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PathMEN

A Java tool for mining pathway mentions from literature

As of 2013-04-30, this project may now be found at https://sourceforge.net/p/pathner/.

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Description

PathNER is a tool for the identification of specific pathway mentions from biomedical literature. PathNER is built upon the GATE embedded framework.It's based on soft dictionary matching and rules-based detection. The dictionary is generated from ConsensusPathDB and Pathway Ontology and the rules are implemented in JAPE. Using PathNER, you can identify all occurrences of informative pathway names (e.g. 'the Wnt pathway'). PathNER can be used to assist studies that aim at uncovering associations between disease and pathways.

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Additional Project Details

Intended Audience

Science/Research

Programming Language

Java

Registered

2013-03-30
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