Sequential analysis of transcript expression patterns improves survival prediction in multiple cancers.

As an example, the analysis of 514 kidney clear cell carcinomas (KIRC) with the 23 transcripts comprising the Pyrimidine Biosynthesis Pathway generated two distinct t-SNE clusters containing nearly identical tumor numbers and associated with highly significant median survival differences (2090 days vs. > 4500 days, P = 5.6 × 10 − 7 , Fig. 1 a and b and ref.

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3 c), with only Clusters 2 and 4 demonstrating modestly significant differences in median survival (1484 days vs. 1187 days, P = 0.034).

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Of these, only Clusters 1 and 4 showed even borderline significant differences in their median long-term survival (1492 days vs. 1336 days, P = 0.05, Fig. 3 b).

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However, most likely because this group lacked a sufficiently large number of tumors, the two survival curves were not determined to be significantly different despite a clear trend in that direction (median survival 2324 days vs > 4500 days).

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