Second-year Master's student in Bioinformatics and Statistical Modeling (M/F)

Job Description

Missions

The apprentice will participate to an emergent thematic in the ISTCT unit which aims to evaluate radio-induced genomic instability at lung level. This projects aims to identify the effect of photonic irradiation of human lung tissue in a multi-omics approach. This project lays on the combined utilization of a human ex vivo model based on human lung slices culture, a murine model, and an application of state-of-the-art technologies to evaluate the effects of radiations at cell level (Single-Cell RNA-seq), but also to identify mutations (Whole Exome Sequencing) in collaboration with world-renowned experts in the fields of pulmonary fibrosis, transcriptomics and genetics.
The apprentice's mission is part of a research project using single-cell RNA-seq data currently being generated. It aims to allows him(her) to acquire a theorical and practical formation in high resolution transcriptomic data analysis, while contributing actively to the team scientific project.

Main missions will include :
- Quality controls and pre-treatment of raw data, including data evaluation after sequencing, alignement on the human reference genome and generation of expression matrix.
- Seurat integrated object construction, allowing to correct technicals variations (batch effect) and harmonize data from different experimental conditions.
- Validation of integration strategies, evaluating technical bias correction while preserving relevant biological variations.
- Identification and annotation of cellular populations, as well as the analyze of their proportions accross the different conditions (particularly before and after irradiation).
- Visualization and validation of cellular signatures, notably using heatmaps and and canonical gene markers.
- Differential expression analysis to identify induced or repressed genes linked to biologiques conditions.
- Cell-cell interactions analysis, particularly through ligand-receptor approaches, to explore intercellular communications pathways and their radio-induced modifications.

Your Profil

We are looking for a candidate (M/F) preparing a Master graduation in bio-informatics.

Required skills:
General knowledge of biology, bio-informatics, informatics and statistics.

Operational skills:
Treat data and more specifically genomic and transcriptomic data.
Ensure quality and relevance of analysis tools and results.
Program in various informatic languages
Interact with biologists and bio-informaticians
Share knowledges

Technical skills :
Development: C, Python, R, Bash, Git (version control)
Systems: Linux, Windows
Infrastructure and computing: shared servers (HPC), Virtual Machines (VMs)

Soft skills :
Rigor and analytical skills
Progressive autonomy
Team working ability
Scientific curiosity

Your Work Environment

Description of the employer

The National Centre for Scientific Research (CNRS) is a public interdisciplinary research organism under the supervision of the Ministry of Higher Education. His 10 scientific institutes covers all knowledges fields in biology, physics, chemistry, engineering, human and social sciences, mathematics, ecology, information sciences and space sciences.
The CNRS employs nearly 32 000 persons, including more than 11 000 researchers working in 1144 laboratories distributed on all national territory. The 16 CNRS regional delegations (DR) have a mission of gesture and local support of these research units, particularly in the field of Human Ressources.
For any supplementary information, CNRS website is accessible at : http://www.cnrs.fr/

The apprentice will be integrated in the Imagery and Therapeutic Strategies for Cancers and Brain Tissues (ISTCT), UMR CNRS 6030.
ISTCT's research activities aim to better understand hypoxic tumors physiopathology (brain-lung) and identify new therapeutic strategies targeting the tumor and its micro-environnement but also preserving healthy surrounding tissues from cancer treatments like radiotherapy. The ISTCT unit includes about 50 persons associating researchers/professor-researchers, clinicians, technicians/engineers and students from different backgrounds enhancing developpement of fondamental researchs, pre-clinical and clinical. The unit conducts interdisciplinary approaches thanks notably to collaborations with other partners in chemistry/radiochemistry, physics, radiobiology and bio-/nanomaterials, and bio-informatics.

Special conditions of exercise

Essential interactions with all stakeholders

Compensation and benefits

Compensation

Annual leave and RTT

44 jours

Remote Working practice and compensation

Pratique et indemnisation du TT

Transport

Prise en charge à 75% du coût et forfait mobilité durable jusqu’à 300€

About the offer

About the CNRS

The CNRS is a major player in fundamental research on a global scale. The CNRS is the only French organization active in all scientific fields. Its unique position as a multi-specialist allows it to bring together different disciplines to address the most important challenges of the contemporary world, in connection with the actors of change.

CNRS

The research professions