🔍 My PhD research is based around 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 (DTs) for cancer research, enabling a more personalized and predictive approach to oncology. By harnessing data from multiple biological sources (transcriptomics, proteomics and beyond), DTs platform could be used for virtual clinical trials and in silico drug screenings.
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.
Specifically, my PhD project is centered on:
- Integrating multi-omics data: Combining various biological data sources to better explain cancer mechanisms, more particularly in Chronic Lymphocytic Leukemia (CLL).
- Multilayer network inference: Experienced in various network inference method and tools to find complex relationships within the data.
- Virtual compound screening: Leveraging these insights to conduct virtual screenings of potential drug candidates on in-silico molecularly and clinically realistic cohorts.
Below is an overview of my publications and scientific tutorials showcasing my contributions to the field, the conferences where I had the opportunity to present my research work, my PhD thesis, as well as my academic/industry experiences and education.
Publications
📚 Browse my peer-reviewed publications and collaborations on Google Scholar.
Time-series RNA-Seq and data-driven network inference unveil dynamics of cell activation, survival and crosstalk in Chronic Lymphocytic Leukaemia in vitro models
2025
Multilayer network approaches to omics data integration in Digital Twins for cancer research
2024
Dissecting Cellular Phenotypes in the Tumour Microenvironment through Gene Regulatory Networks: Inference, Analysis and Dynamical Modelling
2023
Tutorials
Bulk basics
Single cell series
Conferences
Talk
| Date | Event | Location | Title | Details |
|---|---|---|---|---|
| 05 July – 11 July 2025 | 15th Summer School on Medicines (SSM15) | Montreal, Canada | Temporal dynamics of cellular interactions: Insights from gene regulatory network analysis | SSM15 |
| 30 September – 04 October 2024 | Computational Systems Biology of Cancer 7th edition, Institut Curie | Paris, France | Time series analysis of cellular interactions through gene regulatory network inference | Curie |
| 26 November – 01 December 2023 | Computational models of life: From molecular biology to digital twins - EMBO Workshop | Sant Feliu de Guíxols, Spain | Deciphering cellular interactions through gene regulatory network inference | EMBO |
Poster
| Date | Event | Location | Title | Details |
|---|---|---|---|---|
| 20 July – 24 July 2025 | 24th Annual European Conference on Computational Biology (ISMB/ECCB) | Liverpool, UK | Temporal dynamics of cellular interactions: Insights from gene regulatory network analysis | ECCB |
| 2 June – 6 June 2025 | NetSci: International School and Conference on Network Science | Maastricht, Netherlands | Integrating topological data analysis with time series gene expression in cellular systems | NetSci |
| 31 March – 4 April 2025 | Qlife Quantitative Biology Spring School “Cell Dynamics in Developmental Systems”, ENS | Paris, France | Integrating topological data analysis with time series gene expression in cellular systems | QLIFE |
| 2 February – 7 February 2025 | Toulouse Onco Week (TOW) | Toulouse, France | Integrating topological data analysis with time series gene expression in cellular systems | TOW |
| 20 November – 22 November 2024 | The 20th Annual Meeting of the Canceropole GSO | Perpignan, France | Time series analysis of cellular interactions through gene regulatory network inference | GSO |
| 30 September – 04 October 2024 | Computational Systems Biology of Cancer 7th edition, Institut Curie | Paris, France | Time series analysis of cellular interactions through gene regulatory network inference | Curie |
| 25 June – 28 June 2024 | Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM) | Toulouse, France | Time series analysis of cellular interactions through gene regulatory network inference | JOBIM |
| 26 November – 01 December 2023 | Computational models of life: From molecular biology to digital twins - EMBO Workshop | Sant Feliu de Guíxols, Spain | Deciphering cellular interactions through gene regulatory network inference | EMBO |
| 22 November – 24 November 2023 | The 19th Annual Meeting of the Canceropole GSO | Arcachon, France | Dissecting cellular communication through gene regulatory network inference | GSO |
| October 5th 2023 | 1st edition Young Scientist Cancer Congress (YS2C) | Toulouse, France | Dissecting cellular communication through gene regulatory network inference | YS2C |
| 23 July – 27 July 2023 | 22nd Annual European Conference on Computational Biology (ISMB/ECCB) | Lyon, France | Dissecting cellular communication through gene regulatory network inference | ECCB |
Awards
| Date | Event | Location | Prize |
|---|---|---|---|
| 30 September – 04 October 2024 | Computational Systems Biology of Cancer 7th edition, Institut Curie | Paris, France | Best oral presentation |
Thesis
Experiences
Academia
PhD Student (CIFRE) at Toulouse Cancer Research Center (CRCT)
Toulouse, France — 2023-Present
Thesis project: Machine learning models of tumor progression based on multi-omics and clinical data.
The research is conducted at UMR1037 – CRCT under the co-supervision of Dr. Vera Pancaldi and Dr. Andrei Zinovyev
Toulouse, France — 2023-Present
Thesis project: Machine learning models of tumor progression based on multi-omics and clinical data.
