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1、生物信息学生物信息学相关数据库资源介绍相关数据库资源介绍 生物信息学相关数据库资源生物信息学相关数据库资源 核酸及其相关数据库（序列数据库、基因组相关数据库、核酸三维结构数据库、其他）蛋白质相关数据库（序列数据库、蛋白质三维结构数据库、蛋白质组数据库（二维凝胶电泳数据库）、信号传导及蛋白质-蛋白质相互作用相关数据库、DNA和蛋白质相互作用数据库）基因或蛋白质一些特定数据库糖类及其相关数据库蛋白质翻译后修饰相关数据库基因表达数据库人类基因突变及疾病相关数据库进化相关数据库及资源专利数据库资源目录服务器或网页核酸及其相关数据库核酸及其相关数据库 核酸序列数据库核酸序列数据库BIOSINO我国的核酸
2、序列公共数据库EMBL-EMBLNucleotidesequencedatabase(EBI)*GenBank-GenBankNucleotideSequencedatabase(NCBI)*DDBJ-DNADataBankofJapan*dbEST-DatabaseofExpressedSequenceTags(NCBI)dbSTS-DatabaseofSequenceTaggedSites(NCBI)2.基因组及相关数据库 Genomic DatabasesGenomeWeb(HGMP)-AcatalogueofusefulWebsitesforGenomicswithasetofcoll
3、ectionsofgenomedatabasesGSDB-GenomeSequencedatabase(NCGR)GOLD-GenomesOn-linedb一些数据库的直接链接3.核酸三维结构数据库NDB-NucleicAcidDatabank(3Dstructures)BNASDB-NucleicacidstructuredbfromUniversityofPune4.其他AsDb-AberrantSplicingdbACUTS-AncientconserveduntranslatedDNAsequencesdbCodonUsageDb-Thefrequencyofcodonuseineac
4、horganismismadesearchablethroughthisWorldWideWebsite.EPD-EukaryoticPromoterdbHOVERGEN-HomologousVertebrateGenesdbIMGT-ImMunoGeneTicsdbMirroratEBIISIS-IntronSequenceandInformationSystemRDP-RibosomaldbProjectgRNAsdb-GuideRNAdbPLACE-Plantcis-actingregulatoryDNAelementsdb其它其它PlantCARE-Plantcis-actingreg
5、ulatoryDNAelementsdbsRNAdb-SmallRNAdbssurRNA-SmallribosomalsubunitdblsurRNA-Largeribosomalsubunitdb5SrRNA-5SribosomalRNAdbtmRNAWebsitetmRDB-tmRNAdBtRNA-tRNAcompilationfromtheUniversityofBayreuthuRNADB-uRNAdb其他其他RNAediting-RNAeditingsiteRNAmoddb-RNAmodificationdbTelDB-MultimediaTelomereResourceTRADAT
6、-TRAnscriptionDatabasesandAnalysisToolsSubviralRNAdb-SmallcircularRNAsdb(viroidandviroid-like)TransgenicsCreTransgenicDatabase-CretransgenicmouselinesTransgenic/TargetedMutationDatabase-Informationontransgenicanimalsandtargetedmutations1.蛋白质序列和相关数据库SWISS-PROT-SWISS-PROTannotatedproteinsequencedbPIR-
7、international-TheProteinInformationResource(proteinsequence)MIPS-Martinsriedinstituteforproteinsequenceandhomologydataandyeastgenomeinformation蛋白质及其相关数据库蛋白质及其相关数据库 PROSITE-PROSITEdictionaryofproteinsitesandpatternsInterPro-IntegratedResourcesofProteinsDomainsandFunctionalSitesBLOCKS-BLOCKSdbDOMO-Pro
8、teindomaindb(Automaticallygenerated)Pfam-Proteinfamiliesdb(HMMderived)MirroratSangerPRINTS-ProteinMotiffingerprintdbProDom-Proteindomaindb(Automaticallygenerated)PROTOMAP-AnautomatichierarchicalclassificationofSWISS-PROTproteinsSBASE-SBASEdomaindb(Proteindomainsequencelibrary)SMART-Proteinsignalling
9、andextracellulardomainpatterns(SimpleModularArchitectureResearchTool)ProClass-Proteinsequencealignmentsandcurationofproteinfamilies.蛋白质三维结构和相关数据库蛋白质三维结构和相关数据库PDB-ProteinDataBankMirrorsinEBIBioMagResBank-Repositoryfordataonproteins,peptides,andnucleicacidsfromNMRspectroscopySWISS-MODELRepository-Auto
10、maticallygeneratedproteinmodelsdbModBase-DbofcomparativeproteinstructuremodelsCATH-UCLBSMstructuralclassificationofproteinsSCOP-StructuralclassificationofproteinsMirroratUSA|Israel|Singapore|AustraliaMol_R_Us-MoleculesRUs,browserforPDBBMMDomainServer-BiomolecularModellingLaboratory(ICRF)proteindomai
