Table 4.
Standardization of data exchange formats and web services.
| Domain | Format | Service | Relevant technologies |
|---|---|---|---|
| Interaction Network | PSI-MI | PSICQUIC | DIP, STRING, STITCH, IntAct, Cytoscape, Cell Designer |
| Glycoinformatics | GlycomicsObject | BioMoby | GLYDE-II, LINUCS, KEGG GLYCAN (KCF), RINGS |
| Phyloinformatics | phyloXML, NeXML | PhyloWS | CIPRES, Kepler, BioPerl (Bio::Phylo), NEXUS |
| Text-mining | U-Compare type system | U-Compare | UIMA, Whatizit, TerMine, iHOP, Allie |
| BioSQL | BioSQL schema | - | BioPerl, BioRuby, BioPython, BioJava |