Günter Wagner - Publications

Affiliations: 
Ecology and Evolutionary Biology Yale University, New Haven, CT 
Area:
evolution of complex characters
Website:
http://www.yale.edu/eeb/wagner/

162 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Stewart TA, Liang C, Cotney JL, Noonan JP, Sanger TJ, Wagner GP. Evidence against tetrapod-wide digit identities and for a limited frame shift in bird wings. Nature Communications. 10: 3244. PMID 31324809 DOI: 10.1038/s41467-019-11215-8  0.72
2019 Griffith OW, Chavan AR, Pavlicev M, Protopapas S, Callahan R, Maziarz J, Wagner GP. Endometrial recognition of pregnancy occurs in the grey short-tailed opossum ( Monodelphis domestica). Proceedings. Biological Sciences. 286: 20190691. PMID 31213185 DOI: 10.1098/rspb.2019.0691  1
2019 Wagner GP, Erkenbrack EM, Love AC. Stress-Induced Evolutionary Innovation: A Mechanism for the Origin of Cell Types. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 41: e1800188. PMID 30919472 DOI: 10.1002/bies.201800188  0.72
2018 Rytkönen KT, Erkenbrack EM, Poutanen M, Elo LL, Pavlicev M, Wagner GP. Decidualization of Human Endometrial Stromal Fibroblasts is a Multiphasic Process Involving Distinct Transcriptional Programs. Reproductive Sciences (Thousand Oaks, Calif.). 1933719118802056. PMID 30309298 DOI: 10.1177/1933719118802056  0.72
2018 Erkenbrack EM, Maziarz JD, Griffith OW, Liang C, Chavan AR, Nnamani MC, Wagner GP. The mammalian decidual cell evolved from a cellular stress response. Plos Biology. 16: e2005594. PMID 30142145 DOI: 10.1371/journal.pbio.2005594  1
2018 Wagner GP, Griffith OW, Bergmann PJ, Bello-Hellegouarch G, Kohlsdorf T, Bhullar A, Siler CD. Are there general laws for digit evolution in squamates? The loss and re-evolution of digits in a clade of fossorial lizards (Brachymeles, Scincinae). Journal of Morphology. PMID 29884998 DOI: 10.1002/jmor.20834  1
2018 Liang C, Musser JM, Cloutier A, Prum RO, Wagner GP. Pervasive correlated evolution in gene expression shapes cell and tissue type transcriptomes. Genome Biology and Evolution. PMID 29373668 DOI: 10.1093/gbe/evy016  1
2017 Griffith OW, Chavan AR, Protopapas S, Maziarz J, Romero R, Wagner GP. Reply to Liu: Inflammation before implantation both in evolution and development. Proceedings of the National Academy of Sciences of the United States of America. PMID 29233940 DOI: 10.1073/pnas.1717001115  1
2017 Love AC, Stewart TA, Wagner GP, Newman SA. Perspectives on Integrating Genetic and Physical Explanations of Evolution and Development: An Introduction to the Symposium. Integrative and Comparative Biology. PMID 29048547 DOI: 10.1093/icb/icx121  0.6
2017 Zhang G, Feenstra B, Bacelis J, Liu X, Muglia LM, Juodakis J, Miller DE, Litterman N, Jiang PP, Russell L, Hinds DA, Hu Y, Weirauch MT, Chen X, Chavan AR, ... Wagner GP, et al. Genetic Associations with Gestational Duration and Spontaneous Preterm Birth. The New England Journal of Medicine. PMID 28877031 DOI: 10.1056/NEJMoa1612665  0.72
2017 Armstrong DL, McGowen MR, Weckle A, Pantham P, Caravas J, Agnew D, Benirschke K, Savage-Rumbaugh S, Nevo E, Kim CJ, Wagner GP, Romero R, Wildman DE. The core transcriptome of mammalian placentas and the divergence of expression with placental shape. Placenta. 57: 71-78. PMID 28864021 DOI: 10.1016/j.placenta.2017.04.015  0.64
2017 Chavan AR, Griffith OW, Wagner GP. The inflammation paradox in the evolution of mammalian pregnancy: turning a foe into a friend. Current Opinion in Genetics & Development. 47: 24-32. PMID 28850905 DOI: 10.1016/j.gde.2017.08.004  1
2017 Griffith OW, Wagner GP. The placenta as a model for understanding the origin and evolution of vertebrate organs. Nature Ecology & Evolution. 1: 72. PMID 28812655 DOI: 10.1038/s41559-017-0072  1
2017 Griffith OW, Chavan AR, Protopapas S, Maziarz J, Romero R, Wagner GP. Embryo implantation evolved from an ancestral inflammatory attachment reaction. Proceedings of the National Academy of Sciences of the United States of America. PMID 28747528 DOI: 10.1073/pnas.1701129114  1
2017 Wagner GP, Nnamani MC, Chavan AR, Maziarz J, Protopapas S, Condon J, Romero R. Evolution of Gene Expression in the Uterine Cervix related to Steroid Signaling: Conserved features in the regulation of cervical ripening. Scientific Reports. 7: 4439. PMID 28667298 DOI: 10.1038/s41598-017-04759-6  0.72
2017 Pavličev M, Wagner GP, Chavan AR, Owens K, Maziarz J, Dunn-Fletcher C, Kallapur SG, Muglia L, Jones H. Single-cell transcriptomics of the human placenta: inferring the cell communication network of the maternal-fetal interface. Genome Research. PMID 28174237 DOI: 10.1101/gr.207597.116  0.72
