PhD (M/F) in development of machine learning methods for single-cell omics data integration
- FTC PhD student / Offer for thesis
- 36 mounth
- BAC+5
This offer is available in English version
This offer is open to people with a document recognizing their status as a disabled worker.
Offer at a glance
The Unit
Biologie du Développement et Cellules Souches
Contract Type
FTC PhD student / Offer for thesis
Working hHours
Full Time
Workplace
PARIS 15 ()
Contract Duration
36 mounth
Date of Hire
01/05/2026
Remuneration
2300 € gross monthly
Apply Application Deadline : 01 May 2026 00:00
Job Description
Thesis Subject
Single-cell high-throughput sequencing, extracting huge amounts molecular data from a cell, is creating exciting opportunities for machine learning to address outstanding biological questions. The PhD (M/F), to be recruited in the context of the ERC StG MULTI-viewCELL, will be working on the development of a new method combining machine learning and biophysical modelling to model embryo development from spatial transcriptomics data.
Activities :
- design of a new mathematical method
- monitoring and study of publications relevant to the field
- programming/coding in Python (Pytorch)
- presentation of results at conferences
- interaction with team members and international collaborators
Degree : Master of Physics, data science, computer science, applied mathematics
We expect a candidate with a strong background in physics and/or machine learning. The candidate must also be proficient in high-level languages like Python. Familiarity with single-cell data and experience with existing single-cell methods and software would represent a strong advantage. Excellent communication skills and team spirit, and an ability to work in autonomy are essential. Fluent English both spoken and written is required.
Your Work Environment
The Machine Learning for Integrative Genomics team (https://research.pasteur.fr/en/team/machine-learning-for-integrative- genomics/) at Institut Pasteur, led by Laura Cantini, works at the interface of machine learning and biology (tools developed by the team: https://github.com/cantinilab). The team is composed of 9 people : 4PhD students, 3 post doc, 1 research engineer and 1 assistant. The team is associated with the Institut Pasteur's Computational Biology Department, UMR3738 and the PRAIRIE Artificial Intelligence Institute. The team recently won ERC StG funding, which is the subject of this recruitment.
MULTIview-CELL ERC StG :
https://www.ins2i.cnrs.fr/fr/cnrsinfo/laura-cantini-un-projet-erc-starting-grant-linterface-entre-apprentissage-automatique-et
https://research.pasteur.fr/en/project/multi-viewcell/
Compensation and benefits
Compensation
2300 € gross monthly
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
| Offer reference | UMR3738-DEBPHI-006 |
|---|---|
| CN Section(s) / Research Area | Mathematics and mathematical interactions |
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.
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