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EMBL-EBI: Network analysis with Cytoscape and PSICQUIC




This module provides an introduction to the theory and concepts of network analysis. Attendees will learn how to construct protein-protein interaction networks and subsequently use these to analyse large-scale datasets generated these to by techniques such as RNA-Seq or mass-spec proteomics. The course will focus on giving attendees hands-on experience in the use of Cytoscape and selected network analysis apps.

Also note: This event is part of a series of short introductions focusing on EMBL-EBI resources



Pablo Porras Millan, EMBL-EBI


Audience and Prerequisites

  • This workshop is aimed at researchers interested in proteins, network analysis, protein-protein interactions and related areas
  • Basic knowledge of interaction data resources and techniques is recommended
  • Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals


Syllabus, Tools and Resources

During this course you will learn about:

  • Molecular interaction network analysis
  • PSICQUIC and molecular interaction data integration
  • Basic principles of network analysis
  • Basic Cytoscape functionality and use of apps for clustering and GO enrichment analysis


Learning Objectives

After this course you should be able to:

  • Understand how the PSICQUIC client can help you to integrate molecular interaction data from different public repositories
  • Utilise a range of Cytoscape apps to generate and analyse interaction networks
  • Use a variety of analysis apps within Cytoscape: BINGO, MCODE, ClueGO



Book Here



09:30 - 10:30 Introduction to PSICQUIC and MI data integration Pablo Porras Millan
10:30 - 11:00 Introduction to network analysis and Cytoscape Pablo Porras Millan
11:00 - 11:15 Tea/Coffee break
11:15 - 12:30 Cytoscape basics (hands-on) Pablo Porras Millan
12:30 - 13:30 Lunch
13:30 - 15:00 Cytoscape basics (hands-on) Pablo Porras Millan
15:00 - 15:15 Tea/Coffee break
15:15 - 17:00 Cytoscape basics (hands-on) cont'd  
17:00 End of workshop
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