NetworkAnalyst

-- comprehensive gene expression analysis, meta-analysis & network biology

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Starting from a list of gene IDs with optional expression values

Starting from a single count table (RNAseq) or intensity table (microarray)

Starting with several gene expression tables for meta-analysis

Uploading RNAseq fastq files to our Galaxy server for mapping & quantification

Starting with a network file (sif, graphml, json)

News & Updates

Added support for gradient background and bi/tripartite network layout (09/03/2020);
Consolidated the interface for network selection and network tools (08/20/2020);
Added PPI data for host and 15 parasites as well as host and microbiome (08/07/2020);
Added support for signaling network analysis based on the SIGNOR 2.0 Repository (07/28/2020);
Added support for page sharing - click the to share interactive visual analytics results with your collaborators! (05/18/2020);
Added support for the Human Reference Interactome (HuRI) map (05/13/2020);
Added support for edge bundling in 2D network view (04/09/2020);
Added support for functional analysis for users upload network files (02/22/2020);
Fixed the issue with InnateDB ID mapping (02/17/2020);
Added support for colorblind-friendly schema in network and heatmap visualization (01/10/2020);
Updated all gene ID annotation files based on the latest database (NCBI, Uniprot, StringDB and Biomart) (12/16/2019);
The Current Selection panel in Network View page now shows Fold Change (FC) values for genes selected (11/29/2019);
Fixed the broken link for project management (save/delete) (11/20/2019);

Read more ......

Zhou, G., Soufan, O., Ewald, J., Hancock, REW, Basu, N. and Xia, J. (2019) "NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis" Nucleic Acids Research 47 (W1): W234-W241.
Xia J, Gill E, and Hancock REW (2015) "NetworkAnalyst for Statistical, Visual and Network-based Approaches for Meta-analysis of Expression Data" Nature Protocols 10, 823–844
Xia J, Benner MJ, and Hancock REW (2014) "NetworkAnalyst - integrative approaches for protein–protein interaction network analysis and visual exploration" Nucleic Acids Res. 42 (W1): W167-W174. (PPI data analysis and visualization)
Xia, J., Lyle, N.H., Mayer, M., Pena, O.M. and Hancock, R.E.W. (2013) “INVEX - a web-based tool for integrative visualization of expression data”. Bioinformatics 29 (24), 3232-3234 (gene expression data analysis)
Xia, J., Fjell, C.D., Mayer, M., Pena, O.M., Wishart, D.S. and Hancock, R.E.W. (2013) “INMEX - a web-based tool for integrative meta-analysis of expression data”. Nucleic Acids Research 41, W63-W70. (meta-analysis)

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