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Manual inspection reveals that in three out of these missing four evidences the disease name is not mentioned in the sentence (relation occurred at co-reference level).
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For the latter, we propose a new architecture named PCNN, which utilizes two cascading convolutional layers to model the word-phrase relation and the phrase-sentence relation.
Have these cross-sentence relations been simply deleted from the data?
Where does the number 11.5% of cross-sentence relations come from?
COMMENT: Where does the number 11.5% of cross-sentence relations come from?
First, from the literature, 14,259 gene-sentence relations for GoF and 29,586 relations for LoF were determined.
Currently, cross-sentence relations are not available, but it is a topic worth studying in the future.
It is important to note that in the creation of gold standard, we omit possible cross-sentence relations.
COMMENT: The previous point about 11.5% of cross-sentence relations makes me then wonder how can the co-occurrence approach reach 100% recall?
(just checking) The previous point about 11.5% of cross-sentence relations makes me then wonder how can the co-occurrence approach reach 100% recall?
Two unfortunate design choices are the limitation to abstracts, even though so much data is readily available in PMC OA, and the missing support for cross-sentence relations, but these issues would definitely make for interesting future work.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com