Fig. 1

Intrinsic subset analysis of RNA-seq reads from SSc skin. a Assignment of intrinsic molecular subsets for SSc patients was performed using a support vector machine (SVM) developed for the purpose (Franks et al. In Press). Displayed are the 1010 genes from Johnson et al. [4] collapsed on gene ID and extracted from the normalized FPKM values for all 36 RNA-seq samples. Hierarchical clustering revealed distinct molecular subsets of disease, consistent with previous publications [1,2,3]. The sample dendrogram is colored to indicate intrinsic subset designations: normal-like (green), limited (yellow), inflammatory (purple), proliferative (red). b Hash marks indicate SSc clinical diagnosis associated with each sample. Black bars indicate genes that clustered together hierarchically; the most significantly overrepresented GO terms are listed