Complete CV: here

Publications

Submitted

• Thompson, K.L., and L. Kubatko. 2013. Using ancestral information to detect and localize quantitative trait loci in genome-wide association studies, submitted.
  
  
• Sovic, M., L. Kubatko, and P. Fuerst. 2013. The effects of locus number, genetic divergence and genotyping error on the utility of dominant markers for hybrid identification, submitted.
  
  
• Tian, Y. and L. Kubatko. 2013. Gene tree rooting methods give distributions that mimic the coalescent process, submitted.
  
  
• Spade, D. A., R. Herbei, and L. S. Kubatko. 2013. A note on the relaxation time of two Markov chains on rooted phylogenetic tree spaces, submitted.
  
  
• Hovmoller, R., L. L. Knowles, and L. S. Kubatko. 2013. Effects of missing data on species tree estimation under the coalescent, submitted.
  
  
• Wolfe, A. D., A. McMullen-Sibul, V. J. Tepedino, L. Kubatko, T. NeCamp, and S. Fassnacht. 2013. Conservation genetics and breeding system of Penstemon debilis (Plantaginaceae), a rare beardtongue endemic to oil shale talus in western Colorado, USA, submitted.

2013

• Herbei, R. and L. Kubatko. 2013. Monte Carlo estimation of total variation distance of Markov chains on large spaces, with application to phylogenetics, Statistical Applications in Genetics and Molecular Biology, 12(1): 39-48 [web link].
  
  
• Kubatko, L.S. and H. H. Fan. 2012. Reply to "Letter to the Editor on the article entitled "Estimating species trees using Approximate Bayesian Computation" (Fan and Kubatko, Mol. Phylogenetics Evol. 59, 354 - 363)", Molecular Phylogenetics and Evolution 66(1): 438-439 [ web link].
  
  
• Nance, T. and L. Kubatko. 2013. Constructing an undergraduate biomath curriculum at a large univeristy, part I: Developing first year biomath coures at The Ohio State University. To appear in the MAA volume Undergraduate Mathematics for the Life Sciences: Processes, Models, Assessment, and Directions, edited by G. Ledder, J. P. Carpenter, and T. Comar, to appear Spring 2013.
  
  
• Kubatko, L., J. Best, T. Nance, and Y. Lou. 2013. Constructing an undergraduate biomath curriculum at a large univeristy, part II: Implementing first year biomath coures at The Ohio State University. To appear in the MAA volume Undergraduate Mathematics for the Life Sciences: Processes, Models, Assessment, and Directions, edited by G. Ledder, J. P. Carpenter, and T. Comar, to appear Spring 2013.
  
  

2012

• Boykin, L. M., K. Armstrong, L. Kubatko, and P. DeBarro. 2012. DNA barcoding invasive insects: Database roadblocks, Invertebrate Systematics 26: 506-514.
  
  
• Boykin, L., K. Armstrong, L. Kubatko, and P. DeBarro. 2012. Species delimitation and global biosecurity, Evolutionary Bioinformatics 8:1-37 [web link].

2011

• Gerard, D., H. L. Gibbs, and L. Kubatko. 2011. Estimating hybridization in the presence of coalescence using phylogenetic intraspecific sampling. BMC Evolutionary Biology,11: 291 [web link].
  
  
• Kubatko, L. S. and D. K. Pearl. 2011. Seeing the Trees in Your Terrace. Science 333 (6041): 411-412 [Reprint|Full text|Summary]
  
  
• Kubatko, L, HL Gibbs, and EW Bloomquist. 2011. Inferring species-level phylogenies and taxonomic distinctiveness using multi- locus data in Sistrurus rattlesnakes, Systematic Biology,60(4): 393-409 [web link].
  
  
• Fan, H. and L. S. Kubatko. 2011. Estimating Species Trees Using Approximate Bayesian Computation. Molecular Phylogenetics and Evolution, 59: 354-363 [web link].
  
  
• Roos, C., D. Zinner, L. S. Kubatko, C. Schwarz, M. Yang, D. Meyer, S. D. Nash, J. Xing, M. A. Batzer, M. Brameier, F. H. Leendertz, T. Ziegler, D. Perwitasari-Farajallah, T. Nadler, L. Walter, and M. Osterholz. 2011. Nuclear versus Mitochondrial DNA: Evidence for Hybridization in Colobine Monkeys, BMC Evolutionary Biology 11:77 [web link].

