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Ambiguity of human gene symbols in LocusLink and MEDLINE: creating an inventory and a disambiguation test collection

Marc Weeber, Bob J Schijvenaars, Erik M Van Mulligen, Barend Mons, Rob Jelier, Christian C Van Der Eijk, Jan A Kors
2003 AMIA Annual Symposium Proceedings  
Along the process of making an inventory, a disambiguation test collection is constructed automatically.  ...  Using an existing abbreviation expansion algorithm,we explore MEDLINE for the use of human gene symbols derived from LocusLink.  ...  The goal of this paper is therefore two-fold. First, we will provide an inventory of the actual use of gene symbols in MEDLINE.  ... 
pmid:14728264 pmcid:PMC1480234 fatcat:arcdr64acna63nwqgbmdzfw2ui

CoPub Mapper: mining MEDLINE based on search term co-publication

Blaise T F Alako, Antoine Veldhoven, Sjozef van Baal, Rob Jelier, Stefan Verhoeven, Ton Rullmann, Jan Polman, Guido Jenster
2005 BMC Bioinformatics  
To test grouping of genes from real microarray data, 221 differentially expressed genes from a microarray experiment were analyzed with CoPub Mapper, which resulted in several relevant clusters of genes  ...  In order to identify biological similarities between genes, publications from MEDLINE were identified in which pairs of gene names and combinations of gene name with specific keywords were co-mentioned  ...  Acknowledgements We thank Edwin van den Heuvel, Victor de Jager, Rene van Schaik, Jacob de Vlieg, and BioASP for their support, NLM (National Library of Medicine) for licensing of MEDLINE and Jan Kors  ... 
doi:10.1186/1471-2105-6-51 pmid:15760478 pmcid:PMC1274248 fatcat:qbmbo6du2nantcskwg376wmq44