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Figure 4 | BMC Genomics

Figure 4

From: The stable traits of melanoma genetics: an alternate approach to target discovery

Figure 4

(A) (Left panel) self-organizing heat map based on the 968 delegate genes of 112 melanoma metastases; the solid yellow lines define two classes discovered by this method referred subsequently as TARA's classification. The dashed yellow line defines a secondary class, sitting astride the two previous ones. Samples included in each class were named accordingly for subsequent class prediction analyses. Rearrangement of sample (right panel) according to the 100 transcripts most significantly differentially expressed by class A metastases compared to class B metastases demonstrated that the C class includes metastases prevalently but not exclusively close to the A class. (B) PCA analysis based on the complete data set demonstrating the tri-dimensional distribution of the 112 melanoma metastases based on the TARA's classification. Top canonical pathways (C) and top Functions (D) enriched according to IPA when transcripts differentially expressed between TARA's class A vs class B were selected according to a t test(cutoff p-value < 0.001. (E) Self-organizing heat map of 112 melanoma metastases based on transcripts known to be associated with the melanoma oncogenesis. (F) Self-organizing heat map of the same metastases based on transcripts previously described to differential melanomas with poorer compared to better prognosis [8]; (G) Self-organizing heat map of the same metastases based on genes representative of Th1 and Th17 immune phenotype [33, 36–38].

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