Visualize omics data on networks with Omics Visualizer, a Cytoscape App
نویسندگان
چکیده
منابع مشابه
Enrichment Map – a Cytoscape app to visualize and explore OMICs pathway enrichment results
High-throughput OMICs experiments generate signals for millions of entities (i.e. genes, proteins, metabolites or any measurable biological entity) in the cell. In an effort to summarize and explore these signals, expression results are examined in the context of known pathways and processes, through enrichment analysis to generate a set of pathways and processes that is significantly enriched....
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SUMMARY OmicsAnalyzer is a Cytoscape plug-in for visual omics-based network analysis that (i) integrates hetero-omics data for one or more species; (ii) performs statistical tests on the integrated datasets; and (iii) visualizes results in a network context. AVAILABILITY Implemented in Java, OmicsAnalyzer runs with Cytoscape 2.6 and 2.7. Binaries, documentation and video walkthroughs are free...
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MOTIVATION OmicsViz is a Cytoscape plug-in for mapping and visualizing large-scale omics datasets across species, including those with many-to-many mappings between homologs. This allows users to map their data onto pathways of related model organisms. Mapping schemas across species or different experimental protocols allow users to comparatively analyze the omics data. The data can also be vis...
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KeyPathwayMiner is a method for extracting and visualizing disease-specific key pathways. We identify sub-graphs, where most genes are dysregulated in a typical case-control study. Therefore, we extract all maximal connected sub-networks where all but K genes are differentially expressed/methylated/etc. in all but L cases. This model yields a very high interpretability of the results since K an...
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ژورنال
عنوان ژورنال: F1000Research
سال: 2020
ISSN: 2046-1402
DOI: 10.12688/f1000research.22280.1