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1

Experimental taphonomy of embryo preservation in a Cenozoic brooding bivalve

MICHAEL P. RUSSELL, JOHN P. HUELSENBECK, DAVID R. LINDBERG

Journal:

Year:

1992

Language:

english

File:

PDF, 1.06 MB

english, 1992

2

Comparing the Stratigraphic Record to Estimates of Phylogeny

John P. Huelsenbeck

Journal:

Year:

1994

Language:

english

File:

PDF, 1.39 MB

english, 1994

3

Maximum Likelihood Estimation of Phylogeny Using Stratigraphic Data

John P. Huelsenbeck and Bruce Rannala

Journal:

Year:

1997

Language:

english

File:

PDF, 821 KB

english, 1997

4

Base Compositional Bias and Phylogenetic Analyses: A Test of the “Flying DNA” Hypothesis

Ronald A. Van Den Bussche, Robert J. Baker, John P. Huelsenbeck, David M. Hillis

Journal:

Molecular Phylogenetics and Evolution

Year:

1998

Language:

english

File:

PDF, 136 KB

english, 1998

5

Bayesian Estimation of Positively Selected Sites

John P. Huelsenbeck, Kelly A. Dyer

Journal:

Journal of Molecular Evolution

Year:

2004

Language:

english

File:

PDF, 243 KB

english, 2004

6

Phylogeny, Genome Evolution, and Host Specificity of Single-Stranded RNA Bacteriophage (Family Leviviridae)

Jonathan P. Bollback, John P. Huelsenbeck

Journal:

Journal of Molecular Evolution

Year:

2001

Language:

english

File:

PDF, 395 KB

english, 2001

7

A BAYESIAN FRAMEWORK FOR THE ANALYSIS OF COSPECIATION

John P. Huelsenbeck, Bruce Rannala, Bret Larget

Journal:

Year:

2000

Language:

english

File:

PDF, 278 KB

english, 2000

8

DETECTING CORRELATION BETWEEN CHARACTERS IN A COMPARATIVE ANALYSIS WITH UNCERTAIN PHYLOGENY

John P. Huelsenbeck, Bruce Rannala

Journal:

Year:

2003

Language:

english

File:

PDF, 275 KB

english, 2003

9

RATES AND PATTERNS IN THE EVOLUTION OF SNAKE-LIKE BODY FORM IN SQUAMATE REPTILES: EVIDENCE FOR REPEATED RE-EVOLUTION OF LOST DIGITS AND LONG-TERM PERSISTENCE OF INTERMEDIATE BODY FORMS

Matthew C. Brandley, John P. Huelsenbeck, John J. Wiens

Journal:

Year:

2008

Language:

english

File:

PDF, 1.58 MB

english, 2008

10

Support for dental HIV transmission

Hillis, David M., Huelsenbeck, John P.

Journal:

Year:

1994

File:

PDF, 277 KB

1994

11

Variation in the Pattern of Nucleotide Substitution Across Sites

Huelsenbeck, John P., Nielsen, Rasmus

Journal:

Journal of Molecular Evolution

Year:

1999

Language:

english

File:

PDF, 315 KB

english, 1999

12

Bayesian Inference of the Metazoan Phylogeny: A Combined Molecular and Morphological Approach

Henrik Glenner, Anders J. Hansen, Martin V. Sørensen, Frederik Ronquist, John P. Huelsenbeck, Eske Willerslev

Journal:

Current Biology

Year:

2004

Language:

english

File:

PDF, 435 KB

english, 2004

13

Bayesian Inference of the Metazoan Phylogeny: A Combined Molecular and Morphological Approach

Henrik Glenner, Anders J. Hansen, Martin V. Sørensen, Frederik Ronquist, John P. Huelsenbeck, Eske Willerslev

Journal:

Current Biology

Year:

2005

Language:

english

File:

PDF, 117 KB

english, 2005

14

[Statistics for Biology and Health] Statistical Methods in Molecular Evolution Volume 585 || Bayesian Analysis of Molecular Evolution Using MrBayes

Huelsenbeck, John P.

Year:

2005

Language:

english

File:

PDF, 441 KB

english, 2005

15

Reply from J.P. Huelsenbeck, J.J. Bull and C.W. Cunningham

John P. Huelsenbeck, J.J. Bull, Clifford W. Cunningham

Journal:

Trends in Ecology & Evolution

Year:

1996

Language:

english

File:

PDF, 176 KB

english, 1996

16

Phylogeny Estimation and Hypothesis Testing Using Maximum Likelihood

John P. Huelsenbeck and Keith A. Crandall

Journal:

Annual Review of Ecology and Systematics

Year:

1997

Language:

english

File:

PDF, 1.95 MB

english, 1997

17

Tree-Length Distribution Skewness: An Indicator of Phylogenetic Information

John P. Huelsenbeck

Journal:

Systematic Zoology

Year:

1991

Language:

english

File:

PDF, 2.15 MB

english, 1991

18

PHYLOGENY ESTIMATION AND HYPOTHESIS TESTING USING MAXIMUM LIKELIHOOD

Huelsenbeck, John P., Crandall, Keith A.

