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Courses@CRG: Whole Cell Modeling

Courses@CRG: Whole Cell ModelingCourses@CRG: Whole Cell Modeling

04/09/2017 to 07/09/2017
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Courses@CRG: Whole Cell Modeling


Whole-cell models are promising tools for predicting phenotype from genotype by accounting for every individual gene and cell function. Whole-cell modeling has the potential to enable rational bioengineering and precision medicine. However, significant work remains to develop fully complete and accurate whole-cell models. The goal of the 2017 Whole-Cell Modeling Summer School is to provide young investigators cutting-edge training in large-scale dynamical modeling and model integration.

Why participate?
The course will be the first course focused on multi-algorithm whole-cell modeling. It will teach strategies for building and managing large models which aren't covered by any other course including multi-algorithm modeling, model organism database curation, surrogate modeling, and software development. The course will feature didactic lectures, interactive hands-on tutorials, and student research talks. The mornings will feature lectures on modeling individual pathways. The afternoons will feature interactive hands-on tutorials on building and analyzing multi-algorithm models to generate and evaluate hypotheses. Throughout the course, students will work toward building a small whole-cell model. In addition, the course will include student talks to enable them to share their own research.


  • Luis Serrano (Center for Genomic Regulation, Barcelona, Spain)
  • Maria Lluch-Senar (Center for Genomic Regulation, Barcelona, Spain)
  • Jonathan Karr (Icahn School of Medicine at Mount Sinai, NY, USA)


  • Veronica Llorens (CRG, Barcelona, Spain)
  • Samuel Miravet (CRG, Barcelona, Spain)
  • Yosef Roth (Icahn School of Medicine at Mount Sinai, NY, USA)
  • Balazs Szigeti (Icahn School of Medicine at Mount Sinai, NY, USA)
  • Marie Trussart (Walter and Eliza Hall Institute of Medical Research)
  • Marc Weber (CRG, Barcelona, Spain)

Who is the course for
The course is designed for PhD students and postdoctoral scholars who wish to gain training in large-scale dynamical modeling. Students should already have a strong foundation in computational systems biology including dynamical modeling and scientific programming.

The course will focus on teaching students theory and techniques for large-scale dynamical modeling. Participation in the course requires prior knowledge of dynamical modeling and computer programming including:

  • Flux balance analysis
  • Ordinary differential equations
  • Stochastic modeling
  • Object-oriented programming in MATLAB or Python

Duration of the course

The course will start on Monday September 4th at 3pm and finish on Thursday September 7th at 5pm.

Number of participants: 20

Registration fee: 400 Euros for academic researchers, two spots reserved for CRG Alumni with 20% discount and 800 Euros for industry (includes participation in workshop, all the necessary tools to follow the course, didactic material, coffee breaks, lunches, networking event).

Only online registration is accepted

Registration Deadline: 18th May 2017

Worldwide participants will be selected according to their submitted CV, motivation letter and short abstract about their work.

Participants will be notified if they have been selected for the course by the end of May 2017.

Several travel grants will be available and in addition 2 Registration Fee Waivers will be offered to facilitate the participation of students coming from labs located in countries in need of scientific strengthening.


CRG – Centre for Genomic Regulation
Dr. Aiguader 88
08003 Barcelona, Spain
How to get to the CRG ?


Dr. Aiguader 88
08003 Barcelona


The Minicell project has received funding from ERASynBio ERA-NET initiative through the different countries funding agencies: The Ministry of Economy and Competitiveness (MINECO) for Spain, the French National Research Agency (ANR) for France, the Federal Ministry of Education and Research (BMBF) for Germany, and the National Science Foundation (NSF) for the USA.

The MycosynVac project has received funding from the European Union s Horizon 2020 research and innovation programme under grant agreement No 634942.