Teaching Activities

We are involved in teaching the MPhil in Computational Biology offered through the Cambridge Computational Biology Institute.
We also run introductory short courses on microarray data analysis from time to time, in Cambridge (CRI, EBI) and abroad (Camerino, Oslo, Lisbon, Aveiro).

Upcoming Courses

Analysing microarrays using R/Bioconductor - Oslo (1-3/12/2008).
Hands-on training at EBI - Transcriptomics (19-22/01/2009).

Teaching Materials

Introductory Course on Microarray Data Analysis

Lectures

Introduction (Nuno Barbosa-Morais, based on materials by Stephen J Eglen and Rafa Irizarry)
Software (R, Bioconductor, limma) (Natalie Thorne)
Exploratory Data Analaysis (including background correction and normalization) (Natalie Thorne)
Quality Assessment (Natalie Thorne, based on materials by Jean Yang and Agnes Paquet (arrayQuality), Matt Ritchie and Gordon Smyth (weights))
Experimental Design (Natalie Thorne, with contributions from Matt Ritchie)
Statistics of Microarray Data Analysis (Natalie Thorne)
Linear Models (Natalie Thorne, with contributions from Ingrid Lonnstedt and Gordon Smyth)

Analysing data from Illumina BeadArrays (Matt Ritchie, Mark Dunning)

Practicals

A brief introduction to R
limma: Basics [Data]
limma: Preprocessing, exploratory analysis and quality assessment [Data]
limma: Assessing differential expression [Data]
(Natalie Thorne)

Analysing Illumina bead-based data using beadarray [Data] (Matt Ritchie, Mark Dunning)

Further contributions from Terry Speed, John Marioni, Mark Dunning, Mike Smith, and Ana Rita Grosso