11、nserverPRESAGE-Collaborativeresourceforstructuralgenomics蛋白质三维结构和相关数据库蛋白质三维结构和相关数据库 SBASE-SBASEdomaindb(Proteindomainsequencelibrary)SMART-Proteinsignallingandextracellulardomainpatterns(SimpleModularArchitectureResearchTool)ProClass-ProteinsequencealignmentsandcurationofproteinfamiliesKabat-Kabatdb
12、ofproteinofimmunologicalinterestPMD-ProteinMutantdb蛋白质二维凝胶电泳数据库蛋白质二维凝胶电泳数据库WORLD-2DPAGE-Acompleteindexof2D-PAGEdbandserversPhoretixlinks-Phoretixpageoflinksto2Dgeldb信号传导及蛋白质信号传导及蛋白质-蛋白质相互作用蛋白质相互作用相关数据库相关数据库DIP-DbofInteractingProteinsINTERACT-Protein-ProteininteractiondbProNet-Protein-Proteininteract
13、iondbCANSITE-SignalTransductionsWebSPAD-SignalingpathwaydbCSNDB-CellSignalingNetworksdbDNA和蛋白质相互作用数据库和蛋白质相互作用数据库DPInteract-DNA-Proteinsinteractionsdb特定基因或蛋白质的数据库特定基因或蛋白质的数据库AAA-AAAfamilyofATPasesserverAcetylcholinesterasesALDH-AldehydedehydrogenasegenesuperfamilydbAminoacyl-tRNAsynthetasesinSWISS-PR
14、OT-Listofaminoacyl-tRNAsynthetasesinSWISS-PROTAARSDB-Aminoacyl-tRNAsynthetasesdbAllergensinSWISS-PROT-NomenclatureandindexofallergensinSWISS-PROT特定基因或蛋白质的数据库特定基因或蛋白质的数据库AMSDb-AntimicrobialsequencesdbAntibodyresourcepage-LinkstoantibodyrelatedWebresourcesAustralianvenomandtoxindbBacillusthuringiensis
15、toxinspecificitydbTFII-BasaltranscriptionfactorsBloodgroupantigensinSWISS-PROTBCGD-BreastcancergenesdbfromMBCRBRENDA-Dbofenzymefunctionaldata特定基因或蛋白质的数据库特定基因或蛋白质的数据库EF-handCaBP-EF-handcalcium-bindingproteinsdbCAZy-Carbohydrate-ActiveenZYmesWebsiteCBSdomain-CystathionineBetaSynthasedomainWWWpageCDant
16、igensinSWISS-PROT-Nomenclatureforsurfaceproteinsofhumanleucocytes(CD)特定基因或蛋白质的数据库特定基因或蛋白质的数据库CDantigensinPROW-DatabaseoninformationaboutCDantigensChaperonin-InformationonGroELandGroESchaperoninsConotoxins-InformationonconotoxinsfromaWebsiteonconeshells。etc。糖类相关数据库糖类相关数据库CarbBank-ComplexCarbohydrateS
17、tructureDatabaseGlycoSuiteDB-DbofglycanstructuresTGN-TheGlycoscienceNetworkFCCA-ForumCarbohydratesComingofAgeCARBHYD-CarbohydrateinformationWWWsitesMonosacharidebrowser-SpacefillingFischerprojectionformonosaccharides蛋白质翻译后修饰相关数据库蛋白质翻译后修饰相关数据库 O-GlycBase-O-glycosylatedproteinsdbPhosphoBase-Phosphoryl
18、ationsitesdbRESID-DbofAminoAcidModifications基因表达数据库基因表达数据库 ASDB-Proteinproductsandexpressionpatternsofalternatively-splicedgenesAxeldb-GeneexpressioninXenopusBodyMap-HumanandmousegeneexpressiondataEpoDB-GenesexpressedinvertebrateRBCFlyView-DrosophiladevelopmentandgeneticsGeneExpressionDatabase(GXD)-
19、MousegeneexpressionandgenomicsKidneyDevelopmentDatabase-Kidneydevelopmentandgeneexpression基因表达数据库基因表达数据库 MAGEST-Ascidian(Halocynthiaroretzi)geneexpressionpatternsMouseAtlasandGeneExpressionDatabase-Spatially-mappedgeneexpressiondataPEDB-NormalandaberrantprostategeneexpressionToothDevelopmentDatabase
20、-GeneexpressionindentaltissueTRIPLES-TRansposon-InsertionPhenotypes,LocalizationandExpressioninSaccharomyces人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库HMGD-HumanGeneMutationdbSVD-SequencevariationdbHGBASE-HumanGenicBi-AllelicSequencesdbTheSNPconsortiumdbSNP-Humansinglenucleotidepolymorphism(SNP)dbListofmutationdat
