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1

Closing the gap between rocks and clocks using total-evidence dating

Ronquist, Fredrik, Lartillot, Nicolas, Phillips, Matthew J.

Journal:

Philosophical Transactions Biological Sciences

Year:

2016

Language:

english

File:

PDF, 857 KB

english, 2016

2

Expression patterns offork headandgoosecoidhomologues in the molluscPatella vulgatasupports the ancestry of the anterior mesendoderm across Bilateria

Nicolas Lartillot, Martine Le Gouar, André Adoutte

Journal:

Development Genes and Evolution

Year:

2002

Language:

english

File:

PDF, 485 KB

english, 2002

3

Detecting and Overcoming Systematic Errors in Genome-Scale Phylogenies

Rodríguez-Ezpeleta, Naiara, Brinkmann, Henner, Roure, Béatrice, Lartillot, Nicolas, Lang, B. Franz, Philippe, Hervé

Journal:

Systematic Biology

Year:

2007

Language:

english

File:

PDF, 1.69 MB

english, 2007

4

Animal evolution: the end of the intermediate taxa?

André Adoutte, Guillaume Balavoine, Nicolas Lartillot, Renaud de Rosa

Journal:

Trends in Genetics

Year:

1999

Language:

english

File:

PDF, 221 KB

english, 1999

5

Phylogenomics

Hervé Philippe, Frédéric Delsuc, Henner Brinkmann and Nicolas Lartillot

Journal:

Annual Review of Ecology Evolution and Systematics

Year:

2005

Language:

english

File:

PDF, 2.25 MB

english, 2005

6

Phylogenomics

Philippe, Hervé, Delsuc, Frédéric, Brinkmann, Henner, Lartillot, Nicolas

Journal:

Annual Review of Ecology Evolution and Systematics

Year:

2005

Language:

english

File:

PDF, 338 KB

english, 2005

7

Evolution of the Animals: A Linnean Tercentenary Celebration || Improvement of Molecular Phylogenetic Inference and the Phylogeny of Bilateria

Nicolas Lartillot and Hervé Philippe

Journal:

Philosophical Transactions Biological Sciences

Year:

2008

Language:

english

File:

PDF, 1.53 MB

english, 2008

8

Genomic data do not support comb jellies as the sister group to all other animals

Pisani, Davide, Pett, Walker, Dohrmann, Martin, Feuda, Roberto, Rota-Stabelli, Omar, Philippe, Hervé, Lartillot, Nicolas, Wörheide, Gert

Journal:

Proceedings of the National Academy of Sciences

Year:

2015

Language:

english

File:

PDF, 940 KB

english, 2015

9

A mixed relaxed clock model

Lartillot, Nicolas, Phillips, Matthew J., Ronquist, Fredrik

Journal:

Philosophical Transactions Biological Sciences

Year:

2016

Language:

english

File:

PDF, 1.13 MB

english, 2016

10

Improved Modeling of Compositional Heterogeneity Supports Sponges as Sister to All Other Animals

Feuda, Roberto, Dohrmann, Martin, Pett, Walker, Philippe, Hervé, Rota-Stabelli, Omar, Lartillot, Nicolas, Wörheide, Gert, Pisani, Davide

Journal:

Current Biology

Year:

2017

Language:

english

File:

PDF, 1.08 MB

english, 2017

11

Additional molecular support for the new chordate phylogeny

Frédéric Delsuc, Georgia Tsagkogeorga, Nicolas Lartillot, Hervé Philippe

Journal:

Year:

2008

Language:

english

File:

PDF, 226 KB

english, 2008

12

Parallel adaptations to high temperatures in the Archaean eon

Boussau, Bastien, Blanquart, Samuel, Necsulea, Anamaria, Lartillot, Nicolas, Gouy, Manolo

Journal:

Year:

2008

Language:

english

File:

PDF, 202 KB

english, 2008

13

Phylogenetic Analysis of the Wnt Gene Family: Insights from Lophotrochozoan Members

Benjamin Prud'homme, Nicolas Lartillot, Guillaume Balavoine, André Adoutte, Michel Vervoort

Journal:

Current Biology

Year:

2002

Language:

english

File:

PDF, 255 KB

english, 2002

14

The expression of a caudal homologue in a mollusc, Patella vulgata

Martine Le Gouar, Nicolas Lartillot, André Adoutte, Michel Vervoort

Journal:

Gene Expression Patterns

Year:

2003

Language:

english

File:

PDF, 205 KB

english, 2003

15

JOINT RECONSTRUCTION OF DIVERGENCE TIMES AND LIFE-HISTORY EVOLUTION IN PLACENTAL MAMMALS USING A PHYLOGENETIC COVARIANCE MODEL

