Papers/Talks

This page is devoted to papers and talks that are closely tied to this project (the products of the funded work and the exploratory research that we conducted when planning and writing the proposal).

We are working on a page with an annotated bibliography of closely related literature. We just started that, so there is not much posted there, yet.

Papers

  1. Tracy A. Heath, John P. Huelsenbeck, and Tanja Stadler. (2013) “The Fossilized Birth-Death Process for coherent calibration of divergence-time estimates“. PNAS. 111 (29) E2957–E2966.
  2. Heath, T.A. and B.R. Moore. 2014. “Bayesian inference of species divergence times.” Chapter 13 of Bayesian Phylogenetics: Methods, Algorithms, and Applications edited by  Chen, M.-H., L. Kuo, and P.O. Lewis. Chapman & Hall/CRC. (invited book chapter). pp 277-318
  3. Holder, M. T., P. O. Lewis, D. L. Swofford, and D. Bryant 2014. “Variable tree topology stepping-stone marginal likelihood estimation.” Chapter 5 Bayesian Phylogenetics: Methods, Algorithms, and Applications edited by  Chen, M.-H., L. Kuo, and P.O. Lewis. Chapman & Hall/CRC. (invited book chapter). pp 96-111.
  4. Höhna, S., T.A. Heath, B. Boussau, M.J. Landis, F. Ronquist, and J.P. Huelsenbeck. “Probabilistic graphical model representation in phylogenetics.Systematic Biology. 63(5):753–77.
  5. Michelle M. Casey and Bruce S. Lieberman (2014) “Beyond memorization: an intermediate-level paleontology activity that integrates anatomy, ecology, and macroevolutionary theory using trilobitesEvolution: Education and Outreach.7:20

Presentations

  1. Tracy A. Heath. November 14, 2013 (10 AM Pacific) Phyloseminar Series on Integrating Fossils into Phylogenies (online seminar).
  2. Lieberman, B. S. 2013. Adaptive radiations in the context of macroevolutionary theory. Geological Society of America Annual Meeting, Denver, CO, Abstracts with Programs, https://gsa.confex.com/gsa/2013AM/webprogram/Paper228577.html
  3. Tracy A. Heath, John P. Huelsenbeck, and Tanja Stadler. “The Fossilized Birth-Death Process: A Coherent Model of Fossil Calibration for Bayesian Divergence Time Estimation.” Oral presentation at the Annual Meeting of the Society for the Study of Evolution, Society of Systematic Biologists, and the American Society of Naturalists. Snowbird, Utah. Sunday, June 23, 2013.
  4. Mark T. Holder and Jordan M. Koch. “The statistical and informatics challenges posed by ascertainment biases in phylogenetic data collection” Lightning Talk at iEvoBio. June 26, 2013.

Some recent relevant papers/abstracts by project members that were completed before this grant began

  1. Gapp, I. W., M. T. Holder, and B. S. Lieberman. 2012. Comparing and contrasting parsimony and maximum likelihood approaches to paleontological phylogenetics using trilobites as a model system. Geological Society of America Annual Meeting, Charlotte, NC, Abstracts with Programs.
  2. Koch JM and M. T. Holder. 2012. An Algorithm for Calculating the Probability of Classes of Data Patterns on a Genealogy. PLOS Currents Tree of Life.