21、abasesfromOMIMListofmutationdatabasesfromIMT(Finland)人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库ADB-Albinismdb(Mutationsinhumangenescausingalbinism)Alpha-glucosidase-Informationabouthumanacidalpha-glucosidase(GSD-II)ARmutations-HumanandrogenreceptormutationdbAntithrombinmutationdbAsthmaandAllergygenedbBIOMDB-Dbofm
22、utationscausingtetrahydrobiopterindeficienciesBLMbase-HumanBLMmutationdb(Bloomsnydrom)人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库BTKbase-HumanBTKmutationdb(X-linkedagammaglobulinemia)CD40Lbase-HumanCD40ligandmutationdbCOL1/3mutation-HumanTypeIandIIIcollagenmutationdbCFTRmutation-Humancysticfibrosismutationdb(CFTR)
23、EMDdb-HumanEmerin(EMD)mutationdb(Emery-Dreifussmusculardystrophy)KMeyeDB-Eyediseasegenesdb人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库FVIImutation-HumanFactorVIImutationdbHAMSTeRS-HumanFactorVIIImutationdb(HaemophiliaA)HAeMB-HumanFactorIXmutationdb(HaemophiliaB)FBN1mutation-Humanfibrillin1mutationdb(Marfansyndrome)
24、G6PD-HumanG6PDdeficiencyresourceGaltmutation-Humangalactose-1-phosphateuridylyltransferasemutationdb(Galactosemia)人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库HEXAdb-HumanHexosaminidaseAmutationdb(Tay-sachsdisease)IL2RGbase-HumanIL2RG(Interleukin-2receptorgamma)mutationdb(X-SCID)L1CAMmutation-HumanL1CAMmutationdbLDL
25、Rmutation-HumanLDLRmutationdb(Familialhypercholesterolemia)LQTSdb-LongQTsyndromedbNCF1base-HumanNCF1mutationdbNCF2base-HumanNCF2mutationdb人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库NeuromusculardiseaseswebsiteNCL-NeuronalCeroidLipofuscinosesmutationdbOTCase-Humanornithinetranscarbamylase(OTCase)websiteCytochromeP4
26、50allelesnomenclaturep53mutationdb-UniversityofTokyop53mutationdbGermlinep53mutationdb-UniversityofPraguedbofgermlinep53mutationsPAHdb-Humanphenylalaninehydroxylase(PAH)mutationdb人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库PAX6mutation-HumanPAX6mutationdbPrion-PrionandpriondiseasewebsiteRAG1base-HumanRAG1mutationdb
27、RAG2base-HumanRAG2mutationdbRB1base-Humanretinoblastoma-associatedprotein(RB)mutationdbRetNet-RetinalInformationNetworkRetinaInternationalScientificNewsletter-InformationonRetinalgenes,proteinsanddiseases人类基因突变及疾病相关数据库人类基因突变及疾病相关数据库TSC-TSC(TSC1/TSC2)variationdbTSC2-Cardiff-RotterdamTuberousSclerosis
28、(TS)db(Tuberin;TSC2)TGDB-TumorgenedbVMD2mutation-HumanVMD2mutationdbvWFmutation-HumanvonWillebrandfactor(vWF)mutationdbWRN-HumanWRNmutationdb(Warnerdisease)WT1mutation-HumanWT1mutationdbX-ALDmutation-HumanABCD1mutationdb进化相关数据库及资源进化相关数据库及资源 ClustersofOrthologousGroups(COG)-Phylogeneticclassification
29、ofproteinsfrom21completegenomesXREFdb-Cross-referencingofmodelorganismgeneticswithmammalianphenotypesTreeBASE-RelationaldbofphylogeneticinformationTheTreeoflife-CollectionofWWWpagesonphylogenyandbiodiversityoforganisms专利数据库专利数据库 DPD-DNAPatentdbAgPatents-AgriculturalBiotechnologypatentsfromtheUSDAUSP
30、TOpatentdb-USAPatentandTrademarkOfficepatentdbEspcenet-PatentinformationdatabasefromtheEuropeanPatentOffice(worldwidecoverage)TheDelphionIntellectualPropertyNetwork(IPN)forsearching,viewing,andanalyzingpatentdocuments.资源目录服务器或网页资源目录服务器或网页BioCatalog-TheBioCatalogatEBIYellowBAGI-BioAccessGuidetotheInt
