This encompasses a variety of uses, from network biology to social network analysis.
This approach may be applied to any oncogenic virus to map its regulatory functions, and its secondary impact on gene regulation via microRNAs.ĭeveloping a virus-microRNA interactome Gene expression MicroRNA Network analysis Regulatory networks Visualisation. Cytoscape.js is a graph theory library for analysis and visualization. Run algorithm Using custom data To use custom data, styles, or layouts, clone the repo and modify datasets/custom.json, js/index.js, or stylesheets/custom.cycss. This method allows for the analysis and visualization of large datasets to generate an interactome that integrates key players of molecular biology Cytoscape.js can analyze data with a variety of graph theory algorithms, including Breadth-First Search and Depth-First Search. Availability and Implementation Cytoscape (Shannon et al. This approach can be broadly applied to understand and map the regulatory functions of other oncogenic viruses, and determine their role in altering the cellular environment in cancer. To demonstrate this, we constructed a gene regulatory interactome encompassing Human Papillomavirus Type 16 (HPV16) and its control of specific miRNAs. This method may be applied to identify specific pathways that are altered in viral infection, and contribute to the oncogenic transformation of cells. We detail a logical step-by-step guide to uncover viral-protein-miRNA interactions using publically available datasets and the network building program, Cytoscape. 
A thorough understanding of the molecular pathways and individual genes altered by oncogenic viruses is needed for the identification of targets that can be utilised for early diagnosis, prevention, and treatment methods. The app provides several different types of charts to show the enriched terms. It is currently difficult to determine the effect of oncogenic viruses on the global function and regulation of pathways within mammalian cells. In addition, stringApp can retrieve functional enrichment for Gene Ontology terms, KEGG, Reactome and Wiki Pathways, DISEASES, COMPARTMENTS, TISSUES, and protein domains at a user-specified significance threshold and show the results in a new table in the Table Panel.
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