Journal:

Annual Review of Ecology and Systematics

Year:

1997

Language:

english

File:

PDF, 300 KB

english, 1997

19

Do Phylogenetic Methods Produce Trees with Biased Shapes?

John P. Huelsenbeck and Mark Kirkpatrick

Journal:

Year:

1996

Language:

english

File:

PDF, 922 KB

english, 1996

20

Bayesian Phylogenetic Analysis of Combined Data

NYLANDER, JOHAN, RONQUIST, FREDRIK, HUELSENBECK, JOHN, NIEVES-ALDREY, JOS�

Journal:

Systematic Biology

Year:

2004

Language:

english

File:

PDF, 663 KB

english, 2004

21

Partitioning and Combining Data in Phylogenetic Analysis

J. J. Bull, John P. Huelsenbeck, Clifford W. Cunningham, David L. Swofford and Peter J. Waddell

Journal:

Systematic Biology

Year:

1993

Language:

english

File:

PDF, 1.42 MB

english, 1993

22

Statistical Tests of Host-Parasite Cospeciation

John P. Huelsenbeck, Bruce Rannala and Ziheng Yang

Journal:

Year:

1997

Language:

english

File:

PDF, 1.74 MB

english, 1997

23

Detecting Correlation between Characters in a Comparative Analysis with Uncertain Phylogeny

John P. Huelsenbeck and Bruce Rannala

Journal:

Year:

2003

Language:

english

File:

PDF, 1.97 MB

english, 2003

24

Rates and Patterns in the Evolution of Snake-Like Body Form in Squamate Reptiles: Evidence for Repeated Re-Evolution of Lost Digits and Long-Term Persistence of Intermediate Body Forms

Matthew C. Brandley, John P. Huelsenbeck and John J. Wiens

Journal:

Year:

2008

Language:

english

File:

PDF, 5.02 MB

english, 2008

25

A Bayesian Framework for the Analysis of Cospeciation

John P. Huelsenbeck, Bruce Rannala and Bret Larget

Journal:

Year:

2000

Language:

english

File:

PDF, 1.43 MB

english, 2000

26

Potential Applications and Pitfalls of Bayesian Inference of Phylogeny

Miller, Richard E., Ronquist, Fredrik, Huelsenbeck, John P., Larget, Bret

Journal:

Systematic Biology

Year:

2002

Language:

english

File:

PDF, 226 KB

english, 2002

27

Stochastic Mapping of Morphological Characters

Huelsenbeck, John P., Nielsen, Rasmus, Bollback, Jonathan P.

Journal:

Systematic Biology

Year:

2003

Language:

english

File:

PDF, 769 KB

english, 2003

28

Statistical Assignment of DNA Sequences Using Bayesian Phylogenetics

Munch, Kasper, Boomsma, Wouter, Huelsenbeck, John, Willerslev, Eske, Nielsen, Rasmus

Journal:

Systematic Biology

Year:

2008

Language:

english

File:

PDF, 133 KB

english, 2008

29

Systematic Bias in Phylogenetic Analysis: Is the Strepsiptera Problem Solved?

John P. Huelsenbeck

Journal:

Systematic Biology

Year:

1998

Language:

english

File:

PDF, 2.06 MB

english, 1998

30

Empirical and Hierarchical Bayesian Estimation of Ancestral States

P. Huelsenbeck, Jonathan P. Bollbac, John

Journal:

Systematic Biology

Year:

2001

Language:

english

File:

PDF, 511 KB

english, 2001

31

Geographic Origin of Human Mitochondrial DNA: Accommodating Phylogenetic Uncertainty and Model Comparison

Huelsenbeck, John P., Imennov, Nikita S.

Journal:

Systematic Biology

Year:

2002

Language:

english

File:

PDF, 199 KB

english, 2002

32

A Nonparametric Method for Accommodating and Testing Across-Site Rate Variation

Huelsenbeck, John, Suchard, Marc

Journal:

Systematic Biology

Year:

2007

Language:

english

File:

PDF, 206 KB

english, 2007

33

DETECTING CORRELATION BETWEEN CHARACTERS IN A COMPARATIVE ANALYSIS WITH UNCERTAIN PHYLOGENY

Huelsenbeck, John P., Rannala, Bruce

Journal:

Year:

2003

Language:

english

File:

PDF, 284 KB

english, 2003

34

Frequentist Properties of Bayesian Posterior Probabilities of Phylogenetic Trees Under Simple and Complex Substitution Models

Huelsenbeck, John, Rannala, Bruce

Journal:

Systematic Biology

Year:

2004

Language:

english

File:

PDF, 457 KB

english, 2004

35

Inferring the Root of a Phylogenetic Tree

Huelsenbeck, John P., Bollback, Jonathan P., Levine, Amy M.

