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Sarah Cohen Boulakia, Christine Froidevaux, Emmanuel Waller

Sarah Cohen Boulakia, Christine Froidevaux, Emmanuel Waller. L aboratoire de R echerche en I nformatique, UMR CNRS 8623. Bernard Labedan. I nstitut de G énétique et de M icrobiologie, UMR CNRS 8621. Université Paris Sud, Orsay. A database of modules present in microbial proteomes.

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Sarah Cohen Boulakia, Christine Froidevaux, Emmanuel Waller

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

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

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

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

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

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 Salmonella Nitrospirae Nanoarchaeota However… Out of date Current DBMS Current Database Schema Photorhabdus Methanobacteria Spirochaetales S. Cohen Boulakia, Ch.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

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

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