Send to

Choose Destination
Methods Mol Biol. 2007;401:3-21. doi: 10.1007/978-1-59745-520-6_1.

Managing knowledge in neuroscience.

Author information

Yale Center for Medical Informatics and Department of Neurobiology, Yale University School of Medicine, New Haven, CT, USA.


Processing text from scientific literature has become a necessity due to the burgeoning amounts of information that are fast becoming available, stemming from advances in electronic information technology. We created a program, NeuroText ( ), designed specifically to extract information relevant to neuroscience-specific databases, NeuronDB and CellPropDB ( ), housed at the Yale University School of Medicine. NeuroText extracts relevant information from the Neuroscience literature in a two-step process: each step parses text at different levels of granularity. NeuroText uses an expert-mediated knowledge base and combines the techniques of indexing, contextual parsing, semantic and lexical parsing, and supervised and non-supervised learning to extract information. The constrains, metadata elements, and rules for information extraction are stored in the knowledge base. NeuroText was created as a pilot project to process 3 years of publications in Journal of Neuroscience and was subsequently tested for 40,000 PubMed abstracts. We also present here a template to create domain non-specific knowledge base that when linked to a text-processing tool like NeuroText can be used to extract knowledge in other fields of research.

[Indexed for MEDLINE]

Supplemental Content

Full text links

Icon for Springer
Loading ...
Support Center