2016 Arendt D, Musser JM, Baker CV, Bergman A, Cepko C, Erwin DH, Pavlicev M, Schlosser G, Widder S, Laubichler MD, Wagner GP. The origin and evolution of cell types. Nature Reviews. Genetics. PMID 27818507 DOI: 10.1038/nrg.2016.127  1
2016 Park Y, Nnamani MC, Maziarz J, Wagner GP. Cis-regulatory evolution of forkhead box O1 (FOXO1), a terminal selector gene for decidual stromal cell identity. Molecular Biology and Evolution. PMID 27634871 DOI: 10.1093/molbev/msw193  0.72
2016 Pavličev M, Wagner G. The Evolutionary Origin of Female Orgasm. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. PMID 27478160 DOI: 10.1002/jez.b.22690  1
2016 Kin K, Maziarz J, Chavan AR, Kamat M, Vasudevan S, Birt A, Emera D, Lynch VJ, Ott TL, Pavlicev M, Wagner GP. The transcriptomic evolution of mammalian pregnancy: gene expression innovations in endometrial stromal fibroblasts. Genome Biology and Evolution. PMID 27401177 DOI: 10.1093/gbe/evw168  1
2016 Chavan AR, Wagner GP. The fetal-maternal interface of the nine-banded armadillo: endothelial cells of maternal sinus are partially replaced by trophoblast. Zoological Letters. 2: 11. PMID 27284459 DOI: 10.1186/s40851-016-0048-1  0.72
2016 Nnamani MC, Ganguly S, Erkenbrack EM, Lynch VJ, Mizoue LS, Tong Y, Darling HL, Fuxreiter M, Meiler J, Wagner GP. A Derived Allosteric Switch Underlies the Evolution of Conditional Cooperativity between HOXA11 and FOXO1. Cell Reports. PMID 27239043 DOI: 10.1016/j.celrep.2016.04.088  1
2016 Chavan AR, Bhullar BA, Wagner GP. What was the ancestral function of decidual stromal cells? A model for the evolution of eutherian pregnancy. Placenta. 40: 40-51. PMID 27016782 DOI: 10.1016/j.placenta.2016.02.012  1
2016 Stopper GF, Richards-Hrdlicka KL, Wagner GP. Hedgehog inhibition causes complete loss of limb outgrowth and transformation of digit identity in Xenopus tropicalis. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. PMID 26918681 DOI: 10.1002/jez.b.22669  0.64
2015 Singarete ME, Grizante MB, Milograna SR, Nery MF, Kin K, Wagner GP, Kohlsdorf T. Molecular evolution of HoxA13 and the multiple origins of limbless morphologies in amphibians and reptiles. Genetics and Molecular Biology. 38: 255-62. PMID 26500429 DOI: 10.1590/S1415-475738320150039  1
2015 Wagner GP. What is "homology thinking" and what is it for? Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. PMID 26486321 DOI: 10.1002/jez.b.22656  1
2015 Musser JM, Wagner GP. Character trees from transcriptome data: Origin and individuation of morphological characters and the so-called "species signal". Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 324: 588-604. PMID 26175303 DOI: 10.1002/jez.b.22636  1
2015 Musser JM, Wagner GP, Prum RO. Nuclear β-catenin localization supports homology of feathers, avian scutate scales, and alligator scales in early development. Evolution & Development. 17: 185-94. PMID 25963196 DOI: 10.1111/ede.12123  1
2015 Kin K, Nnamani MC, Lynch VJ, Michaelides E, Wagner GP. Cell-type phylogenetics and the origin of endometrial stromal cells. Cell Reports. 10: 1398-409. PMID 25732829 DOI: 10.1016/j.celrep.2015.01.062  1
2015 Lynch VJ, Nnamani MC, Kapusta A, Brayer K, Plaza SL, Mazur EC, Emera D, Sheikh SZ, Grützner F, Bauersachs S, Graf A, Young SL, Lieb JD, DeMayo FJ, Feschotte C, ... Wagner GP, et al. Ancient transposable elements transformed the uterine regulatory landscape and transcriptome during the evolution of mammalian pregnancy. Cell Reports. 10: 551-61. PMID 25640180 DOI: 10.1016/j.celrep.2014.12.052  1
2015 Liang C, Forrest AR, Wagner GP. The statistical geometry of transcriptome divergence in cell-type evolution and cancer. Nature Communications. 6: 6066. PMID 25585899 DOI: 10.1038/ncomms7066  1
2015 Wagner GP. Two rules for the detection and quantification of epistasis and other interaction effects. Methods in Molecular Biology (Clifton, N.J.). 1253: 145-57. PMID 25403531 DOI: 10.1007/978-1-4939-2155-3_8  1
2015 Wagner GP. Evolutionary innovations and novelties: Let us get down to business! Zoologischer Anzeiger. DOI: 10.1016/j.jcz.2015.04.006  1
2015 Wagner GP. Homology and the evolutionary process: reply to Haig, Love and Brown on “Homology, Genes and Evolutionary Innovation” Biology and Philosophy. 30: 901-912. DOI: 10.1007/s10539-015-9492-0  1
2015 Wagner GP. Homology in the age of developmental genomics Evolutionary Developmental Biology of Invertebrates 1: Introduction, Non-Bilateria, Acoelomorpha, Xenoturbellida, Chaetognatha. 25-43. DOI: 10.1007/978-3-7091-1862-7_2  1
2015 Pavličev M, Wagner GP. Evolutionary Systems Biology: Shifting Focus to the Context-Dependency of Genetic Effects Integrative Organismal Biology. 91-108. DOI: 10.1002/9781118398814.ch6  1
2014 Wagner GP, Kin K, Muglia L, Pavlicev M. Evolution of mammalian pregnancy and the origin of the decidual stromal cell. The International Journal of Developmental Biology. 58: 117-26. PMID 25023677 DOI: 10.1387/ijdb.130335gw  1
