Fig. 1

Constructing ‘Signature-Sample’ Matrix From Expression Data. The SaVanT pipeline converts user-submitted expression data into a signature-sample matrix whose columns are the submitted samples and rows are the user-selected molecular signatures. By default (shown above), every cell in this matrix contains the average value of signature genes for a particular signature-sample combination. The breakdown for an example cell in the signature-sample matrix is shown in red. The matrix value is computed by looking up the genes in any given user-selected signature in the SaVanT database (middle panel) and subsequently averaging the values of these genes in a particular sample in the user-submitted data (left and right panels). Above, samples are designated with numbers, genes with letters, and signatures with Roman numerals