31、ernetatHoustonUniversitySoftwarelibraryfromGDBCAT-DatabasescatalogatINFOBIOGENMBDL-MolecularBiologyDatabaseListAmosWWWlinkspageNucleicAcidsResearchdatabaseissueHuman CEPH-genotypedatabaseCEPHhomepage-aresearchlaboratorywhichconstructsmapsofthehumangenomeGeneMap99-AGeneMapoftheHumanGenome(NCBI)OMIM-O
32、nlineMendelianInheritanceinManGENATLAS-HumangenesatlasGeneClinics-MedicalgeneticsknowledgebaseGDB-HumangenesandgenomicmapsGeneCards-DbintegratinginformationonhumangenesHuman UDB-UnifieddbforHumangenomemappingEnsembl-HumangenomeannotationssiteUCSChumangenomeworkingdraftTIGRHGI-TIGRHumanGeneIndexHuman
33、BACEndsDatabase-Non-redundanthumanBACendsequencesHsUniGene-HumantranscriptsinGenBank(ESTclusters)STACK-SequenceTagAlignmentandConsensusKnowledgebase(DbofconsensushumanESTs)Human Allgenes.org-Humanpredictedgeneindex/catalogGenLink-HumangeneticsresourceGENOTK-HumancDNAdbHUGE-HumanUnidentifiedGene-Enco
34、dedlargeproteinscDNA(KIAA.)CGAP-CancerGenomeAnatomyProjectSCDb-StemcelldbHuman HuGeMap-HumangenomegeneticandphysicalmapdataG3-RH-StanfordG3andTNGradiationhybridmapsGB4-RH-Genebridge4(GB4)humanradiationhybridmapsRadiationHybridDatabase-Radiationhybridmapdata Human chromosome 18Chr1-Humanchromosome1at
35、RockefellerUniversityMirroratEBIChr3-Humanchromosome3dbattheUniversityofTexasHealthScienceCenterChr7-Humanchromosome7dbatOntariosHospitalforSickChildrenChr8SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome8Human chromosome911Chr9SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome9Chr
36、9-Humanchromosome9dbChr10SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome10GTCChr10data-Humanchromosome10datafromGenomeTherapeuticsCorporationChr11SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome1111DB-Humanchromosome11dbatImperialCollege(U.K.)Human chromosome1216Chr12SWISS-PROTl
37、ist-LinkstoSWISS-PROTentriesfromhumanchromosome12Chr13-Humanchromosome13dbatColumbiaChr14SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome14Chr15SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome15Chr15UBC-Humanchromosome15WWWpageatUBCChr16SWISS-PROTlist-LinkstoSWISS-PROTentriesfrom
38、humanchromosome16Human chromosome1619 Chr16LANL-Humanchromosome16dbatLosAlamosNationalLaboratoryChr16TIGR-Humanchromosome16dbatTIGRChr17SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome17Chr18SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome18Chr18-Humanchromosome18atBostonChildren
39、sHospitalChr19SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome19Human chromosome2022Chr20SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome20Chr21SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome21Chr21atRIKEN-Humanchromosome21genomesiteatRIKEN(Japan)Chr21atERI-Humanchromo
40、some21genomicsequencedbfromtheEleanorRooseveltInstituteChr22SWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosome22Chr22atSanger-SangerCenterchromosome22projectChr22atHGC-Humangenomecenterforchromosome22Human chromosomeXYChrXSWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosomeXIXDB-Integr
