EMBL-EBI: Interactions & Pathways - Reactome

Prerequisites

This workshop will give an introduction to the Reactome pathway database website and analysis tools, using short presentations and practical hands-on exercises. The session will also explain where to learn more, get help, and how to become involved in adding more pathway information to Reactome.

Further information can be found here.

Also note: This event is part of a series of short introductions focusing on EMBL-EBI resources. If you want to learn more about these separate training events, see the Related Courses section below.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

• This workshop is aimed at researchers who want to learn about pathways or identify pathways relevant to a set of molecules
• Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
• Please be aware that these courses are only free for University of Cambridge students. All other participants will be charged a registration fee in some form. Registration fees and further details regarding the charging policy are available here
• Further details regarding eligibility criteria are available here

No previous bioinformatics experience is required, but an undergraduate level understanding of biology would be an advantage

Number of sessions: 1

Bioinformatics, Pathway or network analysis, Pathway or network visualisation

After this course you should be able to:

• Navigate the Reactome Pathway browser, search pathways and understand pathway diagrams
• Find proteins or compounds represented in Reactome
• Extend Reactome pathways with protein-protein or protein-compound interactions from relevant databases or with your own interactions data
• Map your own lists of genes, proteins, or compounds to Reactome pathways and identifying the pathways that are over-represented
• Visualise pathway expression levels using your own microarray or protein dataset

During this course you will learn about:

• The need for pathway databases such as Reactome
• Reactome pathways diagrams
• Navigating the Pathway browser
• Analysing your own data with Reactome

Presentations, demonstrations and practicals

• Free for University of Cambridge students
• £ 50/day for all University of Cambridge staff, including postdocs, and participants from Affiliated Institutions. Please note that these charges are recovered by us at the Institutional level
• It remains the participant's responsibility to acquire prior approval from the relevant group leader, line manager or budget holder to attend the course. It is requested that people booking only do so with the agreement of the relevant party as costs will be charged back to your Lab Head or Group Supervisor.
• £ 50/day for all other academic participants from external Institutions and charitable organizations. These charges must be paid at registration
• £ 100/day for all Industry participants. These charges must be paid at registration
• Further details regarding the charging policy are available here

One half day session

A number of times per year

• EMBL-EBI: Introduction to EMBL-EBI resources
• EMBL-EBI: An Introduction to Sequence Searching
• EMBL-EBI: Transcriptomics Data and Tools (ONLINE LIVE TRAINING)
• EMBL-EBI: Network Analysis with Cytoscape (ONLINE LIVE TRAINING)
• Using the Ensembl Genome Browser (ONLINE LIVE TRAINING)
• EMBL-EBI: Protein Sequence Databases with UniProt
• EMBL-EBI: Interactions & Pathways - IntAct & Complex Portal
• EMBL-EBI: Ontologies in life sciences - examples from GO and EFO