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Table 2 Setup for Experiment I: The simple categorisation introduced (see ‘Setup of Experiment I and Experiment II for a gene/protein synonym detection task’) has been applied to the terms from PubMed abstract/title from the small-annotated corpus (first column) as well as to the target terms (second column). Each row of the third column contains the number of target terms for the experiment taking into account the categories that appear in the first and second column

From: Deep learning meets ontologies: experiments to anchor the cardiovascular disease ontology in the biomedical literature

Simple categorisation introduced

 

Terms from PubMed titles/abstracts

Target terms

n

Gene symbol appears

Gene symbol appears

5

Gene symbol appears

Only gene symbol

13

Gene symbol appears

Only protein name

3

Gene symbol appears

Refer protein name

2

Gene symbol appears

Terms from protein name

2

Only gene symbol

Only gene symbol

21

Refer protein name

Gene symbol appears

1

Refer protein name

Only protein name

16

Refer protein name

Refer protein name

18

Refer protein name

Terms from protein name

4