Multi-omics Integration via Biological Networks

Objective
Click on a panel below to start
Explore your networks in 2D or 3D space
A Graph File
Annotate SNPs, taxa, or LC-MS peaks for network analysis
SNPs
Microbial Taxa
LC-MS Peaks
Network analysis of one or more list(s) of molecules
Genes
Proteins
Transcription Factors
miRNAs
Metabolites

News & Updates

  • Please reach us through OmicsForum to ask questions related to OmicsNet.
  • Check out our paper on OmicsNet 2.0 now available on Nucleic Acids Research
  • JS code refactoring for improved performance (06/07/2022)
  • Fixed an issue with peak network generation (05/15/2022)
  • Upgraded R version to 4.1.3 (05/14/2022)
  • Improved messages based on results from database searching and API calls (04/25/2022)
  • Added support for genomic coordinates for SNP input (04/19/2022)
  • Updated FAQs and Gallery, added a new tutorial on IBD case study (04/05/2022)
  • Added support to allow users to browse, search and manually remove edges or nodes from individual omics networks (04/01/2022);
  • Added support for adding only edges when using PPI databases (03/25/2022);
  • Added R command history for more reproducible analysis (03/17/2022);
  • Added support for tissue-based filtering to improve network accuracy (03/15/2022);
  • Fixed a bug for network file upload based on user feedback (03/01/2022);
  • Improved interface for network building (02/15/2022);
Read more ......

Citing OmicsNet

  • Zhou, G., Pang Z., Lu, Y., Ewald, J. and Xia, J. (2022) "OmicsNet 2.0: a web-based platform for multi-omics integration and network visual analytics" Nucleic Acids Research (doi:10.1093/nar/gkac376).
  • Zhou, G. and Xia, J. (2018) "Using OmicsNet for Network Integration and 3D Visualization" Current Protocols in Bioinformatics (doi:10.1002/cpbi.69).
  • Zhou, G. and Xia, J. (2018) "OmicsNet - a web-based tool for creation and visual analysis of biological networks in 3D space" Nucleic Acids Research (doi:10.1093/nar/gky510).
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Upload aa list of miRNAs
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Upload a list of metabolites
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Upload a list of SNPs
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Upload a list transcription factors
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Upload a Graph File
Cytoscape (.json)
Tab-delimited (.txt)
Simple interaction file(.sif)
OmicsNet(.json)
Graph Markup (.graphml)
Upload and process peak list file
(editable)
None
Malaria (ESI+)
Upload a list of taxon names
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