Mots-Clés

Metagenomic

Description

The bioinformatics laboratory of the research center of the CHU de Québec - Université Laval (CHUL) invites applications for a Bioinformatician post-doc position in Microbial Metagenomics (shotgun / 16S). This full-time fixed term position is for approximately 12 months (based on length of grant funding), with the possibility of extension. The Bioinformatician in Microbial Metagenomics will report directly to Arnaud Droit, principal investigator and director of the computational biology laboratory. The successful applicant will join an interdisciplinary team focused on developing and applying computational methods in microbial metagenomics, but also various other OMICs-type projects, especially in cancer research. The team uses state-of-the-art applications of high throughput sequencing to analyze patient cohorts, identify biomarker signatures, and identify bacterial sequences that could potentially serve as diagnostic markers. The Bioinformatician in microbial metagenomics will develop new methods and support the continued development of approaches for resolving genomes from metagenomes (16S and shotgun), performing comparative and functional genomics analyses, and curating pan-genomic sequence databases. The position will take place in a context of an international collaboration with a private partner. It will start as soon as possible. Salary will be commensurate with qualifications and experience.

Responsibilities:

Capacity of construction of automated bioinformatic pipeline in metagenomic analysis Capacity to produce a deliverable in time summarizing the different steps Capacity to generate microbial analysis figures (alpha beta diversities, barplot, PCA…) Capacity to perform differential analysis Having knowledge on the denovo reconstruction methodologies Having knowledge on pangenomic analysis Keep a technological watch in scientific literature
Propose new activities or new tools to test Prepares software packages (including source code, help documents/wikis, and web or GUI interfaces) for public dissemination Providing basic assistance to users in pipeline execution and interpretation of results. Provides bioinformatics support and training to research staff and trainees with varying computer science backgrounds

Qualifications:

PhD in a relevant area (Computer science, Bioinformatics) Understanding of concepts and principles of molecular biology and next-generation sequencing Practiced understanding of how to develop bioinformatics pipelines Experience with microbiome bioinformatic analysis tools Knowledge of at least one scripting language (i.e. Python) Fluency with Unix Proficiency with statistical language R Experience with data management and dataset manipulation Strong verbal and written communication skills (fluency in French or English is necessary) Excellent time management skills and the ability to work under pressure Demonstrated communication, organization, problem solving, and interpersonal skills Demonstrated ability to carry out research projects involving microbial sequence data Peer-reviewed publications in the field is an asset, or demonstrated ability to publish research work in peer-reviewed journals