Science
Cancer research
& Machine learning
PhD research at the intersection of AI/ML, multi-omics data integration and gene regulatory networks, applied to cancer biology.
Currently, I’m working as a research engineer at Evotec while pursuing my PhD at the Cancer Research Center of Toulouse (CRCT). My research is supported by Evotec, allowing me to explore innovative approaches in cancer research and drug discovery.
PhD Research Graph
A living map of the research domains, ideas, and systems currently shaping my scientific trajectory.
Research focus
My PhD research is centered on the development of computational models to decode the complexities of tumors, with a strong emphasis on multi-omics data integration and gene regulatory networks. I'm involved in the field of Digital Twins for cancer research, enabling a more personalized and predictive approach to oncology.
- 01
Multi-omics integration
Combining transcriptomics, proteomics and clinical data to better explain cancer mechanisms, with a focus on Chronic Lymphocytic Leukaemia.
- 02
Gene regulatory networks
Single layer and multilayer network inference, from time-course RNA-seq data to dynamical models of cellular interactions.
- 03
Digital Twins for cancer
Building in-silico patient cohorts for virtual clinical trials and drug screening, with a personalized and predictive approach to oncology.
Publications
Google Scholar →- 32026 Review Article
Multilayer network approaches to omics data integration in Digital Twins for cancer research
Read Review Article → - 22026 Paper
Data driven network inference and longitudinal transcriptomics unveil dynamic regulation in Chronic Lymphocytic Leukaemia models
Read Paper → - 12023 Book chapter
Dissecting Cellular Phenotypes in the Tumour Microenvironment through Gene Regulatory Networks: Inference, Analysis and Dynamical Modelling
Read Book chapter →
Thesis
Machine learning models of cancer dynamics based on transcriptomics data
Conferences
Talks 3
Temporal dynamics of cellular interactions: Insights from gene regulatory network analysis
Computational Systems Biology of Cancer 7th ed., Institut Curie 🏆 Best oral presentation
Time series analysis of cellular interactions through gene regulatory network inference
EMBO Workshop — Computational models of life
Deciphering cellular interactions through gene regulatory network inference
Posters 13
From Cells to Populations: A Variational Autoencoder Approach to Pseudo-Bulk Alignment
Temporal dynamics of cellular interactions: Insights from gene regulatory network analysis
Temporal dynamics of cellular interactions: Insights from gene regulatory network analysis
Integrating topological data analysis with time series gene expression in cellular systems
Integrating topological data analysis with time series gene expression in cellular systems
Integrating topological data analysis with time series gene expression in cellular systems
20th Annual Meeting, Canceropole GSO
Time series analysis of cellular interactions through gene regulatory network inference
Computational Systems Biology of Cancer 7th ed., Institut Curie
Time series analysis of cellular interactions through gene regulatory network inference
Time series analysis of cellular interactions through gene regulatory network inference
EMBO Workshop — Computational models of life
Deciphering cellular interactions through gene regulatory network inference
19th Annual Meeting, Canceropole GSO
Dissecting cellular communication through gene regulatory network inference
1st Young Scientist Cancer Congress (YS2C)
Dissecting cellular communication through gene regulatory network inference
Dissecting cellular communication through gene regulatory network inference
Experience
PhD Student (CIFRE)
Toulouse Cancer Research Center (CRCT)Thesis: Machine learning models of cancer dynamics based on transcriptomics data. Research conducted at UMR1037 – CRCT under co-supervision of Dr. Vera Pancaldi and Dr. Andrei Zinovyev.
Research Engineer
EvotecWhile conducting a PhD at CRCT, employed as a research associate in the In Silico R&D Data Science department. Evotec funded the PhD research.
Computational Biology Engineer
Toulouse Cancer Research Center (CRCT)Built and applied gene regulatory network inference tools to time-course RNA-seq data in the tumor microenvironment.
Data Scientist
VaiomerResearch and implementation of new analysis strategies for targeted metagenomic data on the 16S rRNA gene, particularly for projects with specific data characteristics (over-representation of zeros) or a specific experimental design, such as paired samples or time series.
Mathematics Teacher
AcadomiaTaught mathematics (algebra, calculus, geometry) to high school students in the scientific stream.
Education
PhD candidate in Computational Oncology
University of Toulouse
- Thesis: Machine learning models of cancer dynamics based on transcriptomics data
- Co-supervisors: Dr. Vera Pancaldi and Dr. Andrei Zinovyev
- Committee: Dr. Manlio De Domenico and Dr. Manuel Diaz-Munoz
- CIFRE funding
- CARe labeling
- Leader of COMET (Student Scientific Committee from Toulouse Cancer Research Center)
- Representative of doctoral students, Doctoral school BSB (Biology, Health and Biotechnology)
MSc in Bioinformatics
Paul Sabatier University
- Graph processing
- Data mining
- Deep learning — Neural networks
- Machine learning
- Post-genomic data processing (NGS)
- Integration of heterogeneous data
- In silico annotation of genomic sequences — hidden Markov model
- Systems biology
- Multivariate data analysis
- Advanced linear modeling
The Institute for Higher National Defence Studies (126th IHEDN-Youth cycle)
ISAE Supaero
- Geopolitics
- International relations
- Multilateralism
- Defence and security (cybersecurity and space defence)
- Economic intelligence
BSc in Biochemistry, Molecular Biology and Microbiology
Paul Sabatier University
- Microbial cell structure and function, microbial genetics and related pathologies
- Function, composition and structure of lipids, proteins and carbohydrates
- Genomics and genetics, including eukaryotic and prokaryotic, and DNA repair
BSc in Mathematics
Paul Sabatier University
- Mathematical analysis: differentiation, integration and series
- Algebra
- Statistics and probability