SOLstlS: Services Web et Infoservices en Protéomique Végétale

Diplôme : Maste

Evaluating Workflow Management Systems: A Bioinformatics Use Case

International audienceBiological knowledge discovery is a tedious task which relies on computationally intensive analyses to process huge volumes of data and metadata. This task can be facilitated by a well-designed workflow management system, capable of deploying and efficiently orchestrating the scientific analysis. However choosing the right workflow management system remains a critical challenge. In this study, we propose ten metrics for evaluating the efficiency of workflow management systems, and show how the Pegasus-mpi-cluster and Snakemake workflow management systems gave the best overall performance, closely followed by Nextflow

“At an Angle to the World”: Elsewhere in 20th-Century British Art

Ce numéro est issu des communications prononcées à l’occasion du colloque de la SEAC, « At an Angle to the World: Elsewhere in Twentieth-Century British Art » organisé à l’Université Toulouse 2 – le Mirail en octobre 2008. Nous adressons tous nos remerciements aux organisateurs de ce colloque. The articles collected in this volume developed from oral presentations originally delivered during the SEAC conference hosted by the Université Toulouse 2-le Mirail in October 2009. Our thanks go to the organisers of the conference who were instrumental in the publication of this volume

Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes

International audienceListeria monocytogenes (Lm) is a major human foodborne pathogen. Numerous Lm outbreaks have been reported worldwide and associated with a high case fatality rate, reinforcing the need for strongly coordinated surveillance and outbreak control. We developed a universally applicable genome-wide strain genotyping approach and investigated the population diversity of Lm using 1,696 isolates from diverse sources and geographical locations. We define, with unprecedented precision, the population structure of Lm, demonstrate the occurrence of international circulation of strains and reveal the extent of heterogeneity in virulence and stress resistance genomic features among clinical and food isolates. Using historical isolates, we show that the evolutionary rate of Lm from lineage I and lineage II is low (∼2.5 × 10-7 substitutions per site per year, as inferred from the core genome) and that major sublineages (corresponding to so-called 'epidemic clones') are estimated to be at least 50-150 years old. This work demonstrates the urgent need to monitor Lm strains at the global level and provides the unified approach needed for global harmonization of Lm genome-based typing and population biology