Derrick J. Zwickl, Ph.D. - Publications

Affiliations: 
University of Arizona, Tucson, AZ 
Area:
Phylogenetics, computational biology

26/28 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
2018 Stein JC, Yu Y, Copetti D, Zwickl DJ, Zhang L, Zhang C, Chougule K, Gao D, Iwata A, Goicoechea JL, Wei S, Wang J, Liao Y, Wang M, Jacquemin J, et al. Publisher Correction: Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza. Nature Genetics. PMID 30291357 DOI: 10.1038/S41588-018-0261-2  0.6
2018 Dobrin BH, Zwickl DJ, Sanderson MJ. The prevalence of terraced treescapes in analyses of phylogenetic data sets. Bmc Evolutionary Biology. 18: 46. PMID 29618314 DOI: 10.1186/S12862-018-1162-9  0.6
2018 Stein JC, Yu Y, Copetti D, Zwickl DJ, Zhang L, Zhang C, Chougule K, Gao D, Iwata A, Goicoechea JL, Wei S, Wang J, Liao Y, Wang M, Jacquemin J, et al. Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza. Nature Genetics. PMID 29358651 DOI: 10.1038/S41588-018-0040-0  0.6
2015 Sanderson MJ, Copetti D, Búrquez A, Bustamante E, Charboneau JL, Eguiarte LE, Kumar S, Lee HO, Lee J, McMahon M, Steele K, Wing R, Yang TJ, Zwickl D, Wojciechowski MF. Exceptional reduction of the plastid genome of saguaro cactus (Carnegiea gigantea): Loss of the ndh gene suite and inverted repeat. American Journal of Botany. 102: 1115-27. PMID 26199368 DOI: 10.3732/Ajb.1500184  0.96
2015 Sanderson MJ, McMahon MM, Stamatakis A, Zwickl DJ, Steel M. Impacts of terraces on phylogenetic inference. Systematic Biology. PMID 25999395 DOI: 10.1093/Sysbio/Syv024  0.96
2014 Geering AD, Maumus F, Copetti D, Choisne N, Zwickl DJ, Zytnicki M, McTaggart AR, Scalabrin S, Vezzulli S, Wing RA, Quesneville H, Teycheney PY. Endogenous florendoviruses are major components of plant genomes and hallmarks of virus evolution. Nature Communications. 5: 5269. PMID 25381880 DOI: 10.1038/Ncomms6269  0.96
2014 Bazinet AL, Zwickl DJ, Cummings MP. A gateway for phylogenetic analysis powered by grid computing featuring GARLI 2.0. Systematic Biology. 63: 812-8. PMID 24789072 DOI: 10.1093/Sysbio/Syu031  0.96
2014 Zwickl DJ, Stein JC, Wing RA, Ware D, Sanderson MJ. Disentangling methodological and biological sources of gene tree discordance on Oryza (Poaceae) chromosome 3. Systematic Biology. 63: 645-59. PMID 24721692 DOI: 10.1093/Sysbio/Syu027  0.96
2013 Nowak MD, Smith AB, Simpson C, Zwickl DJ. A simple method for estimating informative node age priors for the fossil calibration of molecular divergence time analyses. Plos One. 8: e66245. PMID 23755303 DOI: 10.1371/Journal.Pone.0066245  0.96
2013 Regier JC, Mitter C, Zwick A, Bazinet AL, Cummings MP, Kawahara AY, Sohn JC, Zwickl DJ, Cho S, Davis DR, Baixeras J, Brown J, Parr C, Weller S, Lees DC, et al. A large-scale, higher-level, molecular phylogenetic study of the insect order Lepidoptera (moths and butterflies). Plos One. 8: e58568. PMID 23554903 DOI: 10.1371/Journal.Pone.0058568  0.96
2012 Zwick A, Regier JC, Zwickl DJ. Resolving discrepancy between nucleotides and amino acids in deep-level arthropod phylogenomics: differentiating serine codons in 21-amino-acid models. Plos One. 7: e47450. PMID 23185239 DOI: 10.1371/Journal.Pone.0047450  0.96
2012 Ayres DL, Darling A, Zwickl DJ, Beerli P, Holder MT, Lewis PO, Huelsenbeck JP, Ronquist F, Swofford DL, Cummings MP, Rambaut A, Suchard MA. BEAGLE: an application programming interface and high-performance computing library for statistical phylogenetics. Systematic Biology. 61: 170-3. PMID 21963610 DOI: 10.1093/Sysbio/Syr100  0.96
2010 Arnegard ME, Zwickl DJ, Lu Y, Zakon HH. Old gene duplication facilitates origin and diversification of an innovative communication system--twice. Proceedings of the National Academy of Sciences of the United States of America. 107: 22172-7. PMID 21127261 DOI: 10.1073/Pnas.1011803107  0.96