Journal:

Systematic Biology

Year:

2002

Language:

english

File:

PDF, 193 KB

english, 2002

36

Effect of Nonindependent Substitution on Phylogenetic Accuracy

Nielsen, John P. Huelsenbeck, Rasmus

Journal:

Systematic Biology

Year:

1999

Language:

english

File:

PDF, 230 KB

english, 1999

37

Frequent Inconsistency of Parsimony Under a Simple Model of Cladogenesis

Huelsenbeck, John P., Lander, Katherine M.

Journal:

Systematic Biology

Year:

2003

Language:

english

File:

PDF, 117 KB

english, 2003

38

Bias in Phylogenetic Estimation and Its Relevance to the Choice between Parsimony and Likelihood Methods

Swofford, David L., Waddell, Peter J., Huelsenbeck, John P., Foster, Peter G., Lewis, Paul O., Rogers, James S.

Journal:

Systematic Biology

Year:

2001

Language:

english

File:

PDF, 394 KB

english, 2001

39

Empirical and Hierarchical Bayesian Estimation of Ancestral States

Huelsenbeck, John P., Bollback, Jonathan P.

Journal:

Systematic Biology

Year:

2001

Language:

english

File:

PDF, 511 KB

english, 2001

40

A Bayesian Perspective on a Non-parsimonious Parsimony Model

Huelsenbeck, John, Ane, Cecile, Larget, Bret, Ronquist, Fredrik

Journal:

Systematic Biology

Year:

2008

Language:

english

File:

PDF, 3.49 MB

english, 2008

41

Comparative Performance of Bayesian and AIC-Based Measures of Phylogenetic Model Uncertainty

Alfaro, Michael, Huelsenbeck, John

Journal:

Systematic Biology

Year:

2006

Language:

english

File:

PDF, 1.23 MB

english, 2006

42

A BAYESIAN FRAMEWORK FOR THE ANALYSIS OF COSPECIATION

Huelsenbeck, John P., Rannala, Bruce, Larget, Bret

Journal:

Year:

2000

Language:

english

File:

PDF, 287 KB

english, 2000

43

Hobgoblin of phylogenetics?

Hillis, David M., Huelsenbeck, John P., Swofford, David L

Journal:

Year:

1994

File:

PDF, 303 KB

1994

44

Taxon Sampling and the Accuracy of Large Phylogenies

Bruce Rannala, John P. Huelsenbeck, Ziheng Yang and Rasmus Nielsen

Journal:

Systematic Biology

Year:

1998

Language:

english

File:

PDF, 1023 KB

english, 1998

45

Bias in Phylogenetic Estimation and Its Relevance to the Choice between Parsimony and Likelihood Methods

David L. Swofford, Peter J. Waddell, John P. Huelsenbeck, Peter G. Foster, Paul O. Lewis and James S. Rogers

Journal:

Systematic Biology

Year:

2001

Language:

english

File:

PDF, 658 KB

english, 2001

46

When are Fossils better than Extant Taxa in Phylogenetic Analysis?

John P. Huelsenbeck

Journal:

Systematic Zoology

Year:

1991

Language:

english

File:

PDF, 1.51 MB

english, 1991

47

Stochastic Mapping of Morphological Characters

Huelsenbeck, John P., Nielsen, Rasmus, Bollback, Jonathan P.

Journal:

Systematic Biology

Year:

2003

Language:

english

File:

PDF, 769 KB

english, 2003

48

RevBayes: Bayesian Phylogenetic Inference Using Graphical Models and an Interactive Model-Specification Language

Höhna, Sebastian, Landis, Michael J., Heath, Tracy A., Boussau, Bastien, Lartillot, Nicolas, Moore, Brian R., Huelsenbeck, John P., Ronquist, Fredrik

Journal:

Systematic Biology

Year:

2016

Language:

english

File:

PDF, 1008 KB

english, 2016

49

Effect of Nonindependent Substitution on Phylogenetic Accuracy

John P. Huelsenbeck and Rasmus Nielsen

Journal:

Systematic Biology

Year:

1999

Language:

english

File:

PDF, 1.29 MB

english, 1999

50

Is the Felsenstein Zone a Fly Trap?

John P. Huelsenbeck

Journal:

Systematic Biology

Year:

1997

Language:

english

File:

PDF, 763 KB

english, 1997