bioinformatics-core-shared-training/microarray-analysis

Materials on the analysis of microarray expression data; focus on re-analysis of public data ( http://tinyurl.com/cruk-microarray)

microarray-analysis

Materials on the analysis of microarray expression data; focus on re-analysis of public data

Day one

• Intro to microarray technology (Illumina / affy) & Data analysis

  • probes, target terminology
  • Bioconductor introduction

• Prac; 1st look at microarray data and R refresher

  • Existing Bioc practical

-Specific technologies + Affy workflow + Illumina workflow + Diagnostic plots + Quality control / normalisation

• Linear models and statistics for differential expression

Day two

• Practical on differential expression

• Advanced aspects of analysis

  • Annotation
  • Batch effects

• Clustering, PCA, (survival?)

• Existing prac

Use this?

source("https://bioconductor.org/biocLite.R") biocLite("Affyhgu133Plus2Expr")