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Post-doctoral position: metabolic networks open


The LABGeM team (CEA/Genoscope, CNRS UMR 8030, France) is developing integrated approaches which combines methods and databases for the discovery of new enzymatic activities:

  • The CanOE method, developed in collaboration with INRIA, combines genomic and metabolic contexts for the discovery of candidate genes for orphan enzymes (Smith et al., 2012).
  • A new representation of metabolism extends the notion of metabolic context to detect conserved reaction modules using networks of chemical transformations (Sorokina et al., in revision).

  • From a structural point of view, the ASMC method finds and compares catalytic pockets for the classification of enzymes within a family and detect key amino acids responsible for the substrate specificity (de Melo-Minardi and Bastard et al., 2010).
These methods were successfully applied in the study of protein families of unknown function to reveal their diversity of enzymatic functions (Bastard et al., 2014). An exhaustive analysis of orphan enzymes was also recently conducted (Sorokina et al., 2014). This work is supported by genomic and metabolic network data from MicroScope, an integrated platform dedicated to microbial genome analyses (Vallenet Within this framework, we are hiring a post-doctoral fellow for the development of innovative methods to explore metabolic networks and enzyme families. These methods will be based on data mining and graph approaches combining genomic and metabolic contexts. Applications will be conducted through the discovery of novel enzymes for the valorization of algal biomass (Blue Enzymes project, http://www.anr.fr/?Project=ANR-14-CE19-0020).

  • PhD degree in bioinformatics or computational biology
  • Previous experience with network analysis
  • Programming skills (C/C++, Python, Java) and in common biostatistical analyses
  • Team player, innovative and creative thinking, good oral and written communication skills

24 months, Post Doctoral position

Start: from September 2015 or later
Place: CEA, Genoscope UMR8030, LABGeM (Laboratory of Bioinformatics Analyses for
Genomics and Metabolism), Evry, France
Contact: David Vallenet, vallenet@genoscope.cns.fr
Publications: https://scholar.google.com/citations?user=rJNPLSAAAAAJ
Remuneration per month: from 2,850 €

Interested candidates should send their CV, statement of research interests, and contact information of at least 2 references to David Vallenet (vallenet @ genoscope.cns.fr).

posted 2015.07.15