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Jamie R. Oaks, Ph.D. - Publications

Affiliations: 
2013 Ecology and Evolutionary Biology University of Kansas, Lawrence, KS, United States 
Area:
Phylogenetics
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33 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
2022 Oaks JR, Wood PL, Siler CD, Brown RM. Generalizing Bayesian phylogenetics to infer shared evolutionary events. Proceedings of the National Academy of Sciences of the United States of America. 119: e2121036119. PMID 35858351 DOI: 10.1073/pnas.2121036119  0.367
2022 Grismer J, Scott P, Toffelmier E, Hinds B, Klabacka R, Stewart G, White V, Oaks J, Bradley Shaffer H. Genomic data reveal local endemism in Southern California Rubber Boas (Serpentes: Boidae, Charina) and the critical need for enhanced conservation actions. Molecular Phylogenetics and Evolution. 174: 107542. PMID 35690376 DOI: 10.1016/j.ympev.2022.107542  0.345
2020 Grismer LL, Onn CK, Oaks JR, Neang T, Sokun L, Murdoch ML, Stuart BL, Grismer JL. A new insular species of the Cyrtodactylus intermedius (Squamata: Gekkonidae) group from Cambodia with a discussion of habitat preference and ecomorphology. Zootaxa. 4830: zootaxa.4830.1.3. PMID 33056252 DOI: 10.11646/Zootaxa.4830.1.3  0.401
2020 O'Connell KA, Oaks JR, Hamidy A, Shaney KJ, Kurniawan N, Smith EN, Fujita MK. Impacts of the Toba eruption and montane forest expansion on diversification in Sumatran parachuting frogs (Rhacophorus). Molecular Ecology. PMID 32633832 DOI: 10.1111/Mec.15541  0.437
2020 Oaks JR, L'Bahy N, Cobb KA. Insights from a general, full-likelihood Bayesian approach to inferring shared evolutionary events from genomic data: Inferring shared demographic events is challenging. Evolution; International Journal of Organic Evolution. PMID 32619041 DOI: 10.1111/Evo.14052  0.463
2020 Klabacka RL, Wood PL, McGuire JA, Oaks JR, Lee Grismer L, Grismer JL, Aowphol A, Sites JW. Rivers of Indochina as potential drivers of lineage diversification in the spotted flying lizard (Draco maculatus) species complex. Molecular Phylogenetics and Evolution. 106861. PMID 32497832 DOI: 10.1016/J.Ympev.2020.106861  0.443
2020 David KT, Oaks JR, Halanych KM. Patterns of gene evolution following duplications and speciations in vertebrates. Peerj. 8: e8813. PMID 32266119 DOI: 10.7717/Peerj.8813  0.319
2020 Wood PLJ, Grismer LL, Muin MA, Anuar S, Oaks JR. A new potentially endangered limestone-associated Bent-toed Gecko of the Cyrtodactylus pulchellus (Squamata: Gekkonidae) complex from northern Peninsular Malaysia. Zootaxa. 4751: zootaxa.4751.3.2. PMID 32230404 DOI: 10.11646/Zootaxa.4751.3.2  0.33
2020 Grismer LL, Wood PLJ, Quah ESH, Thura MK, Oaks JR, Lin A. Four new Burmese species of Hemiphyllodactylus Bleeker (Squamata: Gekkonidae) from distantly related parapatric clades from the Shan Plateau and Salween Basin. Zootaxa. 4758: zootaxa.4758.1.2. PMID 32230154 DOI: 10.11646/Zootaxa.4758.1.2  0.381
2020 Grismer LL, Wood PLJ, Quah ESH, Grismer MS, Thura MK, Oaks JR, Lin A. Two new species of Cyrtodactylus Gray, 1827 (Squamata: Gekkonidae) from a karstic archipelago in the Salween Basin of southern Myanmar (Burma). Zootaxa. 4718: zootaxa.4718.2.1. PMID 32230014 DOI: 10.11646/Zootaxa.4718.2.1  0.401
