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 raw RNAseq files (any species) for mapping & quantification
Starting with a network file (sif, graphml, json)

News & Updates
  • NetworkAnalyst is dedicated for interpretation of gene/protein lists within biological networks. Please use ExpressAnalyst for comprehensive gene expression profiling;
  • Upgraded to PrimeFaces 13.0.10 and Java version 21 (12/16/2024);
  • Fixed the issue with Steiner Forest network creation for multiple node types (10/15/2024);
  • Enhanced node coloring for signaling network (10/02/2024);
  • Migrated from Java EE to Jakarta EE (09/21/2024);
  • Harmonized curation from different TF databases (ENCODE, ReMap, Enrichr, GTEx, ARCHS4), and updated the CHEA TF-target database to version CHEA3 (06/27/2024);
  • Updated PPI databases - STRING from v11 to v12.0, and IntAct 2022 to 2024 (Release 247) with more species added (06/27/2024);
Read more ......

Please Cite

  • 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)

Acknowledgement