2014 Kin K, Maziarz J, Wagner GP. Immunohistological study of the endometrial stromal fibroblasts in the opossum, Monodelphis domestica: evidence for homology with eutherian stromal fibroblasts. Biology of Reproduction. 90: 111. PMID 24740599 DOI: 10.1095/biolreprod.113.115139  1
2014 Watson RA, Wagner GP, Pavlicev M, Weinreich DM, Mills R. The evolution of phenotypic correlations and "developmental memory". Evolution; International Journal of Organic Evolution. 68: 1124-38. PMID 24351058 DOI: 10.1111/evo.12337  1
2014 Wagner GP. Homology, genes, and evolutionary innovation Homology, Genes, and Evolutionary Innovation. 1-478.  1
2013 Nnamani MC, Plaza S, Romero R, Wagner GP. Evidence for independent evolution of functional progesterone withdrawal in primates and guinea pigs. Evolution, Medicine, and Public Health. 2013: 273-88. PMID 24481205 DOI: 10.1093/emph/eot022  0.72
2013 Pavlicev M, Wagner GP, Noonan JP, Hallgrímsson B, Cheverud JM. Genomic correlates of relationship QTL involved in fore- versus hind limb divergence in mice. Genome Biology and Evolution. 5: 1926-36. PMID 24065733 DOI: 10.1093/gbe/evt144  1
2013 Zhang J, Wagner GP. On the definition and measurement of pleiotropy. Trends in Genetics : Tig. 29: 383-4. PMID 23727272 DOI: 10.1016/j.tig.2013.05.002  1
2013 Amemiya CT, Wagner GP. Francis (Frank) Hugh Ruddle (1929-2013). Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 320: 273-5. PMID 23650107 DOI: 10.1002/jez.b.22509  1
2013 Wagner GP, Kin K, Lynch VJ. A model based criterion for gene expression calls using RNA-seq data. Theory in Biosciences = Theorie in Den Biowissenschaften. 132: 159-64. PMID 23615947 DOI: 10.1007/s12064-013-0178-3  1
2013 Wagner GP. Homology and the Mechanisms of Development Homology: the Hierarchical Basis of Comparative Biology. 273-299. DOI: 10.1016/B978-0-08-057430-1.50014-7  1
2012 Wagner GP. Genetics: The inner life of proteins. Nature. 490: 493-4. PMID 23099402 DOI: 10.1038/490493a  1
2012 Wagner GP, Kin K, Lynch VJ. Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples. Theory in Biosciences = Theorie in Den Biowissenschaften. 131: 281-5. PMID 22872506 DOI: 10.1007/s12064-012-0162-3  1
2012 Crow KD, Smith CD, Cheng JF, Wagner GP, Amemiya CT. An independent genome duplication inferred from Hox paralogs in the American paddlefish--a representative basal ray-finned fish and important comparative reference. Genome Biology and Evolution. 4: 937-53. PMID 22851613 DOI: 10.1093/gbe/evs067  1
2012 Wagner GP. Next Gen Devo-Evo. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 318: 519-20. PMID 22791647 DOI: 10.1002/jez.b.22463  1
2012 Emera D, Wagner GP. Transposable element recruitments in the mammalian placenta: impacts and mechanisms. Briefings in Functional Genomics. 11: 267-76. PMID 22753775 DOI: 10.1093/bfgp/els013  1
2012 Wagner GP, Tong Y, Emera D, Romero R. An evolutionary test of the isoform switching hypothesis of functional progesterone withdrawal for parturition: humans have a weaker repressive effect of PR-A than mice. Journal of Perinatal Medicine. 40: 345-51. PMID 22752763 DOI: 10.1515/jpm-2011-0256  1
2012 Buljan M, Chalancon G, Eustermann S, Wagner GP, Fuxreiter M, Bateman A, Babu MM. Tissue-specific splicing of disordered segments that embed binding motifs rewires protein interaction networks. Molecular Cell. 46: 871-83. PMID 22749400 DOI: 10.1016/j.molcel.2012.05.039  1
2012 Emera D, Wagner GP. Transformation of a transposon into a derived prolactin promoter with function during human pregnancy. Proceedings of the National Academy of Sciences of the United States of America. 109: 11246-51. PMID 22733751 DOI: 10.1073/pnas.1118566109  1
2012 Larsson HC, Wagner GP. Testing inferences in developmental evolution: the forensic evidence principle. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 318: 489-500. PMID 22644663 DOI: 10.1002/jez.b.22458  1
2012 Pavlicev M, Wagner GP. A model of developmental evolution: selection, pleiotropy and compensation. Trends in Ecology & Evolution. 27: 316-22. PMID 22385978 DOI: 10.1016/j.tree.2012.01.016  1
2012 Brandley MC, Young RL, Warren DL, Thompson MB, Wagner GP. Uterine gene expression in the live-bearing lizard, Chalcides ocellatus, reveals convergence of squamate reptile and mammalian pregnancy mechanisms. Genome Biology and Evolution. 4: 394-411. PMID 22333490 DOI: 10.1093/gbe/evs013  1
2012 Rueffler C, Hermisson J, Wagner GP. Evolution of functional specialization and division of labor. Proceedings of the National Academy of Sciences of the United States of America. 109: E326-35. PMID 22308336 DOI: 10.1073/pnas.1110521109  1
