Junior Bioinformatics Engineer: Cancer Multiomics

SFBI; Villejuif; Sur place; EUR 42 000 - 60 000; Plein temps

Avantages offerts par ce poste

5-year contract

Collaborative research environment

Résumé du poste

Gustave Roussy in Villejuif, France, is seeking a junior bioinformatics engineer to join the Clinical Discovery Bioinformatics group within IHU PRISM. You will run and develop data processing components of the integrated data analysis platform, applying multiomic datasets from spatial transcriptomics, single-cell technologies, bulk RNA-seq, WGS, exome and imaging.

You will collaborate with clinical discovery teams, maintain pipelines, ensure reproducibility, and contribute to metadata management

Qualifications

• A degree in a relevant subject with an extensive analytical component e.g. bioinformatics, statistics, molecular biology or mathematics.
• Excellent coding skills in a relevant language e.g. Python, Java, R.
• Excellent Linux and HPC skills.
• Experience of running and developing bioinformatics pipelines using a workflow management system such as Nextflow or Snakemake.
• A good understanding of high-throughput sequencing data processing software and bioinformatics data processing tools.
• An understanding of multi-omics data and data analysis approaches.
• Knowledge of reporting software e.g. quarto, markdown.
• Knowledge of technology ensuring data processing reproducibility e.g. containerisation, environments, change control software.

Responsabilités

• Process sample data generated by the Institute’s clinical programs.
• Deliver results and provide expertise on QC and results interpretation to clinical teams.
• Manage a suite of curated multiomic data processing pipelines.
• Develop automation strategies for the efficient processing of samples within the data analysis platform.
• Contribute to the development and running of a data processing and analysis tracking system.
• Develop and implement innovative ways of delivering results to help the clinical teams with their research.
• Manage the quality of results across the platform.
• Apply the latest technologies and methodologies to ensure full data processing reproducibility across the data analysis platform.
• Validate and implement new analysis and data processing steps in collaboration with other bioinformatics groups.
• Work closely with our data management team to develop results storage and archiving strategies.
• Contribute to the development of metadata management infrastructure.
• Continue professional development through maintaining awareness of developments in the wider bioinformatics and research communities.
• Participate in Gustave Roussy meetings, workshops and seminars.
• Contribute to publications when required.

Connaissances

Python

R

Java

Linux

HPC

Nextflow

Snakemake

Formation

Bioinformatics degree

Outils

Nextflow

Snakemake

Quarto

Description du poste

Gustave Roussy in Villejuif, France, is seeking a junior bioinformatics engineer to join the Clinical Discovery Bioinformatics group within IHU PRISM. You will run and develop data processing components of the integrated data analysis platform, applying multiomic datasets from spatial transcriptomics, single-cell technologies, bulk RNA-seq, WGS, exome and imaging.

You will collaborate with clinical discovery teams, maintain pipelines, ensure reproducibility, and contribute to metadata management