NetworkAnalyst

-- a web-based platform for gene expression profiling & biological network analysis

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 uploading common graph files from R or Cytoscape (10/22/2018);
Added support for network visualization in 3D space (10/18/2018);
Added support for raw RNAseq analysis using our Galaxy server (10/15/2018);
Fixed the annotation file for Illumina HumanRef-8 V3 BeadArray (07/06/2018);
See Resources on local installation option (06/11/2018);
See Resources on API for programmatic access (05/06/2018);
Fixed the issue in PPI network generation for M. tuberculosis (05/03/2018);
Added support for P. aeruginosa (02/13/2018);
Minor bug fix for subnetwork rendering (02/07/2018);

Read more ......

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" Nucl. 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)