Course Outline
Course Outline
Description:
This session provides an introduction to the study of Protein-Protein Interaction (PPI) networks, their importance and the techniques that are used to build and analyze them. We will focus on PPI repositories that can be used to access and analyze PPI data and we will give a detailed description and hands-on walk-through of IntAct, the PPI database hosted at the European Institute of Bioinformatics (EBI), one of the most important reference databases in the field. Data standarization initiatives encouraged by the IMEx consortium will also be introduced and you will learn how to access the universal access PSICQUIC tool from their web interface, PSICQUICView. To finish the first part of the course, we will give a general introduction about different strategies used in network analysis.
In the second part of the session, we will give an overview of the capabilities of one of the most popular network analysis and representation software tools, Cytoscape. We will learn how to build a PPI network using Cytoscape and its PSICQUIC plugin. We will use the basic network representation features of Cytoscape to highlight quantitative proteomics information and use the BiNGO plugin to perform GO enrichment analysis and extract functional information for our network.
Topics:
This session will usually be offered as one of a number of short introductions to EBI Services that can be booked separately.
Course TimeTablePlease note that if you are not eligible for a University of Cambridge Raven account you will need to book by completing the form available from the appropriate Booking System Page.
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All our courses are a part of the Training Programme of the Graduate School of Life Sciences.
A full list of Bioinformatics courses offered by the School of Biological Sciences can be found here.
A number of other excellent programmes of Bioinformatics courses are offered by various Institutions. These include:
In the UK.
In the rest of Europe.
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The course will be conducted in:
Room G12-13, Department of Genetics, University of Cambridge,
Tennis Court Road, Cambridge, Cambridgeshire CB2 3EH
Some helpful information on how to get here can be found in the Genetics Department's web pages.
The Department of Genetics has wheelchair access to the main entrance. G12-13 is on the ground floor where there are toilets suitable for wheelchair users. It is possible to use most of our workstations in a wheelchair, but if you would like to reserve a workstation (at the back of the class) which has more room for easy manoevour, or you have any other queries or particular requirements, please ask.
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