Mathematics Cell is a part of Toulouse Biotechnology Institute, Bio & Chemical Engineering (TBI). It is focused on mathematical modeling of biochemical and microbial systems.
What Mathematics Cell proposes?
We work by project. A researcher or engineer of TBI of elsewhere can propose an idea of a joint project where MathsCell can bring:
- our competence in mathematical modeling;
- (co-)developing scientific software (R, Python, C++, …);
- (co-)editing scientific papers with mathematical component based on our joint project.
How to create a joint project?
- After discussing about purpose and main ideas of a project candidate, MathsCell will do a short feasibility study of the project;
- If the project is estimated as feasible, MathsCell edits a project proposal where project steps, contribution of the parties and so on are defined;
- If our partner accepts it, the project can start.
Are there particular requirements/conditions for projects?
- A project should enter in the scope of MathsCell scientific activities.
- If a software will be developed, it should be distributed under OpenSource license.
- If a paper is published based on our common project, MathsCell staff contributed to the project should be in co-authors.
- Our partners are asked for a financial participation which will depend on project’s workload.
Our past/current projects
- IsoSolve, a project with MetaSys team of TBI. The goal was to propose a unified framework for NMR/MS measurements on isotopically labeled metabolites. Preprint.
- Influx2020, a project with MetaToul/Metabolic network about adapting influx_si software to high throughput experimental context.
- G3Mclass, a project with Dr. Marina Guvakova, researcher in the University of Pennsylvania. The goal of the project is to develop a classifier for fine exploring of metabolic markers.
- MetaboHub2, we participate in Workpackage 3 Task 4 (flux modeling) of this national-wide french consortium.
Software we developed
- influx_si metabolic flux/concentration estimation based on isotopic measurements;
- IsoSolve a unified framework for NMR/MS isotopic measurements;
- Deriv symbolic differentiation of R code for mathematical expressions;
- rmumps an R wrapper for MUMPS library for sparse linear system solving;
- r2sundials an R wrapper for Sundials library for ODE/sensitivity problem solving.
Staff
- Serguei Sokol, PhD in applied mathematics, IR INRAE.