Bioinformatician and Population Biologist

Resume posted by danlwarren in Scientific.

Desired position type: Any
Location: Horsfield Bay New South Wales, Australia

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Summary

I am a researcher working broadly in evolution, ecology, and conservation biology, currently on a Discovery Early Career Research Award at Macquarie University. In my spare time I do statistical consulting, data acquisition, and data analysis for government and private organizations. Spatial data is a particular specialty of mine, but I have a very broad skill base.

I have a Ph.D. in Population Biology from UC Davis, and have been awarded three internationally competitive postdoctoral fellowships. I have authored a number of software tools that are now standard approaches in phylogenetics and species distribution modeling, including AWTY, RWTY, and ENMTools.

Education

2003 – B.S. (Biology) Florida State University

2009 – Ph.D. (Population Biology) University of California, Davis. Advised by Michael Turelli and Peter C. Wainwright.

Experience

2014–2016 – DECRA research fellow, Macquarie University

2014–2015 – Statistical consultant, ACT State Ecologist

2012–2013 – Postdoctoral researcher with Marcel Cardillo and Lindell Bromham, Australian National University

2011 – Postdoctoral researcher with Camille Parmesan, University of Texas

2009–2011 – National Science Foundation Postdoctoral Fellow in Bioinformatics, University of Texas

2008 – Contracted by California Department of Fish and Game to model the effects of climate change on the availability of suitable habitat for species of special concern.

2006–2012 – Field data collection contractor, John Snow Institute / United States Coast Guard

2001-2003 – Undergraduate research assistant with Dr. David Swofford, Florida State University

1999 – Undergraduate research assistant with Dr. Doug Mock, University of Oklahoma.

1997 – Undergraduate research assistant with Dr. Pierre Neuenschwander, Oklahoma Medical Research Foundation.

 

PUBLICATIONS (Updated August 18 2016):

  1. R. Lanfear, X. Hua, and D.L. Warren. 2016. Estimating the effective sample size of tree topologies from Bayesian phylogenetic analyses. Genome Biology and Evolution. doi: 10.1093/gbe/evw171
  1. A. Dornburg, C. Lippi, S. Federman, J.A. Moore, D.L. Warren, T.L. Iglesias, M.C. Brandley, G.C. Watkins-Colwell, A.D. Lamb, and A. Jones. Accepted. Disentangling the influence of urbanization and invasion on endemic reptiles in tropical biodiversity hotspots: A case study of Phyllodactylus martini along an urban gradient in Curaçao. Bulletin of the Peabody Museum of Natural History.
  1. Cardillo, M., and D.L. Warren. Accepted, available now in Online Early. Analyzing patterns of spatial and niche overlap among species at multiple resolutions. Global Ecology and Biogeography.
  1. Mainali, K.P., D.L. Warren, K. Dhileepan, A. McConnachie, L. Strathie, G. Hassan, D. Karki, B.B. Shrestha, and C. Parmesan. 2015. Projecting future expansion of invasive species: Comparing and improving methodologies. Global Change Biology. doi: 10.1111/gcb.13038
  1. Hua, X., P. Cowman, D.L. Warren, and L Bromham. 2015. Longevity is linked to mitochondrial mutation rates in rockfish: a test using Poisson regression. Mol. Biol. Evol. Early version available online. doi: 10.1093/molbev/msv137
  1. Iglesias, T.L., A. Dornburg, M.C. Brandley, M.E. Alfaro, and D.L. Warren. 2015. Life in the unthinking depths: energetic constraints on encephalization in marine fishes. J. Evo. Bio 28:1080-1090. doi: 10.1111/jeb.12631
  1. Warren, D.L., M. Cardillo, D.F. Rosauer, and D.I. Bolnick. 2014. Mistaking geography for biology: inferring processes from species distributions*. Trends in Ecology and Evolution 29 (10), 572-580. doi: 10.1016/j.tree.2014.08.003
  1. Warren, D.L., A.N. Wright, S.N. Seifiert, and H.B. Shaffer. 2014. Incorporating model complexity and spatial sampling bias into ecological niche models of climate change risks faced by California vertebrate species of concern. Diversity and Distributions 20:334-343. doi: 10.1111/ddi.12160

 

  1. Warren, D.L. 2013. “Niche modeling”: That unpleasant sensation means it’s working. Trends in Ecology and Evolution 28:193-194. doi: 10.1016/j.tree.2013.02.003

 

