss. 1
Open Access | Times Cited: 76
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
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
Ankh ☥: Optimized Protein Language Model Unlocks General-Purpose Modelling
Ahmed Elnaggar, Hazem Essam, Wafaa Salah-Eldin, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 68
NLP techniques for automating responses to customer queries: a systematic review
Peter Adebowale Olujimi, Abejide Ade-Ibijola
Discover Artificial Intelligence (2023) Vol. 3, Iss. 1
Open Access | Times Cited: 49
A novel antibacterial peptide recognition algorithm based on BERT
Yue Zhang, Jianyuan Lin, L.M. Zhao, et al.
Briefings in Bioinformatics (2021) Vol. 22, Iss. 6
Closed Access | Times Cited: 70
Recent Progress in the Discovery and Design of Antimicrobial Peptides Using Traditional Machine Learning and Deep Learning
Jielu Yan, Jianxiu Cai, Bob Zhang, et al.
Antibiotics (2022) Vol. 11, Iss. 10, pp. 1451-1451
Open Access | Times Cited: 59
Transformer models used for text-based question answering systems
Khalid Nassiri, Moulay A. Akhloufi
Applied Intelligence (2022) Vol. 53, Iss. 9, pp. 10602-10635
Closed Access | Times Cited: 58
TMbed: transmembrane proteins predicted through language model embeddings
Michael Bernhofer, Burkhard Rost
BMC Bioinformatics (2022) Vol. 23, Iss. 1
Open Access | Times Cited: 48
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
Multiple sequence alignment-based RNA language model and its application to structural inference
Yikun Zhang, Mei Lang, Jiuhong Jiang, et al.
Nucleic Acids Research (2023) Vol. 52, Iss. 1, pp. e3-e3
Open Access | Times Cited: 32
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
Generative models for protein sequence modeling: recent advances and future directions
Mehrsa Mardikoraem, Zirui Wang, Nathaniel Pascual, et al.
Briefings in Bioinformatics (2023) Vol. 24, Iss. 6
Open Access | Times Cited: 19
Guiding questions to avoid data leakage in biological machine learning applications
Judith Bernett, David B. Blumenthal, Dominik G. Grimm, et al.
Nature Methods (2024) Vol. 21, Iss. 8, pp. 1444-1453
Closed Access | Times Cited: 10
Prediction of Klebsiella phage-host specificity at the strain level
Dimitri Boeckaerts, Michiel Stock, Celia Ferriol-González, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 9
Machine learning in RNA structure prediction: Advances and challenges
Sicheng Zhang, Jun Li, Shi‐Jie Chen
Biophysical Journal (2024) Vol. 123, Iss. 17, pp. 2647-2657
Closed Access | Times Cited: 7
Biophysical cartography of the native and human-engineered antibody landscapes quantifies the plasticity of antibody developability
Habib Bashour, Eva Smorodina, Matteo Pariset, et al.
Communications Biology (2024) Vol. 7, Iss. 1
Open Access | Times Cited: 6
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