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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:

LM-GVP: an extensible sequence and structure informed deep learning framework for protein property prediction
Zichen Wang, Steven A. Combs, Ryan Brand, et al.
Scientific Reports (2022) Vol. 12, Iss. 1
Open Access | Times Cited: 47

Showing 1-25 of 47 citing articles:

Convolutions are competitive with transformers for protein sequence pretraining
Kevin Yang, Nicolò Fusi, Alex X. Lu
Cell Systems (2024)
Open Access | Times Cited: 42
Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models
Francesca-Zhoufan Li, Ava P. Amini, Yisong Yue, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 21
GENA-LM: a family of open-source foundational DNA language models for long sequences
Veniamin Fishman, Yuri Kuratov, Aleksei Shmelev, et al.
Nucleic Acids Research (2025) Vol. 53, Iss. 2
Open Access | Times Cited: 3
Convolutions are competitive with transformers for protein sequence pretraining
Kevin Yang, Nicolò Fusi, Alex X. Lu
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 54
GENA-LM: A Family of Open-Source Foundational DNA Language Models for Long Sequences
Veniamin Fishman, Yuri Kuratov, Aleksei Shmelev, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2023)
Open Access | Times Cited: 28
SESNet: sequence-structure feature-integrated deep learning method for data-efficient protein engineering
Mingchen Li, Liqi Kang, Yi Xiong, et al.
Journal of Cheminformatics (2023) Vol. 15, Iss. 1
Open Access | Times Cited: 25
Language models for biological research: a primer
Elana P. Simon, Kyle Swanson, James Zou
Nature Methods (2024) Vol. 21, Iss. 8, pp. 1422-1429
Closed Access | Times Cited: 13
Zero-shot prediction of mutation effects with multimodal deep representation learning guides protein engineering
Peng Cheng, Cong Mao, Jin Tang, et al.
Cell Research (2024) Vol. 34, Iss. 9, pp. 630-647
Open Access | Times Cited: 11
Databases of ligand-binding pockets and protein-ligand interactions
Kristy A. Carpenter, Russ B. Altman
Computational and Structural Biotechnology Journal (2024) Vol. 23, pp. 1320-1338
Open Access | Times Cited: 8
Masked Inverse Folding with Sequence Transfer for Protein Representation Learning
Kevin Yang, Hugh Yeh, Niccolò Zanichelli
bioRxiv (Cold Spring Harbor Laboratory) (2022)
Open Access | Times Cited: 28
DeepEnzyme: a robust deep learning model for improved enzyme turnover number prediction by utilizing features of protein 3D-structures
Tong Wang, Guangming Xiang, Siwei He, et al.
Briefings in Bioinformatics (2024) Vol. 25, Iss. 5
Open Access | Times Cited: 7
DeCOIL: Optimization of Degenerate Codon Libraries for Machine Learning-Assisted Protein Engineering
Jason Yang, Julie Ducharme, Kadina E. Johnston, et al.
ACS Synthetic Biology (2023) Vol. 12, Iss. 8, pp. 2444-2454
Open Access | Times Cited: 14
Navigating the Expansive Landscapes of Soft Materials: A User Guide for High-Throughput Workflows
Erin C. Day, Supraja S. Chittari, Matthew P. Bogen, et al.
ACS Polymers Au (2023) Vol. 3, Iss. 6, pp. 406-427
Open Access | Times Cited: 14
MIND-S is a deep-learning prediction model for elucidating protein post-translational modifications in human diseases
Yu Yan, Jyun‐Yu Jiang, Mingzhou Fu, et al.
Cell Reports Methods (2023) Vol. 3, Iss. 3, pp. 100430-100430
Open Access | Times Cited: 13
ProSST: Protein Language Modeling with Quantized Structure and Disentangled Attention
Mingchen Li, Pan Tan, Xinzhu Ma, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 5
PETA: evaluating the impact of protein transfer learning with sub-word tokenization on downstream applications
Yang Tan, Mingchen Li, Ziyi Zhou, et al.
Journal of Cheminformatics (2024) Vol. 16, Iss. 1
Open Access | Times Cited: 5
TopEC: prediction of Enzyme Commission classes by 3D graph neural networks and localized 3D protein descriptor
Karel van der Weg, Erinç Merdivan, Marie Piraud, et al.
Nature Communications (2025) Vol. 16, Iss. 1
Open Access
Foundation models of protein sequences: A brief overview
Andreas Bjerregaard, Peter Mørch Groth, Søren Hauberg, et al.
Current Opinion in Structural Biology (2025) Vol. 91, pp. 103004-103004
Open Access
SST-ResNet: A Sequence and Structure Information Integration Model for Protein Property Prediction
Guowei Zhou, Yanpeng Zhao, Song He, et al.
International Journal of Molecular Sciences (2025) Vol. 26, Iss. 6, pp. 2783-2783
Open Access
Aligning sequence and structure representations leveraging protein domains for function prediction
Mingqing Wang, Zhiwei Nie, Yonghong He, et al.
Expert Systems with Applications (2025), pp. 127246-127246
Closed Access
Empowering Protein Engineering through Recombination of Beneficial Substitutions
Xinyue Wang, Anni Li, Xiujuan Li, et al.
Chemistry - A European Journal (2024) Vol. 30, Iss. 16
Closed Access | Times Cited: 3
MolPROP: Molecular Property prediction with multimodal language and graph fusion
Zachary A. Rollins, Alan C. Cheng, Essam Metwally
Journal of Cheminformatics (2024) Vol. 16, Iss. 1
Open Access | Times Cited: 3
SSEmb: A joint embedding of protein sequence and structure enables robust variant effect predictions
Lasse M. Blaabjerg, Nicolas Jonsson, Wouter Boomsma, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Closed Access | Times Cited: 3
EGGNet, a Generalizable Geometric Deep Learning Framework for Protein Complex Pose Scoring
Zichen Wang, Ryan Brand, Jared Adolf‐Bryfogle, et al.
ACS Omega (2024)
Open Access | Times Cited: 2
Prot2Token: A multi-task framework for protein language processing using autoregressive language modeling
Mahdi Pourmirzaei, Farzaneh Esmaili, Mohammadreza Pourmirzaei, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 2
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