fairfolio
Saved Projects

Model Order Reduction of Cell Signalling Pathways: An Investigation of the Invasive Mechanism of Ebola Virus

CSEF · 2015 Mathematics & Software Honorable_mention Award

Prem M. Talwai · Mira Loma High School, Sacramento, Sacramento County

Overview

Objectives/Goals To formulate and implement a mathematical algorithm which reduces the dimensionality of kinetic models of cell signalling pathways while still preserving their most important dynamic features. Methods/Materials This algorithm (executed at the command-line interface through a Python interpreter) combines the techniques of proper orthogonal decomposition, trajectory piecewise-linearization, and Krylov subspace reduction in an effort to identify a best-fit subspace for the model trajectories that accurately approximates the mapping between the model input and outputs. The algorithm will be implemented on a kinetic model of the IFNG-JAK-STAT-EVP24 network, which will be constructed using the Simmune Modeler and Simulator. Once the reduction procedure has been successfully executed on the kinetic model, correlations between the reduced and full-order bases will be analyzed in order to reveal novel dynamical relationships between the species participating in the signalling cascade. Results The algorithm successfully reduced the dimensionality of a kinetic model of the IFNG-JAK-STAT-EVP24 network from 45 to 5. In addition, the algorithm revealed strong positive correlations within four groups of participating species, which divided the mechanism into four distinct temporal phases. Conclusions/Discussion The developed model reduction algorithm enables cell biologists to effectively employ kinetic models to analyze the mechanisms of complex diseases. Further work may involve obtaining an a priori error estimation of the accuracy of the reduction procedure and incorporating the algorithm as an accessible front-end tool in the Simmune graphical user interface.

Summary statement

This project designs a mathematical algorithm for reducing the dimensionality of kinetic models of cell signalling pathways.

Help received

Participant in National Institutes of Health Summer Internship Program. I was provided access to the Simmune software suite by the Computational Biology team; Drs. Martin Meier-Schellersheim and Bastian Angermann provided invaluable support and guidance.

Awards (1)

  • Honorable Mention

Competition history

  • CSEF 2015 Mathematics & Software · Entry S1425

Resources

Related projects

Closest projects by meaning, across every fair and year in the corpus.

Browse more like this

Source: California Science & Engineering Fair public projects

Save projects to your library

Sign in with Google to keep track of projects you find interesting, organized into folders. An account also raises your daily allowance for “Has this been done?”, and lets you create a key for the MCP server with a much higher limit than anonymous use. Browsing stays public.

Continue with Google