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Author Topic:   Finding mentions of genes in MEDLINE
posted 07-19-2006 02:01 AM     Click Here to See the Profile for pswhite   Click Here to Email pswhite     Edit/Delete Message Reply w/Quote
Announcing the release of FABLE v1.0 for identifying and normalizing names of genes and proteins in MEDLINE

FABLE (Fast Automated Biomedical Literature Extraction) version 1.0 is now available for general viewing (unrestricted access) at http://fable.chop.edu.

FABLE v1.0 performs document retrieval of MEDLINE abstracts for queries of genes, transcripts, and proteins by annotating text in a completely automated process. The system is currently optimized for human genes. FABLE combines a named entity recognition extractor and a human gene normalizer that have been applied to all MEDLINE records. The system tracks a wide range of commonly used synonyms and aliases for each human gene and maps them to their official symbols. A query interface allows users to search for articles mentioning particular genes or proteins of interest. Identified articles can be sorted in various ways, depending upon users' preference, including by relevance to the query and by journal impact factor. FABLE also allows users to download their articles using a variety of formats. Feedback regarding FABLE is both welcomed and encouraged.

FABLE v1.0 was developed by the BioIE group at the University of Pennsylvania and the Children’s Hospital of Philadelphia. FABLE and BioIE are supported in part through a grant from the National Science Foundation.

FABLE is available at: http://fable.chop.edu. Comments and suggestions regarding FABLE are appreciated and welcomed.

The BioIE website is at: http://bioie.ldc.upenn.edu.


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