Phylogenetic comparative methods

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Related publications (29)

Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe

Jacques Fellay

HIV-1 set-point viral load-the approximately stable value of viraemia in the first years of chronic infection-is a strong predictor of clinical outcome and is highly variable across infected individuals. To better understand HIV-1 pathogenesis and the evol ...

Public Library Science2017

Contrasting processes drive alpha and beta taxonomic, functional and phylogenetic diversity of orthopteran communities in grasslands

François Gillet, Bertrand Fournier

Taxonomic, functional and phylogenetic diversities can respond differently to biotic and abiotic filters. However, biodiversity management tends to focus on a single index, generally taxonomic diversity, assuming a strong positive correlation among biodive ...

Elsevier Science Bv2017

New Genome Similarity Measures based on Conserved Gene Adjacencies

Bernard Moret, Shachi Shailesh Deshpande

Many important questions in molecular biology, evolution, and biomedicine can be addressed by comparative genomic approaches. One of the basic tasks when comparing genomes is the definition of measures of similarity (or dissimilarity) between two genomes, ...

Mary Ann Liebert2017

Multiple Assembly Rules Drive the Co-occurrence of Orthopteran and Plant Species in Grasslands: Combining Network, Functional and Phylogenetic Approaches

François Gillet, Bertrand Fournier

Understanding the factors underlying the co-occurrence of multiple species remains a challenge in ecology. Biotic interactions, environmental filtering and neutral processes are among the main mechanisms evoked to explain species co-occurrence. However, th ...

Frontiers Media Sa2016

Phylogenetic comparison of Desulfotomaculum species of subgroup 1a and description of Desulfotomaculum reducens sp.nov

Rizlan Bernier-Latmani, Manon Frutschi

A genome and physiological comparison was made of the type strains of Desulfotomaculum species belonging to subgroup 1a and of 'Desulfotomaculum reducens' strain MI-1. Phenotypically, 'Desulfotomaculum reducens' strain MI-1 can be distinguished from the ot ...

Society for General Microbiology2016

Red squirrels in the British Isles are infected with leprosy bacilli

Stewart Cole, Andrej Benjak, Charlotte Avanzi, Philippe Busso, Jérémie Piton, Chloé Marie Loiseau

Leprosy, caused by infection with Mycobacterium leprae or the recently discovered Mycobacterium lepromatosis, was once endemic in humans in the British Isles. Red squirrels in Great Britain (Sciurus vulgaris) have increasingly been observed with leprosy-li ...

American Association for the Advancement of Science2016

Variability in DPA and calcium content in the spores of Clostridium species

Rizlan Bernier-Latmani, Barbora Bártová, Imrich Barak, Zuzana Chromiková, Cornelia List, Jan Jamroskovic

Spores of a number of clostridia' species, and their resistance to thermal treatment is a major concern for the food industry. Spore resistance to wet heat is related to the level of spore hydration, which is inversely correlated with the content of calciu ...

Frontiers Media SA2016

A maximum-likelihood approach for building cell-type trees by lifting

Bernard Moret, Philipp Bucher, Yu Lin, Mingfu Shao, Nishanth Ulhas Nair, Paulina Grnarova, Laura Madeleine Hunter

Background: In cell differentiation, a less specialized cell differentiates into a more specialized one, even though all cells in one organism have (almost) the same genome. Epigenetic factors such as histone modifications are known to play a significant r ...

2016

Network Alignment: Theory, Algorithms, and Applications

Ehsan Kazemi

Networks are central in the modeling and analysis of many large-scale human and technical systems, and they have applications in diverse fields such as computer science, biology, social sciences, and economics. Recently, network mining has been an active a ...

EPFL2016

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