Principle Component Analysis (PCA): The MADE4 package of R-Bioconductor was used to perform PCA on RMA-summarized probe set intensities. The first 3 components were plotted using Spotfire. A. All 207 isolates are shown and color-coded based on their serotype. B. 128 isolates are plotted and color-coded based on their known pathotype.
Jackson et al. BMC Genomics 2011 12:349 doi:10.1186/1471-2164-12-349