Nicolas Lartillot, Frédéric Delsuc

Journal:

Year:

2012

Language:

english

File:

PDF, 1.10 MB

english, 2012

16

A maximum likelihood framework for protein design

Claudia L Kleinman, Nicolas Rodrigue, Cécile Bonnard, Hervé Philippe, Nicolas Lartillot

Journal:

BMC Bioinformatics

Year:

2006

Language:

english

File:

PDF, 1.07 MB

english, 2006

17

Evaluation of the models handling heterotachy in phylogenetic inference

Yan Zhou, Nicolas Rodrigue, Nicolas Lartillot, Hervé Philippe

Journal:

BMC Evolutionary Biology

Year:

2007

Language:

english

File:

PDF, 711 KB

english, 2007

18

Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model

Nicolas Lartillot, Henner Brinkmann, Hervé Philippe

Journal:

BMC Evolutionary Biology

Year:

2007

Language:

english

File:

PDF, 368 KB

english, 2007

19

Fast optimization of statistical potentials for structurally constrained phylogenetic models

Cécile Bonnard, Claudia L Kleinman, Nicolas Rodrigue, Nicolas Lartillot

Journal:

BMC Evolutionary Biology

Year:

2009

Language:

english

File:

PDF, 2.79 MB

english, 2009

20

Site interdependence attributed to tertiary structure in amino acid sequence evolution

Nicolas Rodrigue, Nicolas Lartillot, David Bryant, Hervé Philippe

Journal:

Year:

2005

Language:

english

File:

PDF, 216 KB

english, 2005

21

Mutation-selection models of coding sequence evolution with site-heterogeneous amino acid fitness profiles

Nicolas Rodrigue, Hervé Philippe, Nicolas Lartillot and David M. Hillis

Journal:

Proceedings of the National Academy of Sciences

Year:

2010

Language:

english

File:

PDF, 1.29 MB

english, 2010

22

Conjugate Gibbs Sampling for Bayesian Phylogenetic Models

Lartillot, Nicolas

Journal:

Journal of Computational Biology

Year:

2006

Language:

english

File:

PDF, 212 KB

english, 2006

23

The Red Queen Model of Recombination Hotspots Evolution in the Light of Archaic and Modern Human Genomes

Lesecque, Yann, Glémin, Sylvain, Lartillot, Nicolas, Mouchiroud, Dominique, Duret, Laurent, Coop, Graham

Journal:

Year:

2014

Language:

english

File:

PDF, 1.90 MB

english, 2014

24

Exploring Fast Computational Strategies for Probabilistic Phylogenetic Analysis

Rodrigue, Nicolas, Philippe, Hervé, Lartillot, Nicolas

Journal:

Systematic Biology

Year:

2007

Language:

english

File:

PDF, 395 KB

english, 2007

25

Multipolar Consensus for Phylogenetic Trees

Bonnard, Cécile, Berry, Vincent, Lartillot, Nicolas

Journal:

Systematic Biology

Year:

2006

Language:

english

File:

PDF, 951 KB

english, 2006

26

JOINT RECONSTRUCTION OF DIVERGENCE TIMES AND LIFE-HISTORY EVOLUTION IN PLACENTAL MAMMALS USING A PHYLOGENETIC COVARIANCE MODEL

Nicolas Lartillot and Frédéric Delsuc

Journal:

Year:

2012

Language:

english

File:

PDF, 3.46 MB

english, 2012

27

Reply to Halanych et al.: Ctenophore misplacement is corroborated by independent datasets

Pisani, Davide, Pett, Walker, Dohrmann, Martin, Feuda, Roberto, Rota-Stabelli, Omar, Philippe, Hervé, Lartillot, Nicolas, Wörheide, Gert

Journal:

Proceedings of the National Academy of Sciences

Year:

2016

Language:

english

File:

PDF, 514 KB

english, 2016

28

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

29

Statistical and Computational Challenges in Molecular Phylogenetics and Evolution || Phylogenetic Mixture Models for Proteins

Si Quang Le, Nicolas Lartillot and Olivier Gascuel

Journal:

Philosophical Transactions Biological Sciences

Year:

2008

Language:

english

File:

PDF, 2.03 MB

english, 2008

30

Exploring Fast Computational Strategies for Probabilistic Phylogenetic Analysis

Nicolas Rodrigue, Hervé Philippe and Nicolas Lartillot

Journal:

Systematic Biology

Year:

2007

Language:

english

File:

PDF, 2.24 MB

english, 2007

31

History Can Matter: Non-Markovian Behavior of Ancestral Lineages

Reed A. Cartwright, Nicolas Lartillot and Jeffrey L. Thorne

Journal:

Systematic Biology

Year:

2011

Language:

english

File:

PDF, 2.95 MB

english, 2011

32

Computing Bayes Factors Using Thermodynamic Integration

Nicolas Lartillot and Hervé Philippe

Journal:

Systematic Biology

Year:

2006

Language:

english

File:

PDF, 2.82 MB

english, 2006

33

Multipolar Consensus for Phylogenetic Trees

Cécile Bonnard, Vincent Berry and Nicolas Lartillot

Journal:

Systematic Biology

Year:

2006

Language:

english

File:

PDF, 1.55 MB

english, 2006

34

Detecting and Overcoming Systematic Errors in Genome-Scale Phylogenies

Naiara Rodríguez-Ezpeleta, Henner Brinkmann, Béatrice Roure, Nicolas Lartillot, B. Franz Lang and Hervé Philippe

Journal:

Systematic Biology

Year:

2007

Language:

english

File:

PDF, 2.25 MB

english, 2007

35

Detecting adaptation in protein-coding genes using a Bayesian site-heterogeneous mutation-selection codon substitution model

Rodrigue, Nicolas, Lartillot, Nicolas

Journal:

Molecular Biology and Evolution

Year:

2016

Language:

english

File:

PDF, 235 KB

english, 2016

36

Bayesian computation for statistical models with intractable normalizing constants

Atchadé, Yves F., Lartillot, Nicolas, Robert, Christian

Journal:

Brazilian Journal of Probability and Statistics

Year:

2013

Language:

english

File:

PDF, 500 KB

english, 2013

37

Detecting consistent patterns of directional adaptation using differential selection codon models

Sahar Parto,Nicolas Lartillot

Journal:

BMC Evolutionary Biology

Year:

2017

Language:

english

File:

PDF, 1.56 MB

english, 2017

38

The Red Queen model of recombination hot-spot evolution: a theoretical investigation

Latrille, Thibault, Duret, Laurent, Lartillot, Nicolas

Journal:

Philosophical Transactions Biological Sciences

Year:

2017

Language:

english

File:

PDF, 1.17 MB

english, 2017

39

Conditional Approximate Bayesian Computation, a new approach for across-site dependency in high-dimensional mutation-selection models

Laurin-Lemay, Simon, Rodrigue, Nicolas, Lartillot, Nicolas, Philippe, Hervé, Nielsen, Rasmus

Journal:

Molecular Biology and Evolution

Year:

2018

Language:

english

File:

PDF, 556 KB

english, 2018

40

Life history traits impact the nuclear rate of substitution but not the mitochondrial rate in isopods

Saclier, Nathanaëlle, François, Clémentine M, Konecny-Dupré, Lara, Lartillot, Nicolas, Guéguen, Laurent, Duret, Laurent, Malard, Florian, Douady, Christophe J, Lefébure, Tristan, Crandall, Keith

Journal:

Molecular Biology and Evolution

Year:

2018

Language:

english

File:

PDF, 743 KB

english, 2018

41

Correction: Molecular adaptation in Rubisco: Discriminating between convergent evolution and positive selection using mechanistic and classical codon models

Parto, Sahar, Lartillot, Nicolas

Journal:

Year:

2018

Language:

english

File:

PDF, 211 KB

english, 2018

42

Detecting adaptive convergent amino acid evolution

Rey, Carine, Lanore, Vincent, Veber, Philippe, Guéguen, Laurent, Lartillot, Nicolas, Sémon, Marie, Boussau, Bastien

Journal:

Philosophical Transactions Biological Sciences

Year:

2019

Language:

english

File:

PDF, 1.54 MB

english, 2019

43

From Inquilines to Gall Inducers: Genomic Signature of a Life-style Transition in Synergus Gall Wasps

Gobbo, Erik, Lartillot, Nicolas, Hearn, Jack, Stone, Graham N, Abe, Yoshihisa, Wheat, Christopher W, Ide, Tatsuya, Ronquist, Fredrik, Enard, David

Journal:

Genome Biology and Evolution

Year:

2020

File:

PDF, 1.49 MB

2020

44

Scalable Empirical Mixture Models That Account for Across-Site Compositional Heterogeneity

Schrempf, Dominik, Lartillot, Nicolas, SzÃ¶llÅsi, Gergely, Pupko, Tal

Journal:

Molecular Biology and Evolution

Year:

2020

File:

PDF, 913 KB

2020

45

A Bayesian mutation-selection framework for detecting site-specific adaptive evolution in protein-coding genes

Rodrigue, Nicolas, Latrille, Thibault, Lartillot, Nicolas, Pupko, Tal

Journal:

Molecular Biology and Evolution

Year:

2020

File:

PDF, 380 KB

2020