2010

• Boykin, LM, LS Kubatko, and TK Lowrey. 2010. Comparison of methods for rooting phylogenetic trees: A case study using Orcuttieae (Poaceae: Chloridoidea). Molecular Phylogenetics and Evolution 54: 687-700[web link].
  
  
• Huang, H, Q He, LS Kubatko, and LL Knowles. 2010. Sources of error for species-tree estimation: Impact of mutational and coalescent effects on accuracy and implications for choosing among different methods, Systematic Biology, 59(5): 573-583 [web link].
  
  
• Stone AC, Battistuzzi F, Kubatko LS, Perry GH, Trudeau E, Lin H & Kumar S. 2010. More reliable estimates of divergence times in Pan using complete mtDNA sequences and accounting for population structure. Philosophical Transactions of Royal Society B 365 (1556): 3277-3288 [web link].
  
  
• Hird, S. LS Kubatko and B. C. Carstens. 2010. Rapid and accurate species tree estimation for phylogeographic investigations using replicated subsampling. Molecular Phylogenetics and Evolution 57(2): 888-898 [web link].
  
  
• Estimating Species Trees: Practical and Theoretical Aspects, edited by L. L. Knowles and L. S. Kubatko, Wiley-Blackwell, 2010.
  
  Includes the following:
  
  
  • Knowles, L. L. and L. S. Kubatko. 2010. Estimating species trees: An introduction to concepts and models (Chapter 1, pgs. 1-14).
    
    
  • L. S. Kubatko and C. Meng. 2010. Accomodating hybridization in a multilocus phylogenetic framework (Chapter 6, pgs. 99-113).
    
    
  • L. S. Kubatko and H. L. Gibbs. 2010. Estimating species relationships and taxon distinctiveness in Sistrurus rattlesnakes using multilocus data (Chapter 12, pgs. 193-207).

2009

• Meng, C and LS Kubatko. 2009. Detecting hybrid speciation in the presence of incomplete lineage sorting using gene tree incongruence: A model, Theoretical Population Biology 75:35-45. [web link].
  
  
• Brock, G, W Beavis, and L Salter Kubatko. 2009. Fuzzy logic and related methods as a screening tool for detecting gene regulatory networks, Information Fusion 10:250-259 (special issue on Bioinformatics) [web link].
  
  
• Kubatko, LS. 2009. Modeling the past: A resource for the future (review of the book Coalescent Theory: An Introduction by John Wakeley), Trends in Ecology and Evolution 24(3): 125-126 [web link].
  
  
• Brock, G, V Pihur, and L Kubatko. 2009. Detecting gene regulatory networks from microarray data using fuzzy logic, pgs. 141-163, in Fuzzy Systems in Bioinformatics and Computational Biology, edited by Yaochu Jin and Lipo Wang, pages 141-164. Book info can be found here Download pdf here.
  
  
• Kubatko, L, BC Carstens, and LL Knowles. 2009. STEM: Species Tree Estimation using Maximum likelihood for gene trees under coalescence, Bioinformatics 25(7): 971-973 [web link].
  
  
• Liu, L, L Yu, L Kubatko, DK Pearl, and SV Edwards. 2009. Coalescent methods for estimating multilocus phylogenetic trees, Molecular Phylogenetics and Evolution 53(1): 320-328 [web link].
  
  
• Melman, SD, ML Steinauer, C Cunningham, LS Kubatko, IN Mwangi, MW Mutuku, DMS Karanja, DG Colley, C Black, WE Secor, N Barker, GM Mkoji, and ES Loker. 2009. Reduced susceptibility of naturally occurring Schistosoma mansoni to praziquantel following repeated exposures: origin, measurement and likelihood of persistence, PLoS Neglected Tropical Diseases 3(8): e504. doi:10.1371/journal.pntd.0000504 [web lihk].
  
  
• Kubatko, LS. 2009. Identifying Hybridization Events in the Presence of Coalescence via Model Selection, Systematic Biology 58(5): 478-488 [web link].

