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Noncoding regions underpin avian bill shape diversification at macroevolutionary scales

https://doi.org/10.1101/844951
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Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1006/geno.1999.5893openalex-snapshot
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inferredcites →https://doi.org/10.1007/pl00006320openalex-snapshot
Synonymous and nonsynonymous rate variation in nuclear genes of mammals
inferredcites →https://doi.org/10.1016/0040-5809(75)90020-9openalex-snapshot
On the number of segregating sites in genetical models without recombination
inferredcites →https://doi.org/10.1016/j.cell.2007.05.047openalex-snapshot
Endocrine Regulation of Energy Metabolism by the Skeleton
inferredcites →https://doi.org/10.1016/j.cell.2017.05.038openalex-snapshot
An Expanded View of Complex Traits: From Polygenic to Omnigenic
inferredcites →https://doi.org/10.1016/j.cmet.2016.05.004openalex-snapshot
Osteocalcin Signaling in Myofibers Is Necessary and Sufficient for Optimum Adaptation to Exercise
inferredcites →https://doi.org/10.1016/j.tree.2009.03.010openalex-snapshot
Relaxed selection in the wild
inferredcites →https://doi.org/10.1016/j.tree.2013.09.009openalex-snapshot
Population size and the rate of evolution
inferredcites →https://doi.org/10.1016/j.ydbio.2014.04.016openalex-snapshot
A gene expression atlas of early craniofacial development
inferredcites →https://doi.org/10.1016/s0169-5347(97)01273-1openalex-snapshot
Key innovations and the ecology of macroevolution
inferredcites →https://doi.org/10.1038/35051570openalex-snapshot
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inferredcites →https://doi.org/10.1038/nature02700openalex-snapshot
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inferredcites →https://doi.org/10.1038/nature04843openalex-snapshot
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inferredcites →https://doi.org/10.1038/nature10516openalex-snapshot
Multiple routes to mammalian diversity
inferredcites →https://doi.org/10.1038/nature10763openalex-snapshot
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inferredcites →https://doi.org/10.1038/nature12424openalex-snapshot
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inferredcites →https://doi.org/10.1038/nature14181openalex-snapshot
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inferredcites →https://doi.org/10.1038/nature15697openalex-snapshot
A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
inferredcites →https://doi.org/10.1038/nature21074openalex-snapshot
Mega-evolutionary dynamics of the adaptive radiation of birds
inferredcites →https://doi.org/10.1038/ncomms14229openalex-snapshot
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inferredcites →https://doi.org/10.1038/s41467-018-03667-1openalex-snapshot
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inferredcites →https://doi.org/10.1073/pnas.1716437115openalex-snapshot
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Genotype–phenotype associations: substitution models to detect evolutionary associations between phenotypic variables and genotypic evolutionary rate
inferredcites →https://doi.org/10.1093/bioinformatics/btp348openalex-snapshot
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
inferredcites →https://doi.org/10.1093/bioinformatics/btr261openalex-snapshot
DREME: motif discovery in transcription factor ChIP-seq data
inferredcites →https://doi.org/10.1093/emboj/17.19.5718openalex-snapshot
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inferredcites →https://doi.org/10.1093/gbe/evt083openalex-snapshot
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inferredcites →https://doi.org/10.1093/gbe/evx213openalex-snapshot
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inferredcites →https://doi.org/10.1093/genetics/115.4.657openalex-snapshot
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inferredcites →https://doi.org/10.1093/genetics/154.4.1419openalex-snapshot
The Genetical Theory of Natural Selection
inferredcites →https://doi.org/10.1093/hmg/ddp559openalex-snapshot
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inferredcites →https://doi.org/10.1093/icb/icw069openalex-snapshot
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inferredcites →https://doi.org/10.1093/molbev/msm088openalex-snapshot
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inferredcites →https://doi.org/10.1093/molbev/msp098openalex-snapshot
INDELible: A Flexible Simulator of Biological Sequence Evolution
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inferredcites →https://doi.org/10.1093/molbev/msq263openalex-snapshot
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inferredcites →https://doi.org/10.1093/molbev/msu309openalex-snapshot
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inferredcites →https://doi.org/10.1093/nar/gkp931openalex-snapshot
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inferredcites →https://doi.org/10.1093/nar/gku1003openalex-snapshot
STRING v10: protein–protein interaction networks, integrated over the tree of life
inferredcites →https://doi.org/10.1093/nar/gkv1189openalex-snapshot
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
inferredcites →https://doi.org/10.1093/nar/gkx356openalex-snapshot
WebGestalt 2017: a more comprehensive, powerful, flexible and interactive gene set enrichment analysis toolkit
inferredcites →https://doi.org/10.1093/oso/9780198505235.001.0001openalex-snapshot
The Ecology of Adaptive Radiation
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025888openalex-snapshot
Models of amino acid substitution and applications to mitochondrial protein evolution
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025957openalex-snapshot
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inferredcites →https://doi.org/10.1093/sysbio/syx032openalex-snapshot
An Integrated Model of Phenotypic Trait Changes and Site-Specific Sequence Evolution
inferredcites →https://doi.org/10.1093/sysbio/syx064openalex-snapshot
Genomic Signature of an Avian Lilliput Effect across the K-Pg Extinction
inferredcites →https://doi.org/10.1098/rspb.2004.2929openalex-snapshot
Comparing the effects of genetic drift and fluctuating selection on genotype frequency changes in the scarlet tiger moth
inferredcites →https://doi.org/10.1098/rstb.2009.0203openalex-snapshot
Understanding and using quantitative genetic variation
inferredcites →https://doi.org/10.1098/rstb.2010.0104openalex-snapshot
Convergence in pigmentation at multiple levels: mutations, genes and function
inferredcites →https://doi.org/10.1098/rstb.2018.0248openalex-snapshot
Integrating natural history collections and comparative genomics to study the genetic architecture of convergent evolution
inferredcites →https://doi.org/10.1101/gr.1224503openalex-snapshot
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inferredcites →https://doi.org/10.1101/gr.1933104openalex-snapshot
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inferredcites →https://doi.org/10.1101/gr.232645.117openalex-snapshot
Human long intrinsically disordered protein regions are frequent targets of positive selection
inferredcites →https://doi.org/10.1109/tit.1982.1056489openalex-snapshot
Least squares quantization in PCM
inferredcites →https://doi.org/10.1111/j.1095-8312.2006.00638.xopenalex-snapshot
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inferredcites →https://doi.org/10.1111/j.1541-0420.2011.01616.xopenalex-snapshot
ggplot2: Elegant Graphics for Data Analysis by WICKHAM, H.
