Olivier Francois

Summary

Country: France

Publications

  1. doi request reprint Principal component analysis under population genetic models of range expansion and admixture
    Olivier Francois
    Laboratoire Techniques de l Ingénierie Médicale et de la Complexité, Faculty of Medicine, University Joseph Fourier, Grenoble Institute of Technology, Centre National de la Recherche Scientifique UMR5525, La Tronche, France
    Mol Biol Evol 27:1257-68. 2010
  2. pmc Demographic history of european populations of Arabidopsis thaliana
    Olivier Francois
    Institut National Polytechnique de Grenoble, Grenoble, France
    PLoS Genet 4:e1000075. 2008
  3. pmc Bayesian clustering using hidden Markov random fields in spatial population genetics
    Olivier Francois
    TIMC, TIMB Department of Mathematical Biology, La Tronche, France
    Genetics 174:805-16. 2006
  4. ncbi request reprint Gaussian approximations for phylogenetic branch length statistics under stochastic models of biodiversity
    Olivier Francois
    TIMC TIMB Dept Math Biology, INP Grenoble, UJF CNRS, Faculte de Medecine, F38706 La Tronche, France
    Math Biosci 209:108-23. 2007
  5. ncbi request reprint apTreeshape: statistical analysis of phylogenetic tree shape
    Nicolas Bortolussi
    Team of Mathematical Biology TIMB, TIMC, Faculty of Medicine, F38706 La Tronche, France
    Bioinformatics 22:363-4. 2006
  6. ncbi request reprint On statistical tests of phylogenetic tree imbalance: the Sackin and other indices revisited
    Michael G B Blum
    TIMC TIMB, Faculte de Medecine, F38706 La Tronche Cedex, France
    Math Biosci 195:141-53. 2005
  7. doi request reprint Approximate Bayesian Computation (ABC) in practice
    Katalin Csilléry
    Laboratoire Techniques de l Ingénierie Médicale et de la Complexité, Centre National de la Recherche Scientifique UMR5525, Universite Joseph Fourier, 38706 La Tronche, France
    Trends Ecol Evol 25:410-8. 2010
  8. doi request reprint Spatial inference of admixture proportions and secondary contact zones
    Eric Durand
    Faculty of Medicine, Laboratoire des Techniques de 1 Ingénierie Médicale et de la Complexité, University Joseph Fourier, Grenoble IT, Group of Mathematical Biology, La Tronche, France
    Mol Biol Evol 26:1963-73. 2009
  9. doi request reprint Probabilistic analysis of a genealogical model of animal group patterns
    Eric Durand
    TIMB Group of Mathematical Biology, TIMC UMR 5525, Fac Med, Grenoble Universités, La Tronche Cedex, France
    J Math Biol 60:451-68. 2010
  10. ncbi request reprint Brownian models and coalescent structures
    Michael G B Blum
    Laboratoire Ecologie, Systematique et Evolution, Universite Paris Sud, Batiment 360, F91405 Orsay, France
    Theor Popul Biol 65:249-61. 2004