2020 Leaché AD, Oaks JR, Ofori-Boateng C, Fujita MK. Comparative phylogeography of West African amphibians and reptiles. Evolution; International Journal of Organic Evolution. PMID 32067219 DOI: 10.1111/Evo.13941  0.463
2020 Grismer LL, Perry LW, Grismer MS, Quah ESH, Thura MK, Oaks JR, Lin A, Lim DY. Integrative taxonomic and geographic variation analyses in Cyrtodactylus aequalis (Squamata: Gekkonidae) from southern Myanmar (Burma): one species, two different stories Israel Journal of Ecology & Evolution. 1-29. DOI: 10.1163/22244662-20191082  0.379
2020 Weinell JL, Barley AJ, Siler CD, Orlov NL, Ananjeva NB, Oaks JR, Burbrink FT, Brown RM. Phylogenetic relationships and biogeographic range evolution in cat-eyed snakes, Boiga (Serpentes: Colubridae) Zoological Journal of the Linnean Society. DOI: 10.1093/Zoolinnean/Zlaa090  0.328
2019 Wright AM, Schwartz RS, Oaks JR, Newman CE, Flanagan SP. The why, when, and how of computing in biology classrooms. F1000research. 8: 1854. PMID 32025290 DOI: 10.12688/F1000Research.20873.2  0.535
2019 Quah ESH, Grismer LL, Wood PLJ, Thura MK, Oaks JR, Lin A. Discovery of the westernmost population of the genus Ansonia Stoliczka (Anura, Bufonidae) with the description of a new species from the Shan Plateau of eastern Myanmar. Zootaxa. 4656: zootaxa.4656.3.11. PMID 31716818 DOI: 10.11646/Zootaxa.4656.3.11  0.377
2019 Grismer LL, Wood PLJ, Quah ESH, Thura MK, Oaks JR, Lin A. A new species of Bent-toed Gecko (Squamata, Gekkonidae, Cyrtodactylus) from the Shan Plateau in eastern Myanmar (Burma). Zootaxa. 4624: zootaxa.4624.3.1. PMID 31716208 DOI: 10.11646/Zootaxa.4624.3.1  0.396
2019 Oaks JR, Siler CD, Brown RM. The comparative biogeography of Philippine geckos challenges predictions from a paradigm of climate-driven vicariant diversification across an island archipelago. Evolution; International Journal of Organic Evolution. PMID 31017301 DOI: 10.1111/Evo.13754  0.447
2019 Folt B, Bauder J, Spear S, Stevenson D, Hoffman M, Oaks JR, Wood PL, Jenkins C, Steen DA, Guyer C. Taxonomic and conservation implications of population genetic admixture, mito-nuclear discordance, and male-biased dispersal of a large endangered snake, Drymarchon couperi. Plos One. 14: e0214439. PMID 30913266 DOI: 10.1371/Journal.Pone.0214439  0.444
2019 Oaks JR, Cobb KA, Minin VN, Leaché AD. Marginal likelihoods in phylogenetics: a review of methods and applications. Systematic Biology. PMID 30668834 DOI: 10.1093/Sysbio/Syz003  0.425
2019 Wright AM, Schwartz R, Oaks JR, Newman CE, Flanagan SP. The why, when, and how of computing in biology classrooms [version 1; peer review: 2 approved] F1000research. DOI: 10.12688/F1000Research.20873.1  0.522
2018 Oaks JR. Full Bayesian Comparative Phylogeography from Genomic Data. Systematic Biology. PMID 30239868 DOI: 10.1093/Sysbio/Syy063  0.443
2017 Leaché AD, Oaks JR. The Utility of Single Nucleotide Polymorphism (SNP) Data in Phylogenetics Annual Review of Ecology, Evolution, and Systematics. 48: 69-84. DOI: 10.1146/Annurev-Ecolsys-110316-022645  0.335
