Profiling of semantically annotated proteins

J. Hollunder, V. Mironov*, E. Antezana, R. Hoehndorf, M. Kuiper

*Corresponding author for this work

Research output: Contribution to journalConference articlepeer-review


We have exploited semantic annotations of biological entities to develop a novel approach to infer new knowledge. We demonstrate this in four use cases based on the Gene Expression Ontology, an applied ontology that we developed to serve the needs of researchers involved in the analysis of genes and proteins implicated in transcriptional control of pathways/diseases. We have found that semantic annotations associated with biological entities in various commonly used data sources support the identification of related entities, thereby emulating associations that can be inferred from sequence or other structural similarities between these entities. We demonstrate how those semantic annotations can be used to make inferences about the respective biological entities.

Original languageEnglish (US)
JournalCEUR Workshop Proceedings
StatePublished - 2012
Externally publishedYes
Event5th International Workshop on Semantic Web Applications and Tools for Life Sciences, SWAT4LS 2012 - Paris, France
Duration: Nov 28 2012Nov 30 2012


  • Annotation
  • Gene expression
  • Hypothesis generation
  • Ontology
  • Pattern identification
  • Semantic similarity

ASJC Scopus subject areas

  • General Computer Science


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