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Opportunity: L'Oreal Research Chair in Digital Biology -- 5 available positions in bioinformatics / computational biology: 2 research professional positions, 3 doctoral positions @ Laval University -- Quebec, Canada
Submitted by Arnaud Droit; posted on Monday, August 01, 2016
BACKGROUND
The so-called 'omics' technologies (genomics, transcriptomics, proteomics, metabolomics, etc.) are powerful assets to understand biological mechanisms. However, these technologies generate a huge amount of heterogeneous data (Big Data). A new generation of bioinformatics tools is thus necessary to make optimal use of experimental data in multi-omic contexts.
The strategic goal of the L'Oreal Research Chair in Digital Biology is the development of bioinformatics tools and data analysis strategies for the treatment of multi-omic large datasets. Those tools will be developed in the context of multi-omics research on skin biological processes with the aim of contributing to the development of innovative skin and hair care products. The research chair is based on a collaboration between Laval University (Quebec, Canada) and L'Oreal's Research and Innovation department and is funded for the next five years.
A new research team will be formed to address the strategic goal. The team will be composed of two professional bioinformaticians / computational biologists and three doctoral candidates. Both the PhD candidates and the bioinformaticians will work in the Computational Biology Laboratory at the CHU de Québec (Laval University, Quebec) under the supervision of Dr Arnaud Droit. The new research team will specifically address the following problems in multi-omic contexts: 1) statistical problems related to the integration of data from heterogeneous experimental sources; 2) challenges related to optimal use of public datasets through data-mining and semantic web strategies; 3) challenges related to the visualization and interpretation of large biological datasets from heterogeneous sources.
Selected candidates will work with a dynamic group of bioinformaticians at the CHU de Québec Research Center and will have access to Compute Canada high performance computing (HPC) facilities. The bioinformatics group work in close collaboration with Compute Canada to port software tools to HPC infrastructure. The group also work in close collaboration with the various core facilities of the research center that offer data analysis services (including the NGS facility that just acquired 2 HiSeq 2500 and the proteomics facility).
RESPONSIBILITIES & REQUIREMENTS
Bioinformatician / Computation biologist positions:
Position 1: Management of the multi-omics bioinformatics infrastructure
Duties:
1. To manage raw data from various experimental sources (including mass spectrometers and sequencers)
2. To create and administrate data processing pipelines for quality control, data normalization and filtering
3. To manage annotation data repositories (including data from internal and public sources)
4. To optimize data processing pipelines and port them to HPC infrastructures
Requirements:
1. Master degree or PhD in bioinformatics, biostatistics or in a related field
2. Experience with multi-omics data processing
3. Software development experience
4. Familiarity with linux environments
5. Familiarity with Bash scripting
6. Proficiency with at least one other scripting language (perl, python, ruby ...)
7. Experience working on data analysis pipeline on HPC infrastructure
8. Knowledge of the R programming language and scripting in R is a plus.
9. Knowledge of low level programming languages or OOP languages is a plus.
Position 2: Development of strategies for analysis and visualization of multi-omics data
Duties:
1. To develop statistical analysis methods for multi-omic datasets
2. To develop statistical models for heterogeneous data
3. To develop bioinformatics tools for visualization and interpretation of biological big data
Requirements:
1. Master or PhD in statistics or biostatistics or equivalent experience
2. Experience in complex experimental design
3. Experience in NGS data analysis
4. Experience programming with visualisation libraries (D3.js, Shiny, etc.)
5. Experience with semantic web software is a plus.
6. Experience with data mining strategies is a plus.
For both positions, good communication skills, self-organisation skills and adaptability are required. A good knowledge of genomics would be a plus.
PhD positions 1 and 2:
The research project will be based on the development of new data analysis methods and strategies in big data/multi-omics context. The two candidate must have a master in bioinformatics or biostatistics. Candidates with a master degree in computer science or statistics plus a demonstrated knowledge of life sciences; or a master degree in life sciences with demonstrated programming skills will also be considered. In all cases, programming and mathematical skills are required. Knowledge of the R statistical language and scripting in R is a plus.
Requirements:
1. Experience analysing NGS data for epigenomics, transcriptomics or metagenomics studies
2. Familiarity with linux environments
3. Experience in bash scripting
4. Proficiency with at least one other scripting language (perl, python, ruby, ...)
5. Knowledge of R and of R scripting is a plus.
6. Experience developing using data visualization libraries (D3.js, Shiny) is a plus.
7. Experience in the administration of data analysis pipelines on HPC infrastructure is a plus.
PhD position 3:
The research project for the third PhD position will focus on the elucidation of skin/hair biological processes based on data analysis and data-mining. The candidate for this position will work in close collaboration with the two other positions by providing important feedback on the tools and strategies developed. The ideal candidate will have a master degree in life sciences (biology, biochemistry, bioinformatics or biostatistics) with a familiarity with interpretation and use of biological big data.
Requirements:
1. Experience in analysis of NGS data in the context of epigenomics, transcriptomics or metagenomics studies
2. Knowledge of public biological databases
3. Proficiency in at least one scripting language and knowledge of R is a plus.
4. Experience using data visualization tools for omics data is a plus.
TERMS
The duration of the position will be at least 5 years.
HOW TO APPLY
Candidates must send their presentation letter, CV and contact information to Dr Arnaud Droit (arnaud.droit[at]crchuq.ulaval.ca) and Dr Olivier Périn (operin[at]rd.loreal.com).
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