Multitask learning for host–pathogen protein interactions

Kshirsagar, Meghana; Carbonell, Jaime; Klein-Seetharaman, Judith

Enriched human pathways We perform enrichment analysis on the human pathways from the positive predictions of MTPL. We use Fisher's exact test with the hypergeometric distribution. We intersect the top enriched pathways that satisfy P-value 1e-07 from each task to get the commonly enriched pathways. The sizes of the various intersections are shown in Figure 5 . Seventeen pathways are commonly enriched across all four tasks. One hundred four pathways are enriched across the three high-throughput datasets, which is a significant fraction of the total number of pathways considered. This result indicates that the bias produced by our regularizer does produce predictions satisfying the commonality hypothesis. Table 6 shows some of the common enriched pathways. The 'Integrin alpha IIb beta3 (IIb 3) signaling' pathway is enriched only in B.anthracis and Y.pestis in the training data. However, in the predictions it is enriched in all four bacterial datasets. Integrin-IIb 3 is a transmembrane receptor expressed in mast cells and plays an important role in innate immune responses against pathogens.