Gene Semantic Similarity Benchmark Task

A Gene Semantic Similarity Benchmark Task is a Semantic Similarity Benchmark Task that evaluates the performance of gene semantic similarity measures.

• Example(s):
  • Semantic Similarity in Biomedical Ontologies (Pesquita et al., 2009) Benchmark Task,
  • …
• Counter-Example(s):
  • Semantic Word Similarity Benchmark Task.
• See: Semantic Similarity Measure, Semantic Word Similarity Measure, Computer Software Benchmarking Task, GO Ontology, Biomedical Research Field, Gene, NLP Benchmark Task, Synthetic Hierarchy Learning.

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References

2009

• (Pesquita et al., 2009 ) ⇒ Catia Pesquita, Daniel Faria, Andre O. Falcao, Phillip Lord, and Francisco M. Couto (2009). "Semantic Similarity in Biomedical Ontologies". In: PLoS Computational Biology 5(7): e1000443.
  • QUOTE: We review semantic similarity measures applied to biomedical ontologies and propose their classification according to the strategies they employ: node-based versus edge-based and pairwise versus groupwise. We also present comparative assessment studies and discuss the implications of their results. We survey the existing implementations of semantic similarity measures, and we describe examples of applications to biomedical research. This will clarify how biomedical researchers can benefit from semantic similarity measures and help them choose the approach most suitable for their studies.

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