Sarah Cohen Boulakia, Christine Froidevaux, Emmanuel Waller Bernard Labedan Université Paris Sud, Orsay Laboratoire de Recherche en Informatique, UMR CNRS.

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Presentation transcript:

Sarah Cohen Boulakia, Christine Froidevaux, Emmanuel Waller Bernard Labedan Université Paris Sud, Orsay Laboratoire de Recherche en Informatique, UMR CNRS 8623 Institut de Génétique et de Microbiologie, UMR CNRS 8621 A database of modules present in microbial proteomes

S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM) Evolution of E. coli paralogous proteins modules Biological concept Biological concept o Homologous modules in E. coli Aims Aims o Finding out all modules o Grouping homologous modules in families

S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM) Evolution of E. coli paralogous proteins Needs Needs o Storing the data o Querying Biological concept Biological concept o Homologous modules in E. coli Aims Aims o Finding out all modules o Grouping homologous modules in families

S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM) Evolution of E. coli paralogous proteins Database o Database Schema o DataBase Management System : File Maker Pro Web Site Web Site www-colipage.igmors.u-psud.fr Needs Needs o Storing the data o Querying Biological concept Biological concept o Homologous modules in E. coli Aims Aims o Finding out all modules o Grouping homologous modules in families

S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM) Biological concept Biological concept o Homologous modules o Measuring evolutionary distance separating species Needs Asking very expressive queries Providing graphical representation Now ? How to go from one genome to several genomes ? paraloguesorthologues Aims Aims o Finding out all modules o Grouping homologous modules in families data Storing Storing o very complex o very numerous

S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM) We want to deal with… Current DBMS Current Database Schema Out of dateHowever… Nanoarchaeota Methanobacteria Spirochaetales Nitrospirae Salmonella Photorhabdus

S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM) Nanoarchaeota Methanobacteria Spirochaetales Nitrospirae Salmonella Photorhabdus

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