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10.1186/s12918-016-0311-2 http://scihub22266oqcxt.onion/10.1186/s12918-016-0311-2 C5009562!5009562 !27585838     free     free     free Warning: file_get_contents(https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pubmed&id=27585838 &cmd=llinks): Failed to open stream: HTTP request failed! 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Leveraging syntactic and semantic graph kernels to extract pharmacokinetic drug drug interactions from biomedical literature |pdf=|usr=}}{{27585838 }} gab.com Text Leveraging syntactic and semantic graph kernels to extract pharmacokinetic drug drug interactions from biomedical literature JO: BMC Syst Biol http://www.kidney.de/pget.php?&tw=1&pmid=27585838 #FOAvip BACKGROUND: Information about drug-drug interactions (DDIs) supported by scientific evidence is crucial for establishing computational knowledge bases for applications like pharmacovigilance. Since new reports of DDIs are rapidly accumulating in the scientific literature, text-mining techniques for automatic DDI extraction are critical. We propose a novel approach for automated pharmacokinetic (PK) DDI detection that incorporates syntactic and semantic information into graph kernels, to address the problem of sparseness associated with syntactic-structural approaches. First, we used a novel all-path graph kernel using shallow semantic representation of sentences. Next, we statistically integrated fine-granular semantic classes into the dependency and shallow semantic graphs. RESULTS: When evaluated on the PK DDI corpus, our approach significantly outperformed the original all-path graph kernel that is based on dependency structure. Our system that combined dependency graph kernel with semantic classes achieved the best F-scores of 81.94 % for in vivo PK DDIs and 69.34 % for in vitro PK DDIs, respectively. Further, combining shallow semantic graph kernel with semantic classes achieved the highest precisions of 84.88 % for in vivo PK DDIs and 74.83 % for in vitro PK DDIs, respectively. CONCLUSIONS: We presented a graph kernel based approach to combine syntactic and semantic information for extracting pharmacokinetic DDIs from Biomedical Literature. Experimental results showed that our proposed approach could extract PK DDIs from literature effectively, which significantly enhanced the performance of the original all-path graph kernel based on dependency structure. Twit Text FOAVip Leveraging syntactic and semantic graph kernels to extract pharmacokinetic drug drug interactions from biomedical literature ????BMC Syst Biol http://www.kidney.de/pget.php?&tw=1&pmid=27585838 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=27585838 #FOAvip English Wikipedia <ref>{{Cite pmid|27585838 }}</ref> Leveraging syntactic and semantic graph kernels to extract pharmacokinetic drug drug interactions from biomedical literature #MMPMID27585838 Zhang Y ; Wu HY ; Xu J ; Wang J ; Soysal E ; Li L ; Xu H BMC Syst Biol 2016[Aug]; 10 Suppl 3 (Suppl 3 ): 67 PMID27585838 show ga BACKGROUND: Information about drug-drug interactions (DDIs) supported by scientific evidence is crucial for establishing computational knowledge bases for applications like pharmacovigilance. Since new reports of DDIs are rapidly accumulating in the scientific literature, text-mining techniques for automatic DDI extraction are critical. We propose a novel approach for automated pharmacokinetic (PK) DDI detection that incorporates syntactic and semantic information into graph kernels, to address the problem of sparseness associated with syntactic-structural approaches. First, we used a novel all-path graph kernel using shallow semantic representation of sentences. Next, we statistically integrated fine-granular semantic classes into the dependency and shallow semantic graphs. RESULTS: When evaluated on the PK DDI corpus, our approach significantly outperformed the original all-path graph kernel that is based on dependency structure. Our system that combined dependency graph kernel with semantic classes achieved the best F-scores of 81.94 % for in vivo PK DDIs and 69.34 % for in vitro PK DDIs, respectively. Further, combining shallow semantic graph kernel with semantic classes achieved the highest precisions of 84.88 % for in vivo PK DDIs and 74.83 % for in vitro PK DDIs, respectively. CONCLUSIONS: We presented a graph kernel based approach to combine syntactic and semantic information for extracting pharmacokinetic DDIs from Biomedical Literature. Experimental results showed that our proposed approach could extract PK DDIs from literature effectively, which significantly enhanced the performance of the original all-path graph kernel based on dependency structure. |*Biomedical Research [MESH] |*Computer Graphics [MESH] |*Drug Interactions [MESH] |*Pharmacokinetics [MESH] |*Publications [MESH] |*Semantics [MESH] |Computational Biology/*methods [MESH]Leveraging syntactic and semantic graph kernels to extract pharmacokin(epmc).pdf DeepDyve Pubget Overpricing