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Figure 2 | BMC Genomics

Figure 2

From: Systematic interpretation of microarray data using experiment annotations

Figure 2

Overview of the pancreas cancer data. Human biopsies are characterized in terms of 26 (out of 93) experiment annotation values that have been selected for reproducibly corresponding to major variances in transcription. These traits have been subdevided into four different clusters (red, blue, pink, and green) by cutting the hierarchical clustering tree (panel c) at less than 20% of their total variance. Thickness of lines in the clustering tree corresponds to numbers of hybridizations annotated with at least one of the traits of the according cluster. The thickness of the horizontal yellow lines corresponds to the number of measurements posessing the listed trait, or, in case of a feature-cluster, at least one of the comprised traits, but none of the traits of the cluster to merge with next. A grey line stands for the empty set, indicating that, in terms of annotated measurements e. g. of the green cluster, this cluster is completely included in the cluster to merge with. The thickness of the vertical line indicates the cardinality of the intersection (number of measurements having at least one trait out of either cluster). Whereas the line thickness is proportional to the number of measurements relative to the total number of measurements in the dataset, the percentages written next to the vertical lines denote the cardinality of an intersection relative to the cardinality of the union of the particular two clusters to merge, only. The annotation values are also shown by CA (panel a), genes being plotted as grey dots, traits as boxes color-coded as above. The plot reveals that the difference between the first two and the second two clusters corresponds to many differential genes and makes up to 75% of the total variance among the traits (panel b).

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