An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis

Systematic Biology

Volumn 42, Issue 2, 1993, Pages 182-192

  Hillis, David M ^a   Bull, James J ^a  

^a UNIVERSITY OF TEXAS AT AUSTIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 12044253190     PISSN: 10635157     EISSN: 1076836X     Source Type: Journal    
DOI: 10.1093/sysbio/42.2.182     Document Type: Article

References (16)

1. ALLARD, M. W., M. M. MIYAMOTO, 1992. Testing phylogenetic approaches with empirical data, as illustrated with the parsimony method. Mol. Biol. Evol. 9:778-786.
2. BULL, J. J., C. W. CUNNINGHAM, I. J. MOLINEUX, M. R. BADGETT, D. M. HILLIS, In press. Experimental molecular evolution of bacteriophage Evolution.
3. EFRON, B. 1979. Bootstrapping methods: Another look at the jackknife. Ann. Stat. 7:1-26.
4. EFRON, B. 1982. The jackknife, the bootstrap, and other resampling plans. Conf. Board Math. Sci. Soc. Ind. Appl. Math. 38:1-92.
5. EFRON, B. 1987. Better bootstrap confidence intervals. J. Am. Stat. Assoc. 82:171-185.
6. FELSENSTEIN, J. 1978. Cases in which parsimony or compatibility methods will be positively misleading. Syst. Zool. 27:401-410.
7. FELSENSTEIN, J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution 39:783-791. FELSENSTEIN, J., H. KISHINO, 1993. Is there some- thing wrong with the bootstrap on phylogenies? A reply to Hillis and Bull. Syst. Biol. 42:193-200.
8. HEDGES, S. B. 1992. The number of replications needed for accurate estimation of the bootstrap P value in phylogenetic studies. Mol. Biol. Evol. 9:366-369.
9. HEDGES, S. B., L. R. MAXON, 1993. A molecular perspective on lissamphibian phylogeny. Herpetol. Monogr. 7 (in press).
10. HILLIS, D. M., J. J. BULL, M. E. WHITE, M. R. BADGETT, I. J. MOLINEUX, 1992. Experimental phylogenetics: Generation of a known phylogeny. Science 255:589-592.
11. HILLIS, D. M., J. J. BULL, M. E. WHITE, M. R. BADGETT, I. J. MOLINEUX, 1993. Experimental approaches to phylogenetic analysis. Syst. Biol. 42:90-92.
12. HILLIS, D. M., J. HUELSENBECK, 1992. Signal, noise, and reliability in molecular phylogenetic analyses. J. Hered. 83:189-195.
13. PENNY, D., M. HENDY, 1986. Estimating the re- liability of evolutionary trees. Mol. Biol. Evol. 3:403-417.
14. SANDERSON, M. J. 1989. Confidence limits on phylogenies: The bootstrap revisited. Cladistics 5:113129.
15. SWOFFORD, D. L. 1990. PAUP: Phylogenetic analysis using parsimony, version 3.0. Illinois Natural History Survey, Champaign.
16. WHEELER, W. C, R. L. HONEYCUTT, 1988. Paired sequence difference in ribosomal RNAs: Evolution and phylogenetic implications. Mol. Biol. Evol. 5:90-96.