Publications, Conferences, Outreach & Teaching
Embedded Files
Publications
Publications
1.1. Peer-reviewed articles
[P4] Martinez C., Péré M. Single Population Approach to Modelling Growth and Decay in Batch Bioreactors. Applied Mathematical Modelling. Code repository on Github & Zenodo, Link to article. Summary: A new integro-differential model of cell viability dynamic during protein synthesis in bioreactors using CHO is presented to catch the final declining in the data during upstream production.
[P3] (Protocol) Bian, B., Paquet, A., Arguel, M. J., Meyer, M., Peyre, L., Chalabi, A., Péré, M., Lebrigand, K., Waldmann, R., Barbry, P., Hofman, P. & Roux, J. Coupling live-cell imaging and in situ isolation of the same single cell to profile the transient states of predicted drug-tolerant cells. STAR protocols, 3(3), 101600. (2022). Code repository. link to article. Summary: Protocol to carry predictive profiling using live-cell microscopy and microdissection on isogenic cancer cells to identify therapeutic targets.
1.2. Peer-reviewed conference proceedings
[P2] Péré, M., Oyarzun, D., Roux, J., & Chaves, M. Modelling isogenic cancer cell response upon varying TRAIL stimulations to decipher the kinetic determinants of cell fate decision. IFAC-PapersOnLine, 55(23), 46-51. (2022). Link. Summary: We created a hybrid model by complexifying the most accurate model presented in [P1] and using some of its parameters to feed a machine learning model to predict single-cell drug response to immunotherapy during live-cell experiments.
[P1] Péré, M., Chaves, M., & Roux, J. Core Models of Receptor Reactions to Evaluate Basic Pathway Designs Enabling Heterogeneous Commitments to Apoptosis. In Computational Methods in Systems Biology: 18th International Conference, CMSB 2020, Konstanz, Germany, September 23–25, 2020, Proceedings 18 (pp. 298-320). Part of the Lecture Notes in Computer Science book series, Springer. Link. Summary: We compare four reduced kinetic models of apoptosis signaling pathway in response to death ligands to identify key proteins involved in cell tolerance to immunotherapy.
Outreach:
Outreach:
2025: Member of Terra Numerica and the Inria program “1 Scientist, 1 Class, Chiche!” - Mathematic and Computer Science popularization for teenagers and families. Sophia Antipolis, France.
2019: : Journée Filles et maths : une équation lumineuse et Congrès MATh.en.JEANS 2019. Promoting maths to students, especially girls. Pau, France.
2019: : Journée Filles et maths : une équation lumineuse et Congrès MATh.en.JEANS 2019. Promoting maths to students, especially girls. Pau, France.
Conferences
Conferences
To come :
5-10, Oct. 2025 - CompSysBio2025, Aussois, France.
Past :
As an organizer
As an organizer
30-31, May 2022 - MOMI2022: Le Monde des Mathematiques Industrielles, Sophia-Antipolis, France - as part of the Organizing team
2022-2023 - INRIA PhD seminars, Sophia-Antipolis, France
23-27, August 2021 - Dynamics Days Europe 2021, Nice, France - as part of the Local Organizing Committee
Invitations
Invitations
17-20, June 2025 - Oral presentation in International Symposium & Summer School MEI Center/Université Côte d’Azur: A New Era in Medical and Healthcare Science : from reality to virtuality, Osaka, Japan.
14 - 16, May 2024 - Oral presentation in ReinCare 2024, Nice, France.
Outreach events between 2023 and 2024 on entrepreneurship - invitation.
Outreach events between 2023 and 2024 on entrepreneurship - invitation.
Nucleate Alumni Summit 2024 and Nucleate Demo Day 2024.
Link to program for Alumni Summit.
Eurobiomed (Health Competitivity Pole in South of France) x Biorezo - Innovative approaches in Healthcare from Alpes Maritimes.
Vivatech 2024
1st day: Invited by le Réseau des Carnot to present our project in their booth.
