Bioinformatics Job Openings
The CRG (
The CRG is one of the leading biological
research institutes in
Contact: Please send CV + Letter + Name of potential referees to Romina Garrido (Romina.Garrido@crg.es) and quote the reference of the position you are applying for. Post-doctoral salaries start at 25-30 K€ but can be adapted according to experience.
Deadline: 30/01/09
Pointers: www.crg.es, www.tcoffee.org/Jobs
Post-Doc -
Ref. CBL1
Systematic Benchmark of Bioinformatics
Predictive Tools
This position will be shared between the CBL
and the BGG. The Spanish Institute of Bioinformatics is currently setting up a
large scale benchmarking effort for the monitoring of bioinformatics resources.
The main duties of the candidate will be to centralize all existing resources
on this topic, and make them available to the community, either as collection
of links, packages corpuses of data or integrated tools. This work will be
carried out in collaboration with our partners at the CNIO in
Funding will be available for at least
3 years.
Post-Doc -
Ref. CBL2
Comparative Genomics
The CBL lab is looking for a post-doc to contribute to the development of multiple genome comparison tools within the T-Coffee framework. T-Coffee is a multiple sequenced alignment program based on the consistency algorithm originally described by Notredame, Higgins and Heringa (JMB, 2000). Today, this algorithm forms the basis of the most accurate multiple sequence aligners. The goal of this project is to extend the scope of T-Coffee so that it becomes able to deal with genomic data. One of the aims is to make the package able to incorporate low level alignments (as produced by regular model based aligners) and higher level genomics alignments. Another aim of this project will be to integrate the comparison of genomic diversity (CNVs and SNPs) within the multiple comparison frameworks. We are also planning to use the framework thus develop to define new benchmarking methods and explore the effect of sequencing strategies on genomic data interpretation.
The successful candidate should have a strong background in sequence analysis and computational biology with a practical knowledge of Perl, C, Java and R (or any languages with similar scopes). The candidate will also be expected to help setting up web services associated with the benchmarking tools developed in the context of this project.
Funding will be available for at least
3 years.
Pre-Doc -
Ref. CBL3
Comparative Genomics
A pre-doctoral position is also available within the context of the above-mentioned project. The successful candidate should have a master degree in genomics or bio-informatics, and a strong background in computational biology.
Funding will be available for at least
3 years.
Post-Doc -
Ref. CBL4
Comparative genomics for farm animals (Quantomics)
The CBL and BGG are both part of the Quantomics project an EU-sponsored consortium aiming at analyzing the genomic variability within farm animals (Cattle, Pig, Chicken). The main task of the candidate will be to use available tools in order to design an integrated comparative genomics approach suitable for analyzing the variability in the considered species (cow, chicken, pig). The candidate should have a very strong background in comparative genomics, and should be familiar with the most common tools for multiple genome comparison (lagan, pecan, TBA, Mauve…). The candidate should also be very skilled with scripting languages such as Perl and R and have an operational knowledge of the UNIX environment.
Funding will be available for at least
2 years.
Post-Doc -
Ref. BGG1
Bioinformatics for the melon project (Melonomics)
The BGG is part of the Melonomics project, a project sponsored by Genoma España to sequence the melon genome. Sequencing will be performed using a combination of the traditional BAC based approach, and the new sequencing technologies (454 and solexa).
The main task of the candidate will be to use available tools, as well as to develop appropriate tools for genome assembly and gene annotation. The candidate should have a very strong background in comparative genomics, and should be familiar with the most common tools for genome assembly and gene finding and annotation. The candidate should also be very skilled with scripting languages. A background in Plant Genomics is a plus.
Funding will be available for at least
2 years
Post-Doc -
Ref. BGG2
RNA reconstruction from data produced by
High Throughput Sequencing technologies.
A postdoctoral position is available to develop and apply computational methods
to reconstruct and characterize the RNA content of the cell from data produced
by high throughput sequencing technologies. Focus will be in quantification of RNA, and in the discovery of novel splice forms, as well as
in the understanding of the sequence determinants responsible for the splicing
patterns characteristic of particular cell type or condition. The research
project will be carried out in collaboration with the group of Juan Valcarcel, a leading expert in the regulation of splicing
at the CRG. Familiarity with UNIX/LINUX operating systems, as well as good
programming skills in C and scripting languages are necessary, as well as a
good statistical and mathematical background.
Bioinformatician -
Ref. BGP1
One bioinformatician
is needed to manage the data generated by the next generation sequencing
instruments at the CRG (currently one 454 and one solexa,
plus, at least, another solexa, arriving in
2009). The ideal candidate will be a computer scientist, or bioinformatician, with a phD relevant in the field and some additional
experience. We are looking for an individual with ample interests, since
at the CRG, next generation sequencing technologies are used for a variety of
purposes including ChipSeq, RNASeq,
digital expression, de novo genome sequencing, re-sequencing, detection
of copy number variants, etc. The candidate should have a strong background in
sequence analysis and computational biology with a practical knowledge of Perl,
C, Java and R
(or any languages with similar scopes).
Database Administrator -
Ref. DBA-0308
The Database Administrator (DBA) will be in charge of ensuring the proper maintenance of the public databases required for research purposes (e.g. PDB, GenBank, UniProt) and associated resources (e.g. ENSEMBL, ACEdb). He/she will also be responsible for setting up key databases for the institute (Genotyping, Genomic databases). The candidate should be familiar with MySQL, Oracle and be either a biologist or have experience in a biological research environment. The role will involve regular interactions with the various research groups to ensure that the main database needs are covered. The DBA will also design novel biological databases for internal and/or public usage and interact with the system administrator and the various groups to ensure a proper data storage policy. The ideal candidate will be an experienced DBA, familiar with the management of high throughput data and have a solid understanding of scripting (e.g. Perl, MySQL, php, Oracle).
Scientific Web Master - Ref. SWB-0308
The Scientific Web Master will be responsible for the scientific web services offered by the CRG to the scientific community. The CRG is a leader in the development and maintenance of several key scientific resources (geneid, T-Coffee, sgp, SelenoDB, U12db). The successful candidate will be responsible for designing a web framework in which all these projects can be made available to the community in a unified manner. His/her main task will be to design the framework needed for the development and the maintenance of the high impact web services produced by the various groups of the institute, and to organize the scientific content generated by the groups at the CRG. He/she will work in collaboration with the system administrator and the DBA, ensuring that web services make an optimal usage of the database and computational facilities. The ideal candidate will be an experienced web master, with several years of experience in supporting bioinformatics web services and have a proven track record in utilizing computer-intensive services (e.g. Database search, phylogeny, prediction). The ideal applicant will also be familiar with HPC and have solid programming experience in JAVA, Perl, php, apache, cgi scripting, and Oracle portal.