The research is conducted at UMR1037 – CRCT under the co-supervision of Dr. Vera Pancaldi and Dr. Andrei Zinovyev
Computational Biology Engineer at Toulouse Cancer Research Center (CRCT)
Toulouse, France — 2022-2023
Built and applied gene regulatory network inference tools to time-course RNA-seq data in the tumor microenvironment.
Toulouse, France — 2022-2023
Built and applied gene regulatory network inference tools to time-course RNA-seq data in the tumor microenvironment.
Industry
Research Engineer at Evotec
Toulouse, France — 2023-Present
While conducting my PhD at CRCT, I am employed by Evotec as a research associate in the In Silico R&D Data Science department. Evotec fund my PhD research.
Toulouse, France — 2023-Present
While conducting my PhD at CRCT, I am employed by Evotec as a research associate in the In Silico R&D Data Science department. Evotec fund my PhD research.
Data Scientist at Vaiomer
Toulouse, France — 2021
Research 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.
Toulouse, France — 2021
Research 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 at Acadomia
Toulouse, France — 2020-2021
Taught mathematics (algebra, calculus, geometry) to high school students in the scientific stream.
Toulouse, France — 2020-2021
Taught mathematics (algebra, calculus, geometry) to high school students in the scientific stream.
Background
🎓 Education
PhD candidate in Computational Oncology
University of Toulouse | 2026
Thesis title: Machine learning models of tumor progression based on multi-omics and clinical data
Co-supervisors: Dr. Vera Pancaldi and Dr. Andrei Zinovyev
Committee members: Dr. Manlio De Domenico and Dr. Manuel Diaz-Munoz
CIFRE funding
CARe labelling
Leader of COMET (Student Scientific Committee from Toulouse Cancer Research Center)
Representative of doctoral students, Doctoral school BSB (Biology, Health and Biotechnology)
University of Toulouse | 2026
Thesis title: Machine learning models of tumor progression based on multi-omics and clinical data
Co-supervisors: Dr. Vera Pancaldi and Dr. Andrei Zinovyev
Committee members: Dr. Manlio De Domenico and Dr. Manuel Diaz-Munoz
CIFRE funding
CARe labelling
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 | 2022
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
Paul Sabatier University | 2022
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 | 2021
Geopolitics
International relations
Multilateralism
Defence and security (cybersecurity and space defence)
Economic intelligence
ISAE Supaero | 2021
Geopolitics
International relations
Multilateralism
Defence and security (cybersecurity and space defence)
Economic intelligence
BSc in Biochemestry, Molecular biology and Microbiology
Paul Sabatier University | 2020
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
Paul Sabatier University | 2020
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 | 2018
Mathematical analysis: differentiation, integration and series
Algebra
Statistics and probability
Paul Sabatier University | 2018
Mathematical analysis: differentiation, integration and series
Algebra
Statistics and probability
💻 Technical skills
Languages
R, Python, Bash
R, Python, Bash
Bulk RNAseq
FastQC, MultiQC, Cutadapt, Trimmomatic, STAR, BWA, Bowtie, Salmon, DESeq2, edgeR
FastQC, MultiQC, Cutadapt, Trimmomatic, STAR, BWA, Bowtie, Salmon, DESeq2, edgeR
scRNAseq
Cell Ranger, Seurat, Harmony, SingleR, Monocle, Survival analysis
Cell Ranger, Seurat, Harmony, SingleR, Monocle, Survival analysis
Exploratory analysis
PCA, t-SNE, Hierarchical clustering, Differential expression
PCA, t-SNE, Hierarchical clustering, Differential expression
Network inference
GENIE3, ARACNE
GENIE3, ARACNE
Network analysis
STRING, TCGA, iGraph, CINNA, Cytoscape, Gephi, WGCNA, MCODE
STRING, TCGA, iGraph, CINNA, Cytoscape, Gephi, WGCNA, MCODE
Functional enrichment
GSEA (MSigDB), ToppGene, Enrichr, clueGO, g:Profiler
GSEA (MSigDB), ToppGene, Enrichr, clueGO, g:Profiler
Spatial transcriptomics
MERFISH, STARmap
MERFISH, STARmap
Multi-omics integration
MultiAssayExperiment, MixOmics, DIABLO, OmicsIntegrator, iMOKA, IGV
MultiAssayExperiment, MixOmics, DIABLO, OmicsIntegrator, iMOKA, IGV
Statistical tests
t-test, ANOVA, Wilcoxon, Kruskal-Wallis, Chi-Square, Pearson, Spearman
t-test, ANOVA, Wilcoxon, Kruskal-Wallis, Chi-Square, Pearson, Spearman
ML models
Regression, scikit-learn, XGBoost, LightGBM
Regression, scikit-learn, XGBoost, LightGBM
Visualization
ggplot2, plotly, ComplexHeatmap, Cytoscape, OmicsNet
ggplot2, plotly, ComplexHeatmap, Cytoscape, OmicsNet
🌍 Languages
🇫🇷 French
Native · C2
Certificat Voltaire
802/1000 – Niveau Affaires
Native · C2
Certificat Voltaire
802/1000 – Niveau Affaires
🇬🇧 English
Professional · B2
TOEIC
895/990
Professional · B2
TOEIC
895/990
🇪🇸 Spanish
Basic · A2
Basic · A2