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Pervasive correlated evolution in gene expression shapes cell type transcriptomes
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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Shh‐Bmp2 signaling module and the evolutionary origin and diversification of feathers
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Theory of the growth and evolution of feather shape
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Wiring for independence: Positive feedback motifs facilitate individuation of traits in development and evolution
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Character trees from transcriptome data: Origin and individuation of morphological characters and the so‐called “species signal”
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The Cell Biology of Sponges
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The Comparative Embryology of Sponges
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Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples
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Evolution of genetic redundancy for advanced players
inferredcites →https://doi.org/10.1016/j.celrep.2015.01.062openalex-snapshot
Cell-type Phylogenetics and the Origin of Endometrial Stromal Cells
inferredcites →https://doi.org/10.1016/j.neuron.2015.07.031openalex-snapshot
Regulatory Logic of Pan-Neuronal Gene Expression in C. elegans
inferredcites →https://doi.org/10.1016/j.tig.2006.06.002openalex-snapshot
Natural selection on gene expression
inferredcites →https://doi.org/10.1016/j.tig.2013.05.010openalex-snapshot
Human housekeeping genes, revisited
inferredcites →https://doi.org/10.1016/j.ydbio.2006.09.014openalex-snapshot
Detection of broadly expressed neuronal genes in C. elegans
inferredcites →https://doi.org/10.1016/j.ympev.2017.03.027openalex-snapshot
Brownian model of transcriptome evolution and phylogenetic network visualization between tissues
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Morphological complexity increase in metazoans
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Human cell type diversity, evolution, development, and classification with special reference to cells derived from the neural crest
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Systematic analysis of genes required for synapse structure and function
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Pleiotropic scaling of gene effects and the ‘cost of complexity’
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Transcriptomic analysis of avian digits reveals conserved and derived digit identities in birds
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The evolution of gene expression levels in mammalian organs
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Independent evolution of striated muscles in cnidarians and bilaterians
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A relative shift in cloacal location repositions external genitalia in amniote evolution
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A comparative encyclopedia of DNA elements in the mouse genome
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A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium
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High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin
inferredcites →https://doi.org/10.1038/nrg.2016.127openalex-snapshot
The origin and evolution of cell types
inferredcites →https://doi.org/10.1038/nrg2416openalex-snapshot
The evolution of cell types in animals: emerging principles from molecular studies
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The pleiotropic structure of the genotype–phenotype map: the evolvability of complex organisms
inferredcites →https://doi.org/10.1038/sj.hdy.6801000openalex-snapshot
Evaluating the role of natural selection in the evolution of gene regulation
inferredcites →https://doi.org/10.1073/pnas.0812009106openalex-snapshot
Optimization of gene expression by natural selection
inferredcites →https://doi.org/10.1073/pnas.1413624111openalex-snapshot
Comparison of the transcriptional landscapes between human and mouse tissues
inferredcites →https://doi.org/10.1073/pnas.1416574111openalex-snapshot
Predictable transcriptome evolution in the convergent and complex bioluminescent organs of squid
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Phylogenies and the Comparative Method
inferredcites →https://doi.org/10.1086/302221openalex-snapshot
Concerted Evolution: Molecular Mechanism and Biological Implications
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The Evolutionary Origin And Diversification Of Feathers
