Jack Sullivan - Publications

Affiliations: 
University of Idaho, Moscow, ID, United States 
Area:
Biostatistics Biology

47 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
2021 Sarver BAJ, Herrera ND, Sneddon D, Hunter SS, Settles ML, Kronenberg Z, Demboski JR, Good JM, Sullivan J. Diversification, Introgression, and Rampant Cytonuclear Discordance in Rocky Mountains Chipmunks (Sciuridae: Tamias). Systematic Biology. PMID 33410870 DOI: 10.1093/sysbio/syaa085  0.92
2019 Grond K, Bell KC, Demboski JR, Santos M, Sullivan JM, Hird SM. No evidence for phylosymbiosis in western chipmunk species. Fems Microbiology Ecology. PMID 31730167 DOI: 10.1093/Femsec/Fiz182  0.92
2019 Sullivan J, Smith ML, Espíndola A, Ruffley M, Rankin A, Tank D, Carstens B. Integrating life history traits into predictive phylogeography. Molecular Ecology. PMID 30667113 DOI: 10.1111/Mec.15029  0.48
2018 Pelletier TA, Carstens BC, Tank DC, Sullivan J, Espíndola A. Predicting plant conservation priorities on a global scale. Proceedings of the National Academy of Sciences of the United States of America. 115: 13027-13032. PMID 30509998 DOI: 10.1073/Pnas.1804098115  0.68
2018 Ruffley M, Smith ML, Espíndola A, Carstens BC, Sullivan J, Tank DC. Combining allele frequency and tree-based approaches improves phylogeographic inference from natural history collections. Molecular Ecology. PMID 29334417 DOI: 10.1111/Mec.14491  0.68
2017 Smith ML, Ruffley M, Espíndola A, Tank DC, Sullivan J, Carstens BC. Demographic Model Selection using Random Forests and the Site Frequency Spectrum. Molecular Ecology. PMID 28665011 DOI: 10.1111/Mec.14223  0.68
2017 Sarver BA, Demboski JR, Good JM, Forshee N, Hunter SS, Sullivan J. Comparative Phylogenomic Assessment of Mitochondrial Introgression among Several Species of Chipmunks (Tamias). Genome Biology and Evolution. 9: 7-19. PMID 28172670 DOI: 10.1093/Gbe/Evw254  0.92
2016 Espíndola A, Ruffley M, Smith ML, Carstens BC, Tank DC, Sullivan J. Identifying cryptic diversity with predictive phylogeography. Proceedings. Biological Sciences. 283. PMID 27798300 DOI: 10.1098/Rspb.2016.1529  0.68
2016 Sarver BA, Demboski JR, Good JM, Forshee N, Hunter SS, Sullivan J. Comparative Phylogenomic Assessment of Mitochondrial Introgression among Several Species of Chipmunks (TAMIAS). Genome Biology and Evolution. PMID 27797954 DOI: 10.1093/gbe/evw254  0.92
2015 Metzger G, Espindola A, Waits LP, Sullivan J. Genetic Structure across Broad Spatial and Temporal Scales: Rocky Mountain Tailed Frogs (Ascaphus montanus; Anura: Ascaphidae) in the Inland Temperate Rainforest. The Journal of Heredity. 106: 700-10. PMID 26285914 DOI: 10.1093/Jhered/Esv061  0.92
2014 Sullivan J, Demboski JR, Bell KC, Hird S, Sarver B, Reid N, Good JM. Divergence with gene flow within the recent chipmunk radiation (Tamias). Heredity. 113: 185-94. PMID 24781803 DOI: 10.1038/Hdy.2014.27  0.92
2013 Carstens BC, Brennan RS, Chua V, Duffie CV, Harvey MG, Koch RA, McMahan CD, Nelson BJ, Newman CE, Satler JD, Seeholzer G, Posbic K, Tank DC, Sullivan J. Model selection as a tool for phylogeographic inference: an example from the willow Salix melanopsis. Molecular Ecology. 22: 4014-28. PMID 23848064 DOI: 10.1111/Mec.12347  0.92
2012 Reid N, Demboski JR, Sullivan J. Phylogeny estimation of the radiation of western North American chipmunks (Tamias) in the face of introgression using reproductive protein genes. Systematic Biology. 61: 44-62. PMID 21878471 DOI: 10.1093/Sysbio/Syr094  0.92
2011 Francia ME, Wicher S, Pace DA, Sullivan J, Moreno SN, Arrizabalaga G. A Toxoplasma gondii protein with homology to intracellular type Na⁺/H⁺ exchangers is important for osmoregulation and invasion. Experimental Cell Research. 317: 1382-96. PMID 21501607 DOI: 10.1016/J.Yexcr.2011.03.020  0.92
2010 Hird S, Reid N, Demboski J, Sullivan J. Introgression at differentially aged hybrid zones in red-tailed chipmunks Genetica. 138: 869-883. PMID 20623163 DOI: 10.1007/S10709-010-9470-Z  0.92
