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Figure 3. Exploratory analysis of array data from pre-germination treatment. (A) Superimposed expression pattern of all transcripts detected using one or more probes with hybridization to Brassica genomic DNA. (B) Functional classification of the detected genes, using Arabidopsis annotation. The pie chart shows the breakdown by functional category (the highest-level MIPS category) of all the detected transcripts. The percentages in parentheses indicate the percentage of the categories in the whole genome annotation. (C) Clustering of normalized expression data. The graph at top left shows the median-centered expression profiles of all the detected transcripts at the five experimental points: (1) untreated seed, (2) primed seed, (3) primed and dried seed, (4) primed seed after shelf-life induction, and (5) primed seed after shelf-life induction followed by drying. The lower graphs show how these profiles are separated into three distinct patterns, which can be resolved using self-organizing map clustering. The charts to the right of each cluster graph show the relative percentage enrichment or depletion of genes in the functional categories shown in B, in each of the three clusters.
