Cytoscape automation workshop by Dr. Alexander Pico
Cytoscape is one of the most popular desktop applications for network analysis and visualization. Dr. Pico has been a contributing member to Cytoscape since 2006 and has led numerous Cytoscape and Network Biology workshops and mentoring programs over the past 10 years.
Cytoscape is an open source software platform for visualizing molecular interaction networks and biological pathways and integrating these networks with annotations, gene expression profiles and other state data. Although Cytoscape was originally designed for biological research, now it is a general platform for complex network analysis and visualization.
Programme
| Time | Session |
|---|---|
| 09:00 - 10:00 | Introductions to network biology and Cytoscape |
| 10:00 - 10:30 | Finding and assessing types of networks, sources, and relevant apps |
| 10:30 - 11:00 | Break |
| 11:00 - 12:00 | Network visualization: data overlays & layouts |
| 12:00 - 12:30 | Network analysis: topological & data-driven |
| 12:30 - 13:30 | Lunch |
| 13:30 - 14:00 | Overview of Cytoscape Automation and setup |
| 14:00 - 14:30 | Loading disease network into Cytoscape via R |
| 14:30 - 15:00 | Coffee Break |
| 15:00 - 16:30 |
Interacting with Cytoscape
|
| 16:30 - 17:00 | Additional topics and Q&A |
Alexander Pico
Dr. Alexander R. Pico (Gladstone Institutes, San Francisco, USA ) is the Executive Director of the National Resource for Network Biology and the Vice President of the Cytoscape Consortium. Dr. Pico has been a contributing member to Cytoscape since 2006 and has led numerous Cytoscape and Network Biology workshops and mentoring programs over the past 10 years.
Alexander Pico has a PhD in molecular biology and biophysics with bioinformatics experience in data mining, analysis, visualization and integration. Experience in managing software development to put tools in the hands of bench biologists. Expertise in pathway modeling and analysis, multiomics, polymorphisms, structural biology and ion channels.