2010 Scaduto DI, Brown JM, Haaland WC, Zwickl DJ, Hillis DM, Metzker ML. Source identification in two criminal cases using phylogenetic analysis of HIV-1 DNA sequences. Proceedings of the National Academy of Sciences of the United States of America. 107: 21242-7. PMID 21078965 DOI: 10.1073/Pnas.1015673107  0.96
2009 Zakon HH, Jost MC, Zwickl DJ, Lu Y, Hillis DM. Molecular evolution of Na+ channels in teleost fishes. Integrative Zoology. 4: 64-74. PMID 21392277 DOI: 10.1111/J.1749-4877.2008.00136.X  0.96
2008 Holder MT, Zwickl DJ, Dessimoz C. Evaluating the robustness of phylogenetic methods to among-site variability in substitution processes. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 363: 4013-21. PMID 18852108 DOI: 10.1098/Rstb.2008.0162  0.96
2008 Zakon HH, Zwickl DJ, Lu Y, Hillis DM. Molecular evolution of communication signals in electric fish. The Journal of Experimental Biology. 211: 1814-8. PMID 18490397 DOI: 10.1242/Jeb.015982  0.96
2008 Heath TA, Zwickl DJ, Kim J, Hillis DM. Taxon sampling affects inferences of macroevolutionary processes from phylogenetic trees. Systematic Biology. 57: 160-6. PMID 18300029 DOI: 10.1080/10635150701884640  0.96
2007 Lapp H, Bala S, Balhoff JP, Bouck A, Goto N, Holder M, Holland R, Holloway A, Katayama T, Lewis PO, Mackey AJ, Osborne BI, Piel WH, Pond SLK, Poon AFY, ... ... Zwickl DJ, et al. The 2006 NESCent phyloinformatics hackathon: A field report Evolutionary Bioinformatics. 3: 287-296. DOI: 10.4137/Ebo.S0  0.96
2006 Zakon HH, Lu Y, Zwickl DJ, Hillis DM. Sodium channel genes and the evolution of diversity in communication signals of electric fishes: convergent molecular evolution. Proceedings of the National Academy of Sciences of the United States of America. 103: 3675-80. PMID 16505358 DOI: 10.1073/Pnas.0600160103  0.96
2004 Zwickl DJ, Holder MT. Model parameterization, prior distributions, and the general time-reversible model in bayesian phylogenetics Systematic Biology. 53: 877-888. PMID 15764557 DOI: 10.1080/10635150490522584  0.96
2003 Hillis DM, Pollock DD, McGuire JA, Zwickl DJ. Is sparse taxon sampling a problem for phylogenetic inference? Systematic Biology. 52: 124-6. PMID 12554446 DOI: 10.1080/10635150390132911  0.96
2002 Wilcox TP, Zwickl DJ, Heath TA, Hillis DM. Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. Molecular Phylogenetics and Evolution. 25: 361-71. PMID 12414316 DOI: 10.1016/S1055-7903(02)00244-0  0.96
2002 Brauer MJ, Holder MT, Dries LA, Zwickl DJ, Lewis PO, Hillis DM. Genetic algorithms and parallel processing in maximum-likelihood phylogeny inference. Molecular Biology and Evolution. 19: 1717-26. PMID 12270898 DOI: 10.1093/Oxfordjournals.Molbev.A003994  0.96
2002 Pollock DD, Zwickl DJ, McGuire JA, Hillis DM. Increased taxon sampling is advantageous for phylogenetic inference. Systematic Biology. 51: 664-71. PMID 12228008 DOI: 10.1080/10635150290102357  0.96
2002 Zwickl DJ, Hillis DM. Increased taxon sampling greatly reduces phylogenetic error. Systematic Biology. 51: 588-98. PMID 12228001 DOI: 10.1080/10635150290102339  0.96
Low-probability matches
2008 O'Meara B, Alfaro M, Bell C, Bolker B, Butler M, Cowan P, Vienne Dd, Desper R, Felsenstein J, Harmon L, Heibl C, Hipp A, Hunt G, Jombart T, Kembel S, ... ... Zwickl D, et al. Comparative methods in R hackathon Nature Precedings. DOI: 10.1038/Npre.2008.2126.1  0.08
2008 Zwickl D. Phylogenetic Trees Made Easy: A How‐To Manual. Third Edition. By Barry G Hall. Sunderland (Massachusetts): Sinauer Associates. $39.95 (paper). xvi + 233 p; ill.; index to major program discussions and subject index. ISBN:978‐0‐87893‐310‐5. 2008. The Quarterly Review of Biology. 83: 98-98. DOI: 10.1086/586919  0.01
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