2012 Padua MB, Lynch VJ, Alvarez NV, Garthwaite MA, Golos TG, Bazer FW, Kalkunte S, Sharma S, Wagner GP, Hansen PJ. ACP5 (Uteroferrin): phylogeny of an ancient and conserved gene expressed in the endometrium of mammals. Biology of Reproduction. 86: 123. PMID 22278982 DOI: 10.1095/biolreprod.111.097964  1
2012 Emera D, Romero R, Wagner G. The evolution of menstruation: a new model for genetic assimilation: explaining molecular origins of maternal responses to fetal invasiveness. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 34: 26-35. PMID 22057551 DOI: 10.1002/bies.201100099  1
2012 Emera D, Casola C, Lynch VJ, Wildman DE, Agnew D, Wagner GP. Convergent evolution of endometrial prolactin expression in primates, mice, and elephants through the independent recruitment of transposable elements. Molecular Biology and Evolution. 29: 239-47. PMID 21813467 DOI: 10.1093/molbev/msr189  1
2012 Wagner GP, Zhang J. Universal pleiotropy is not a valid null hypothesis: Reply to Hill and Zhang Nature Reviews Genetics. 13: 296. DOI: 10.1038/nrg2949-c2  1
2011 Lynch VJ, May G, Wagner GP. Regulatory evolution through divergence of a phosphoswitch in the transcription factor CEBPB. Nature. 480: 383-6. PMID 22080951 DOI: 10.1038/nature10595  1
2011 Lynch VJ, Leclerc RD, May G, Wagner GP. Transposon-mediated rewiring of gene regulatory networks contributed to the evolution of pregnancy in mammals. Nature Genetics. 43: 1154-9. PMID 21946353 DOI: 10.1038/ng.917  1
2011 Wang Z, Young RL, Xue H, Wagner GP. Transcriptomic analysis of avian digits reveals conserved and derived digit identities in birds. Nature. 477: 583-6. PMID 21892187 DOI: 10.1038/nature10391  1
2011 Brayer KJ, Lynch VJ, Wagner GP. Evolution of a derived protein-protein interaction between HoxA11 and Foxo1a in mammals caused by changes in intramolecular regulation. Proceedings of the National Academy of Sciences of the United States of America. 108: E414-20. PMID 21788518 DOI: 10.1073/pnas.1100990108  1
2011 Rorick MM, Wagner GP. Protein structural modularity and robustness are associated with evolvability. Genome Biology and Evolution. 3: 456-75. PMID 21602570 DOI: 10.1093/gbe/evr046  1
2011 Bever GS, Gauthier JA, Wagner GP. Finding the frame shift: digit loss, developmental variability, and the origin of the avian hand. Evolution & Development. 13: 269-79. PMID 21535465 DOI: 10.1111/j.1525-142X.2011.00478.x  1
2011 Houle D, Pélabon C, Wagner GP, Hansen TF. Measurement and meaning in biology. The Quarterly Review of Biology. 86: 3-34. PMID 21495498 DOI: 10.1086/658408  1
2011 Liow LH, Simpson C, Bouchard F, Damuth J, Hallgrimsson B, Hunt G, McShea DW, Powell JR, Stenseth NC, Stoller MK, Wagner G. Pioneering paradigms and magnificent manifestos--Leigh Van Valen's priceless contributions to evolutionary biology. Evolution; International Journal of Organic Evolution. 65: 917-22. PMID 21463292 DOI: 10.1111/j.1558-5646.2011.01242.x  1
2011 Young RL, Wagner GP. Why ontogenetic homology criteria can be misleading: lessons from digit identity transformations. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 316: 165-70. PMID 21462311 DOI: 10.1002/jez.b.21396  1
2011 Young RL, Bever GS, Wang Z, Wagner GP. Identity of the avian wing digits: problems resolved and unsolved. Developmental Dynamics : An Official Publication of the American Association of Anatomists. 240: 1042-53. PMID 21412936 DOI: 10.1002/dvdy.22595  1
2011 Wagner GP, Zhang J. The pleiotropic structure of the genotype-phenotype map: the evolvability of complex organisms. Nature Reviews. Genetics. 12: 204-13. PMID 21331091 DOI: 10.1038/nrg2949  1
2011 Pavlicev M, Cheverud JM, Wagner GP. Evolution of adaptive phenotypic variation patterns by direct selection for evolvability. Proceedings. Biological Sciences / the Royal Society. 278: 1903-12. PMID 21106581 DOI: 10.1098/rspb.2010.2113  1
2011 Lynch VJ, Wagner GP. Revisiting a classic example of transcription factor functional equivalence: are Eyeless and Pax6 functionally equivalent or divergent? Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 316: 93-8. PMID 20853421 DOI: 10.1002/jez.b.21373  1
2010 Heard E, Tishkoff S, Todd JA, Vidal M, Wagner GP, Wang J, Weigel D, Young R. Ten years of genetics and genomics: what have we achieved and where are we heading? Nature Reviews. Genetics. 11: 723-33. PMID 20820184 DOI: 10.1038/nrg2878  1
2010 Pavlicev M, Le Rouzic A, Cheverud JM, Wagner GP, Hansen TF. Directionality of epistasis in a murine intercross population. Genetics. 185: 1489-505. PMID 20516493 DOI: 10.1534/genetics.110.118356  1
2010 Schwenk K, Wagner GP. Visualizing vertebrates: new methods in functional morphology. Journal of Experimental Zoology. Part a, Ecological Genetics and Physiology. 313: 241-3. PMID 20486159 DOI: 10.1002/jez.608  1