2010 Ripplinger J, Sullivan J. Assessment of substitution model adequacy using frequentist and Bayesian methods. Molecular Biology and Evolution. 27: 2790-803. PMID 20616145 DOI: 10.1093/Molbev/Msq168  1
2010 Ripplinger J, Abdo Z, Sullivan J. Effects of parameter estimation on maximum-likelihood bootstrap analysis. Molecular Phylogenetics and Evolution. 56: 642-8. PMID 20434567 DOI: 10.1016/J.Ympev.2010.04.035  0.92
2009 Hird S, Sullivan J. Assessment of gene flow across a hybrid zone in red-tailed chipmunks (Tamias ruficaudus). Molecular Ecology. 18: 3097-109. PMID 19538343 DOI: 10.1111/J.1365-294X.2009.04196.X  1
2009 McPeek MA, Deangelis DL, Shaw RG, Moore AJ, Rausher MD, Strong DR, Ellison AM, Barrett L, Rieseberg L, Breed MD, Sullivan J, Osenberg CW, Holyoak M, Elgar MA. The golden rule of reviewing American Naturalist. 173: E155-E158. DOI: 10.1086/598847  0.92
2008 Good JM, Hird S, Reid N, Demboski JR, Steppan SJ, Martin-Nims TR, Sullivan J. Ancient hybridization and mitochondrial capture between two species of chipmunks. Molecular Ecology. 17: 1313-27. PMID 18302691 DOI: 10.1111/J.1365-294X.2007.03640.X  0.92
2008 Ripplinger J, Sullivan J. Does choice in model selection affect maximum likelihood analysis? Systematic Biology. 57: 76-85. PMID 18275003 DOI: 10.1080/10635150801898920  1
2007 Nagler JJ, Cavileer T, Sullivan J, Cyr DG, Rexroad C. The complete nuclear estrogen receptor family in the rainbow trout: discovery of the novel ERalpha2 and both ERbeta isoforms. Gene. 392: 164-73. PMID 17307310 DOI: 10.1016/J.Gene.2006.12.030  0.92
2006 Nielson M, Lohman K, Daugherty CH, Allendorf FW, Knudsen KL, Sullivan J. Allozyme and mitochondrial DNA variation in the tailed frog (Anura: Ascaphus): The influence of geography and gene flow Herpetologica. 62: 235-258. DOI: 10.1655/0018-0831(2006)62[235:Aamdvi]2.0.Co;2  0.92
2005 Carstens BC, Brunsfeld SJ, Demboski JR, Good JM, Sullivan J. Investigating the evolutionary history of the Pacific Northwest mesic forest ecosystem: hypothesis testing within a comparative phylogeographic framework. Evolution; International Journal of Organic Evolution. 59: 1639-52. PMID 16331838 DOI: 10.1111/J.0014-3820.2005.Tb01815.X  0.92
2005 Carstens BC, Bankhead A, Joyce P, Sullivan J. Testing population genetic structure using parametric bootstrapping and MIGRATE-N. Genetica. 124: 71-5. PMID 16011004 DOI: 10.1007/S10709-004-8358-1  0.68
2005 Steele CA, Carstens BC, Storfer A, Sullivan J. Testing hypotheses of speciation timing in Dicamptodon copei and Dicamptodon aterrimus (Caudata: Dicamptodontidae). Molecular Phylogenetics and Evolution. 36: 90-100. PMID 15904859 DOI: 10.1016/J.Ympev.2004.12.001  0.92
2005 Sullivan J, Abdo Z, Joyce P, Swofford DL. Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation. Molecular Biology and Evolution. 22: 1386-92. PMID 15758203 DOI: 10.1093/Molbev/Msi129  0.92
2005 Carstens BC, Degenhardt JD, Stevenson AL, Sullivan J. Accounting for coalescent stochasticity in testing phylogeographical hypotheses: modelling Pleistocene population structure in the Idaho giant salamander Dicamptodon aterrimus. Molecular Ecology. 14: 255-65. PMID 15643968 DOI: 10.1111/J.1365-294X.2004.02404.X  0.68
2005 Abdo Z, Minin VN, Joyce P, Sullivan J. Accounting for uncertainty in the tree topology has little effect on the decision-theoretic approach to model selection in phylogeny estimation. Molecular Biology and Evolution. 22: 691-703. PMID 15548751 DOI: 10.1093/Molbev/Msi050  0.92
2004 Carstens BC, Stevenson AL, Degenhardt JD, Sullivan J. Testing nested phylogenetic and phylogeographic hypotheses in the Plethodon vandykei species group. Systematic Biology. 53: 781-92. PMID 15545255 DOI: 10.1080/10635150490522296  0.68
2004 Carstens BC, Sullivan J, Davalos LM, Larsen PA, Pedersen SC. Exploring population genetic structure in three species of Lesser Antillean bats. Molecular Ecology. 13: 2557-66. PMID 15315670 DOI: 10.1111/J.1365-294X.2004.02250.X  0.92
