Linked Databases in DBGET

Linked Databases in DBGET

DBGET	LinkDB	KEGG2

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1. KEGG Databases in DBGET

Source database (24 DBs)
Database	Number of links
Database	Total	Equivalent	Forward	Reverse	Indirect
`brite`	`4816`		`4816`
`compound`	`9848632`		`495`		`9848137`
`disease`	`6883`		`3579`	`3304`
`drug`	`21131`		`11721`	`9410`
`embl`	`780685`	`780685`
`environ`	`9`		`9`
`enzyme`	`4072439`		`2036191`	`2036248`
`genbank`	`780685`	`780685`
`genome`	`10670433`			`10670433`
`glycan`	`7`		`7`
`module`	`2322144`		`1161097`	`1161047`
`ncbi-geneid`	`21234716`	`10617358`		`10617358`
`ncbi-gi`	`21035953`	`10262081`		`10262081`	`511791`
`oc`	`9746817`		`9746817`
`omim`	`32950`	`14052`	`4876`	`14022`
`orthology`	`8985925`		`4492312`	`4493613`
`pathway`	`6546930`			`6546930`
`pdb`	`530603`			`530603`
`pfam`	`37610358`			`37610358`
`pubmed`	`10`			`10`
`reaction`	`3391284`				`3391284`
`refseq`	`13110218`	`13086264`		`23954`
`unigene`	`527993`	`527993`
`uniprot`	`27404594`	`9256124`	`8892346`	`9256124`

Target database (89 DBs)
Database	Number of links
Database	Total	Equivalent	Forward	Reverse	Indirect
`aphidbase`	`8735`		`8735`
`apidb_cryptodb`	`3805`		`3805`
`asap`	`4468`		`4468`
`beebase`	`7314`		`7314`
`beetlebase`	`662`		`662`
`bgd-bta`	`14938`		`14938`
`bogas`	`8110`		`8110`
`bordeaux`	`7087`		`7087`
`brite`	`4816`			`4816`
`bsorf`	`4019`		`4019`
`cambridge`	`7264`		`7264`
`cgnc`	`11150`		`11150`
`cnrs_marseille`	`862`		`862`
`compound`	`9848632`			`495`	`9848137`
`cyanobase`	`98859`		`98859`
`cyorf`	`100810`		`100810`
`dictybase`	`13243`		`13243`
`disease`	`6883`		`3304`	`3579`
`drug`	`21131`		`9410`	`11721`
`ecocyc`	`4497`		`4497`
`ecogene`	`4497`		`4497`
`embl`	`780685`	`780685`
`ensembl`	`168879`		`168879`
`environ`	`9`			`9`
`enzyme`	`4072439`		`2036248`	`2036191`
`flybase`	`189626`		`189626`
`genbank`	`780685`	`780685`
`genedb`	`122100`		`122100`
`genome`	`10670433`		`10670433`
`genoscope`	`39580`		`39580`
`glycan`	`7`			`7`
`hgnc`	`23037`		`23037`
`hprd`	`17977`		`17977`
`imgt`	`2`		`2`
`inra`	`9817`		`9817`
`jamstec`	`3593`		`3593`
`jcvi`	`244246`		`244246`
`jcvi-pathema`	`122610`		`122610`
`jgi`	`2064767`		`2064767`
`kitasato`	`22788`		`22788`
`lncc_brazil`	`6583`		`6583`
`maizegdb`	`3788`		`3788`
`mgi-mmu`	`22404`		`22404`
`mips`	`33382`		`33382`
`mirbase`	`7093`		`7093`
`module`	`2321868`		`1160909`	`1160959`
`nagahama-h`	`1703`	`1703`
`nagahama-s`	`674`	`674`
`nara`	`4182`		`4182`
`nasoniabase`	`8526`		`8526`
`ncbi-geneid`	`21234716`	`10617358`	`10617358`
`ncbi-gi`	`21035947`	`10262081`	`10262081`		`511785`
`nih_japan`	`7067`		`7067`
`nite`	`85418`		`85418`
`oc`	`9746817`			`9746817`
`omim`	`32951`	`14053`	`14022`	`4876`
`orthology`	`8986638`		`4493971`	`4492667`
`oryzabase`	`933`		`933`
`pasteur`	`48119`		`48119`
`pathogenesis`	`5671`		`5671`
`pathway`	`6547223`		`6547223`
`pdb`	`533451`		`533451`
`pfam`	`37610358`		`37610358`
`plasmodb`	`5400`		`5400`
`pronit`	`7591`	`7591`
`protherm`	`8313`	`8313`
`pubmed`	`10`		`10`
`rap-db`	`35681`		`35681`
`reaction`	`3391364`				`3391364`
`refseq`	`13110252`	`13086296`	`23956`
`regulondb`	`4383`		`4383`
`rgd`	`23124`		`23124`
`rhizobase`	`93475`		`93475`
`roseobase`	`12550`		`12550`
`sanger`	`1699`		`1699`
`sgd-sce`	`6301`		`6301`
`shibase_china`	`14287`		`14287`
`tair`	`27204`		`27204`
`tgd`	`24725`		`24725`
`tuberculist`	`4031`		`4031`
`unam`	`1613`		`1613`
`unigene`	`527994`	`527994`
`uniprot`	`27404594`	`9256124`	`9256124`	`8892346`
`vectorbase`	`78125`		`78125`
`vega`	`39979`		`39979`
`wisconsin`	`4216`		`4216`
`wormbase`	`39714`		`39714`
`xenbase`	`17858`		`17858`
`zfin`	`16987`		`16987`

