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BioCreative V track 4: a shared task for the extraction of causal network information using the Biological Expression Language.

Rinaldi F, Ellendorff TR, Madan S, Clematide S, van der Lek A, Mevissen T, Fluck J - Database (Oxford) (2016)

Bottom Line: Given the complexity of the task, we designed an evaluation methodology which gives credit to partially correct statements.We identified various levels of information expressed by BEL statements, such as entities, functions, relations, and introduced an evaluation framework which rewards systems capable of delivering useful BEL fragments at each of these levels.The aim of this evaluation method is to help identify the characteristics of the systems which, if combined, would be most useful for achieving the overall goal of automatically constructing causal biological networks from text.

View Article: PubMed Central - PubMed

Affiliation: Institute of Computational Linguistics, University of Zurich, Zurich, Switzerland fabio.rinaldi@uzh.ch juliane.fluck@scai.fraunhofer.de.

No MeSH data available.


Example of BEL statement (The ‘cat’ function representing catalytic activity was considered in our evaluation as equivalent to ‘act’ (activity), see Table 3 for details.).
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baw067-F1: Example of BEL statement (The ‘cat’ function representing catalytic activity was considered in our evaluation as equivalent to ‘act’ (activity), see Table 3 for details.).

Mentions: The biological expression language (BEL) is designed to represent scientific findings in the field of life sciences in a form that is not only computable but also easily editable by humans. The findings are captured through causal and correlative relationships between entities in the format of BEL statements. One example of a BEL statement is presented in Figure 1.Figure 1


BioCreative V track 4: a shared task for the extraction of causal network information using the Biological Expression Language.

Rinaldi F, Ellendorff TR, Madan S, Clematide S, van der Lek A, Mevissen T, Fluck J - Database (Oxford) (2016)

Example of BEL statement (The ‘cat’ function representing catalytic activity was considered in our evaluation as equivalent to ‘act’ (activity), see Table 3 for details.).
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4940434&req=5

baw067-F1: Example of BEL statement (The ‘cat’ function representing catalytic activity was considered in our evaluation as equivalent to ‘act’ (activity), see Table 3 for details.).
Mentions: The biological expression language (BEL) is designed to represent scientific findings in the field of life sciences in a form that is not only computable but also easily editable by humans. The findings are captured through causal and correlative relationships between entities in the format of BEL statements. One example of a BEL statement is presented in Figure 1.Figure 1

Bottom Line: Given the complexity of the task, we designed an evaluation methodology which gives credit to partially correct statements.We identified various levels of information expressed by BEL statements, such as entities, functions, relations, and introduced an evaluation framework which rewards systems capable of delivering useful BEL fragments at each of these levels.The aim of this evaluation method is to help identify the characteristics of the systems which, if combined, would be most useful for achieving the overall goal of automatically constructing causal biological networks from text.

View Article: PubMed Central - PubMed

Affiliation: Institute of Computational Linguistics, University of Zurich, Zurich, Switzerland fabio.rinaldi@uzh.ch juliane.fluck@scai.fraunhofer.de.

No MeSH data available.