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Table 4 Standardization of data exchange formats and web services.

From: The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows

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