Difference between revisions of "MOD"

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'''M'''odel '''O'''rganism '''D'''atabases are repositories for information on
 +
those organisms with a wealth of biological data that make them
 +
attractive to study as models of other
 +
species – including humans – that are more difficult to study directly
 +
[http://genome.wellcome.ac.uk/doc_WTD020803.html].
 +
Historically, these model organism databases include the handful of species with
 +
extensive genomic research data, such as the
 +
[http://www.nih.gov/science/models/ NIH model organisms].
 +
 
 +
The acronym has been extended to include '''Many''' organism and '''My''' organism databases,
 +
so that the MOD in GMOD applies to almost all organism/genome database
 +
projects.
 +
 
 +
=GMOD Participating databases=
 +
 
 +
The following databases/organizations are contributing to and/or adopting GMOD components, as of early 2007.  See [[GMOD Users]] for a more detailed list.
 +
 
 +
{|
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|-
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|[http://crfb.univ-mrs.fr/ciona-bin/gbrowse/intestinalis/ ANISEED]
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|[http://gmod.mbl.edu/perl/site/antonospora01 AntonosporaDB]
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|[http://atidb.org ATIDB]
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|-
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|[http://racerx00.tamu.edu/bee_resources.html BeeBase]
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|[http://www.bioinformatics.ksu.edu/BeetleBase/ BeetleBase]
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|[http://bovinegenome.org/ BGD]
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|-
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|[http://www.biohealthbase.org/GSearch/ BioHealthBase]
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|[http://bovineqtl.tamu.edu Bovine QTL Viewer]
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|[http://racerx00.tamu.edu/cgi-test/searchCattleDatabase.html Cattle EST Gene Family Database]
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|-
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|[http://www.candidagenome.org/ CGD]
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|[http://www.yandell-lab.org/cgl/ CGL]
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|[http://www.chromdb.org/ ChromDB ]
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|-
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|[http://www.chr7.org/cgi-bin/gbrowse/gbrowse/chr7_v2 Chromosome 7 Annotation Project]
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|[http://rulai.cshl.edu/cshlmpd/credit.html CSHLmpd]
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|[http://projects.tcag.ca/variation/cgi-bin/gbrowse/hg17 Database of Genomic Variants]
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|-
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|[http://www.dictybase.org DictyBase] (see [[:Category:DictyBase|also]])
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|[http://insects.eugenes.org/DroSpeGe/ DroSpeGe]
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|[http://ecocyc.org/ EcoCyc] (see [[Pathway Tools|also]])
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|-
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|[http://www.flybase.org FlyBase] (see [[:Category:FlyBase|also]])
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|[http://fungal.genome.duke.edu/ Fungal Comparative Genomics]
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|[http://genome.kbrin.uky.edu/fungi_tel/browser.html Fungal Telomere Browser]
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|-
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|[http://genome.ucsc.edu/cgi-bin/hgGateway?org=Chicken Gallus Genome Browser]
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|[http://www.genedb.org/ GeneDB]
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|[http://www.generationcp.org/ Generation Challenge Programme]
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|-
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|[http://wheat.pw.usda.gov/ GrainGenes]
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|[http://www.gramene.org Gramene]
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|[http://www.hapmap.org/cgi-perl/gbrowse/ HapMap]
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|-
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|[http://t1dbase.cimr.cam.ac.uk/cgi-bin/gbrowse/2q33/ Human 2q33]
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|[http://projects.tcag.ca/cgi-bin/duplication/dupbrowse/human_b36 Human Genome Segmental Duplication Database]
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|[http://influenza.genomics.org.cn/ IVDB]
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|-
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|[http://magi.plantgenomics.iastate.edu/ MAGI]
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|[http://gmod.mbl.edu/  Marine Biological Lab Organism Databases]
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|[http://www.informatics.jax.org/ MGI] (see [[:Category:MGI|also]])
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|-
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|[http://projects.tcag.ca/xenodup/gbrowse.php Non-Human Segmental Duplication Database]
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|[http://www.omap.org/ OMAP]
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|[http://orygenesdb.cirad.fr/ OryGenesDB]
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|-
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|[http://map.lab.nig.ac.jp/cgi-bin/gbrowse/Oryza_chr8/ Oryza Chromosome 8]
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|[http://bioinformatics.ai.sri.com/ptools/ Pathway Tools] (see [[Pathway Tools|also]])
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|[http://paramecium.cgm.cnrs-gif.fr/ ParameciumDB] (see [[ParameciumDB|also]])
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|-
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|[http://peanutgenetics.tamu.edu/cmap/ PeanutMap]
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|[http://mips.gsf.de/cgi-bin/proj/plant/gbrowse/synbrowse PlantsDB]
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|[http://www.plasmodb.org/ PlasmoDB]
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|-
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|[http://v2.pseudomonas.com/whats_new.jsp PseudoCAP]
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|[http://www.possumbase.org.nz/cgi-bin/gbrowse/mondom4/ PossumBase]
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|[http://puma.princeton.edu/ PUMAdb]
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|-
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|[http://rgd.mcw.edu RGD] (see [[:Category:RGD|also]])
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|[http://www.yeastgenome.org SGD] (see [[:Category:SGD|also]])
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|[http://sgdlite.princeton.edu/ SGD Lite]
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|-
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|[http://planaria.neuro.utah.edu/tools/tools.php SmedDB]
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|[http://www.sgn.cornell.edu/ SOL Genomics Network] (see [[:Category:SGN|also]])
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|[http://soybase.agron.iastate.edu/ Soybase]
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|-
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|[http://soybeangenome.siu.edu/ Soybean Gbrowse Database]
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|[http://t1dbase.org/cgi-bin/dispatcher.cgi/Welcome/display T1DBase]
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|[http://www.arabidopsis.org TAIR] (see [[:Category:TAIR|also]])
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|-
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|[http://www.ciliate.org/help/Locus.shtml TGD]
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|[http://biocomp.dfci.harvard.edu/tgi/ TGI]
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|[http://www.tigr.org TIGR]
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|-
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|[http://rice.tigr.org/tigr-scripts/osa1/gbrowse/ricegenomebrowser TIGR Rice Genome Browser]
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|[http://v3-0.toxodb.org/ ToxoDB]
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|[http://urgi.versailles.inra.fr/projects/TriAnnot/GBrowse.php TriAnnot BAC Viewer]
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|-
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|[http://www.vectorbase.org VectorBase]
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|[http://wfleabase.org/ wFleaBase]
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|[http://www.wormbase.org WormBase] (see [[:Category:WormBase|also]])
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|-
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|[http://www.xanthusbase.org/ XanthusBase]
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|[http://www.xenbase.org/ Xenbase]
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|-
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|}
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= See also =
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* [[GMOD Users]]
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* [[Standard URL]]
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* [http://en.wikipedia.org/wiki/Generic_Model_Organism_Database Wikipedia GMOD]
  
