Index of /external2go
Name Last modified Size Description
Parent Directory -
cog2go 01-Mar-2007 08:40 8.6K
ec2go 07-May-2008 04:40 286K
egad2go 01-Mar-2007 08:40 4.2K
genprotec2go 01-Mar-2007 08:40 28K
hamap2go 07-May-2008 04:40 188K
interpro2go 07-May-2008 04:40 1.9M
metacyc2go 15-Mar-2007 21:40 336K
mips2go 01-Mar-2007 08:40 117K
multifun2go 01-Mar-2007 08:40 61K
pfam2go 07-May-2008 04:40 611K
pirsf2go 07-May-2008 04:40 165K
prints2go 07-May-2008 04:40 315K
prodom2go 07-May-2008 04:40 130K
prosite2go 07-May-2008 04:40 267K
reactome2go 20-Mar-2007 06:40 475K
rfam2go 19-Oct-2007 03:10 45K
smart2go 07-May-2008 04:40 61K
spkw2go 07-May-2008 04:40 53K
spsl2go 07-May-2008 04:40 20K
tigr2go 01-Mar-2007 08:40 27K
tigrfams2go 19-Nov-2007 11:10 554K
um-bbd_enzymeid2go 01-Mar-2007 20:40 37K
um-bbd_pathwayid2go 01-Mar-2007 20:40 9.0K
!version: $Revision: 1.6 $
!date: $Date: 2007/03/01 16:38:16 $
!
Indices of Other Classification Systems to GO
GO is not the only attempt to build structured controlled vocabularies
for genome annotation. Nor is it the only such series of catalogs in
current use. We have, in a series of files in the folder
/external2go
attempted to make translation tables between these catalogs and GO. We
caution that these mappings are neither complete nor exact; they are
to be used as a guide. One reason for this is absence of definitions
from many of the other catalogs and of a complete set of definitions
in GO itself. The line:
!Uses:
e.g.
!Uses:http://www.tigr.org/docs/tigr-scripts/egad_scripts/role_reports.spl, 15 aug 2000.
gives the source of the external file.
The line syntax is:
database:<identifier> > GO:<term> ; GO:<GO_id>
e.g.:
TIGR_role:11030 73 Amino acid biosynthesis Glutamate family > GO:glutamine family amino-acid biosynthesis ; GO:0009084
For entries that map to more than one GO term, put each GO term on a separate line, e.g.
InterPro:IPR000011 Ubiquitin-activating enzyme, E1 > GO:protein modification ; GO:0006464
InterPro:IPR000011 Ubiquitin-activating enzyme, E1 > GO:ubiquitin cycle ; GO:0006512
Those available so far are:
cog2go
- The correspondence between COGs or KOGs (clusters of orthologous
groups) and GO terms.
- Constructed by Michael Ashburner and Jane Lomax.
ec2go:
- The correspondence between EC numbers and GO terms. Parsed from the
molecular function ontology.
- Original version parsed by Michael Ashburner. Current file parsed
from function.ontology Revision 2.537 flat file by Daniel Barrell,
EBI
egad2go:
- The correspondence between the TIGR EGAD categories and GO terms.
- Constructed by Michael Ashburner.
genprotec2go:
- The correspondence between the GenProtEC functional categories and
GO terms.
- Constructed by Heather Butler and Michael Ashburner
hamap2go
- The correspondence between HAMAP families and GO terms.
- Constructed byKarine Michoud, SIB, Geneva; maintained by Daniel
Barrell, EBI
interpro2go:
- The correspondence between InterPro entries and GO terms.
- Constructed and maintained by Nicola Mulder and Sandra Orchard.
metacyc2go
- The correspondence between MetaCyc pathways and GO process terms,
and between MetaCyc reactions and GO function terms.
- Constructed by Michael Ashburner, Midori Harris, Suparna Mundodi
and Amelia Ireland.
mips2go
- The correspondence between MIPS Funcat categories and GO terms.
- Constructed by Michael Ashburner and Midori Harris.
multifun2go
- The correspondence between MultiFun classifications and GO terms.
- Constructed by Michael Ashburner, Jane Lomax and Margrethe Hauge Serres.
pfam2go
- The correspondence between Pfam domains and GO terms; a subset of
interpro2go.
- Constructed and maintained by Nicola Mulder and Sandra Orchard.
prints2go
- The correspondence between PRINTS protein fingerprints and GO
terms; a subset of interpro2go.
- Constructed and maintained by Nicola Mulder and Sandra Orchard.
prodom2go
- The correspondence between ProDom domains and GO terms; a subset of
interpro2go.
- Constructed and maintained by Nicola Mulder and Sandra Orchard.
prosite2go
- The correspondence between Prosite domains and GO terms; a subset
of interpro2go.
- Constructed and maintained by Nicola Mulder and Sandra Orchard.
reactome2go
- The correspondence between Reactome events and GO terms.
- Constructed and maintained by Reactome curators and Amelia Ireland.
rfam2go
- The correspondence between Rfam families and GO terms.
- Constructed and maintained by Sam Griffiths-Jones and Jennifer Daub.
smart2go
- The correspondence between SMART domains and GO terms; a subset of
interpro2go.
- Constructed and maintained by Nicola Mulder and Sandra Orchard.
spkw2go:
- The correspondence between SWISS_PROT keywords and GO terms.
- Original mapping constructed by David Hill of MGI. Current version
constructed and maintained by Evelyn Camon, EBI
tigr2go:
- The correspondence between the TIGR role categories and GO terms.
- Constructed by Michael Ashburner.
tigrfams2go
- The correspondence between TIGRFAMS protein families and GO terms.
- Constructed by Mihcelle Gwinn and other TIGR staff.
um-bbd_enzymeid2go
- The correspondence between UM-BBD enzymes and GO terms.
- Constructed and maintained by Amelia Ireland.
um-bbd_pathwayid2go
- The correspondence between UM-BBD pathways and GO terms.
- Constructed and maintained by Amelia Ireland.