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. 2009 Nov 1;25(21):2860-2.
doi: 10.1093/bioinformatics/btp453. Epub 2009 Jul 23.

PathBuilder--open source software for annotating and developing pathway resources

Kumaran Kandasamy  1 , Shivakumar Keerthikumar, Rajesh Raju, T S Keshava Prasad, Y L Ramachandra, Sujatha Mohan, Akhilesh Pandey
Affiliations

PathBuilder--open source software for annotating and developing pathway resources

Kumaran Kandasamy et al. Bioinformatics. .

Abstract

Summary: We have developed PathBuilder, an open-source web application to annotate biological information pertaining to signaling pathways and to create web-based pathway resources. PathBuilder enables annotation of molecular events including protein-protein interactions, enzyme-substrate relationships and protein translocation events either manually or through automated importing of data from other databases. Salient features of PathBuilder include automatic validation of data formats, built-in modules for visualization of pathways, automated import of data from other pathway resources, export of data in several standard data exchange formats and an application programming interface for retrieving existing pathway datasets.

Availability: PathBuilder is freely available for download at http://pathbuilder.sourceforge.net/ under the terms of GNU lesser general public license (LGPL: http://www.gnu.org/copyleft/lesser.html). The software is platform independent and has been tested on Windows and Linux platforms.

Contact: pandey@jhmi.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

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Figures

Fig. 1.
Fig. 1.
PathBuilder architecture. Data can be populated manually or automatically. The stored data can be viewed directly through a web browser or can be exported to standard exchange formats for visualization and analysis using other software.
See this image and copyright information in PMC

References

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Publication types