école doctorale mATiSSE présentée par Naeem Abbas Préparée à l'Unité Mixte de Recherche 6074 Institut de recherche en informatique et systèmes aléatoires Abstract The revolutionary advancements in the field of bioinformatics have opened new horizons in biological and pharmaceutical research. However, the existing bioinformatics tools are unable to meet the computational demands, due to the rece...

Over the past decade there has been a significant growth in bioinformatics databases, tools and resources. Although, bioinformatics is becoming more specific, increasing the number of bioinformatics-wares has made it difficult for researchers to find the most appropriate databases, tools or methods which match their needs. Our coordinated effort has been planned to establish a reference website...

We discuss how to build systems with sophisticated features based on a core set of bioinformatics tools. Beside from being the front-end server to the core analyses, such a system can manage users, bioinformatics content and shared data. Using tools available in the open-source community, we show how to build a system with such sophisticated features with a relatively minimal effort, especially...

Metabolomics is the global analysis of all or a large number of cellular metabolites. Like other functional genomics research, metabolomics generates large amounts of data. Handling, processing and analysis of this data is a clear challenge and requires specialized mathematical, statistical and bioinformatics tools. Metabolomics needs for bioinformatics span through data and information managem...

Pise is interface construction software for bioinformatics applications that run by command-line operations. It creates common, easy-to-use interfaces to these applications for the Web, or other uses. It is adaptable to new bioinformatics tools, and offers program chaining, Unix system batch and other controls, making it an attractive method for building and using your own bioinformatics web se...