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Extension Label Format Description
.png PNG Portable Network Graphics For use in Powerpoint presentations
.bel BEL Biological Expression Language script For exchange to other BEL-aware software. Outputs upgraded/canonicalized BEL 2.0 Script.
.graphml GraphML GraphML For Cytoscape
.csv CSV Comma Separated Values For use in Microsoft Excel, Cytoscape, or other explorers that accept simple formats
.sif SIF Simple Interaction Format For use in Microsoft Excel, Cytoscape, or other explorers that accept simple formats
.cx CX JSON Cytoscape CyberInfrastructure Exchange For upload and sharing with the Network Data Exchange (NDEx)
.json Node-Link JSON Node-Link JSON For custom visualization using D3.js
.gpickle Pickle Python Pickle For programmatic use with PyBEL
.grp GRP Gene Set File Format For use in the Broad Institute Gene Set Enrichment Analysis (GSEA) software
.txt Citation Citation List Exports list of PubMed identifiers in a text file

About

BEL Commons is developed and maintained in an academic capacity by Charles Tapley Hoyt and Daniel Domingo-Fernández at the Fraunhofer SCAI Department of Bioinformatics with support from the IMI project, AETIONOMY. It is built on top of PyBEL, an open source project. Please feel free to contact us here to give us feedback or report any issues. Also, see our Publishing Notes and Data Protection information.

If you find BEL Commons useful in your work, please consider citing: Hoyt, C. T., Domingo-Fernández, D., & Hofmann-Apitius, M. (2018). BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. Database, 2018(3), 1–11.