Figure 1

MEM user interface and results for the transcription factor NANOG. The top of the page contains controls for the query: gene input field, dataset selection and advanced options. Bottom of the page shows the results of the query. The genes, which are displayed as rows, are ordered by multi-experiment similarity to the query gene. Additionally, the single experiment similarity ranks are displayed as a matrix of colored squares, where red and blue denote small and large ranks, respectively. The larger squares indicate the ranks that contributed to the final P-value. Each element corresponds to a experiment and the columns are clustered. Hovering over the results brings up context specific information: (a) word cloud that characterizes the corresponding experiments; (b) single dataset annotations; (c) gene names with short descriptions. The row of links above the results facilitates the further analysis of results. For example, the user can visualize the expression of selected datasets (marked with green ticks) as a heat map (d).