119 citations · 155 across the 10 of their papers we have counts for
10 papers
Lessons learned to boost a bioinformatics knowledge base reusability, the Bgee experience
Tarcisio Mendes de Farias, Julien Wollbrett, Marc Robinson-Rechavi +1
Background, enhancing interoperability of bioinformatics knowledge bases is a high priority requirement to maximize data reusability, and thus increase their utility such as the re…
Creation and unification of development and life stage ontologies for animals
Anne Niknejad, Christopher J. Mungall, David Osumi-Sutherland +2
With the new era of genomics, an increasing number of animal species are amenable to large-scale data generation. This had led to the emergence of new multi-species ontologies to a…
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data
Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova +4
The problem of natural language processing over structured data has become a growing research field, both within the relational database and the Semantic Web community, with signif…
Molecular evolution and gene function
Marc Robinson-Rechavi
One of the basic questions of phylogenomics is how gene function evolves, whether among species or inside gene families. In this chapter, we provide a brief overview of the problem…
Detecting patterns of species diversification in the presence of both rate shifts and mass extinctions
Sacha Laurent, Marc Robinson-Rechavi, Nicolas Salamin
Recent methodological advances are enabling better examination of speciation and extinction processes and patterns. A major open question is the origin of large discrepancies in sp…
Patterns of positive selection in seven ant genomes
Julien Roux, Eyal Privman, Sebastien Moretti +3
The evolution of ants is marked by remarkable adaptations that allowed the development of very complex social systems. To identify how ant-specific adaptations are associated with…
The hourglass and the early conservation models - co-existing evolutionary patterns in vertebrate development
Barbara Piasecka, Pawel Lichocki, Sebastien Moretti +2
Developmental constraints have been postulated to limit the space of feasible phenotypes and thus shape animal evolution. These constraints have been suggested to be the strongest…
gcodeml: A Grid-enabled Tool for Detecting Positive Selection in Biological Evolution
Sébastien Moretti, Riccardo Murri, Sergio Maffioletti +5
One of the important questions in biological evolution is to know if certain changes along protein coding genes have contributed to the adaptation of species. This problem is known…
Developmental constraints on vertebrate genome evolution
J. Roux, M. Robinson-Rechavi
Constraints in embryonic development are thought to bias the direction of evolution by making some changes less likely, and others more likely, depending on their consequences on o…
Rapid divergence of the ecdysone receptor in Diptera and Lepidoptera suggests coevolution between ECR and USP-RXR
François Bonneton, Dominique Zelus, Thomas Iwema +2
Ecdysteroid hormones are major regulators in reproduction and development of insects, including larval molts and metamorphosis. The functional ecdysone receptor is a heterodimer of…