BioTapestry
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BioTapestry is an open source software application for modeling and visualizing gene regulatory networks (GRNs).
History
BioTapestry was created at the in Seattle, in collaboration with the at the . The project was initiated to support the ongoing development of the model of the GRN regulating the development of the endomesoderm in the sea urchin Strongylocentrotus purpuratus. BioTapestry was initially made public in late 2003 as a web-based, read-only 2007-11-05 at the Wayback Machine, with the first fully functional editor released in August 2004 (v0.94.1). The current version, 7.1.3, was released in September 2023.
Development
Development work on BioTapestry is ongoing. For more information about version 7.1, see the .
Usage
BioTapestry is an interactive tool for modeling and visualizing gene regulatory networks.
Interactive examples
- from the Davidson Lab.
- from the Davidson Lab.
- from the McMahon Lab.
- from the Baliga Lab.
- from the Rothenberg Lab.
- from the Yuh Lab.
- from the Vokes Lab.
Features
Input
- Gene Regulatory Networks can be drawn by hand.
- Networks can be built using lists of interactions entered via dialog boxes.
- Lists of interactions can be input using comma-separated-value (CSV) files.
- Networks can be built using SIF files as input.
Visualization
- BioTapestry uses orthogonal-directed hyperlinks and a hierarchical presentation of models.
Analysis
- BioTapestry can create Systems Biology Markup Language files for a subset of networks.
Documentation
- The BioTapestry home page has links to several tutorials for using the software.