Detail Information

Publications16

  1. doi request reprint Principal component analysis under population genetic models of range expansion and admixture
    Olivier Francois
    Laboratoire Techniques de l Ingénierie Médicale et de la Complexité, Faculty of Medicine, University Joseph Fourier, Grenoble Institute of Technology, Centre National de la Recherche Scientifique UMR5525, La Tronche, France
    Mol Biol Evol 27:1257-68. 2010
    ..We propose that this surprising pattern is an outcome of the "allele surfing" phenomenon, which creates sectors of high allele-frequency differentiation that align perpendicular to the direction of the expansion...
  2. pmc Demographic history of european populations of Arabidopsis thaliana
    Olivier Francois
    Institut National Polytechnique de Grenoble, Grenoble, France
    PLoS Genet 4:e1000075. 2008
    ..However, the speed and time frame of the model also suggest that the migration of A. thaliana into Europe may have accompanied the spread of agriculture during the Neolithic transition...
  3. pmc Bayesian clustering using hidden Markov random fields in spatial population genetics
    Olivier Francois
    TIMC, TIMB Department of Mathematical Biology, La Tronche, France
    Genetics 174:805-16. 2006
    ..We illustrate and discuss the implementation issues with the Scandinavian brown bear and the human CEPH diversity panel data set...
  4. ncbi request reprint Gaussian approximations for phylogenetic branch length statistics under stochastic models of biodiversity
    Olivier Francois
    TIMC TIMB Dept Math Biology, INP Grenoble, UJF CNRS, Faculte de Medecine, F38706 La Tronche, France
    Math Biosci 209:108-23. 2007
    ..Under an appropriate normalization the model is shown to behave similarly as the coalescent, and the approximations given here are also valid in this context...
  5. ncbi request reprint apTreeshape: statistical analysis of phylogenetic tree shape
    Nicolas Bortolussi
    Team of Mathematical Biology TIMB, TIMC, Faculty of Medicine, F38706 La Tronche, France
    Bioinformatics 22:363-4. 2006
    ..One strength of the package is to include appropriate corrections of classical shape statistics as well as new tests based on the statistical theory of likelihood ratios...
  6. ncbi request reprint On statistical tests of phylogenetic tree imbalance: the Sackin and other indices revisited
    Michael G B Blum
    TIMC TIMB, Faculte de Medecine, F38706 La Tronche Cedex, France
    Math Biosci 195:141-53. 2005
    ..As an illustration, the tests are applied to the HIV-1 reconstructed phylogeny...
  7. doi request reprint Approximate Bayesian Computation (ABC) in practice
    Katalin Csilléry
    Laboratoire Techniques de l Ingénierie Médicale et de la Complexité, Centre National de la Recherche Scientifique UMR5525, Universite Joseph Fourier, 38706 La Tronche, France
    Trends Ecol Evol 25:410-8. 2010
    ..ABC can be a powerful tool to make inferences with complex models if these principles are carefully applied...
  8. doi request reprint Spatial inference of admixture proportions and secondary contact zones
    Eric Durand
    Faculty of Medicine, Laboratoire des Techniques de 1 Ingénierie Médicale et de la Complexité, University Joseph Fourier, Grenoble IT, Group of Mathematical Biology, La Tronche, France
    Mol Biol Evol 26:1963-73. 2009
    ..We also apply our approach to understand the population structure of the killifish, Fundulus heteroclitus, for which the algorithm uncovers a presumed contact zone in the Atlantic coast of North America...
  9. doi request reprint Probabilistic analysis of a genealogical model of animal group patterns
    Eric Durand
    TIMB Group of Mathematical Biology, TIMC UMR 5525, Fac Med, Grenoble Universités, La Tronche Cedex, France
    J Math Biol 60:451-68. 2010
    ..Computer simulations are also utilized to measure the extent to which the asymptotic approximation can be applied with confidence...
  10. ncbi request reprint Brownian models and coalescent structures
    Michael G B Blum
    Laboratoire Ecologie, Systematique et Evolution, Universite Paris Sud, Batiment 360, F91405 Orsay, France
    Theor Popul Biol 65:249-61. 2004
    ..The last approach consists of computing the likelihood by a Markov chain Monte Carlo sampling method. In the one-dimensional Brownian motion, this method seems less reliable than pseudomaximum-likelihood...
  11. pmc Matrilineal fertility inheritance detected in hunter-gatherer populations using the imbalance of gene genealogies
    Michael G B Blum
    Laboratoire TIMC TIMB, Faculte de Medecine, Grenoble, France
    PLoS Genet 2:e122. 2006
    ..One possible explanation for this result is that in hunter-gatherer populations, individuals belonging to large kin networks may benefit from stronger social support and may be more likely to have a large number of offspring...
  12. pmc Predictions of native American population structure using linguistic covariates in a hidden regression framework
    Flora Jay
    Laboratoire des Techniques de l Ingénierie Médicale et de la Complexité, Equipe Biologie Computationnelle et Mathématique, Faculte de Medecine, Universite Joseph Fourier, Grenoble, Centre National de la Recherche Scientifique, La Tronche, France
    PLoS ONE 6:e16227. 2011
    ..Here we investigate to which extent geography and languages can predict the genetic structure of Native American populations...
  13. ncbi request reprint Prediction of group patterns in social mammals based on a coalescent model
    Eric Durand
    TIMC, University Joseph Fourier, INP Grenoble, CNRS, Grenoble, France
    J Theor Biol 249:262-70. 2007
    ..The test is then applied to ecological data from social herbivores and carnivores. Our findings support the hypothesis that genetic relatedness is likely to predict group patterns when large mammals have few or no predators...
  14. pmc Testing for associations between loci and environmental gradients using latent factor mixed models
    Eric Frichot
    TIMC IMAG UMR 5525, Universite Joseph Fourier Grenoble, Centre National de la Recherche Scientifique, Grenoble, France
    Mol Biol Evol 30:1687-99. 2013
    ..We then apply these models to plant and human genetic data, identifying several genes with functions related to development that exhibit strong correlations with climatic gradients...
  15. pmc A statistical approach to estimating the strength of cell-cell interactions under the differential adhesion hypothesis
    Mathieu Emily
    TIMC TIMB, Universite Joseph Fourier, INP Grenoble, Faculty of Medicine, 38706 La Tronche Cedex, France
    Theor Biol Med Model 4:37. 2007
    ..The Differential Adhesion Hypothesis (DAH) is a theory of the organization of cells within a tissue which has been validated by several biological experiments and tested against several alternative computational models...
  16. doi request reprint Spatially explicit Bayesian clustering models in population genetics
    Olivier Francois
    Grenoble IT, Joseph Fourier University, CNRS UMR 5525, TIMC, Group of Computational and Mathematical Biology, 38706 La Tronche, France
    Mol Ecol Resour 10:773-84. 2010
    ..In contrast, admixture models are robust to an absence of admixture in the sample. We also give statistical and conceptual reasons why data should be explored using spatially explicit models that include admixture...