Supplemental Figure 1 from TumorMap: Exploring the Molecular Similarities of Cancer Samples in an Interactive Portal

Supplemental Figure 1: RSS transformed correlations correct for platform-specific inflation biases. Maps produced from different molecular data types. Samples in the maps are colored by tissue of origin. (A) Similarity score distributions for every pair of samples for each individual data platform. Spearman Rho was computed for mRNA, miRNA, RPPA, SCNV, and methylation platforms. HOCUS score was used for mutation data. (B) RSS-standardized similarity scores for every pair of samples for each individual data platform. The density curves demonstrate that RSS transformation corrects for platform-specific inflation biases. (C) (i)-(vi) Maps produced from each of the six molecular data types using OpenOrd layout. (vii) mRNA expression map produced using Principal Component Analysis method. Principal components 1 and 2 are used to represent the mRNA expression space. (viii) mRNA expression map produced using tSNE method. Dimensions 1 and 2 are used to represent the mRNA expression space. (D) Maps produced from inferred gene activities using the PARADIGM and SPIA methods. (E) Maps integrating more than one molecular data type.