title: IntegromeDB: an integrated system and biological search engine.
abstract: BACKGROUND
  With the growth of biological data in volume and heterogeneity, web search engines become key tools for researchers. However, general-purpose search engines are not specialized for the search of biological data.
  
  
  METHODS
  Here, we present an approach at developing a biological web search engine based on the Semantic Web technologies and demonstrate its implementation for retrieving gene- and protein-centered knowledge. The engine is available at http://www.integromedb.org.
  
  
  CONCLUSIONS
  The IntegromeDB search engine allows scanning data on gene regulation, gene expression, protein-protein interactions, pathways, metagenomics, mutations, diseases, and other gene- and protein-related data that are automatically retrieved from publicly available databases and web pages using biological ontologies. To perfect the resource design and usability, we welcome and encourage community feedback.
authors.affiliation: San Diego Supercomputer Center, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA. baitaluk@sdsc.edu
authors.forename: Michael
authors.initials: M
authors.lastname: Baitaluk
authors.forename: Sergey
authors.initials: S
authors.lastname: Kozhenkov
authors.forename: Yulia
authors.initials: Y
authors.lastname: Dubinina
authors.forename: Julia
authors.initials: J
authors.lastname: Ponomarenko
mesh_terms: D019295:Computational Biology / Q000379:methods*; D016208:Databases, Factual; D015870:Gene Expression; D020407:Internet; D056186:Metagenomics; D025941:Protein Interaction Mapping; D011506:Proteins / Q000235:genetics; D057386:Search Engine; D012984:Software
chemical_list: D011506:Proteins