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Reference : UMR8199-HELDEG0-017
Workplace : LILLE,LILLE
Date of publication : Thursday, October 08, 2020
Type of Contract : FTC Scientist
Contract Period : 36 months
Expected date of employment : 1 January 2021
Proportion of work : Full time
Remuneration : Between 2675 et 3805 euros brut per month
Desired level of education : 5-year university degree
Experience required : 1 to 4 years
A post-doctoral position is available at the European Genomic Institute for Diabetes (UMR 8199 CNRS, INSERM, Institut Pasteur de Lille, CHU Lille, Université Lille) in the “Microbiome and Metabolome in Cardiometabolism” group supervised by Prof. Marc-Emmanuel Dumas, in Lille, France.
The successful candidate will be responsible for developing and implementing innovative chemoinformatic and chemometric workflows “from mass spectrometer to paper” for high-throughput high-resolution accurate mass-based metabolomic data to investigate the role of microbial metabolites in cardiometabolism, to efficiently mine and analyse LC-MS-based metabolomic data, in conjunction with host genetics and metagenomics.
He/She will contribute to the development of a searchable MS database of pure standards and interfacing it with with spectral information from biological samples through automated peak-picking and spectral matching functionalities, and downstream statistical and pathway analysis.
The objective is to develop and apply a comprehensive chemoinformatic infrastructure for analysis of HRMS metabolomic data, focussing in particular the role of the human microbiome in cardiometabolism.
The successful candidate will overview the handling and processing of LC-MS data generated by the Team:
• Management of project data
• Development of data pre-processing methodologies for untargeted metabolic profiles
• Development of chemoinformatic workflows to aid standards matching and structural assignment
• Implementation of statistical and chemometric analyses
• Implementation of molecular networking analyses through GNPS
He/She will be responsible for data processing and scientific dissemination of results (drafting of scientific articles in English and participation in conferences). The successful candidate will play a role in influencing the project: design of workflow, optimisation and benchmarking, prioritisation of projects, interpretation of results.
The candidate will:
• hold PhD / MEng in computational chemistry, chemometrics, chemoinformatics or similar subject
• have experience in design of spectral databases in various environments
•have experience in pre-processing mass spectrometry data
• have experience in chemometrics and univariate statistics
• have knowledge of current chemometric analysis workflows
•have knowledge of MS-based structural assignment
• have knowledge of metabolome mining
• master the English language (written and spoken)
• have an interest in multidisciplinary work
• demonstrate autonomy, rigor, critical thinking, problem solving and ability to work within an international team
The researcher will join the “Microbial Metabolome in Cardiometabolic diseases” team at EGID (recognised by a 'Laboratory of Excellence' award), whose research objectives are to study the microbiome and its metabolic output to identify microbial metabolites and lipids associated with cardiometabolism and study the bioactivities of the microbial metabolome in cardiometabolic processes. The Institute provides an excellent intellectual environment and most of the infrastructure required to carry out the project, with direct access to state-of-the-art platforms including high-throughput sequencing (LIGAN-PM, 'Equipment of Excellence' platform award), animal facilities with a small imaging platform and a core facility for metabolic studies (metabolic cages, treadmill, CTscan, PET scan, MRI), cell imaging facility (confocal microscopy, electron microscopy), flow (INFLUX BD) and mass (CyTOF) cytometry. More specifically, the candidate will be part of the 'Accueil Talent International' project awarded to Prof. Dumas and funded by ISite, Région Hauts-de-France and Métropole Européenne de Lille. The project integrates expertise in analytical chemistry, chemometrics, metagenomics and validations in cellular and animal models to identify metabolic pathways disrupted in cardiometabolism. The researcher will strongly interact with colleagues within the group, the Institute and international collaborators.
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