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Supplementary Figure Legends
Figure S1. Differentially regulated pathways between rhabdoid and non-rhabdoid clear
cell renal cell carcinoma
Pathway alterations in rhabdoid renal cell carcinoma compared with that of: (A) advanced-stage
(III/IV) non-rhabdoid renal cell carcinoma; and (B) high grade (grade 3) non-rhabdoid renal cell
carcinoma.
Figure S2. Heterogeneity of mutation profile in different morphologic components of clear
cell renal cell carcinoma
The MTOR L1281M mutation was found only in the sarcomatoid component of the tumor (left
lower panel) but not in the epithelioid (right lower panel) or the rhabdoid (right upper panel)
components. The absence of the mutation in matched normal tissue (left upper panel) indicates
its somatic nature. MTOR is coded by the negative strand. As the positive strand is visualized in
IGV, the codon change appears as GAC>TAC whereas the actual change is CTG>ATG
(Leucine>Methionine) on the negative strand.
Figure S3. The epithelioid, sarcomatoid and rhabdoid components of clear cell renal cell
carcinoma show a similar global transcriptomic signature
RNA-seq demonstrates that the epithelioid (Er), sarcomatoid (Sr) and rhabdoid (R) components
of rhabdoid clear cell renal cell carcinoma do not show clustering with respect to global gene
expression. Gene expression values were centered before clustering. Samples are ordered by
hierarchical clustering within subtype in columns and genes are in rows.