ReviewNature reviews. Genetics2013
Emerging methods in protein co-evolution.
Review in Nature reviews. Genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 325 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.
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Who cites it
325 citing papers in PubMed.
- Selection for Folding Stability Predicts Observed Covariation Between Protein Positions in the PDB.Journal of molecular evolution · 2026Article
- Systematic analysis of CDR contacts and pairing constraints between T cell receptor αβ chains.Bioinformatics (Oxford, England) · 2026Article
- Coordinated Evolutionary Rates in Oxidative Phosphorylation Complexes of Papilionoid Legumes: Cytonuclear Coevolution and Relaxed Selection.bioRxiv : the preprint server for biology · 2026Article
- Temporal neuronal differentiation programs safeguard neuronal diversity.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Automatically Defining Protein Words for Diverse Functional Predictions Based on Attention Analysis of a Protein Language Model.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Structural ontogeny of protein-protein interactions.Science (New York, N.Y.) · 2026Article
- Protein Language Models: Applications and Perspectives.Journal of proteome research · 2026Review
- Correlated Evolutionary Rates Reveal Novel Components and Cross-Compartment Connectivity in Plant Proteostasis Systems.Genome biology and evolution · 2026Article
- Exploring cooperation among social pathogens: a computational perspective.FEMS microbiology reviews · 2026Review
- Forecasting drug resistant HIV protease evolution.PLoS computational biology · 2026Article
- Detection of Specificity-Determining Positions in Protein Families.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Phylogenetic corrections and higher-order sequence statistics in protein families: Potts vs multiple sequence alignment transformer machine learning models.Physical review research · 2025Article
- Protein design drives synthetic biology research of plant natural products.Biodesign research · 2025Review
- Predicting side chain conformations in folded proteins by AlphaFold: Perspective and challenges.Biophysical journal · 2025Article
- InteracTor: Feature engineering and explainable AI for profiling protein structure-interaction-function relationships.PLoS computational biology · 2025Article
- Effect of Mutations on the Evolution of Extended Spectrum β-lactamases (ESBL).The protein journal · 2025Review
- Coevolutionary Patterns in SOS1 and NHX1: Insights into Plant Ion Homeostasis Proteins.International journal of molecular sciences · 2025Article
- Combing Directed Enzyme Evolution with Metabolic Engineering to Develop Efficient Microbial Cell Factories.Chem & bio engineering · 2025Review
- Integrating experimental feedback improves generative models for biological sequences.Nucleic acids research · 2025Article
- Evolution of multivalent supramolecular assemblies of aptamers with target-defined spatial organization.Nature nanotechnology · 2025Article
265 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Co-evolution is a fundamental component of the theory of evolution and is essential for understanding the relationships between species in complex ecological networks. A wide range of co-evolution-inspired computational methods has been designed to predict molecular interactions, but it is only recently that important advances have been made. Breakthroughs in the handling of phylogenetic information and in disentangling indirect relationships have resulted in an improved capacity to predict interactions between proteins and contacts between different protein residues. Here, we review the main co-evolution-based computational approaches, their theoretical basis, potential applications and foreseeable developments.
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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.