inferredcites →https://doi.org/10.1111/j.1558-5646.1984.tb05657.xopenalex-snapshot
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inferredcites →https://doi.org/10.1111/j.1558-5646.2011.01486.xopenalex-snapshot
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inferredcites →https://doi.org/10.1111/j.2041-210x.2011.00169.xopenalex-snapshot
phytools: an R package for phylogenetic comparative biology (and other things)
inferredcites →https://doi.org/10.1111/j.2517-6161.1995.tb02031.xopenalex-snapshot
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
inferredcites →https://doi.org/10.1111/mec.13780openalex-snapshot
Body mass‐corrected molecular rate for bird mitochondrial DNA
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Molecular Shaping of the Beak
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Phylogeny-Aware Gap Placement Prevents Errors in Sequence Alignment and Evolutionary Analysis
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Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues
inferredcites →https://doi.org/10.1126/science.1253293openalex-snapshot
An integrative approach to understanding bird origins
inferredcites →https://doi.org/10.1126/science.1256780openalex-snapshot
Core and region-enriched networks of behaviorally regulated genes and the singing genome
inferredcites →https://doi.org/10.1126/science.aal3298openalex-snapshot
Recent natural selection causes adaptive evolution of an avian polygenic trait
inferredcites →https://doi.org/10.1126/science.aao4593openalex-snapshot
Rapid hybrid speciation in Darwin’s finches
inferredcites →https://doi.org/10.1126/science.aat7244openalex-snapshot
Convergent regulatory evolution and loss of flight in paleognathous birds
inferredcites →https://doi.org/10.1146/annurev-ecolsys-120213-091851openalex-snapshot
The Molecular Basis of Phenotypic Convergence
inferredcites →https://doi.org/10.1146/annurev-ecolsys-121415-032254openalex-snapshot
Ecological Opportunity and Adaptive Radiation
inferredcites →https://doi.org/10.1146/annurev-genet-102808-114917openalex-snapshot
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inferredcites →https://doi.org/10.1146/annurev.ecolsys.28.1.129openalex-snapshot
The Evolution of Morphological Diversity
inferredcites →https://doi.org/10.1186/1471-2164-15-1082openalex-snapshot
Comparative genomics reveals molecular features unique to the songbird lineage
inferredcites →https://doi.org/10.1186/gb-2007-8-2-r24openalex-snapshot
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inferredcites →https://doi.org/10.1186/s12864-015-2294-6openalex-snapshot
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inferredcites →https://doi.org/10.1186/s13059-014-0542-8openalex-snapshot
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inferredcites →https://doi.org/10.1186/s13059-018-1613-zopenalex-snapshot
GC-biased gene conversion conceals the prediction of the nearly neutral theory in avian genomes
inferredcites →https://doi.org/10.1242/dev.015933openalex-snapshot
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inferredcites →https://doi.org/10.1371/journal.pgen.1000512openalex-snapshot
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inferredcites →https://doi.org/10.1371/journal.pone.0012465openalex-snapshot
Identification of cis-Regulatory Elements in the Mammalian Genome: The cREMaG Database
inferredcites →https://doi.org/10.1371/journal.pone.0084540openalex-snapshot
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inferredcites →https://doi.org/10.1534/genetics.107.073361openalex-snapshot
Population Genetics of Polymorphism and Divergence Under Fluctuating Selection
inferredcites →https://doi.org/10.1534/genetics.115.177386openalex-snapshot
Evaluation of Ancestral Sequence Reconstruction Methods to Infer Nonstationary Patterns of Nucleotide Substitution
inferredcites →https://doi.org/10.2174/157488806775269061openalex-snapshot
Intracellular Signaling Pathways Regulating Pluripotency of Embryonic Stem Cells
inferredcites →https://doi.org/10.2307/2265625openalex-snapshot
High Survival of Darwin's Finch Hybrids: Effects of Beak Morphology and Diets
inferredcites →https://doi.org/10.3389/fevo.2018.00203openalex-snapshot
Evidence for Strong Fixation Bias at 4-fold Degenerate Sites Across Genes in the Great Tit Genome
inferredcites →https://doi.org/10.4137/ebo.s11600openalex-snapshot
Evolutionary Modeling of Genotype-Phenotype Associations, and Application to primate coding and Non-coding mtDNA Rate Variation
inferredcites →https://doi.org/10.7554/elife.41815openalex-snapshot
Immune genes are hotspots of shared positive selection across birds and mammals

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inferred← citeshttps://doi.org/10.1002/bies.202200132openalex-snapshot
Gene essentiality and variability: What is the link? A within‐ and between‐species perspective
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