2014 Oaks JR, Linkem CW, Sukumaran J. Implications of uniformly distributed, empirically informed priors for phylogeographical model selection: a reply to Hickerson et al. Evolution; International Journal of Organic Evolution. 68: 3607-17. PMID 25213163 DOI: 10.1111/Evo.12523  0.633
2014 Oaks JR. An improved approximate-Bayesian model-choice method for estimating shared evolutionary history. Bmc Evolutionary Biology. 14: 150. PMID 24992937 DOI: 10.1186/1471-2148-14-150  0.491
2014 Welton LJ, Wood PL, Oaks JR, Siler CD, Brown RM. Fossil-calibrated phylogeny and historical biogeography of Southeast Asian water monitors (Varanus salvator Complex). Molecular Phylogenetics and Evolution. 74: 29-37. PMID 24486878 DOI: 10.1016/J.Ympev.2014.01.016  0.426
2014 Siler CD, Oaks JR, Cobb K, Ota H, Brown RM. Critically endangered island endemic or peripheral population of a widespread species? Conservation genetics of Kikuchi's gecko and the global challenge of protecting peripheral oceanic island endemic vertebrates Diversity and Distributions. 20: 756-772. DOI: 10.1111/Ddi.12169  0.464
2014 Grismer JL, Bauer AM, Grismer LL, Thirakhupt K, Aowphol A, Oaks JR, Wood PL, Onn CK, Thy N, Cota M, Jackman T. Multiple origins of parthenogenesis, and a revised species phylogeny for the Southeast Asian butterfly lizards, Leiolepis Biological Journal of the Linnean Society. 113: 1080-1093. DOI: 10.1111/Bij.12367  0.385
2013 Welton LJ, Siler CD, Oaks JR, Diesmos AC, Brown RM. Multilocus phylogeny and Bayesian estimates of species boundaries reveal hidden evolutionary relationships and cryptic diversity in Southeast Asian monitor lizards. Molecular Ecology. 22: 3495-510. PMID 23710945 DOI: 10.1111/Mec.12324  0.467
2013 Oaks JR, Sukumaran J, Esselstyn JA, Linkem CW, Siler CD, Holder MT, Brown RM. Evidence for climate-driven diversification? A caution for interpreting ABC inferences of simultaneous historical events. Evolution; International Journal of Organic Evolution. 67: 991-1010. PMID 23550751 DOI: 10.1111/J.1558-5646.2012.01840.X  0.638
2013 Brown RM, Siler CD, Oliveros CH, Esselstyn JA, Diesmos AC, Hosner PA, Linkem CW, Barley AJ, Oaks JR, Sanguila MB, Welton LJ, Blackburn DC, Moyle RG, Townsend Peterson A, Alcala AC. Evolutionary processes of diversification in a model island archipelago Annual Review of Ecology, Evolution, and Systematics. 44: 411-435. DOI: 10.1146/Annurev-Ecolsys-110411-160323  0.431
2012 Siler CD, Oaks JR, Welton LJ, Linkem CW, Swab JC, Diesmos AC, Brown RM. Did geckos ride the Palawan raft to the Philippines? Journal of Biogeography. 39: 1217-1234. DOI: 10.1111/J.1365-2699.2011.02680.X  0.478
2011 Oaks JR. A time-calibrated species tree of Crocodylia reveals a recent radiation of the true crocodiles. Evolution; International Journal of Organic Evolution. 65: 3285-97. PMID 22023592 DOI: 10.1111/J.1558-5646.2011.01373.X  0.47
2010 Siler CD, Oaks JR, Esselstyn JA, Diesmos AC, Brown RM. Phylogeny and biogeography of Philippine bent-toed geckos (Gekkonidae: Cyrtodactylus) contradict a prevailing model of Pleistocene diversification. Molecular Phylogenetics and Evolution. 55: 699-710. PMID 20132898 DOI: 10.1016/J.Ympev.2010.01.027  0.474
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