Engineer in Bio-Computing position available at the Institute of Genomics – France
Environment:
The LABGeM team located at the Institute of Genomics of the French Atomic Energy Commission (CEA- Genoscope, Evry – FRANCE) is essentially composed of bio-IT specialists. The current fields of research revolve around two main scopes, namely expert annotation of procaryotic genomes and comparative genomics of prokaryotes in the broadest sense of the term. Due to its recognized expertise in the world of bacterial genomics, our laboratory establishes numerous collaborations especially within the framework of ANR calls (The French National Research Agency). To complete successfully one of our projects (ANR ReplicolScope), we are currently seeking for an engineer in bio-computing.
Project scope:
Constant increase in acquired resistance to antibiotics is a major problem of public health. In the case of Escherichia coli species, one of the ubiquitous opportunistic pathogen of Man and Animals, we are currently facing the emergence of Extended Spectrum Beta-lactamases (ESBL) capable of hydrolyzing all Beta-lactams but carbapenems and cephamycins. The goal of the *ReplicolScope* project is to better understand the interactions between plasmids harboring ESBL genes and various populations of E. coli in order to explain the evolutionary success of ESBL.
Missions:
The successful candidate will participate in *missions* assigned to the laboratory within the framework of the *Replicolscope* project: 1. setting up of a relational database containing sequences and other MetaData related to plasmids of Enterobacteria (public and locally sequenced), 2. performing syntactic and functional annotations of plasmidic sequences based on original strategies for the construction of gene models and on the protein families characterization. 3. integrating and performing comparative analyses of the data in order to target genomic regions for which expert annotation is required. 4. training of the partners of the project on the use of the platform MicroScope / ReplicoScope. The whole work will rely on the use and the extension of the MicroScope platform developed in our laboratory (further details at http://www.genoscope.cns.fr/agc/microscope).
Required skills and experiences:
The successful applicant will have: a Master degree in computer science, computational biology, or related field , a good knowledge of Prokaryote genomics, experience in tools devoted to genome analyses (comparative genomics, statistics), experience in oriented bioinformatics programming languages in UNIX environment (Bash, Perl, SQL, Java) and compiled languages (C/C++), relational databases and construction of computational pipelines.
Position:
Minimum one year fixed-term contract. Effective start date ASAP. Salary will depend on the candidate’s experience (minimum gross salary: 2200 euros/month).
Closing Date: *April 11 2012*. Send detailed CV and a cover letter along with names of 3 references to Claudine Médigue and Stéphane Cruveiller (cmedigue@genoscope.cns.fr) & Stéphane Cruveiller (scruveil@genoscope.cns.fr).