Difference between revisions of "Modeling endothelial cell behavior using Petri nets: interactions between VE-cadherin and VEGFR-2 during angiogenesis"

From Master Projects
Jump to: navigation, search
 
(One intermediate revision by the same user not shown)
Line 2: Line 2:
 
|Master name=Bioinformatics
 
|Master name=Bioinformatics
 
|Student name=Marta ter Haar
 
|Student name=Marta ter Haar
|Project start date=2013/03/15
+
|Project start date=2013/04/01
|Project end date=2013/07/15
+
|Project end date=2014/11/11
 
|Supervisor=Roeland Merks
 
|Supervisor=Roeland Merks
 
|Second supervisor=Anton Feenstra
 
|Second supervisor=Anton Feenstra
 
|Second reader=Roeland Merks
 
|Second reader=Roeland Merks
 
|Company=CWI
 
|Company=CWI
|Finished=No
+
|Finished=Yes
 
|Thesis=Thesis.pdf
 
|Thesis=Thesis.pdf
 
|Poster=Posternaam.pdf
 
|Poster=Posternaam.pdf

Latest revision as of 13:55, 29 June 2015


Modeling endothelial cell behavior using Petri nets: interactions between VE-cadherin and VEGFR-2 during angiogenesis
status: finished
Master: project within::Bioinformatics
Student name: student name::Marta ter Haar
Dates
Start start date:=2013/04/01
End end date:=2014/11/11
Supervision
Supervisor: Roeland Merks
Second supervisor: Anton Feenstra
Second reader: has second reader::Roeland Merks
Company: has company::CWI
Thesis: has thesis::Media:Thesis.pdf
Poster: has poster::Media:Posternaam.pdf

Signature supervisor



..................................

Abstract

The outgrowth of new blood vessels from pre-existing vessels, called angiogenesis, is a crucial step in many physiological and pathological mechanisms, including wound healing and tumor growth. Angiogenesis is a topic of intensive experimental investigation so its phenomenology and many of the molecular signals contributing to it have been well characterized. Yet it is poorly understood how the biological components fit together dynamically to drive the outgrowth of blood vessels. Cell-based simulation models help analyze how cells assemble into embryonic structures, and how cell behavior is guided by signals from neighboring cells.

With such cell-based simulation models, we have identified dynamic cell behaviors by which endothelial cells can form sprouts from existing blood vessels. In one of these, endothelial cells secrete a chemoattractant that attracts other endothelial cells. By itself this mechanism causes cells to aggregate into isolated clusters. But including experimentally observed contact inhibition of chemotaxis in the simulation causes cell aggregates to sprout, using a new stochastic mechanism.

Our current models describe cell behavior phenomenologically, based on experimental observations. In this project, you will build Petri net models of the genetic networks steering endothelial cell behavior and of the pathways responding to cell-cell interations. The models will be based on published interactions between key molecular components, including the receptor VEGFR-2, the cellular adhesion molecule VE-cadherin and the cytokinin CXCL12. The experimentally testable predictions produced by the model will help us unravel the molecular networks responsible for building blood vessels.

Further reading

Further Information

Please contact K. Anton Feenstra (VU) or Roeland Merks (CWI) for more information.

Related project

Modeling endothelial cell behavior: interactions between VE-cadherin and VEGFR-2 during angiogenesis (Erik van Dijk)

Further Master projects at CWI

Masters thesis projects in the CWI Life Sciences group