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Concerted Evolution of Repetitive DNA Sequences in Eukaryotes
inferredcites →https://doi.org/10.1086/503444openalex-snapshot
Bayesian Analysis of Correlated Evolution of Discrete Characters by Reversible‐Jump Markov Chain Monte Carlo
inferredcites →https://doi.org/10.1089/153623104773547462openalex-snapshot
Incongruent Expression Profiles between Human and Mouse Orthologous Genes Suggest Widespread Neutral Evolution of Transcription Control
inferredcites →https://doi.org/10.1093/bib/bbv041openalex-snapshot
Understanding tissue expression evolution: from expression phylogeny to phylogenetic network
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TimeTree: a public knowledge-base of divergence times among organisms
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The Transcriptomic Evolution of Mammalian Pregnancy: Gene Expression Innovations in Endometrial Stromal Fibroblasts
inferredcites →https://doi.org/10.1093/gbe/evx035openalex-snapshot
Evolutionary Dynamics of Regulatory Changes Underlying Gene Expression Divergence among Saccharomyces Species
inferredcites →https://doi.org/10.1093/molbev/msh257openalex-snapshot
Comparative Methods for the Analysis of Gene-Expression Evolution: An Example Using Yeast Functional Genomic Data
inferredcites →https://doi.org/10.1093/molbev/msv053openalex-snapshot
Neighboring Genes Show Correlated Evolution in Gene Expression
inferredcites →https://doi.org/10.1093/molbev/msx171openalex-snapshot
Intra and Interspecific Variations of Gene Expression Levels in Yeast Are Largely Neutral: (Nei Lecture, SMBE 2016, Gold Coast)
inferredcites →https://doi.org/10.1093/sysbio/45.1.27openalex-snapshot
Testing Hypotheses of Correlated Evolution Using Phylogenetically Independent Contrasts: Sensitivity to Deviations from Brownian Motion
inferredcites →https://doi.org/10.1098/rspb.1994.0006openalex-snapshot
Detecting correlated evolution on phylogenies: a general method for the comparative analysis of discrete characters
inferredcites →https://doi.org/10.1101/gr.079558.108openalex-snapshot
RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays
inferredcites →https://doi.org/10.1101/gr.207597.116openalex-snapshot
Single-cell transcriptomics of the human placenta: inferring the cell communication network of the maternal-fetal interface
inferredcites →https://doi.org/10.1104/pp.109.148668openalex-snapshot
Systems Biology Update: Cell Type-Specific Transcriptional Regulatory Networks
inferredcites →https://doi.org/10.1111/ede.12123openalex-snapshot
Nuclear β‐catenin localization supports homology of feathers, avian scutate scales, and alligator scales in early development
inferredcites →https://doi.org/10.1111/j.1558-5646.1991.tb04328.xopenalex-snapshot
PHYLOGENETIC ANALYSES OF THE CORRELATED EVOLUTION OF CONTINUOUS CHARACTERS: A SIMULATION STUDY
inferredcites →https://doi.org/10.1126/sciadv.1600708openalex-snapshot
The anatomical placode in reptile scale morphogenesis indicates shared ancestry among skin appendages in amniotes
inferredcites →https://doi.org/10.1126/science.1108296openalex-snapshot
Parallel Patterns of Evolution in the Genomes and Transcriptomes of Humans and Chimpanzees
inferredcites →https://doi.org/10.1126/science.1228186openalex-snapshot
Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues
inferredcites →https://doi.org/10.1146/annurev.es.19.110188.002305openalex-snapshot
PHYLOGENIES AND QUANTITATIVE CHARACTERS
inferredcites →https://doi.org/10.1186/s13059-015-0853-4openalex-snapshot
Meta-analysis of RNA-seq expression data across species, tissues and studies
inferredcites →https://doi.org/10.12688/f1000research.6536.1openalex-snapshot
A reanalysis of mouse ENCODE comparative gene expression data
inferredcites →https://doi.org/10.1371/journal.pbio.0020132openalex-snapshot
A Neutral Model of Transcriptome Evolution
inferredcites →https://doi.org/10.1534/genetics.110.122549openalex-snapshot
One Hundred Years of Pleiotropy: A Retrospective
inferredcites →https://doi.org/10.2139/ssrn.1404905openalex-snapshot
Review of Statistical Arbitrage, Cointegration, and Multivariate Ornstein-Uhlenbeck
inferredcites →https://doi.org/10.23943/princeton/9780691156460.001.0001openalex-snapshot
Homology, Genes, and Evolutionary Innovation
inferredcites →https://doi.org/10.7554/elife.19607openalex-snapshot
The evolutionary origin of bilaterian smooth and striated myocytes
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1093/gbe/evw229openalex-snapshot
Reptile Pregnancy Is Underpinned by Complex Changes in Uterine Gene Expression: A Comparative Analysis of the Uterine Transcriptome in Viviparous and Oviparous Lizards
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