Pathway annotation and analysis with Reactome: the solute carrier class of membrane transporters

Hum Genomics. 2011 May;5(4):310-5. doi: 10.1186/1479-7364-5-4-310.


Reactome is an expert-authored, peer-reviewed knowledge base of human reactions and pathways that functions as a data-mining resource and electronic textbook. Its current release covers approximately 23 per cent of the complete human proteome from UniProt. The pathway browser, search and data-mining tools facilitate searching and visualising pathway data and the analysis of user-supplied high-throughput datasets. A catalogue of all the solute-carrier (SLC) class of transporters which have known ligands has been annotated in Reactome. Reactome provides a detailed and interactive view of this set of transport reactions. Using the example of the SLC class of transporters, we show how they can be overlaid with protein-protein interaction, protein-drug interaction and gene expression data and compared with equivalent pathways in other species, to facilitate over-representation, expression and other pathway analyses.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Biosynthetic Pathways / genetics*
  • Databases, Protein
  • Humans
  • Knowledge Bases
  • Membrane Transport Proteins / classification*
  • Membrane Transport Proteins / genetics
  • Membrane Transport Proteins / metabolism*
  • Molecular Sequence Annotation / methods*
  • Protein Binding
  • Proteome / genetics*


  • Membrane Transport Proteins
  • Proteome