OpenDMAP: Open source Direct Memory Access Parser

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OpenDMAP is an ontology-driven, rule-based concept analysis and information extraction system. Unlike traditional parsers, OpenDMAP does not have a lexicon that maps from words to all the possible meanings of these words. Rather, each concept is associated with phrasal patterns that are used to recognize that concept. OpenDMAP processes texts to recognize concepts and relationships from a knowledge-base. OpenDMAP uses Protégé knowledge-bases to provide an object model for the possible concepts that might be found in a text. Protégé models concepts as classes that participate in abstraction and packaging hierarchies, and models relationships as class-specific slots.

For more information, or to cite your usage of OpenDMAP, please refer to this paper:

Hunter, L, Z Lu, J Firby, WA Baumgartner, Jr., HL Johnson, PV Ogren, KB Cohen. OpenDMAP: An open-source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression. BMC Bioinformatics 2008, 9:78. [pdf]

Patterns and associated Protégé ontologies for specific concepts are available in the OpenDMAP package entitled "Supplemental OpenDMAP Patterns". Pattern sets available:
-- Protein-protein interaction patterns used for the BioCreative II 2006 submission.

We are interested in your feedback about this application. Please direct all bug reports and comments about OpenDMAP to the OpenDMAP Bug Tracker.

If you are interested in helping with this effort, please send a message to the OpenDMAP open discussion forum.

The OpenDMAP codebase is licensed under the Mozilla Public License 1.1 (MPL 1.1).