  1. Dornburg, A., J.A. Moore, R. Webster, D.L. Warren, M.C. Brandley, T.L. Iglesias, P.C. Wainwright, and T.J. Near. 2012. Molecular phylogenetics of squirrelfishes and soldierfishes (Teleostei:Beryciformes:Holocentridae): reconciling more than 100 years of taxonomic confusion. Molecular Phylogenetics and Evolution 65:727-738. doi: 10.1016/j.ympev.2012.07.020

 

  1. Warren, D.L. 2012. In defense of “niche modeling”. Trends in Ecology and Evolution 27:497-500. doi: 10.1016/j.tree.2012.03.010

 

  1. Warren, D.L., and T. Iglesias (TLI listed as co-first author). 2012. No evidence for the “expensive tissue hypothesis” from an intraspecific study in a highly variable species. Journal of Evolutionary Biology 25:1226-1231. doi: 10.1111/j.1420-9101.2012.02503.x

 

  1. Brandley, M.C., R.L. Young, D.L. Warren, M.B. Thompson, and G.P. Wagner. 2012. 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. doi: 10.1093/gbe/evs013
  1. Dornburg, A., D. L. Warren, T. Iglesias, and M. C. Brandley. 2011. Natural history observations of the ichthyological and herpetological fauna on the island of Curacao (Netherlands). Bulletin of the Peabody Museum of Natural History 52:181–186. doi: 10.3374/014.052.0106

 

  1. Warren, D.L., and S.N. Seifert. 2011. Environmental niche modeling in Maxent: the importance of model complexity and the performance of model selection criteria. Ecological Applications 21:335-342. doi: 10.1890/10-1171.1
  1. Mueller, U.G., A.S. Mikheyeva, E. Hong, R. Sen, D.L. Warren, S.E. Solomon, H.D. Ishak, M. Cooper, J.L. Miller, K.A. Shaffer, and T.E. Juenger. 2011. Evolution of cold-tolerant fungi permits winter fungiculture by leafcutter ants at northern frontier of a tropical ant-fungus symbiosis. PNAS 108:4053-4056 doi:10.1073/pnas.1015806108
  1. Glor, R.E., and D.L. Warren. 2011. Testing the ecological basis of biogeographic boundaries. Evolution 65:673-683. doi: 10.1111/j.1558-5646.2010.01177.x
  1. Mandle, L., D.L. Warren, M.H. Hoffmann, A.T. Peterson, J. Schmitt, and E.J. von Wettberg. 2010. Conclusions about niche expansion in introduced Impatiens walleriana populations depend on method of analysis. PLoS ONE 5(12): e15297. doi:10.1371/journal.pone.0015297

 

  1. Warren, D.L., R.E. Glor, and M. Turelli. 2010. ENMTools: a toolbox for comparative studies of environmental niche models. Ecography 33:607-611. doi: 10.1111/j.1600-0587.2009.06142.x
  1. Nakazato, T., D.L. Warren, and L.C. Moyle. 2010. Ecological and geographic modes of species divergence in wild tomatoes. American Journal of Botany 97:680-693. doi: 10.3732/ajb.0900216

 

  1. Brandley, M.C., Warren, D.L. (DLW listed as co-first author), Leaché, A.D., & J.A. McGuire. 2009. Homoplasy and Clade Support. Systematic Biology 58:184-198. doi: 10.1093/sysbio/syp019

 

  1. Warren, D.L., R.E. Glor, and M. Turelli. 2008. Environmental niche identity versus conservatism: quantitative approaches to niche evolution. Evolution 62:2868-2883. doi: 10.1111/j.1558-5646.2008.00482.x

 

  1. Nylander, J., Wilgenbusch, J., Warren, D.L., & D. Swofford. 2008. AWTY (Are We There Yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics. Bioinformatics 24:581-583.

 

  1. Brandley, M.C., Leaché, A.D., Warren, D.L., & J.A. McGuire. 2006. Are unequal clade priors problematic for Bayesian phylogenetics?  Systematic biology 55:11, 138-146

 

  1. Warren, D.L., Morrissey, J.H., & Neuenschwander, P.F.  1999. Proteolysis of Blood Coagulation Factor VIII by the Factor VIIa-Tissue Factor Complex: Generation of an Inactive Factor VIII Cofactor.  Biochemistry 38:6529-6536.

 

Skills

  • R
  • Perl
  • GIS
  • Statistics
  • Bioinformatics
  • Phylogenetics
  • Evolution
  • Ecology
  • Amira
  • Avizo

Specialties

    data analysis, Data collection, GIS, R, Report generation, statistics

Spoken Languages

    English, Spanish

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