CBNA Course Series 2020: Introduction to Cytoscape and Network Biology

Matt Rogon   2020-04-01   Comments Off on CBNA Course Series 2020: Introduction to Cytoscape and Network Biology

Date(s) - 2020-04-01
10:00 CEST - 17:00 CEST

In 2020 the EMBL Centre for Network Analysis (CBNA) will offer (in collaboration with Bio-IT, de.NBI, and others) a series of courses focusing on data analysis, multi-omic data integration, advanced visualisation, automation, and interpretation using networks and Graph theory.

All of these courses are free and open to EMBL researchers and staff from all sites.

All of these courses will be available online via Zoom regardless of the Coronavirus developments.

Today we open registration for the foundation course of the entire series:

***Introduction to Cytoscape (01.04.2020 – 1st of April) (Room 202, Total seats: 20 students)***

**Date: 01 April 2020**
**Time: 10:00 – 17:00 **
**Location: ONLINE! (Zoom)**
**Requirements: laptops and enthusiasm**

Cytoscape is a multi-platform open-source tool for visualising interaction networks and integrating them with annotations, multi-omic 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.

**Course goals:**
During this 1-day preparatory course participants will learn how to:

  • use Cytoscape to access public resources (online databases, pathway tools, literature mining etc) to explore their data
  • reconstruct biological networks from their own datasets, and import their experimental data onto those networks
  • apply basic concepts in visualisation to annotate, analyse, and interpret biological information
  • exploit network structure and graph characteristics

After the course you will be able to independently work with Cytoscape and perform basic network and data exploration related tasks using public resources such as Kegg, String, Ensembl BioMart. This level of understanding of Cytoscape will be required for all subsequent courses.

This is a Level 1 introductory course, therefore no prior knowledge in the field is required. You will however be asked to bring your own laptop, with Cytoscape installed (exact details will follow in emails closer to the course).

If you would like to register to receive these announcements early, please send an empty message with the title ‘Subscribe’ to

If you have further questions please don’t hesitate to contact us.

Please note that this and all the other courses are pending recommendations from the Director General regarding current COVID-19 situation.

Best wishes,
Matt and Manjeet

Other courses in the series (registration opening will be announced):

Course 2 (TBA): – Clustering and modularity detection with biological networks, Accessing public databases for data retrieval including ontologies (gene, drug, disease etc), pathways (KEGG, Reactome, Wiki), stuructures and more.

Course 3 (TBA): – Visualisation with Cytoscape and Automation (with a special invited guest: John “Scooter” Morris, UCSF, Cytoscape Core developer)

Course 4 (TBA): – Enrichment Analysis with Ontologies and Pathways

Course 5 (TBA): – Intermediate Network Analysis and Visualisation (R, iGraph, Cytoscape)

Course 6 (TBA): – Multi-omic data integration using networks (TBA)



Bookings are closed for this event.