1. Molecular Subtypes of Non-muscle Invasive Bladder Cancer
Seth P. Lerner, A. Gordon Robertson 
Cancer Cell 
Volume 30, Issue 1, Pages 1-3 (July 2016)
DOI: /j.ccell
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2. Figure 1
Unsupervised Clustering for Protein-Coding Genes in 476 Tumors
(A) Selecting a clustering input of 1,854 protein-coding genes using thresholds at the 90th-percentile variance and a mean abundance of 20 (red box).
(B) Cumulative distributions (CDFs) of consensus membership, and delta CDF area plots from a ConsensusClusterPlus v run with Pearson correlations, PAM, 200 iterations, and a gene fraction of 0.95, for solutions with between two and ten clusters. Arrows mark 3-, 4-, and 5-cluster solutions.
(C) Consensus membership heatmaps for 2-, 3-, 4-, and 5-cluster solutions.
(D) For a 3-cluster solution, a heatmap of normalized gene abundance for 345 genes that were highly scored as differentially abundant. Below the heatmap is a profile of silhouette width calculated from the consensus memberships (Wcm), then a subset of covariates with Fisher exact p values.
(E) Kaplan-Meier plot for progression-free survival (PFS), with a log-rank p value.
(F) Relationships between cluster membership in 3- versus 4-cluster and 3- versus 5-cluster solutions. Each curve corresponds to one of the 476 samples. Silhouette width profiles, like that under the heatmap in (D), are placed vertically on either side.
Cancer Cell  , 1-3DOI: ( /j.ccell )
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