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As for curatable abstracts, extract the following information: PMID of the abstract, gene terms and its corresponding gene ID from Entrez Gene, disease terms, relation assertion (positive or negative) and the evidence sentence containing the D-G pair.
As for curatable abstracts, extract the following information: PMID of the abstract, gene terms and its corresponding gene ID from Entrez Gene, disease terms, relation assertion (positive or negative) and the evidence sentence containing the D-G pair. Figure 5 shows the formal task descriptions (20).
All fields listed in Table 1 were extracted and applied in this study.> The detailed information about individual disease, drug and gene terms were extracted from the corresponding Disease, Drug and Gene files downloaded from the PharmGKB by November 15 , 2013[ 13].
514 of the gene terms were specifically excluded based upon the manual review (Additional File 4).
Gene terms related to protein serine/threonine kinase activity, protein amino acid phosphorylation, and oligopeptide transport were overrepresented (Table 2).
In the gene-centric approach, only the gene terms have to be correct to be considered as a true positive.
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