2010 Young NM, Wagner GP, Hallgrímsson B. Development and the evolvability of human limbs. Proceedings of the National Academy of Sciences of the United States of America. 107: 3400-5. PMID 20133636 DOI: 10.1073/pnas.0911856107  1
2010 Wagner GP, Lynch VJ. Evolutionary novelties. Current Biology : Cb. 20: R48-52. PMID 20129035 DOI: 10.1016/j.cub.2009.11.010  1
2010 Draghi JA, Parsons TL, Wagner GP, Plotkin JB. Mutational robustness can facilitate adaptation. Nature. 463: 353-5. PMID 20090752 DOI: 10.1038/nature08694  1
2010 Rorick MM, Wagner GP. The origin of conserved protein domains and amino acid repeats via adaptive competition for control over amino acid residues. Journal of Molecular Evolution. 70: 29-43. PMID 20024539 DOI: 10.1007/s00239-009-9305-7  1
2010 Wagner GP. The measurement theory of fitness. Evolution; International Journal of Organic Evolution. 64: 1358-76. PMID 20002165 DOI: 10.1111/j.1558-5646.2009.00909.x  1
2010 Lynch VJ, Wagner GP. Did egg-laying boas break Dollo's law? Phylogenetic evidence for reversal to oviparity in sand boas (Eryx: Boidae). Evolution; International Journal of Organic Evolution. 64: 207-16. PMID 19659599 DOI: 10.1111/j.1558-5646.2009.00790.x  1
2010 Kohlsdorf T, Lynch VJ, Rodrigues MT, Brandley MC, Wagner GP. Data and data interpretation in the study of limb evolution: A reply to Galis et al. On the reevolution of digits in the lizard genus bachia Evolution. 64: 2477-2485. DOI: 10.1111/j.1558-5646.2010.01042.x  1
2010 Rorick MM, Wagner GP. Structural robustness confers evolvability in proteins Aaai Fall Symposium - Technical Report. 110-119.  1
2009 Otto W, Stadler PF, López-Giraldéz F, Townsend JP, Lynch VJ, Wagner GP. Measuring transcription factor-binding site turnover: a maximum likelihood approach using phylogenies. Genome Biology and Evolution. 1: 85-98. PMID 20333180 DOI: 10.1093/gbe/evp010  1
2009 Young RL, Caputo V, Giovannotti M, Kohlsdorf T, Vargas AO, May GE, Wagner GP. Evolution of digit identity in the three-toed Italian skink Chalcides chalcides: a new case of digit identity frame shift. Evolution & Development. 11: 647-58. PMID 19878286 DOI: 10.1111/j.1525-142X.2009.00372.x  1
2009 Wagner GP. Paul Kammerer's midwife toads: about the reliability of experiments and our ability to make sense of them. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 312: 665-6. PMID 19790195 DOI: 10.1002/jez.b.21324  1
2009 Lynch VJ, Brayer K, Gellersen B, Wagner GP. HoxA-11 and FOXO1A cooperate to regulate decidual prolactin expression: towards inferring the core transcriptional regulators of decidual genes. Plos One. 4: e6845. PMID 19727442 DOI: 10.1371/journal.pone.0006845  1
2009 Vargas AO, Wagner GP. Frame-shifts of digit identity in bird evolution and Cyclopamine-treated wings. Evolution & Development. 11: 163-9. PMID 19245548 DOI: 10.1111/j.1525-142X.2009.00317.x  1
2009 Crow KD, Amemiya CT, Roth J, Wagner GP. Hypermutability of HoxA13A and functional divergence from its paralog are associated with the origin of a novel developmental feature in zebrafish and related taxa (Cypriniformes). Evolution; International Journal of Organic Evolution. 63: 1574-92. PMID 19222565 DOI: 10.1111/j.1558-5646.2009.00657.x  1
2009 Draghi J, Wagner GP. The evolutionary dynamics of evolvability in a gene network model. Journal of Evolutionary Biology. 22: 599-611. PMID 19170816 DOI: 10.1111/j.1420-9101.2008.01663.x  1
2009 Lynch VJ, Wagner GP. Multiple chromosomal rearrangements structured the ancestral vertebrate Hox-bearing protochromosomes. Plos Genetics. 5: e1000349. PMID 19165336 DOI: 10.1371/journal.pgen.1000349  1
2009 Pavlicev M, Wagner GP, Cheverud JM. Measuring evolutionary constraints through the dimensionality of the phenotype: Adjusted bootstrap method to estimate rank of phenotypic covariance matrices Evolutionary Biology. 36: 339-353. DOI: 10.1007/s11692-009-9066-7  1
2009 Pavlicev M, Cheverud JM, Wagner GP. Measuring morphological integration using eigenvalue variance Evolutionary Biology. 36: 157-170. DOI: 10.1007/s11692-008-9042-7  1
2009 Rorick MM, Wagner GP. Emergence of ultra-conserved protein domains and amino acid repeats: Adaptation, competition and thresholds Aaai Fall Symposium - Technical Report. 103-109.  1
2008 Kohlsdorf T, Cummings MP, Lynch VJ, Stopper GF, Takahashi K, Wagner GP. A molecular footprint of limb loss: sequence variation of the autopodial identity gene Hoxa-13. Journal of Molecular Evolution. 67: 581-93. PMID 18855040 DOI: 10.1007/s00239-008-9156-7  1
2008 Vargas AO, Kohlsdorf T, Fallon JF, Vandenbrooks J, Wagner GP. The evolution of HoxD-11 expression in the bird wing: insights from Alligator mississippiensis. Plos One. 3: e3325. PMID 18833328 DOI: 10.1371/journal.pone.0003325  1