Source database (30 DBs)
Database	Number of links
Database	Total	Equivalent	Forward	Reverse	Indirect
`brite`	`8005`		`8005`
`compound`	`43469`		`24518`	`18951`
`dgenes`	`35151`		`35151`
`drug`	`103`		`103`
`egenes`	`447387`		`447387`
`embl`	`754547`		`754547`
`enzyme`	`6550`		`3275`	`3275`
`genbank`	`746503`		`746503`
`genes`	`4072401`		`2036226`	`2036175`
`genome`	`3543`			`3543`
`glycan`	`781`		`781`
`interpro`	`5961`		`5961`
`mgenes`	`20814656`		`20814656`
`module`	`511980`		`511980`
`ncbi-gi`	`95`			`95`
`orthology`	`10899`		`5439`	`5460`
`pathway`	`26437`		`20083`	`6354`
`pdb`	`40312`		`40312`
`pdbstr`	`99573`		`99573`
`pfam`	`499`		`499`
`pmd`	`11964`		`11964`
`prf`	`105884`		`105884`
`prosdoc`	`1195`		`1195`
`pubmed`	`11367`			`11367`
`rclass`	`7742`		`7742`
`reaction`	`17039`		`9182`	`7857`
`refseq`	`5066234`		`5066234`
`rpair`	`17422`		`17422`
`uniprot`	`3962493`		`3962493`
`vgenes`	`493`		`493`

Target database (35 DBs)
Database	Number of links
Database	Total	Equivalent	Forward	Reverse	Indirect
`brenda`	`5078`		`5078`
`brite`	`8005`			`8005`
`compound`	`43469`		`18951`	`24518`
`dgenes`	`35151`			`35151`
`drug`	`103`			`103`
`egenes`	`447387`			`447387`
`embl`	`754547`			`754547`
`enzyme`	`6550`		`3275`	`3275`
`expasy-enzyme`	`5078`		`5078`
`explorenz`	`5078`		`5078`
`genbank`	`746512`			`746512`
`genes`	`4072439`		`2036191`	`2036248`
`genome`	`3543`		`3543`
`glycan`	`781`			`781`
`interpro`	`5961`			`5961`
`iubmb`	`5078`		`5078`
`mgenes`	`20814656`			`20814656`
`module`	`512027`			`512027`
`ncbi-gi`	`95`		`95`
`orthology`	`10907`		`5464`	`5443`
`pathway`	`26437`		`6354`	`20083`
`pdb`	`40312`			`40312`
`pdbstr`	`99573`			`99573`
`pfam`	`499`			`499`
`pmd`	`11964`			`11964`
`prf`	`105884`			`105884`
`prosdoc`	`1195`			`1195`
`pubmed`	`11367`		`11367`
`rclass`	`7740`			`7740`
`reaction`	`17079`		`7879`	`9200`
`refseq`	`5072993`			`5072993`
`rpair`	`17419`			`17419`
`umbbd-ec`	`352`		`352`
`uniprot`	`3962493`			`3962493`
`vgenes`	`493`			`493`

