Automated recognition of brain region mentions in neuroscience literature

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Automated recognition of brain region mentions in neuroscience literature
Authors: Leon French, Suzanne Lane, Lydia Xu, Paul Pavlidis
Citation: Frontiers in Neuroinformatics 3 : 29. 2009
Database(s): Google Scholar cites PubMed (PMID/19750194)
DOI: 10.3389/neuro.11.029.2009.
Link(s): http://frontiersin.org/neuroinformatics/paper/10.3389/neuro.11/029.2009/
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Automated recognition of brain region mentions in neuroscience literature is a paper about text mining for neuroscience.

Results associated with the paper are presented at the following web site.

http://www.chibi.ubc.ca/GEOMMTX

The corpus used in the study is available from:

http://www.chibi.ubc.ca/WhiteText/

[edit] Data

The corpus was on 1377 abstracts assembled from 119 PubMed from keywords search "afferent" and "efferent", later augmented with random articles from Journal of Comparative Neurology as used by Intelligent approaches to mining the primary research literature: techniques, systems, and examples.

[edit] Methods

For extraction (named entity recognition) the used dictionary matching they use neuroanatomical names from NeuroNames and "Nomenclatures of Canonical Mouse and Rat Brain Atlases and the Ontology of Human and Macaque Neuroanatomy". They compared the approach to Textpresso for Neuroscience.

They also used conditional random field from the Mallet software toolkit

[edit] Related papers

  1. Using text mining to link journal articles to neuroanatomical databases
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