Cystic fibrosis

Cystic Fibrosis Map (CF-MAP)

Description

The objectives of this PhD project are to develop a computational model of molecular mechanisms which are affected in the genetic disease cystic fibrosis (CF), and to quantitatively elucidate the underlying molecular and cellular events.

The purpose of the project is threefold.

In the first place, to integrate all the available ‘omics resources for a broader view of CF allowing for an integrated perspective of all the available knowledge which will include the relevant molecular interactions and all the relevant regulatory pathways. This will involve modeling the available data in a flexible information system that is able to encompass all the relevant information and metadata gathered from the available resources. Information from literature on disease mechanisms will be integrated into a large-scale model. Pathway information from available databases (for example Reactome, PANTHER) will be contextualised and reused where possible. The network will be presented in the standard Systems Biology Graphical Notation (SBGN) languages. A community of domain experts will be involved in order to ensure that all the relevant disease hallmarks are adequately represented. The resulting network will be made available online as a reference resource for the molecular mechanisms involved in CF.

Secondly, a logical model network will be constructed from the available data; this model may encompass a Bayesian or Markov model.

The third part will involve testing and stressing the developed model so that it is possible to make an inference by changing and modifying the model inputs. Results will be verified against available experimental data and new essays will be proposed to validate the model consistency.

CF-MAP Development Team

Catarina Pereira Catarina Pereira, MSc
University of Lisbon, Portugal
PhD Student
André Falcão André Falcão, PhD
University of Lisbon, Portugal
Assistant Professor, Department of Informatics, Faculty of Sciences
Supervisor of the CF-MAP PhD project
Margarida D. Amaral Margarida D. Amaral, PhD
University of Lisbon, Portugal
Professor, Chemistry and Biochemistry Department, Faculty of Sciences
Co-supervisor of the CF-MAP PhD project
Alexander Mazein Alexander Mazein, PhD
European Institute for Systems Biology and Medicine, France
Senior Researcher
Co-supervisor of the CF-MAP PhD project

CF-MAP Editorial Panel (Domain Experts)

Margarida D. Amaral Margarida D. Amaral, PhD
University of Lisbon, Portugal
Professor, Chemistry and Biochemistry Department, Faculty of Sciences
European Cystic Fibrosis Society (ECFS) Board member