2. Other DBGET Databases

Source database (21 DBs)
Database	Number of links
Database	Total	Equivalent	Forward	Reverse	Indirect
`blocks`	`6738780`		`6738780`
`compound`	`850`		`850`
`embl`	`37794186`			`37794186`
`enzyme`	`3962493`			`3962493`
`epd`	`4740`		`4740`
`genes`	`27404594`	`9256124`	`9256124`	`8892346`
`interpro`	`73389696`			`73389696`
`ipi`	`385977`			`385977`
`ncbi-geneid`	`9811981`			`9811981`
`omim`	`18056`			`18056`
`orthology`	`3723379`		`720`	`3722659`
`pdb`	`223965`		`110833`	`113132`
`pfam`	`59524915`		`25805463`	`33719452`
`pmd`	`45006`		`45006`
`prf`	`101684`		`101684`
`prints`	`5292703`		`138743`	`5153960`
`prodom`	`699130`			`699130`
`prosite`	`17585910`		`495561`	`17090349`
`pubmed`	`15632161`			`15632161`
`refseq`	`9885986`			`9885986`
`unigene`	`633393`			`633393`

Target database (44 DBs)
Database	Number of links
Database	Total	Equivalent	Forward	Reverse	Indirect
`blocks`	`6738780`			`6738780`
`brenda`	`6976`		`6976`
`cazy`	`81654`		`81654`
`chembl-up`	`5797`		`5797`
`compound`	`850`			`850`
`dictybase`	`12199`		`12199`
`drugbank`	`5319`		`5319`
`embl`	`37794186`		`37794186`
`ensembl-up`	`3235345`		`3235345`
`enzyme`	`3962493`		`3962493`
`epd`	`4740`			`4740`
`flybase`	`202456`		`202456`
`genes`	`27404594`	`9256124`	`8892346`	`9256124`
`go`	`68763321`		`68763321`
`hgnc`	`68661`		`68661`
`interpro`	`73389696`		`73389696`
`ipi`	`385977`		`385977`
`maizegdb-up`	`499`		`499`
`mgi-mmu`	`68404`		`68404`
`ncbi-geneid`	`9811981`		`9811981`
`omim`	`18056`		`18056`
`orthology`	`3723379`		`3722659`	`720`
`pasteur-up`	`29650`		`29650`
`pdb`	`223965`		`113132`	`110833`
`pfam`	`59524915`		`33719452`	`25805463`
`pmd`	`45006`			`45006`
`prf`	`101684`			`101684`
`prints`	`5292703`		`5153960`	`138743`
`prodom`	`699130`		`699130`
`prosite`	`17585910`		`17090349`	`495561`
`pubmed`	`15632161`		`15632161`
`refseq`	`9885986`		`9885986`
`rgd`	`27438`		`27438`
`sabio-rk-up`	`3046`		`3046`
`sgd-up`	`6651`		`6651`
`smart`	`7509485`		`7509485`
`tair`	`27498`		`27498`
`tc`	`6047`		`6047`
`tuberculist`	`3147`		`3147`
`unigene`	`633393`		`633393`
`vectorbase`	`78855`		`78855`
`wormbase`	`47061`		`47061`
`xenbase`	`30364`		`30364`
`zfin`	`47253`		`47253`

3. Searchable Databases on the Web

Feedback	KEGG	GenomeNet	Kyoto University Bioinformatics Center