2008

• Efromovich, S and L Salter Kubatko. 2008. Coalescent time distributions in trees of arbitrary size, Statistical Applications in Genetics and Molecular Biology: Vol. 7 : Iss. 1, Art. 2, Available at: http://www.bepress.com/sagmb/vol7/iss1/art2.
  
  
• Shoff, ME, CE Joslin, EY Tu, L Kubatko, and PA Fuerst. 2008. Efficacy of contact lens systems against recent clinical and tap water Acanthamoeba isolates, Cornea 27(6): 713-719 .

2007

• Kubatko, L and J Degnan. 2007. Inconsistency of phylogenetic estimates from concatenated data under coalescence, Systematic Biology 56(1): 17-24. [ pdf ]
  
  
• Wilbur, A, L Salter Kubatko, J Feurstein, A Hurtado, K Hill, and A Stone. 2007. Vitamin D receptor gene polymorphisms and susceptibility to M. tuberculosis in Native Paraguayans, Tuberculosis 87: 329-337. [ pdf ]
  
  
• Kubatko, LS. 2007. Inference of Phylogenetic Trees, in "Tutorials in Mathematical Biosciences IV: Evolution and Ecology", A. Friedman (ed.), Springer-Verlag, pgs. 1-38.

2006 and earlier

• MJ Harmon, TL VanPool, RD Leonard, CS VanPool, and L Salter. 2006. Reconstructing the Flow of Information across Time and Space: A Phylogenet ic Analysis of Ceramic Traditions from Pre-Hispanic West Mexico, North Mexico, and the U.S. Southwest, in Mapping Our Ancestors: Phylogenetic Methods in Anthropol ogy and Prehistory, edited by Carl P. Lipo, Michael J. O'Brien, Stephen Shennan, and Mark Collard, pp. 209-229.
  
  
• Degnan, J and L Salter. 2005. Gene tree distributions under the coalescent process, Evolution 59(1): 24-37. [ pdf ]
  
  
• Gilchrist, M, L Salter, and A Wagner. 2004. A statistical framework for interpreting high-throughput proteomic datasets, Bioinformatics 20(5): 689-700. [ pdf ]
  
  
• Standberg, AKK and L Salter. 2004. A Comparison of Methods for Estimating the Transition:Transversion Ratio From DNA Sequences, Molecular Phylogenetics and Evolution 32(2): 495-503. [ pdf ]
  
  
• Salter, L. 2004. Review of The Phylogenetic Handbook: A Practical Approach to DNA and Protein Phylogeny (Edited by Marco Salemi and Anne-Mieke Vandamme. Cambridge, England: Cambridge University Press, 2003.), American Journal of Human Biology 16: 354-355.
  
  
• Powell, A, D Jacobson, L Salter, and D Natvig. 2003. Variation among natural isolates of Neurospora on small spatial scales, Mycologia 95: 809-819. [ pdf ]
  
  
• Pearl, D and L Salter. 2002. The Analysis of DNA Sequences, in Biostatistical Genetics and Genetic Epidemiology, edited by R. Elston, J. Olson, and L. Palmer, pp 217-227, John Wiley and Sons, New York.
  
  
• Frankel, W, J Tranovich, L Salter, G Bumgardner, and P Baker. 2002. The Optimal Number of Biopsies to Evaluate for Liver Transplantation, Liver Transplantation, 8(11): 1044-1050. [ pdf ]
  
  
• Wang, Q, L Salter, and D Pearl. 2002. Estimation of Evolutionary Parameters from Phylogenetic Trees, Journal of Molecular Evolution, 55(6): 684-695. [ pdf ]
  
  
• Salter, L and D Pearl. 2001. A Stochastic Search Strategy for Estimation of Maximum Likelihood Phylogenetic Trees, Systematic Biology 50(1): 7-17. [ pdf ]
  
  
• Salter, L. 2001. Complexity of the Likelihood Surface for a Large DNA Data Set, Systematic Biology 50(6): 970-978. [ pdf ]
  
  
• Turner, T, L Salter, and J Gold. 2001. Temporal-method Estimates of Ne From Highly Polymorphic Loci, Conservation Genetics 2: 297-308. [ pdf ]
  
  
• Salter, L. 2000. Algorithms for Phylogenetic Tree Reconstruction. Proceeding of the International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences, Vol. 2, pgs. 459-465.[ postscript ][ pdf ]