2nd day: Invited by Inria Startup Studio.
3rd day: Invited by BPI France to Pitch CellEmax project and present i-PhD competition.
OncoStartup Summit - Presentation of CellEmax
Inria Startup Studio - Fete des startups - Flash Pitch of my entrepreneurial project.
Link to summary video of the event.
WAICF 2024 (World of Artificial Intelligence Cannes Festival) - Presentation of our project.
Inria Paris Santé Numérique - Participation to round table about technological transfer of AI for healthcare.
Incubateur PACA - Presentation of the i-PhD competition and pitch of my project.
During PhD:
During PhD:
25, Sept 2023 - Institut de Pharmacologie Moléculaire et Cellulaire (IPMC) - Lab meeting
22, Sept 2023 - Hub de l'Innovation - invited by Incubateur Provence Côte d'Azur.
9-10, March 2023 - Hello Tomorrow Global Summit - invited by INRIA Startup Studio.
27, March 2023 - Thesis Defense: Modeling cancer drug response dynamics in single-cells to predict the emergence of drug-tolerant cells
3-4, April 2023 - MOMI2023: Le Monde des Mathematiques Industrielles: Smart environments, Sophia-Antipolis, France - as part of the Organizing team.
23-25, Nov. 2022 - SophI.A Summit 2022 Conference, Sophia-Antipolis, France. Poster presentation: "Integrating machine learning methods to single-cell experimental workflow increases throughput and accuracy for target identification in immuno-oncology": Poster Prize Laureate.
21-22, Nov. 2022 - 5th Labex SIGNALIFE Meeting, Nice, France. Poster presentation: "Integrating machine learning methods to single cell signaling analyses increases throughput and accuracy for target identification in immuno-oncology": Poster Prize Laureate.
17-18, Oct, 2022 - Compsyscan22 : A complex systems approach to cancer understanding, Lyon, France. Accepted abstract: "Analyzing single-cell trajectories by coupling ODEs and machine learning models predicts cancer drugs response in live-cell microscopy assays"
8-12,Oct, 2022 - 21st International Conference on System Biology (ICSB 2022), Berlin. Flash presentation (10 min): "Analyzing single-cell trajectories with augmented machine learning methods predicts cancer drugs response in live-cell microscopy assays".
3-6 Oct, 2022 - Biocore retreat, Porquerolles. Oral presentation: "FATE-SEQ: combining single-cell techniques and machine learning models to determine the molecular factors of non-genetic resistance to anti-cancer drugs".
28-31, Aug. 2022 - 9th International Conference on the Foundations of Systems Biology in Engineering (FOSBE 2022), Boston, USA. Oral presentation: "Modeling isogenic cancer cell response upon varying TRAIL stimulations to decipher the kinetic determinants of cell fate decision"
16, June 2022 - InSiDE Seminar Series, Online. Poster Presentation: "Early prediction of cell response upon cancer drug treatment identifies dynamic determinants of efficient cell death initiation, enabling control of therapeutic response heterogeneity"
2, June 2022 - Biocore seminar, Sophia-Antipolis. Oral presentation: "Machine learning models for the early prediction of cell drug response in fluorescent single-cell essays – A summary of my research visit in Edinburgh : Seminaire_Biocore_Num_5_Flyer.pdf
21-25, March 2022 - Workshop Mathematical models in ecology and evolution - Institut Henri Poincaré, Paris, Online
16-18, March 2022 - The multiple facets of RNA in development and disease - Signalife Network, Nice. Abstract accepted: "Modeling isogenic cancer cell response upon TRAIL treatment in multi-omics studies"
18, Nov 2021- PerkinWelmer webinar - Combating Resistance by Revealing Cancer Vulnerabilities, Online
18, Nov 2021- AI Awareness Workshop - Science and Engineering, Edinburgh, Scottland, Online
Oct 2021, March 2022- SynthSys seminars, Edinburgh, Scottland
27-29, September 2021- Biocore annual seminar, Peyresq, France. Oral presentation: "Modeling death ligand inducing cell death to predict and analyse single-cell resistance/sensitivity states"
22-24, September 2021 -19th International Conference on Computational Methods in Systems Biology (CMSB2021), Bordeaux, France. Poster presentation: "TRAIL-induced apoptosis signaling modeling identifies dynamic signs of efficient cell death initiation, enabling an early prediction of the cell response"
20, July 2021 - OLISSIPO Inaugural Workshop on Computational Cell Biology, Online
1-2, July 2021 - 2021 edition of Séminaire du Canceropôle Provence-Alpes-Côte d’Azur, St-Raphael, France. Poster presentation: "Pc.fate, a new cell fate predictor at the single-cell level"
25, June 2021 - SIGNALIFE workshop Single-cell technologies, heterogeneity and dynamics of cellular responses, INRIA, Online
2021 - InSIDE Seminar series - Signaling Dynamics and Encoding, Online
25-27, May 2021 - Mathematical Biology on the Mediterranean coast, Online
20, May 2021 - Single Cell Focus Area Kick-off Symposium - Single Cell: Approaches for Personalized Medicine, Max-Delbruck-centrum for molecular medecine, Online
17-18, May 2021 - Modelling Heterogeneous Populations with applications in Biology, Grenoble, France, Online. Oral presentation "Early prediction of cell response upon cancer drug treatment identifies dynamic determinants of efficient cell death initiation, enabling control of therapeutic response heterogeneity."
21, April 2021 - BoostUrCareer Doctoriales, Let's talk about E-Health, Nice, Online
20, April 2021 - IRCAN Internal Seminar - Oral presentation : PhD first results
8-9, March 2021 - Workshop on Applied and Industrial Mathematics - MOMI2021, INRIA, Sophia-Antipolis Méditérranée
2-5, Feb. 2021 - Dynamical Systems Applied to Biology and Natural Science - DSABNS2021, Basque Center for Applied Mathematics (BCAM)
23-25, Sept. 2020 - 18th International Conference on Computational Methods in Systems Biology - CMSB2020, Online (Zurich), Oral Presentation: "Core models of receptor reactions to evaluate basic pathway designs enabling heterogeneous commitments to apoptosis" and presentation of the associated poster during the poster session (poster below)
2020-2021 - Infectious Disease Outbreaks online seminar, Online (Bordeaux)
9-10, March 2020 - Workshop on Applied and Industrial Mathematics - MOMI2020, INRIA, Sophia-Antipolis Méditérranée
2-6, March 2020 - École de recherche Réseaux et biologie moléculaire, Centre International de Rencontres Mathématiques (CIRM), Marseille
2019-2021 - Séminaire interne hebdomadaire de l'IRCAN
2019-2021 - INRIA PhD seminars, INRIA Sophia-Antipolis Méditérranée
5, Nov. 2019 - Oncoage Seminar - Lung cancer Workshop, IRCAN
16-19, April 2019 - International Meeting on Applied Mathematics and Evolution - IMAME2019, la Rochelle
Previous presentations
Poster of my last results:
"Integrating Machine Learning methods in single-cell workflow increases throughput and accuracy for target identification in immuno-oncologie" with which I won 2 prizes for the best poster!
(5th Signalife meeting 2022 and SophIA Summit 2022)
Marielle_Péré_Poster_9_Signalife_2022.pdfFlash presentation, abstract and poster presented at CMSB 2021 conference
Marielle_Péré_CMSB2021.mp4PERE_Marielle_Poster_Abstract_CMSB2021.pdfPosterCanceropole.pdfCMSB2020_Poster.pdfPoster from my article
"Core models of receptor reactions evaluate basic pathway designs enabling heterogeneous commitments to apoptosis" presented at CMSB 2020
Teaching
Teaching
Analyse et Modélisation en Biologie (in french)
2020-2021 - Univ. Nice Côte d'Azur - licence 1 Sciences de la vie et PASS
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