Bourse de thèse

Machine-learning approaches for data integration and patient stratification in schizophrenia and comorbid diseases

The Health Data Science Unit (HDSU, is a newly created unit of the BioQuant and medical Faculty of the University Heidelberg, which focuses on research topics related to digital health and the integration of clinical and genomic datasets.

Integrating timescales in protein evolution from distant species to populations

A 3-year CNRS-funded PhD is available in our lab, to start in September 2019.
Our lab aim at better understanding genotype-phenotype relationships and our work mainly rely on the dissection of the intraspecific variability within species, using yeast as model organism (

(Epi)genomics of protists

==== Project overview ====

The candidate will work in the context of the ERC Starting Grant Macro-EpiK, which aims, among others, at better understanding the diversity and evolution of epigenetic modifications in eukaryotic microbes (protists).

During his/her PhD, the candidate will take part in 1) preparing genetic material (RNA and DNA) for transcriptome, genome and methylome sequencing, and 2) their subsequent assembly, annotation and various other bioinformatic investigations.


Une offre de thèse est disponible à l’Institut de Chimie Organique et Analytique (ICOA) UMR CNRS 7311 - Université d’Orléans ( situé au cœur du campus de l’Université d’Orléans. Le laboratoire rassemble plus de 120 personnels incluant des chercheurs, des enseignants-chercheurs, des chercheurs post-doctorants, des doctorants, des ingénieurs, des techniciens et des personnels administratifs. Les activités du laboratoire sont centrées sur les sciences chimiques des molécules bioactives.

Malaria parasite genomics

A 3-year CNRS-funded PhD is available to start around Sep/Oct 2019. We work on single-cell genomics and transcriptomics of the malaria parasite Plasmodium falciparum using isolates from asymptomatic infections collected in Africa.

We are looking for a candidate with a background in ‘Omics’ data analysis and population genetics. Candidates from a mathematical/statistical background with basic knowledge of biology are also encouraged to apply. Salary is €2135 per month.

Identification of gene regulation mechanisms by integrative and massive analysis of sequencing data.

PhD position : Identification of gene regulation mechanisms by integrative and massive analysis of sequencing data.

Scholarship context :

This PhD scholarship is part of an INSERM-Region  scholarship obtained for the "ReMap-ALDH" project. This project is a collaborative effort between an academic partner (Dr. Benoît Ballester, TAGC INSERM U1090 Marseille, France) and a private partner (Advanced BioDesign, ABD, France).

The PhD will start in december 2019 and is funded for three years.

M/F in computer modelling of planktonic communities

Understanding the role played by microbial systems is essential to understanding ocean biogeochemical cycles, particularly in the context of climate change. The standard modelling of this biological component is based on a NPZD type base (Nutrients - Phytoplankton - Zooplankton - Detritus), whose behaviour is regulated by the flows between different compartments of the model identified a priori.

Apprentissage symbolique-numérique pour l'identification en biodiversité (combiner méthodes d'IA CNN et arbres de de décision)

Comment proposer une aide à l’identification en biodiversité, combinant méthodes symboliques par observation/verbalisation humaines et méthodes automatiques (deep learning) ? Ce projet sera co-encadré entre l'Institut de Systématique Evolution Biodiversité (UMR ISYEB), au Muséum national d'Histoire naturelle, et le LIP6 sur le campus Jussieu. L'UMR ISYEB avec les collections du MNHN et ses collaborations avec les collègues du CR2P (Paléontologie) et du CESCO (Ecologie -Sciences participatives) dispose de grands jeux de données à valoriser, partiellement étiquetés.