Fig. 2

Snapshots of the gene signature progression process in the lung cancer case study. Each panel shows results of sscMap with the top k ranked genes as the query signature, with k=150,200,300, and 322, respectively for (a)–(d). This figure exemplifies the intermediate results of individual steps in the gene signature progression process. The blue horizontal line indicates the position corresponding to the threshold p-value. Any points above this line are considered statistically significant. The number of compounds significantly connected to the query gene signature (solid red circles) are 2,4,7, and 10 respectively for panels (a)–(d). k=322 is the optimal signature length at which the preset FDR target ≤0.1 was first achieved