OmniPath: guidelines and gateway for literature-curated signaling pathway resources Figure 1: Resources featured in OmniPath and pypath. FromOmniPath: guidelines and gateway for literature-curated signaling pathway resources Dénes Türei, Tamás Korcsmáros & Julio Saez-Rodriguez Nature Methods 13, 966–967 (2016) doi:10.1038/nmeth.4077 Published online 29 November 2016 (a) Overview of OmniPath and pypath. Causal resources (including activity-flow and enzyme–substrate resources) can provide direction (*) or sign and direction (+) of interactions. Data types provided by the listed resources can be integrated with pathways in different ways (Supplementary Results 1, Supplementary Methods). GO, Gene Ontology; HPA, Human Protein Atlas; HPM, Human Proteome Map; PhosphoNetw, PhosphoNetworks; Prot.DB, ProteomicsDB. (b) Overlap of interactions across causal resources. Circle size denotes the number of interactions per resource, and line widths show the overlap of interactions between them, as measured by the Simpson index (see equation S3 in Supplementary Methods). For clarity, only links with Simpson index >0.05 are shown. MatrixDB and TRIP are not shown because they have no overlaps above this threshold.