Cytoscape and Network Biology:
Introduction


Martina Summer-Kutmon, PhD
Workshop: https://mkutmon.github.io/cytoscape-workshop/

Goals and Motivations

By the end of this workshop you should be able to:

  • Understand the major applications of network biology
  • Find relevant networks and pathways
  • Import your data into Cytoscape
  • Perform basic topological and other network analyses
  • Master network layouts and data visualization
  • Know where to find relevant Cytoscape apps and tutorials
Introductions and Concepts Finding Network Data Network Analysis and Viz Hands-on Exercises

Introduction

Martina Summer-Kutmon, PhD
  • Assistant professor
  • Maastricht Centre for Systems Biology (MaCSBio)
  • Department of Bioinformatics (BiGCaT)
  • Network biologist, methods and tool development
  • Architect of the WikiPathways project
  • Developer of several Cytoscape apps

Introduction

What about you?

  1. Clinician
  2. Bench biologist
  3. Bioinformatician
  4. Computer scientist
  5. Chemist
  6. Mathematician
  7. Other

Introduction

Prior Cytoscape or network analysis experience?

  1. None -- that's what I'm here for!
  2. Some network analysis, but what's Cytoscape?
  3. I've played with Cytoscape, but still have a lot to learn.
  4. I use Cytoscape all the time...
    (hey, I could probably teach this course!)
Introductions and Concepts Finding Network Data Network Analysis and Viz Hands-on Exercises
Introductions and Concepts Finding Network Data Network Analysis and Viz Hands-on Exercises
Introductions and Concepts Finding Network Data Network Analysis and Viz Hands-on Exercises

Hands-on Exercises

  • I'll first give a quick tour through Cytoscape. Feel free to follow along if you have Cytoscape already installed.
  • After that we will move to the Zoom session and get started on the hands-on session.
  • See link in the chat.

Thank You!

Here are additional resources you may find useful:

Thank You!




surveymonkey.com/r/cytoscape