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Wed 29 Jan - Fri 31 Jan 2014
09:00 - 17:30

Venue: Department of Genetics, Room G12

Provided by: Graduate School of Life Sciences


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Bioinformatics: Microarray Analysis with Bioconductor

Wed 29 Jan - Fri 31 Jan 2014

Description

This course introduces researchers to a multidisciplinary approach to microarray data analysis. Attention is devoted to the design of microarray experiments, data normalization and quality control as well as to statistical analysis. Further information is available here.

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

Target audience
  • Our courses are open to all who might benefit
  • Booking priority is given to people from Cambridge University and Collaborating Institutes
Prerequisites
  • Knowledge of what microarrays are and the basic principles of their application to gene expression studies
  • Introductory training in R. Minimally completion of the R tutorial from computational biology group, Department of Oncology, Bioinformatics: Introduction to R or equivalent
  • Only a basic understanding of statistics
Sessions

Number of sessions: 3

# Date Time Venue Trainers
1 Wed 29 Jan 2014   09:00 - 17:30 09:00 - 17:30 Department of Genetics, Room G12 map Roslin Russell,  Oscar Rueda,  Suraj Menon,  Mark Dunning
2 Thu 30 Jan 2014   09:00 - 17:30 09:00 - 17:30 Department of Genetics, Room G12 map Roslin Russell,  Oscar Rueda,  Suraj Menon,  Mark Dunning
3 Fri 31 Jan 2014   09:00 - 17:30 09:00 - 17:30 Department of Genetics, Room G12 map Roslin Russell,  Oscar Rueda,  Suraj Menon,  Mark Dunning
Topics covered (session 1)
  • Lecture: Introduction to R and Bioconductor
  • Lecture: Data pre-processing
  • Lecture: Experimental Design
  • Practical: First steps in R
  • Practical: Introduction to limma
  • Lecture: Linear Models
Topics covered (session 2)
  • Lecture: Statistics of differential expression
  • Practical: Limma (differential expression)
  • Lecture: Processing Illumina BeadChips
  • Practical: Beadarray
Topics covered (session 3)
  • Lecture: Affymetrix arrays
  • Practical: Affymetrix arrays
  • Lecture: SNP and Copy Number Analysis
  • Practical: SNP and Copy Number Analysis
  • Lecture: Downstream Analysis
  • Practical: Using GOstats to interpret Illumina data
Aims
  • To provide an understanding of how to approach designing microarray experiments planned in the lab
  • To provide a knowledge and understanding of microarray analysis and quality issues
  • To encourage confidence in performing preprocessing, quality assessment, and differential expression and downstream analysis using the limma program and other R libraries in Bioconductor
Format

Presentations and practicals

Duration

3

Frequency

A number of times per year


Booking / availability