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Thu 26 Nov 2015
09:30 - 12:30

Venue: Bioinformatics Training Room, Craik-Marshall Building, Downing Site

Provided by: Bioinformatics


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Biological data analysis using InterMine
Beginners

Thu 26 Nov 2015

Description

InterMine is a freely available data warehouse and analysis software system that has been used to create a suite of databases for the analysis of large and complex biological data sets.

InterMine-based data analysis platforms are available for many organisms including mouse, rat, budding yeast, plants, nematodes, fly, zebrafish and more recently human.

The InterMine web interface offers sophisticated query and visualisation tools, as well as comprehensive web services for bioinformaticians. Genomic and proteomic data within InterMine databases includes pathways, gene expression, interactions, sequence variants, GWAS, regulatory data and protein expression.

We have recently re-designed the InterMine interface to provide a more intuitive user-experience. This workshop will provide an overview of key features of the new interface and how this can be used to interrogate genomic and proteomic data.

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

Target audience
  • The course is aimed at bench biologists who need to analyse their own data against large biological datasets, or who need to search against several biological datasets to gain knowledge of a gene/gene set, biological process or function. The course may also be of interest to bioinformaticians who wish to familiarise themselves with the InterMine suite of databases, although the webservices will not be covered in detail.
  • Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
  • Further details regarding eligibility criteria are available here
  • Further details regarding the charging policy are available here
Prerequisites

No previous experience of InterMine databases is required.

Sessions

Number of sessions: 1

# Date Time Venue Trainer
1 Thu 26 Nov 2015   09:30 - 12:30 09:30 - 12:30 Bioinformatics Training Room, Craik-Marshall Building, Downing Site map Rachel Lyne
Topics covered

The following features of the InterMine web interface will be covered:

  • Search interface and query builder
  • Automated analysis of sets, e.g gene sets, including enrichment statistics
  • Analysis workflows
  • Tools for cross-organism analysis between other InterMine databases.
Objectives

By the end of the workshop, researchers will know how to use the InterMine interface and will have gained an understanding of how data can be passed between tools to create an analysis pipeline. The web-services will be introduced, but not covered in detail as this requires some programming experience.

Format

Presentations, demonstrations and practicals

Duration

0.5

Frequency

A number of times per year

Theme
Databases and Services

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