Download S. Cohen Boulakia

A database of modules
present in microbial proteomes
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
Evolution of E. coli paralogous proteins
• Biological concept
o Homologous modules in E. coli
• Aims
o Finding out all modules
o Grouping homologous modules
in families
modules
S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM)
Evolution of E. coli paralogous proteins
• Biological concept
o Homologous modules in E. coli
• Aims
o Finding out all modules
o Grouping homologous modules
in families
• Needs
o Storing the data
o Querying
S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM)
Evolution of E. coli paralogous proteins
• Biological concept
o Homologous modules in E. coli • Database
• Aims
o Finding out all modules
o Grouping homologous modules
in families
• Needs
o Database Schema
o DataBase Management
System : File Maker Pro
• Web Site
www-colipage.igmors.u-psud.fr
o Storing the data
o Querying
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
• Storing
o Homologous modules
paralogues
orthologues
• Aims
o Finding out all modules
o Grouping homologous modules
in families
o Measuring evolutionary
o very complex
data
o very numerous
• Asking
very expressive queries
• Providing
graphical representation
distance separating species
S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM)
We want to deal with…
However…
Out
Current Database Schema of date
Current DBMS
S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM)
S. Cohen Boulakia, Ch. Froidevaux, E. Waller (LRI) and B. Labedan (IGM)