2008 Lynch VJ, Tanzer A, Wang Y, Leung FC, Gellersen B, Emera D, Wagner GP. Adaptive changes in the transcription factor HoxA-11 are essential for the evolution of pregnancy in mammals. Proceedings of the National Academy of Sciences of the United States of America. 105: 14928-33. PMID 18809929 DOI: 10.1073/pnas.0802355105  1
2008 Lynch VJ, Wagner GP. Resurrecting the role of transcription factor change in developmental evolution. Evolution; International Journal of Organic Evolution. 62: 2131-54. PMID 18564379 DOI: 10.1111/j.1558-5646.2008.00440.x  1
2008 Wagner GP, Lynch VJ. The gene regulatory logic of transcription factor evolution. Trends in Ecology & Evolution. 23: 377-85. PMID 18501470 DOI: 10.1016/j.tree.2008.03.006  1
2008 Wagner GP, Kenney-Hunt JP, Pavlicev M, Peck JR, Waxman D, Cheverud JM. Pleiotropic scaling of gene effects and the 'cost of complexity'. Nature. 452: 470-2. PMID 18368117 DOI: 10.1038/nature06756  1
2008 Wagner GP, Vargas AO. On the nature of thumbs. Genome Biology. 9: 213. PMID 18341703 DOI: 10.1186/gb-2008-9-3-213  1
2008 Draghi J, Wagner GP. Evolution of evolvability in a developmental model. Evolution; International Journal of Organic Evolution. 62: 301-15. PMID 18031304 DOI: 10.1111/j.1558-5646.2007.00303.x  1
2008 Schlosser G, Wagner GP. A simple model of co-evolutionary dynamics caused by epistatic selection. Journal of Theoretical Biology. 250: 48-65. PMID 17923137 DOI: 10.1016/j.jtbi.2007.08.033  1
2008 Wagner GP, Kenney-Hunt JP, Pavlicev M, Peck JR, Waxman D, Cheverud JM. Wagner et al. reply Nature. 456: E4. DOI: 10.1038/nature07453  1
2007 Wagner GP, Pavlicev M, Cheverud JM. The road to modularity. Nature Reviews. Genetics. 8: 921-31. PMID 18007649 DOI: 10.1038/nrg2267  1
2007 Wagner GP, Pyle AM. Tinkering with transcription factor proteins: the role of transcription factor adaptation in developmental evolution. Novartis Foundation Symposium. 284: 116-25; discussion 1. PMID 17710850 DOI: 10.1002/9780470319390.ch8  1
2007 Wagner GP. The developmental genetics of homology. Nature Reviews. Genetics. 8: 473-9. PMID 17486120 DOI: 10.1038/nrg2099  1
2007 Wagner GP, Otto W, Lynch V, Stadler PF. A stochastic model for the evolution of transcription factor binding site abundance. Journal of Theoretical Biology. 247: 544-53. PMID 17475285 DOI: 10.1016/j.jtbi.2007.03.001  1
2007 Stopper GF, Wagner GP. Inhibition of Sonic hedgehog signaling leads to posterior digit loss in Ambystoma mexicanum: parallels to natural digit reduction in urodeles. Developmental Dynamics : An Official Publication of the American Association of Anatomists. 236: 321-31. PMID 17117438 DOI: 10.1002/dvdy.21025  1
2007 Conant GC, Wagner GP, Stadler PF. Modeling amino acid substitution patterns in orthologous and paralogous genes. Molecular Phylogenetics and Evolution. 42: 298-307. PMID 16942891 DOI: 10.1016/j.ympev.2006.07.006  0.96
2007 Bard J, Bell MA, Brakefield PM, Budd G, Coates M, Duboule D, Hall BK, Hallgrimsson B, Jernvall J, Lieberman D, Raff R, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 101-109.  1
2007 Bard J, Bell MA, Brakefield PM, Budd G, Cheverud J, Coates M, Duboule D, Hall BK, Hallgrimsson B, Hanken J, Laubichler M, Lieberman D, Morriss-Kay G, Raff R, Stern D, ... Wagner G, et al. General discussion I Novartis Foundation Symposium. 284: 110-115.  1
2007 Bard J, Bell MA, Brakefield PM, Budd G, Coates M, Duboule D, Hall BK, Hallgrimsson B, Jernvall J, Lieberman D, Raff R, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 101-109.  1
2007 Bard J, Bell MA, Brakefield PM, Budd G, Coates M, Duboule D, Hall BK, Hallgrimsson B, Jernvall J, Lieberman D, Raff R, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 101-109.  1
2007 Lieberman D, Thesleff I, Oxnard C, Hallgrimsson B, Duboule D, Jernvall J, Weiss K, Cheverud J, Donoghue P, Raff R, Coates M, Hall BK. Discussion Novartis Foundation Symposium. 284: 153-157.  1
2007 Raff R, Wagner G, Lieberman D, Brakefield PM, Jernvall J, Cheverud J, Hall BK, Bell MA, Wilkins A, Bard J, Duboule D, Weiss K, Budd G, Olsson L, Hanken J. General discussion II Novartis Foundation Symposium. 284: 158-163.  1
2007 Bell MA, Brakefield PM, Budd G, Cheverud J, Duboule D, Hall BK, Hallgrimsson B, Hanken J, Lieberman D, Oxnard C, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 65-70.  1
2007 Bard J, Bell MA, Brakefield PM, Budd G, Coates M, Duboule D, Hall BK, Hallgrimsson B, Jernvall J, Lieberman D, Raff R, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 101-109.  1
2007 Bard J, Bell MA, Brakefield PM, Budd G, Coates M, Duboule D, Hall BK, Hallgrimsson B, Jernvall J, Lieberman D, Raff R, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 101-109.  1
