Cytoscape and Network Biology:
an Introduction

cytoscape.github.io/cytoscape-tutorials/presentations/intro-cytoscape-2018-ucsf.html


UCSF/CCMI/Gladstone

5 Jun 2018

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 Guided Tour of Cytoscape Finding Network Data Network Analysis and Viz Hands-on Exercises

Introductions

Alex Pico, Gladstone Institutes
  • Associate director, Bioinformatics Core
  • Executive director, National Resource for Network Biology
  • Cytoscape team since 2006
  • Author of half a dozen Cytoscape apps

Introductions

What about you?

  • Clinicians
  • Bench Biologists
  • Bioinformaticians
  • Computer Scientists
  • Chemists
  • Mathematicians
  • Other

Introductions

Prior Cytoscape or network analysis experience?

  • None -- that's what I'm here for!
  • Some network analysis, but what's Cytoscape?
  • I've played with Cytoscape, but still have a lot to learn.
  • I use Cytoscape all the time...
    (hey, I could probably teach this course!)

Tour of Cytoscape


  1. Launch Cytoscape v3.6.1

Tour of Cytoscape


  1. Open CyBrowser
  2. Enter URL: tutorials.cytoscape.org

Tour of Cytoscape


  1. Click on Tour of Cytoscape
  2. Resize window to your preference
Introductions and Concepts Guided Tour of Cytoscape Finding Network Data Network Analysis and Viz Hands-on Exercises
Introductions and Concepts Guided Tour of Cytoscape Finding Network Data Network Analysis and Viz Hands-on Exercises
Introductions and Concepts Guided Tour of Cytoscape Finding Network Data Network Analysis and Viz Hands-on Exercises

Thank You!

Here are additional resources you may find useful:

Thank You!




surveymonkey.com/r/cytoscape