41、atedXchromosomedbChrYSWISS-PROTlist-LinkstoSWISS-PROTentriesfromhumanchromosomeYDRESH-HumancDNAcloneshomologoustoDrosophilamutantgenesVertebrates OMIA-OnlineMendelianInheritanceinAnimalsMGI-MouseGenomeInformatics(includesMouseGenomeDatabase(MGD)MirrorsinAustralia|UK|JapanTIGRMGI-TIGRMouseGeneIndexMm
42、UniGene-MousetranscriptsinGenBank(ESTclusters)RatMAP-RatgenomedbTIGRRGI-TIGRRatGeneIndexRnUnigene-RattranscriptsinGenBank(ESTclusters)Vertebrates BovBASE-Bovinegenomedb(inUK)BOVMAP-Bovinegenomedb(inFrance)Ark-Cat-CatgenomedbHorseBASE-HorsegenomedbDGP-DogGenomeProjectPiGBASE-PiggenomedbSheepBASE-Shee
43、pgenomedb(alsoknownasSheepMap)MirrorinUKMIS-MendelianInheritanceinSheepChickGBASE-ChickengenomedbVertebratesFugu-HGMPResourceCentreFuguProject(Fugurubripes)Medakafish-Mekadafish(Oryziaslatipes)serverArk-Tilapia-TilapiamossambicagenomedbThefishnet-ZebrafishserverFishBase-Globalinformationsystemonfish
44、esMitochondrion and chloroplast GOBASE-OrganelleGenomeDatabaseMitoDat-MendelianInheritanceandtheMitochondriondb(mitochondrialnucleargenes)MITOMAP-HumanmitochondrialgenomedbMmtDB-MetazoamitochondrialDNAvariantsdbMitBASE-IntegratedmitochondrialDNAdbMitBASE-Pilot-DbofS.cerevisiaenucleargenesinvolvedinm
45、itochondrialbiogenesisHvrBase-PrimatesmtDNAcontrolregionsequencescompilationMitochondrion and chloroplastMOUSE-MitochondrialandOtherUsefulSEquences(humanandapesmit.DNAdb)MITOP-Mitochondrialproteins,genesanddiseasesAMmtDB-MetazoanmitochondrialDNAsequencesInsectsDrosophilaSWISS-PROTlist-LinkstoDrosoph
46、ilaSWISS-PROTentriesFlyBase-DrosophilageneticandmoleculardbMirroratEBIFlyView-DrosophilaimagedbGIFTS-GeneInteractionsintheFlyTrans-WorldServerFlyNets-DbofmolecularinteractionsinDrosophilamelanogasterSOS-DGBD-DbofDrosophilaDNAsequencesannotatedwithregulatorybindingsitesMosquitoGenomicsInvertebratesWo
47、rmBase-C.elegansdbMirroratSangerC.elegansWWWserver-atUniversityofTexasSouthwesternACeDb-CaenorhabditiselegansdbC.elegansMitochondrialDirectory-DataonC.elegansgenesformitochondrialproteinsC.elegansEST-C.elegansESTdbfromJapan(YujiKoharasgroup)C.elegansSWISS-PROTlist-LinkstoC.elegansSWISS-PROTentriesWo
48、rmPep-C.elegansproteinsdbWormPD-C.elegansproteindbInvertebratesDictysteliumGenomeSequencingprojectatBCMDictyosteliumdiscoideumgenomeprojectatIENADictyDb-DictyosteliumdiscoideumdbDicty_cDB-DictyosteliumdiscoideumcDNAprojectConeshellsWebsiteParasitegenomesdbandresourcesParasitegenomesWWWsitePlasmoDB-P
49、.falciparumgenomedbInvertebratesMalaria-WHO-Malariadb(fromWHO)P.falciparumSanger-P.falciparumgenomeprojectatSangerPFDB-PlasmodiumfalciparumGenomedbP.falciparum-PlasmodiumfalciparumGeneSequenceTagprojectInvertebratesMAD-MalariaAntigendbMalariaparasitemetabolicpathwaysLGN-LeishmaniaGenomeNetworkTrypan
50、osomabruceigenomeprojectTrypanosomacruzigenomeprojectkDNA-KinetoplastMinicircleSequencedbPlantsNAL-AGIS-AccesstomanyplantgenomedatabasesattheNationalAgriculturalLibraryDemetersgenomes-AccesstomanyplantgenomedatabasesattheUSDA-ARSMendel-PlantgenenomenclaturedatabasefromCPGNAtDB-Arabidopsisthalianagen