2007 Bard J, Bell MA, Brakefield PM, Budd G, Coates M, Duboule D, Hall BK, Hallgrimsson B, Jernvall J, Lieberman D, Raff R, Stern D, Wagner G, Weiss K. Discussion Novartis Foundation Symposium. 284: 101-109.  1
2006 Kohlsdorf T, Wagner GP. Evidence for the reversibility of digit loss: a phylogenetic study of limb evolution in Bachia (Gymnophthalmidae: Squamata). Evolution; International Journal of Organic Evolution. 60: 1896-912. PMID 17089974  0.4
2006 Lynch VJ, Roth JJ, Wagner GP. Adaptive evolution of Hox-gene homeodomains after cluster duplications. Bmc Evolutionary Biology. 6: 86. PMID 17078881 DOI: 10.1186/1471-2148-6-86  1
2006 Hansen TF, Alvarez-Castro JM, Carter AJ, Hermisson J, Wagner GP. Evolution of genetic architecture under directional selection. Evolution; International Journal of Organic Evolution. 60: 1523-36. PMID 17017054 DOI: 10.1554/06-093.1  1
2006 Dunn CW, Wagner GP. The evolution of colony-level development in the Siphonophora (Cnidaria:Hydrozoa). Development Genes and Evolution. 216: 743-54. PMID 16983540 DOI: 10.1007/s00427-006-0101-8  1
2006 Amemiya CT, Wagner GP. Animal evolution: when did the 'Hox system' arise? Current Biology : Cb. 16: R546-8. PMID 16860733 DOI: 10.1016/j.cub.2006.06.051  0.6
2006 Crow KD, Wagner GP. Proceedings of the SMBE Tri-National Young Investigators' Workshop 2005. What is the role of genome duplication in the evolution of complexity and diversity? Molecular Biology and Evolution. 23: 887-92. PMID 16368775 DOI: 10.1093/molbev/msj083  1
2006 Crow KD, Stadler PF, Lynch VJ, Amemiya C, Wagner GP. The "fish-specific" Hox cluster duplication is coincident with the origin of teleosts. Molecular Biology and Evolution. 23: 121-36. PMID 16162861 DOI: 10.1093/molbev/msj020  1
2005 Wagner GP. The developmental evolution of avian digit homology: an update. Theory in Biosciences = Theorie in Den Biowissenschaften. 124: 165-83. PMID 17046354 DOI: 10.1016/j.thbio.2005.07.002  1
2005 Wagner GP, Lynch VJ. Molecular evolution of evolutionary novelties: the vagina and uterus of therian mammals. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 304: 580-92. PMID 16252266 DOI: 10.1002/jez.b.21074  1
2005 Stopper GF, Wagner GP. Of chicken wings and frog legs: a smorgasbord of evolutionary variation in mechanisms of tetrapod limb development. Developmental Biology. 288: 21-39. PMID 16246321 DOI: 10.1016/j.ydbio.2005.09.010  1
2005 Laubichler MD, Müller GB, Fontana W, Wagner GP. Sacrificing dialogue for politics? Science (New York, N.Y.). 309: 1324. PMID 16123284 DOI: 10.1126/science.309.5739.1324b  1
2005 Roth JJ, Breitenbach M, Wagner GP. Repressor domain and nuclear localization signal of the murine Hoxa-11 protein are located in the homeodomain: no evidence for role of poly alanine stretches in transcriptional repression. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 304: 468-75. PMID 16032701 DOI: 10.1002/jez.b.21061  0.72
2005 Wagner GP, Takahashi K, Lynch V, Prohaska SJ, Fried C, Stadler PF, Amemiya C. Molecular evolution of duplicated ray finned fish HoxA clusters: increased synonymous substitution rate and asymmetrical co-divergence of coding and non-coding sequences. Journal of Molecular Evolution. 60: 665-76. PMID 15983874 DOI: 10.1007/s00239-004-0252-z  1
2005 Metscher BD, Takahashi K, Crow K, Amemiya C, Nonaka DF, Wagner GP. Expression of Hoxa-11 and Hoxa-13 in the pectoral fin of a basal ray-finned fish, Polyodon spathula: implications for the origin of tetrapod limbs. Evolution & Development. 7: 186-95. PMID 15876191 DOI: 10.1111/j.1525-142X.2005.05021.x  1
2004 Shpak M, Stadler P, Wagner GP, Altenberg L. Simon-Ando decomposability and fitness landscapes. Theory in Biosciences = Theorie in Den Biowissenschaften. 123: 139-80. PMID 18236097 DOI: 10.1016/j.thbio.2004.04.001  1
2004 Shpak M, Stadler P, Wagner GP, Hermisson J. Aggregation of variables and system decomposition: Applications to fitness landscape analysis. Theory in Biosciences = Theorie in Den Biowissenschaften. 123: 33-68. PMID 18202879 DOI: 10.1016/j.thbio.2004.02.001  1
2004 Hermisson J, Wagner GP. The population genetic theory of hidden variation and genetic robustness. Genetics. 168: 2271-84. PMID 15611191 DOI: 10.1534/genetics.104.029173  0.52
2004 Lynch VJ, Roth JJ, Takahashi K, Dunn CW, Nonaka DF, Stopper GF, Wagner GP. Adaptive evolution of HoxA-11 and HoxA-13 at the origin of the uterus in mammals. Proceedings. Biological Sciences / the Royal Society. 271: 2201-7. PMID 15539344 DOI: 10.1098/rspb.2004.2848  1
2004 Campos PR, de Oliveira VM, Wagner GP, Stadler PF. Gene phylogenies and protein-protein interactions: possible artifacts resulting from shared protein interaction partners. Journal of Theoretical Biology. 231: 197-202. PMID 15380384 DOI: 10.1016/j.jtbi.2004.06.014  0.96
