ArticleProceedings of the National Academy of Sciences of the United States of America2025
Predicting gene sequences with AI to study codon usage patterns.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
7 citing papers in PubMed.
- Toward Rational Design of Precision-Fermented Milk Proteins: Integrating Cross-Species Selection, Post-Translational Modification, and AI Optimization.Comprehensive reviews in food science and food safety · 2026Review
- Evolution and Functional Implications of Codon Usage Bias in Eukaryotes.Journal of molecular evolution · 2026Review
- A Systematic Review: Deep Learning for Analyzing Genomic Data to Discover Evolutionary Patterns.Scientifica · 2026Review
- Protein language models reveal evolutionary constraints on synonymous codon choice.bioRxiv : the preprint server for biology · 2025Article
- A generative language model decodes contextual constraints on codon choice for mRNA design.bioRxiv : the preprint server for biology · 2025Article
- Interrogating nucleotide sequences with AI to understand codon usage patterns.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Selective pressure acts on the codon use, optimizing multiple, overlapping signals that are only partially understood. We trained AI models to predict codons given their amino acid sequence in the eukaryotes
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.