[CPM-SPIRE-L] 2 years computer science postdoc at Computational Biology Institute, France.

[Rivals Eric]

Dear Colleague,

We are looking for an enthusiastic and motivated post-doctoral fellow 
with a background in computer science and algorithms to investigate 
theoretically, as well as to conceive and develop novel algorithms for 
analysing sequence data coming from High Throughput Sequencing technologies.

With their huge throughput and scope of applications, Next Generation 
Sequencing (NGS) technologies are turning biology  into a data driven 
science. Many questions related to genome organisation and funtion can 
now be asked as computational questions and require large scale analysis 
on large volumes of sequence data. A key to scalability of used methods 
is to design sophisticated algorithms for processing this data and 
inferring biological knowledge. The IBC is a multidisciplinary institute 
with five collaborating axis of research, one of which is devoted to 
approaches for analysing sequencing data.

Overall topic: Practical algorithms and indexing data structures for NGS 
processing

For example, the following topics are of interest:
    - Designing methods for comparing sequences to a collection of 
similar genomes. Genomes from individual or populations from the same 
species usually differ by a limited number of positions. Hence, a 
succint representation of several of these genomes in a compact form in 
memory encode some reference and the differences from other genomes with 
respect to the reference one.
    - Novel approaches for large scale sequence assembly. Current genome 
assembly methods have strong limitations and are hindered by a varying  
level of sequencing depth. To solve these limitations it is promising to 
develop approaches able to exploit variable size of overlaps between the 
input sequences, without loosing the effectiveness of de Bruijn graph 
based solutions.

The position is available as soon as possible. The prospective candidate 
should send a CV and the name and e-mail contacts for 3 references to 
rivals at lirmm.fr. The official application will be made on the IBC 
website: http://www.ibc-montpellier.fr/

** Background and requirements
    - Background keywords: computer science, text algorithms, 
combinatorial algorithms, indexing techniques, data compression
    - Required: advanced knowledge in algorithmics, software development 
in C/C++
    - Required: interested in life sciences, eager to work in a team and 
to collaborate with scientists from other disciplines
    - Knowledge of French  is not required
    - Desired: strong publication record, good communication skills in 
English.
    - Appreciated: experience  in High Performance Computing or in 
genomics analyses
    - Offered: good working environment, dynamic team, research budget, 
access to meso-computing server, opportunities of local and 
international collaborations with highly qualified life scientists, 
fantastic region and nice living quality.

** Practical issues
- Duration: 24 months
- Salary: depend on experience, according official salary grid
- Social security and Health insurance are included
- Employer: Université de Montpellier, France
- Institute: Institut de Biologie Computationnelle
- Location: Montpellier, south of France
- contact: E. Rivals, rivals at lirmm.fr
- The official application will be made on the IBC website: 
http://www.ibc-montpellier.fr/open-positions

best regards
E. Rivals

-- 
Eric RIVALS (PhD) - rivals at lirmm.fr - www.lirmm.fr/~rivals
CNRS Research Director & Head of GDR Bioinformatique Moléculaire
LIRMM - UMR 5506 & Univ Montpellier 2 (CC 05016)
860 rue de St Priest - 34095 Montpellier cedex 5 FRANCE
Tel. (33 or 0 from France) 4 67 41 86 64
Fax. (33 or 0 from France) 4 67 41 85 00
http://www.gdr-bim.cnrs.fr


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