NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis

The growing application of gene expression profiling demands powerful yet user-friendly bioinformatics tools to support systems-level data understanding. NetworkAnalyst was first released in 2014 to address the key need for interpreting gene expression data within the context of protein-protein inte...

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Vydáno v:Nucleic acids research Ročník 47; číslo W1; s. W234 - W241
Hlavní autoři: Zhou, Guangyan, Soufan, Othman, Ewald, Jessica, Hancock, Robert E W, Basu, Niladri, Xia, Jianguo
Médium: Journal Article
Jazyk:angličtina
Vydáno: England Oxford University Press 02.07.2019
Témata:
Computational Biology - methods
Gene Expression - genetics
Gene Expression Profiling - methods
Gene Regulatory Networks - genetics
Protein Interaction Mapping - methods
Protein Interaction Maps
Software
Web Server Issue
ISSN:0305-1048, 1362-4962, 1362-4962
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Shrnutí:The growing application of gene expression profiling demands powerful yet user-friendly bioinformatics tools to support systems-level data understanding. NetworkAnalyst was first released in 2014 to address the key need for interpreting gene expression data within the context of protein-protein interaction (PPI) networks. It was soon updated for gene expression meta-analysis with improved workflow and performance. Over the years, NetworkAnalyst has been continuously updated based on community feedback and technology progresses. Users can now perform gene expression profiling for 17 different species. In addition to generic PPI networks, users can now create cell-type or tissue specific PPI networks, gene regulatory networks, gene co-expression networks as well as networks for toxicogenomics and pharmacogenomics studies. The resulting networks can be customized and explored in 2D, 3D as well as Virtual Reality (VR) space. For meta-analysis, users can now visually compare multiple gene lists through interactive heatmaps, enrichment networks, Venn diagrams or chord diagrams. In addition, users have the option to create their own data analysis projects, which can be saved and resumed at a later time. These new features are released together as NetworkAnalyst 3.0, freely available at https://www.networkanalyst.ca.
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ISSN:0305-1048
1362-4962
1362-4962
DOI:10.1093/nar/gkz240