Open engineer or postdoc position for statistical modeling of response to immunotherapy in lung cancer

Inria Scientific Researcher (Charge de Recherches)

Member of the team MONC led by Olivier Saut and composed of Annabelle Collin, Christele Etchegaray, Baudouin Denis de Senneville and Clair Poignard.

Expert of the national multi-thematic institute (ITMO) Cancer of Aviesan

I strongly collaborate with the SMARTc team of the Center for Research on Cancer of Marseille (CRCM Inserm 1068, CNRS UMR 7258, Aix-Marseille Université U105) with Joseph Ciccolini, Dominique Barbolosi and Raphaelle Fanciullino.

Leader of the Inria international associate team METAMATS about modeling experimental metastasis together with John Ebos at the Roswell Park Cancer Institute.

I am also Affiliate Assistant Professor in the Department of Medical Biosciences of Iowa State University (collaboration with Jonathan Mochel).

Other collaborators include the team of Yuval Shaked at the Ruth and Bruce Rappaport Faculty of Medicine of the Technion Institute in Haifa, Israel.

Research interests

My research is focused on applied mathematics and statistics to cancer research and develop methods for quantitative personalized oncology. Some topics include For more details about my research, see my publications and have a look here.

Software

Here is a sample list of softwares I wrote with links to gitlab/githup repos and complete Readmes.

metamats_size

This software fits models of metastatic development to longitudinal data of metastatic sizes and provides simulation and visualization tools for metastatic modeling.

The full README is accessible here

metastats

This R package implements mixed-effects statistical estimation of parameters for a mechanistic model predicting time to metastatic relapse.

The full README is accessible here

mechanistic_predict_neuroblastoma

This python code generates the results and figures reported in the paper
Benzekry, S. et al., Development and Validation of a Prediction Model of Overall Survival in High-Risk Neuroblastoma Using Mechanistic Modeling of Metastasis, JCO: Clinical Cancer Informatics, 2020.

The full README and code are accessible here

metamats_burden

This Matlab software is a minimal code for fitting simultaneously primary tumor growth and metastatic burden data using nonlinear mixed-effects.

The full README is accessible here

metamats_core_matlab

This code is devoted to the simulation of a partial differential equation (PDE) based model for the time development of a population of secondary tumors (metastases).

The full README is accessible here

metamats_core_python

This code is devoted to the simulation of a partial differential equation (PDE) based model for the time development of a population of secondary tumors (metastases).

The full README is accessible here

plumky

The full README is accessible here

carcinom

A software for nonlinear regression of tumor growth models and statistical inference

The full README is accessible here

covid_radiomics_ML

Machine learning for radiomics features extracted from COVID-19 patient CT scan data

The full README is accessible here

Contact

Email
benzekry@phare.normalesup.org

Address
INRIA Bordeaux-Sud Ouest
Institut de Mathématiques de Bordeaux
UMR CNRS 5251
University of Bordeaux
351 cours de la Libération
33405 Talence Cedex, France