ArticleGenome research2019
A quantitative framework for characterizing the evolutionary history of mammalian gene expression.
Article in Genome research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 75 papers.
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Who cites it
75 citing papers in PubMed.
- Accelerated Evolution of Context-Dependent Gene Expression in Primate Immune Cells.bioRxiv : the preprint server for biology · 2026Article
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- Multispecies Transcriptomics of Mammalian Skin Reveals Conserved and Divergent Regulatory Features.International journal of molecular sciences · 2026Article
- Network Properties Influence Covariance Between Gene Expression and Fecundity Fitness of Caenorhabditis elegans in a Novel Laboratory Environment.Genome biology and evolution · 2026Article
- Lineage-aware stochastic modeling reveals gene-expression dynamics in development and disease.bioRxiv : the preprint server for biology · 2026Article
- Article
- Ancestral splice variation is a key substrate for rapid diversification in African cichlids.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Why recombination hotspots?PLoS genetics · 2026Review
- Discriminating models of trait evolution.Evolution; international journal of organic evolution · 2026Article
- The molecular evolution of vertebrate organs.Nature ecology & evolution · 2026Review
- Biophysical constraints on mRNA decay rates shape macroevolutionary divergence in steady-state abundances.bioRxiv : the preprint server for biology · 2025Article
- SCOUT: Ornstein-Uhlenbeck modelling of gene expression evolution on single-cell lineage trees.bioRxiv : the preprint server for biology · 2025Article
- Evolutionary diversification of ancestral genes across vertebrates and insects.Genome biology · 2025Article
- Article
- Article
- The cellular substrate of evolutionary novelty.Current biology : CB · 2025Review
- Seasonal and comparative evidence of adaptive gene expression in mammalian brain size plasticity.eLife · 2025Article
- Macroevolutionary divergence of gene expression driven by selection on protein abundance.Science (New York, N.Y.) · 2025Article
- A Tale of Too Many Trees: A Conundrum for Phylogenetic Regression.Molecular biology and evolution · 2025Article
- Ecological Trait Differences Are Associated with Gene Expression in the Primary Visual Cortex of Primates.Genes · 2025Article
15 more citing papers are in PubMed but not listed here.
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9 authors.
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Abstract
The evolutionary history of a gene helps predict its function and relationship to phenotypic traits. Although sequence conservation is commonly used to decipher gene function and assess medical relevance, methods for functional inference from comparative expression data are lacking. Here, we use RNA-seq across seven tissues from 17 mammalian species to show that expression evolution across mammals is accurately modeled by the Ornstein-Uhlenbeck process, a commonly proposed model of continuous trait evolution. We apply this model to identify expression pathways under neutral, stabilizing, and directional selection. We further demonstrate novel applications of this model to quantify the extent of stabilizing selection on a gene's expression, parameterize the distribution of each gene's optimal expression level, and detect deleterious expression levels in expression data from individual patients. Our work provides a statistical framework for interpreting expression data across species and in disease.
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