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Escher

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A web-based tool for building, viewing, and sharing visualizations of biological pathways. These 'pathway maps' are a great way to contextualize data about metabolism. Three key features make Escher a uniquely effective tool for pathway visualization. First, users can rapidly design new pathway maps. Escher provides pathway suggestions based on user data and genome-scale models, so users can draw pathways in a semi-automated way. Second, users can visualize data related to genes or proteins on the associated reactions and pathways, using rules that define which enzymes catalyze each reaction. Thus, users can identify trends in common genomic data types (e.g. RNA-Seq, proteomics, ChIP)-in conjunction with metabolite- and reaction-oriented data types (e.g. metabolomics, fluxomics). Third, Escher harnesses the strengths of web technologies (SVG, D3, developer tools) so that visualizations can be rapidly adapted, extended, shared, and embedded.

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Escher classification

Escher specifications

Interface:
Web user interface
Programming languages:
Java, Javascript, Python
Computer skills:
Basic
Stability:
Stable
Restrictions to use:
None
License:
MIT License
Version:
1.2.1
Maintained:
Yes

Escher support

Maintainer

  • Bernhard O. Palsson <>

Credits

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Publications

Institution(s)

Department of Bioengineering, University of California, San Diego, La Jolla, CA, USA; Center for Bioinformatics Tuebingen (ZBIT), University of Tuebingen, Tübingen, Germany; Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Lyngby, Denmark; Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA

Link to literature

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