2003 Minin V, Abdo Z, Joyce P, Sullivan J. Performance-based selection of likelihood models for phylogeny estimation. Systematic Biology. 52: 674-83. PMID 14530134 DOI: 10.1080/10635150390235494  0.92
2003 Good JM, Demboski JR, Nagorsen DW, Sullivan J. Phylogeography and introgressive hybridization: chipmunks (genus Tamias) in the northern Rocky Mountains. Evolution; International Journal of Organic Evolution. 57: 1900-16. PMID 14503631 DOI: 10.1111/J.0014-3820.2003.Tb00597.X  0.92
2003 Demboski JR, Sullivan J. Extensive mtDNA variation within the yellow-pine chipmunk, Tamias amoenus (Rodentia: Sciuridae), and phylogeographic inferences for northwest North America. Molecular Phylogenetics and Evolution. 26: 389-408. PMID 12644399 DOI: 10.1016/S1055-7903(02)00363-9  0.92
2002 Winchell CJ, Sullivan J, Cameron CB, Swalla BJ, Mallatt J. Evaluating hypotheses of deuterostome phylogeny and chordate evolution with new LSU and SSU ribosomal DNA data. Molecular Biology and Evolution. 19: 762-76. PMID 11961109 DOI: 10.1093/Oxfordjournals.Molbev.A004134  0.92
2002 Good JM, Sullivan J. Phylogeography of the red-tailed chipmunk (Tamias ruficaudus), a northern Rocky Mountain endemic. Molecular Ecology. 10: 2683-95. PMID 11883882 DOI: 10.1046/J.0962-1083.2001.01397.X  0.36
2001 Sullivan J, Swofford DL. Should we use model-based methods for phylogenetic inference when we know that assumptions about among-site rate variation and nucleotide substitution pattern are violated? Systematic Biology. 50: 723-9. PMID 12116942 DOI: 10.1080/106351501753328848  0.92
2001 Nielson M, Lohman K, Sullivan J. Phylogeography of the tailed frog (Ascaphus truei): implications for the biogeography of the Pacific Northwest. Evolution; International Journal of Organic Evolution. 55: 147-60. PMID 11263735 DOI: 10.1111/J.0014-3820.2001.Tb01280.X  0.92
2000 Steppan SJ, Sullivan J. The emerging statistical perspective in systematics: A comment on Mares and Braun Journal of Mammalogy. 81: 260-270. DOI: 10.1644/1545-1542(2000)081<0260:Tespis>2.0.Co;2  0.92
1999 Waits LP, Sullivan J, O'Brien SJ, Ward RH. Rapid radiation events in the family Ursidae indicated by likelihood phylogenetic estimation from multiple fragments of mtDNA. Molecular Phylogenetics and Evolution. 13: 82-92. PMID 10508542 DOI: 10.1006/Mpev.1999.0637  0.92
1999 Sullivan J, Swofford DL, Naylor GJP. The effect of taxon sampling on estimating rate heterogeneity parameters of maximum-likelihood models Molecular Biology and Evolution. 16: 1347-1356. DOI: 10.1093/Oxfordjournals.Molbev.A026045  0.92
1997 Frati F, Simon C, Sullivan J, Swofford DL. Evolution of the mitochondrial cytochrome oxidase II gene in collembola. Journal of Molecular Evolution. 44: 145-58. PMID 9069175 DOI: 10.1007/Pl00006131  0.92
1997 Sullivan J, Swofford DL. Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics Journal of Mammalian Evolution. 4: 77-86. DOI: 10.1023/A:1027314112438  0.92
1996 Sullivan J, Holsinger KE, Simon C. The effect of topology on estimates of among-site rate variation. Journal of Molecular Evolution. 42: 308-12. PMID 8919882 DOI: 10.1007/Bf02198857  0.92
1996 Simon C, Nigro L, Sullivan J, Holsinger K, Martin A, Grapputo A, Franke A, McIntosh C. Large differences in substitutional pattern and evolutionary rate of 12S ribosomal RNA genes Molecular Biology and Evolution. 13: 923-932. PMID 8752001 DOI: 10.1093/Oxfordjournals.Molbev.A025660  0.92
1996 Hickson RE, Simon C, Cooper A, Spicer GS, Sullivan J, Penny D. Conserved sequence motifs, alignment, and secondary structure for the third domain of animal 12S rRNA. Molecular Biology and Evolution. 13: 150-69. PMID 8583888 DOI: 10.1093/Oxfordjournals.Molbev.A025552  0.92
1995 Sullivan J, Holsinger KE, Simon C. Among-site rate variation and phylogenetic analysis of 12S rRNA in sigmodontine rodents. Molecular Biology and Evolution. 12: 988-1001. PMID 8524051 DOI: 10.1093/Oxfordjournals.Molbev.A040292  0.92
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