2004 Stadler PF, Fried C, Prohaska SJ, Bailey WJ, Misof BY, Ruddle FH, Wagner GP. Evidence for independent Hox gene duplications in the hagfish lineage: a PCR-based gene inventory of Eptatretus stoutii. Molecular Phylogenetics and Evolution. 32: 686-94. PMID 15288047 DOI: 10.1016/j.ympev.2004.03.015  1
2004 Wagner GP, Fried C, Prohaska SJ, Stadler PF. Divergence of conserved non-coding sequences: rate estimates and relative rate tests. Molecular Biology and Evolution. 21: 2116-21. PMID 15282332 DOI: 10.1093/molbev/msh221  1
2004 Prohaska SJ, Fried C, Flamm C, Wagner GP, Stadler PF. Surveying phylogenetic footprints in large gene clusters: applications to Hox cluster duplications. Molecular Phylogenetics and Evolution. 31: 581-604. PMID 15062796 DOI: 10.1016/j.ympev.2003.08.009  1
2004 Prohaska SJ, Fried C, Amemiya CT, Ruddle FH, Wagner GP, Stadler PF. The shark HoxN cluster is homologous to the human HoxD cluster. Journal of Molecular Evolution. 58: 212-7. PMID 15042342 DOI: 10.1007/s00239-003-2545-z  1
2004 Wagner GP, Laubichler MD. Rupert Riedl and the re-synthesis of evolutionary and developmental biology: body plans and evolvability. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 302: 92-102. PMID 14760655 DOI: 10.1002/jez.b.20005  1
2004 Chiu CH, Dewar K, Wagner GP, Takahashi K, Ruddle F, Ledje C, Bartsch P, Scemama JL, Stellwag E, Fried C, Prohaska SJ, Stadler PF, Amemiya CT. Bichir HoxA cluster sequence reveals surprising trends in ray-finned fish genomic evolution. Genome Research. 14: 11-7. PMID 14707166 DOI: 10.1101/gr.1712904  1
2003 de Visser JA, Hermisson J, Wagner GP, Ancel Meyers L, Bagheri-Chaichian H, Blanchard JL, Chao L, Cheverud JM, Elena SF, Fontana W, Gibson G, Hansen TF, Krakauer D, Lewontin RC, Ofria C, et al. Perspective: Evolution and detection of genetic robustness. Evolution; International Journal of Organic Evolution. 57: 1959-72. PMID 14575319  1
2003 Laubichler MD, Wagner GP. Editorial: A new series of vignettes on the history of evolutionary developmental biology. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 299: 1-2. PMID 14508810 DOI: 10.1002/jez.b.34  1
2003 Hermisson J, Hansen TF, Wagner GP. Epistasis in polygenic traits and the evolution of genetic architecture under stabilizing selection. The American Naturalist. 161: 708-34. PMID 12858280 DOI: 10.1086/374204  1
2003 Bagheri-Chaichian H, Hermisson J, Vaisnys JR, Wagner GP. Effects of epistasis on phenotypic robustness in metabolic pathways. Mathematical Biosciences. 184: 27-51. PMID 12788232 DOI: 10.1016/S0025-5564(03)00057-9  1
2003 Wagner GP, Stadler PF. Quasi-independence, homology and the unity of type: a topological theory of characters. Journal of Theoretical Biology. 220: 505-27. PMID 12623283  0.96
2002 Carter AJ, Wagner GP. Evolution of functionally conserved enhancers can be accelerated in large populations: a population-genetic model. Proceedings. Biological Sciences / the Royal Society. 269: 953-60. PMID 12028779 DOI: 10.1098/rspb.2002.1968  0.88
2002 Chiu CH, Amemiya C, Dewar K, Kim CB, Ruddle FH, Wagner GP. Molecular evolution of the HoxA cluster in the three major gnathostome lineages. Proceedings of the National Academy of Sciences of the United States of America. 99: 5492-7. PMID 11943847 DOI: 10.1073/pnas.052709899  1
2002 Wagner GP, Müller GB. Evolutionary innovations overcome ancestral constraints: a re-examination of character evolution in male sepsid flies (Diptera: Sepsidae). Evolution & Development. 4: 1-6; discussion 7-8. PMID 11868655  0.36
2000 Mezey JG, Cheverud JM, Wagner GP. Is the genotype-phenotype map modular? A statistical approach using mouse quantitative trait loci data. Genetics. 156: 305-11. PMID 10978294  1
2000 Shpak M, Wagner GP. Asymmetry of configuration space induced by unequal crossover: implications for a mathematical theory of evolutionary innovation. Artificial Life. 6: 25-43. PMID 10943664  1
1998 Wagner GP, Laubichler MD, Bagheri-Chaichian H. Genetic measurement of theory of epistatic effects. Genetica. 102: 569-80. PMID 9766965  1
1997 Wagner GP, Booth G, Bagheri-Chaichian H. A POPULATION GENETIC THEORY OF CANALIZATION. Evolution; International Journal of Organic Evolution. 51: 329-347. PMID 28565347 DOI: 10.1111/j.1558-5646.1997.tb02420.x  1
1996 Wagner GP, Altenberg L. PERSPECTIVE: COMPLEX ADAPTATIONS AND THE EVOLUTION OF EVOLVABILITY. Evolution; International Journal of Organic Evolution. 50: 967-976. PMID 28565291 DOI: 10.1111/j.1558-5646.1996.tb02339.x  0.44
1994 Wagner A, Wagner GP, Similion P. Epistasis can facilitate the evolution of reproductive isolation by peak shifts: a two-locus two-allele model. Genetics. 138: 533-45. PMID 7828834  0.96
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