Bioinformatician - Transcriptomics and Biostatistics (ATTILAS Project) (F/M)

PSL Université Paris; Paris; On-site; EUR 32,000 - 39,000; Full time

Benefits offered by this job

Collective catering

Transportation reimbursement up to 75%

Supplementary health insurance

Job summary

Institut Curie invites applications for a Bioinformatician focusing on transcriptomics and biostatistics within the ATTILAS project. You will analyze bulk and single-cell RNA-seq data, perform deconvolution and CNV assessments, and collaborate with clinicians and biologists to translate findings into actionable insights.

A strong background in cancer biology and reproducible research is essential. The position offers a fixed-term contract and full-time work in Paris, with opportunities to

Qualifications

• Master’s degree (MSc) or Engineering degree in Bioinformatics, Biostatistics, Data Science, or a related field; alternatively, a PhD in one of these disciplines or involving substantial transcriptomic data analysis.
• At least 2 years of analysis of high-throughput sequencing data, including single-cell RNA sequencing (scRNA-seq).
• Strong knowledge of bulk and single-cell RNA-seq analysis, integration methods and batch-effect correction; survival statistics; and functional enrichment analyses.
• Desirable skills: cellular deconvolution, cell-cell communication inference, spatial omics data analysis, and copy-number alteration analysis.

Responsibilities

• Analyze bulk RNA-seq datasets with QC, normalization, differential expression, and functional enrichment.
• Perform cell-type deconvolution of bulk transcriptomic data.
• Process and integrate scRNA-seq and snRNA-seq data including cell-type annotation and trajectory analysis.
• Integrate transcriptomic findings with functional data from the project.
• Develop and maintain reproducible bioinformatics pipelines and ensure data provenance.

Skills

R

Python

Bash

Unix/Linux

Git

SLURM

Nextflow

Conda

Docker

Singularity

Scientific English

Education

MSc in Bioinformatics, Biostatistics, Data Science

PhD in Bioinformatics or related field

Tools

Nextflow

Conda

Docker

Singularity

Job description

Bioinformatician - Transcriptomics and Biostatistics (ATTILAS Project) (F/M) (F/H)

The Curie Institute Research Center

France’s leading cancer research and treatment centre, Institut Curie unites a renowned research centre and a specialist hospital, fostering close collaboration between scientists, clinicians and healthcare professionals. It offers an environment of excellence where expertise comes together around shared values: care, humanity, openness, collaboration, efficiency, innovation, solidarity and commitment.

Missions

Laboratory

The RACER (Rare Cancers Exploration and Research) team, led by Dr. Sarah Watson within the Chemical Biology of Cancer Unit (INSERM U1339/CNRS UMR3666, Institut Curie, Paris), conducts translational research on rare cancers, with a particular focus on sarcomas. The team combines multi-scale molecular profiling, preclinical models, and direct access to patient cohorts from Institut Curie.

This position is part of the ATTILAS project (Addressing and Targeting Tumor and Immunological Vulnerabilities in Dedifferentiated Liposarcomas), funded by the French National Research Agency (ANR, JCJC program, 36 months) and coordinated by Dr. Watson. The project aims to identify actionable tumor and immune vulnerabilities in dedifferentiated liposarcoma (DDLPS) through the integration of multi-omics analyses and functional validation.

The successful candidate will contribute to the bioinformatic analyses of a unique dataset including bulk RNA-seq, single-cell RNA-seq (scRNA-seq), whole-genome sequencing (WGS), and whole-exome sequencing (WES) data. The position involves close interaction with researchers within the team and with the Bioinformatics Hub at Institut Curie.

Missions

Transcriptomic Analysis

• Analyze bulk RNA-seq datasets, including quality control, normalization, differential expression, and functional enrichment analyses.
• Perform cell-type deconvolution of bulk transcriptomic data.
• Process and integrate scRNA-seq and snRNA-seq datasets, including cell-type annotation, CNV inference, trajectory analysis, and cell‑cell communication analyses.
• Integrate transcriptomic findings with functional data generated within the project.

Biostatistics and Biomarker

• Correlate molecular profiles with clinical outcomes using appropriate statistical approaches.
• Optimize and validate prognostic signatures.
• Identify signatures associated with therapeutic response or resistance from single-cell data and apply these signatures to bulk transcriptomic datasets.

Data Management and Scientific Dissemination

• Develop, maintain, and document reproducible bioinformatics pipelines.
• Ensure data management, traceability, and deposition.
• Collaborate closely with biologists, engineers, and clinicians to translate biological questions into actionable analyses.
• Present results at team meetings and contribute to publications, reports, and grant deliverables.

Contraints and risks

• Opportunities for occasional travel to national and international scientific conferences.

Training and experience required

• Education and qualifications: Master’s degree (MSc) or Engineering degree in Bioinformatics, Biostatistics, Data Science, or a related field; alternatively, a PhD in one of these disciplines or involving substantial transcriptomic data analysis.
• Professional experience: At least 2 years in the analysis of high-throughput sequencing data, single-cell RNA sequencing (scRNA-seq) experience.
• Required expertise: Strong knowledge of bulk and single-cell RNA-seq analysis, from raw data processing to biological interpretation; integration methods and batch‑effect correction; survival statistics; and functional enrichment analyses. A background in cancer biology is expected, while prior experience in sarcoma research is not required.
• Desirable skills: Experience in cellular deconvolution, cell‑cell communication inference, spatial omics data analysis, and copy‑number alteration (CNA) analysis.

Skills required

• Computational skills: Proficiency in R and Python, as well as Bash and Unix/Linux environments; routine use of Git for version control; experience working on high‑performance computing clusters (SLURM); familiarity with workflow management systems such as Nextflow and reproducible computational environments including Conda, Docker, and Singularity.
• Language skills: Excellent written and spoken scientific English
• Personal qualities: Strong commitment to methodological rigor and reproducible research practices; ability to work independently while maintaining a critical perspective on the robustness of analyses; excellent communication skills to interact effectively with biologists and clinicians and present complex analytical results in an accessible manner; and a strong collaborative mindset.

Contract information

Type of contractFixed-term contract

Starting dateas soon as possible

Working timefull time 39 hours per week

Annual Gross Salaryfrom 32480€ to 39459€ according to the current grids

BenefitsCollective catering, reimbursement of transportation fees up to 75%, supplementary health insurance

Location of the positionParis

Faithful to the legacy of its founder, the Institut Curie is deeply committed to promoting equal opportunities, diversity, and inclusion. Convinced that diversity of backgrounds and experiences contributes to collective performance, we strive to provide everyone with a respectful and equitable working environment and encourage all candidates to apply for our job opportunities. All our opportunities are open to people with disabilities

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