![]() UDP-N-acetylglucosamine transferase complex (1.94 hits, 1.UTP B complex (2.00 hits, 1.00 confidence).Nem1/Spo7 complex (2.00 hits, 1.00 confidence).Ski Complex (3.00 hits, 1.00 confidence).Set3p complex (3.00 hits, 1.00 confidence).Kornberg's mediator (SRB) complex (3.96 hits, 0.99 confidence).20S proteasome (4.02 hits, 1.00 confidence).Elongator complex (5.00 hits, 1.00 confidence).OCA complex (6.00 hits, 1.00 confidence).Mot1p complex (11.37 hits, 1.00 confidence).Interfaces marked with a frequency of "*" were selected from literature and required to be used as interfaces. The following images show the neighborhood of each predicted interfaces - that is, all of the pathways in the ensemble that include the interface. ![]() 20kb) NDEXAPIURL: the URL for the NDEx web application Run targets. UPLOADLIMIT: max network upload size (e.g. We used our method to infer a set of high-confidence predictions about which yeast gene products are interfaces with Brome Mosaic Virus. LOGVIZMAPPER: log VizMapper operations when set to true BASEURL: the base url of the server (e.g. High-confidence predicted host-virus interfaces You may need to select "yeast_bmv_background"/"yeast_bmv_inferred" from the VizMapper Visual Style menu. For example, unsigned, directed edges terminate in a diamond rather than a combined arrow/tee. Includes high-confidence interface predictions (listed in the next section).ĭue to the limitations of Cytoscape's VizMapper options, some symbols in the Cytoscape files are slightly different than those in the paper. Inferred subnetwork for BMV, allowing 47 interfaces, requiring the use of domain knowledge edges, and prohibiting cycles.Includes high-confidence phenotype predictions. Inferred subnetwork for BMV, allowing 97 interfaces, requiring the use of domain knowledge edges, and prohibiting cycles.Yeast background network, including a subnetwork consisting of literature-extracted interactions.To run this on your own networks, you will need to produce your own input files. This archive contains the code and data used to infer Background network and inferred subnetwork in Cytoscape format.Supplemental website for 'Inferring Host Gene Subnetworks Involved in Viral Replication'ĭeborah Chasman, Brandi Gancarz, Linhui Hao, Michael Ferris, Paul Ahlquist, Mark CravenĬontact: chasman at cs. or craven at
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