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Bioinformatics. 2011 Apr 15;27(8):1181-2. doi: 10.1093/bioinformatics/btr098. Epub 2011 Feb 23.

FNV: light-weight flash-based network and pathway viewer.

Author information

  • 1Department of Pharmacology and Systems Therapeutics, Systems Biology Center New York (SBCNY), Mount Sinai School of Medicine, 1425 Madison Avenue, New York, NY 10029, USA.

Abstract

MOTIVATION:

Network diagrams are commonly used to visualize biochemical pathways by displaying the relationships between genes, proteins, mRNAs, microRNAs, metabolites, regulatory DNA elements, diseases, viruses and drugs. While there are several currently available web-based pathway viewers, there is still room for improvement. To this end, we have developed a flash-based network viewer (FNV) for the visualization of small to moderately sized biological networks and pathways.

SUMMARY:

Written in Adobe ActionScript 3.0, the viewer accepts simple Extensible Markup Language (XML) formatted input files to display pathways in vector graphics on any web-page providing flexible layout options, interactivity with the user through tool tips, hyperlinks and the ability to rearrange nodes on the screen. FNV was utilized as a component in several web-based systems, namely Genes2Networks, Lists2Networks, KEA, ChEA and PathwayGenerator. In addition, FVN can be used to embed pathways inside pdf files for the communication of pathways in soft publication materials.

AVAILABILITY:

FNV is available for use and download along with the supporting documentation and sample networks at http://www.maayanlab.net/FNV.

CONTACT:

avi.maayan@mssm.edu.

PMID:
21349871
[PubMed - indexed for MEDLINE]
PMCID:
PMC3072557
Free PMC Article

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