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Text mining for Swiss-Prot curation: A story of success and failure Nature Precedings
Anne-Lise Veuthey; Violaine Pillet; Yum Lina Yip; Patrick Ruch.
A text mining group has been set up at the Swiss Institute of Bioinformatics, with objective to develop and adapt information retrieval and extraction tools to help Swiss-Prot curators in their daily annotation work. After over 7 year activities, this group has gathered a significant amount of experience about the need in text mining for biocuration.

The first observation we made is that there is no “in-a-box” solution which can satisfy every needs. Each curator has his/her own strategy to find information from the literature and none of the existing information retrieval systems is able to compete with it, more for reason of habits than for reason of performance. Second observation: to be...
Tipo: Presentation Palavras-chave: Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3166/version/1
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GOAssay: from Gene Ontology to Assays IDentifiers - Towards Automatic Functional Annotation of PubChem BioAssays Nature Precedings
Rajarshi Guha; Julien Gobeill; Patrick Ruch.
OBJECTIVES: We report on a experiment to functionally annotate PubChem assays using the Gene Ontology Categorizer (GOCat). 

METHODS and MATERIALS: The assays are processed to filter out non functional information, then the textual content is sent to the categorizer, which provide a ranked list of GO descriptors based on a GOA-learned association model. 

RESULTS: The GO descriptors are regarded as irrelevant for only 18% of the assays. 

CONCLUSION: Semantic enrichment of PubChem assays with functional genomics categories seems effective at least to navigate PubChem assays. 

AVAILABILITIES: the database is hosted by the...
Tipo: Poster Palavras-chave: Chemistry; Genetics & Genomics; Bioinformatics.
Ano: 2009 URL: http://precedings.nature.com/documents/3176/version/1
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