 
[[Category:FAQ]]
 
[[Category:FAQ]]
 
[[Category:GMOD Community]]
 
[[Category:GMOD Community]]

Revision as of 17:36, 26 May 2008

Model Organism Databases are repositories for information on those organisms with a wealth of biological data that make them attractive to study as models of other species – including humans – that are more difficult to study directly [1]. Historically, these model organism databases include the handful of species with extensive genomic research data, such as the NIH model organisms.

The acronym has been extended to include Many organism and My organism databases, so that the MOD in GMOD applies to almost all organism/genome database projects.

GMOD Participating databases

The following databases/organizations are contributing to and/or adopting GMOD components, as of early 2007. See GMOD Users for a more detailed list.

ANISEED AntonosporaDB ATIDB
BeeBase BeetleBase BGD
BioHealthBase Bovine QTL Viewer Cattle EST Gene Family Database
CGD CGL ChromDB
Chromosome 7 Annotation Project CSHLmpd Database of Genomic Variants
DictyBase (see also) DroSpeGe EcoCyc (see also)
FlyBase (see also) Fungal Comparative Genomics Fungal Telomere Browser
Gallus Genome Browser GeneDB Generation Challenge Programme
GrainGenes Gramene HapMap
Human 2q33 Human Genome Segmental Duplication Database IVDB
MAGI Marine Biological Lab Organism Databases MGI (see also)
Non-Human Segmental Duplication Database OMAP OryGenesDB
Oryza Chromosome 8 Pathway Tools (see also) ParameciumDB (see also)
PeanutMap PlantsDB PlasmoDB
PseudoCAP PossumBase PUMAdb
RGD (see also) SGD (see also) SGD Lite
SmedDB SOL Genomics Network (see also) Soybase
Soybean Gbrowse Database T1DBase TAIR (see also)
TGD TGI TIGR
TIGR Rice Genome Browser ToxoDB TriAnnot BAC Viewer
VectorBase wFleaBase WormBase (see also)
XanthusBase Xenbase

See also