Benchmarking selected computational gene network growing tools in context of virus-host interactions.

ABSTRACT: Several available online tools provide network growing functions where an algorithm utilizing different data sources suggests additional genes/proteins that should connect an input gene set into functionally meaningful networks. Using the well-studied system of influenza host interactions, we compare the network growing function of two free tools GeneMANIA and STRING and the commercial IPA for their performance of recovering known influenza A virus host factors previously identified from siRNA screens. The result showed that given small (~30 genes) or medium (~150 genes) input sets all three network growing tools detect significantly more known host factors than random human genes with STRING overall performing strongest. Extending the networks with all the three tools significantly improv

SUBMITTER: Taye B 

PROVIDER: S-EPMC5517527 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature