生物信息学相关数据库资源介绍.ppt
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生物信息学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 1.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）2.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）3.基因或蛋白质一些特定数据库4.糖类及其相关数据库5.蛋白质翻译后修饰相关数据库6.基因表达数据库7.人类基因突变及疾病相关数据库8.进化相关数据库及资源专利数据库9.资源目录服务器或网页1.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）2.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）3.基因或蛋白质一些特定数据库4.糖类及其相关数据库5.蛋白质翻译后修饰相关数据库6.基因表达数据库7.人类基因突变及疾病相关数据库8.进化相关数据库及资源专利数据库9.资源目录服务器或网页生物信息学相关数据库资源介绍 核酸及其相关数据库核酸及其相关数据库 1）、核酸序列数据库）、核酸序列数据库l BIOSINO 我国的核酸序列公共数据库lEMBL - EMBL Nucleotide sequence database (EBI) lGenBank - GenBank Nucleotide Sequence database (NCBI)lDDBJ - DNA Data Bank of Japan ldbEST - Database of Expressed Sequence Tags （表达序列标签）(NCBI) ldbSTS - Database of Sequence Tagged Sites （序列标签位点） (NCBI) 生物信息学相关数据库资源介绍 2）.基因组及相关数据库 Genomic DatabaseslGenomeWeb(HGMP) - A catalogue of useful Web sites for Genomics with a set of collections of genome databases lGSDB - Genome Sequence database (NCGR)lGOLD - Genomes On-line dbl一些数据库的直接链接生物信息学相关数据库资源介绍 3）.核酸三维结构数据库lNDB - Nucleic Acid Databank (3D structures) lBNASDB - Nucleic acid structure db from University of Pune 生物信息学相关数据库资源介绍 4）.其他lAsDb - Aberrant Splicing db （异常拼接）（异常拼接）lACUTS - Ancient conserved untranslated DNA sequences db lCodon Usage Db - The frequency of codon use in each organism is made searchable through this World Wide Web site. lEPD - Eukaryotic Promoter db（真核启动子）（真核启动子） lHOVERGEN - Homologous Vertebrate Genes db （同源（同源脊椎动物）脊椎动物）lIMGT - ImMunoGeneTics db [Mirror at EBI] （（免疫遗传学免疫遗传学））lISIS - Intron Sequence and Information System lRDP - Ribosomal db Project lgRNAs db - Guide RNA db lPLACE - Plant cis-acting regulatory DNA elements db 生物信息学相关数据库资源介绍 5）其它）其它核酸数据库lPlantCARE - Plant cis-acting regulatory DNA elements db lsRNA db - Small RNA db lssu rRNA - Small ribosomal subunit db llsu rRNA - Large ribosomal subunit db l5S rRNA - 5S ribosomal RNA db ltmRNA Website ltmRDB - tmRNA dB ltRNA - tRNA compilation（编辑）（编辑） from the University of Bayreuth luRNADB - uRNA db 生物信息学相关数据库资源介绍 5）其他）其他核酸数据库lRNA editing - RNA editing site lRNAmod db - RNA modification db lTelDB - Multimedia Telomere（端粒） Resource lTRADAT - TRAnscription Databases and Analysis Tools lSubviral RNA db - Small circular RNAs db (viroid and viroid-like) （类病毒）生物信息学相关数据库资源介绍 5）Transgenics（转基因）lCre Transgenic Database - Cre transgenic mouse lines lTransgenic/Targeted Mutation Database - Information on transgenic animals and targeted mutations 生物信息学相关数据库资源介绍 2.蛋白质序列和相关数据库蛋白质序列数据库蛋白质序列数据库lPIR-international -The Protein Information Resource (protein sequence) （国际蛋白质信息中心，（国际蛋白质信息中心，NBRF+JIPID+MIPs,PIR1\PIR2\PIR3\PIR4)）） lSWISS-PROT - SWISS-PROT annotated（注释） protein sequence db (SIB+EBI,EBI创建蛋白质专家分析系统ExPASy，北京)lMIPS – (Munich information center for protein sequence )（德国慕尼黑蛋白质序列信息中心德国慕尼黑蛋白质序列信息中心） 生物信息学相关数据库资源介绍 蛋白质相关数据库蛋白质相关数据库 lPROSITE - PROSITE dictionary of protein sites and patterns lInterPro - Integrated Resources of Proteins Domains and Functional Sites lBLOCKS - BLOCKS db lDOMO - Protein domain db (Automatically generated) lPfam - Protein families db (HMM derived) [Mirror at Sanger] lPRINTS - Protein Motif fingerprint db lProDom - Protein domain db (Automatically generated) lPROTOMAP - An automatic hierarchical（分等级）（分等级） classification of SWISS-PROT proteins lSBASE - SBASE domain db (Protein domain sequence library) lSMART - Protein signalling and extracellular domain patterns (Simple Modular Architecture Research Tool) lProClass - Protein sequence alignments and curation of protein families 生物信息学相关数据库资源介绍 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lPDB - Protein Data Bank [Mirrors in EBI] lBioMagResBank – Repository（知识）（知识） for data on proteins, peptides, and nucleic acids from NMR spectroscopy（光谱学）（光谱学） lSWISS-MODEL Repository - Automatically generated protein models db lModBase - Db of comparative protein structure models lCATH - UCL BSM structural classification of proteins lSCOP - Structural classification of proteins [Mirror at USA | Israel | Singapore | Australia] lMol_R_Us - Molecules R Us, browser for PDB lBMM Domain Server - Biomolecular Modelling Laboratory (ICRF) protein domain server lPRESAGE - Collaborative resource for structural genomics 生物信息学相关数据库资源介绍 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 lSBASE - SBASE domain db (Protein domain sequence library) lSMART - Protein signalling and extracellular（细胞外）（细胞外） domain patterns (Simple Modular Architecture Research Tool) lProClass - Protein sequence alignments and curation of protein families lKabat - Kabat db of protein of immunological interest lPMD - Protein Mutant db 生物信息学相关数据库资源介绍 蛋白质二维凝胶电泳数据库蛋白质二维凝胶电泳数据库lWORLD-2DPAGE - A complete index of 2D-PAGE db and servers lPhoretix links - Phoretix page of links to 2D gel db 生物信息学相关数据库资源介绍 3、信号传导及蛋白质、信号传导及蛋白质-蛋白质相互作蛋白质相互作用相关数据库用相关数据库lDIP - Db of Interacting Proteins lINTERACT - Protein-Protein interaction db lProNet - Protein-Protein interaction dbl CANSITE - Signal Transduction‘s （信号传导）（信号传导）WeblSPAD - Signaling pathway db lCSNDB - Cell Signaling Networks db 生物信息学相关数据库资源介绍 DNA和蛋白质相互作用数据库和蛋白质相互作用数据库 lDPInteract - DNA-Proteins interactions db生物信息学相关数据库资源介绍 特定基因或蛋白质的数据库特定基因或蛋白质的数据库lAAA - AAA family of ATPases server Acetylcholinesterases lALDH - Aldehyde dehydrogenase （醛脱氢酶，l 醛氧化酶）gene superfamily db lAminoacyl-tRNA synthetases in SWISS-PROT - List of aminoacyl-tRNA synthetases in SWISS-PROT lAARSDB - Aminoacyl-tRNA synthetases db lAllergens in SWISS-PROT - Nomenclature and index（命名和索引） of allergens（过敏原） in SWISS-PROT 生物信息学相关数据库资源介绍 特定基因或蛋白质的数据库特定基因或蛋白质的数据库lAMSDb - Antimicrobial sequences db （抗菌）lAntibody resource page - Links to antibody related Web resources （抗体）lAustralian venom and toxin db （澳大利亚蛇毒）lBacillus thuringiensis toxin specificity db（Bt）lTFII - Basal transcription factors （转录子）lBlood group antigens in SWISS-PROT （血型抗原）血型抗原）lBCGD - Breast cancer genes db from MBCR （乳癌）lBRENDA - Db of enzyme functional data 生物信息学相关数据库资源介绍 特定基因或蛋白质的数据库特定基因或蛋白质的数据库lEF-hand CaBP - EF-hand calcium-binding proteins db lCAZy - Carbohydrate-Active enZYmes Web site lCBS domain – Cystathionine（胱硫醚,丙氨酸丁氨酸硫醚）Beta Synthase domain WWW page lCD antigens in SWISS-PROT - Nomenclature for surface proteins of human leucocytes (白血球CD) 生物信息学相关数据库资源介绍 特定基因或蛋白质的数据库特定基因或蛋白质的数据库lCD antigens in PROW - Database on information about CD antigens lChaperonin - Information on GroEL and GroES chaperonins lConotoxins - Information on conotoxins from a Web site on cone shellsl。
etc 生物信息学相关数据库资源介绍 4、糖类相关数据库、糖类相关数据库l CarbBank - Complex Carbohydrate Structure Database lGlycoSuiteDB - Db of glycan structures lTGN - The Glycoscience Network lFCCA - Forum Carbohydrates Coming of Age lCARBHYD - Carbohydrate information WWW sites lMonosacharide browser - Space filling Fischer projection for monosaccharides （单糖）生物信息学相关数据库资源介绍 5、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 lO-GlycBase - O-glycosylated（ 使(蛋白质)糖基化）proteins db lPhosphoBase - Phosphorylation （磷酸化作用)sites db lRESID - Db of Amino Acid Modifications 生物信息学相关数据库资源介绍 6、基因表达数据库基因表达数据库 lASDB - Protein products and expression patterns of alternatively-spliced genes lAxeldb - Gene expression in Xenopus lBodyMap - Human and mouse gene expression data lEpoDB - Genes expressed in vertebrate RBC lFlyView - Drosophila development and genetics （果蝇）lGene Expression Database (GXD) - Mouse gene expression and genomics （鼠）lKidney Development Database – Kidney（肾） development and gene expression生物信息学相关数据库资源介绍 6、基因表达数据库、基因表达数据库 lMAGEST - Ascidian (Halocynthia roretzi) gene expression patterns lMouse Atlas and Gene Expression Database - Spatially-mapped gene expression data lPEDB - Normal and aberrant prostate（正常、异常前列腺）gene expression lTooth Development Database - Gene expression in dental tissue lTRIPLES - TRansposon-Insertion Phenotypes, Localization and Expression in Saccharomyces（酵母）生物信息学相关数据库资源介绍 7、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lHMGD - Human Gene Mutation dbl SVD - Sequence variation db lHGBASE - Human Genic Bi-Allelic Sequences db lThe SNP consortium ldbSNP - Human single nucleotide polymorphism (SNP) db （单核苷酸多态性数据库）lList of mutation databases from OMIMl List of mutation databases from IMT (Finland) 生物信息学相关数据库资源介绍 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lADB - Albinism db (Mutations in human genes causing albinism（白化病）) lAlpha-glucosidase - Information about human acid alpha-glucosidase (GSD-II) lAR mutations - Human androgen receptor mutation db lAntithrombin mutation db （抗凝血突变）lAsthma and Allergy gene db （哮喘和过敏）lBIOMDB - Db of mutations causing tetrahydrobiopterin deficiencies （缺乏四氢生物蝶呤缺乏四氢生物蝶呤lBLMbase - Human BLM mutation db (Bloom snydrom)生物信息学相关数据库资源介绍 7、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lBTKbase - Human BTK mutation db (X-linked agammaglobulinemia) （血中丙球蛋白贫乏）lCD40Lbase - Human CD40 ligand mutation db lCOL1/3 mutation - Human Type I and III collagen mutation db lCFTR mutation - Human cystic fibrosis mutation db (CFTR) （囊肿性纤维化，属遗传性胰腺病囊肿性纤维化，属遗传性胰腺病）lEMD db - Human Emerin (EMD) mutation db (Emery-Dreifuss muscular dystrophy) 肌肉萎缩症肌肉萎缩症lKMeyeDB - Eye disease genes db 生物信息学相关数据库资源介绍 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lFVII mutation - Human Factor VII mutation db lHAMSTeRS - Human Factor VIII mutation db (Haemophilia A) lHAeMB - Human Factor IX mutation db (Haemophilia B) 血友病lFBN1 mutation - Human fibrillin 1 mutation db (Marfan syndrome) lG6PD - Human G6PD deficiency resource lGalt mutation - Human galactose-1-phosphate uridylyltransferase mutation db (Galactosemia)生物信息学相关数据库资源介绍 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lHEXAdb - Human Hexosaminidase A mutation db (Tay-sachs disease) lIL2RGbase - Human IL2RG (Interleukin-2 receptor gamma) mutation db (X-SCID) lL1CAM mutation - Human L1CAM mutation db lLDLR mutation - Human LDLR mutation db (Familial hypercholesterolemia) lLQTSdb - Long QT syndrome db lNCF1base - Human NCF1 mutation db lNCF2base - Human NCF2 mutation db 生物信息学相关数据库资源介绍 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lNeuromuscular diseases web site lNCL - Neuronal Ceroid Lipofuscinoses mutation db lOTCase - Human ornithine transcarbamylase (OTCase) website lCytochrome P450 alleles nomenclature lp53 mutation db - University of Tokyo p53 mutation db lGermline p53 mutation db - University of Prague db of germline p53 mutations lPAHdb - Human phenylalanine hydroxylase (PAH) mutation db 生物信息学相关数据库资源介绍 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lPAX6 mutation - Human PAX6 mutation db lPrion - Prion and prion disease web site lRAG1base - Human RAG1 mutation db lRAG2base - Human RAG2 mutation db lRB1base - Human retinoblastoma-associated protein (RB) mutation db lRetNet - Retinal Information Network lRetina International Scientific Newsletter - Information on Retinal genes, proteins and diseases 生物信息学相关数据库资源介绍 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lTSC - TSC (TSC1/TSC2) variation db lTSC2 - Cardiff-Rotterdam Tuberous Sclerosis (TS) db (Tuberin; TSC2) lTGDB - Tumor gene db lVMD2 mutation - Human VMD2 mutation db lvWF mutation - Human von Willebrand factor (vWF) mutation db lWRN - Human WRN mutation db (Warner disease) lWT1 mutation - Human WT1 mutation db lX-ALD mutation - Human ABCD1 mutation db 生物信息学相关数据库资源介绍 8、进化相关数据库及资源、进化相关数据库及资源 lClusters of Orthologous Groups (COG) - Phylogenetic classification of proteins from 21 complete genomes lXREFdb - Cross-referencing of model organism genetics with mammalian phenotypes lTreeBASE - Relational db of phylogenetic informationlThe Tree of life生物信息学相关数据库资源介绍 8、专利数据库专利数据库 lDPD - DNA Patent db lAg Patents - Agricultural Biotechnology patents from the USDA （农业生物技术专利）lUSPTO patent db - USA Patent and Trademark （商标）Office patent db lEsp@cenet - Patent information database from the European Patent Office (worldwide coverage) lThe Delphion Intellectual Property Network (IPN) for searching, viewing, and analyzing patent documents. 生物信息学相关数据库资源介绍 9、资源目录服务器或网页资源目录服务器或网页lBioCatalog - The BioCatalog at EBI lYellow BAGI - Bio Access Guide to the Internet at Houston University l lDBCAT - Databases catalog at INFOBIOGEN lMBDL - Molecular Biology Database List lAmos' WWW links page lNucleic Acids Research database issue生物信息学相关数据库资源介绍 Human （与人类基因有关的数据库）与人类基因有关的数据库） lCEPH-genotype databaselCEPH home page - a research laboratory which constructs maps of the human genomelGeneMap'99 - A Gene Map of the Human Genome (NCBI) lOMIM - Online Mendelian Inheritance in Man lGENATLAS - Human genes atlas lGeneClinics - Medical genetics knowledge base lGDB - Human genes and genomic maps lGeneCards - Db integrating information on human genes 生物信息学相关数据库资源介绍 Human lUDB - Unified db for Human genome mapping lEnsembl - Human genome annotations site lUCSC human genome working draft lTIGR HGI - TIGR Human Gene Index lHuman BAC Ends Database - Non-redundant human BAC end sequences lHs UniGene - Human transcripts in GenBank (EST clusters) lSTACK - Sequence Tag Alignment and Consensus Knowledgebase (Db of consensus human ESTs) 生物信息学相关数据库资源介绍 Human l - Human predicted gene index/catalog lGenLink - Human genetics resource lGENOTK - Human cDNA db lHUGE - Human Unidentified Gene-Encoded large proteins cDNA (KIAA...) lCGAP - Cancer Genome Anatomy Project lSCDb - Stem cell db 生物信息学相关数据库资源介绍 Human lHuGeMap - Human genome genetic and physical map data lG3-RH - Stanford G3 and TNG radiation hybrid maps lGB4-RH - Genebridge4 (GB4) human radiation hybrid maps lRadiation Hybrid Database - Radiation hybrid map data 生物信息学相关数据库资源介绍 Human chromosome 1~8lChr1 - Human chromosome 1 at Rockefeller University [Mirror at EBI] lChr3 - Human chromosome 3 db at the University of Texas Health Science Center lChr7 - Human chromosome 7 db at Ontario's Hospital for Sick Children lChr8 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 8 生物信息学相关数据库资源介绍 Human chromosome9~11lChr9 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 9 lChr9 - Human chromosome 9 db lChr10 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 10 lGTC Chr10 data - Human chromosome 10 data from Genome Therapeutics Corporation lChr11 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 11 l11DB - Human chromosome 11 db at Imperial College (U.K.) 生物信息学相关数据库资源介绍 Human chromosome12~16lChr12 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 12 lChr13 - Human chromosome 13 db at Columbia lChr14 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 14 lChr15 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 15 lChr15 UBC - Human chromosome 15 WWW page at UBC lChr16 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 16生物信息学相关数据库资源介绍 Human chromosome16~19 lChr16 LANL - Human chromosome 16 db at Los Alamos National Laboratory lChr16 TIGR - Human chromosome 16 db at TIGR lChr17 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 17 lChr18 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 18 lChr18 - Human chromosome 18 at Boston Children's Hospital lChr19 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 19 生物信息学相关数据库资源介绍 Human chromosome20~22lChr20 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 20 lChr21 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 21 lChr21 at RIKEN - Human chromosome 21 genome site at RIKEN (Japan) lChr21 at ERI - Human chromosome 21 genomic sequence db from the Eleanor Roosevelt Institute lChr22 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 22 lChr22 at Sanger - Sanger Center chromosome 22 project lChr22 at HGC - Human genome center for chromosome 22 生物信息学相关数据库资源介绍 Human chromosomeX~Y（人类（人类X~Y染色体）染色体）lChrX SWISS-PROT list - Links to SWISS-PROT entries from human chromosome X lIXDB - Integrated X chromosome db lChrY SWISS-PROT list - Links to SWISS-PROT entries from human chromosome Y生物信息学相关数据库资源介绍 Vertebrates （脊椎动物） lOMIA - Online Mendelian Inheritance in Animals lMGI - Mouse Genome Informatics (includes *Mouse Genome Database (MGD))[Mirrors in Australia | UK | Japan] lTIGR MGI - TIGR Mouse* Gene Index lMm UniGene - Mouse transcripts in GenBank (EST clusters) lRatMAP - Rat genome db lTIGR RGI - TIGR Rat Gene Index lRn Unigene - Rat transcripts in GenBank (EST clusters) (以上与老鼠有关的基因数据库）生物信息学相关数据库资源介绍 Vertebrates lBovBASE - Bovine genome db (in UK) lBOVMAP - Bovine genome db (in France) （牛） lArk-Cat – cat genome db (猫）lHorseBASE - Horse genome db （马）lDGP - Dog Genome Project （狗）lPiGBASE - Pig genome db （猪）lSheepBASE - Sheep genome db (also known as SheepMap) [Mirror in UK] （羊）lMIS - Mendelian Inheritance in Sheep lChickGBASE - Chicken genome db （鸡）生物信息学相关数据库资源介绍 VertebrateslFugu - HGMP Resource Centre Fugu Project (Fugu rubripes) （河豚）lMedakafish - Mekada fish (Oryzias latipes) server lArk-Tilapia - Tilapia （罗非鱼）mossambica genome db lThe fish net - Zebrafish server （斑马鱼）lFishBase - Global information system on fishes 生物信息学相关数据库资源介绍 Mitochondrion and chloroplast（线立体和叶绿体） lGOBASE - Organelle Genome Database lMitoDat - Mendelian Inheritance and the Mitochondrion db (mitochondrial nuclear genes) lMITOMAP - Human mitochondrial genome db lMmtDB - Metazoa mitochondrial DNA variants db （后生动物）lMitBASE - Integrated mitochondrial DNA db lMitBASE-Pilot - Db of S.cerevisiae nuclear genes involved in mitochondrial biogenesis lHvrBase - Primates mtDNA control region sequences compilation 生物信息学相关数据库资源介绍 Mitochondrion and chloroplastlMOUSE - Mitochondrial and Other Useful SEquences (human and apes mit. DNA db) lMITOP - Mitochondrial proteins, genes and diseases lAMmtDB - Metazoan mitochondrial DNA sequences 生物信息学相关数据库资源介绍 Insects（昆虫）（昆虫）lDrosophila SWISS-PROT list - Links to Drosophila SWISS-PROT entries （果蝇）lFlyBase - Drosophila genetic and molecular db [Mirror at EBI] lFlyView - Drosophila image db lGIFTS - Gene Interactions in the Fly Trans-World Server lFlyNets - Db of molecular interactions in Drosophila melanogaster lSOS-DGBD - Db of Drosophila DNA sequences annotated with regulatory binding sites lMosquito Genomics （蚊子）生物信息学相关数据库资源介绍 Invertebrates（无脊柱动物（无脊柱动物lWormBase - C.elegans db [Mirror at Sanger] lC.elegans WWW server - at University of Texas Southwestern （线虫）lACeDb - Caenorhabditis elegans db lC.elegans Mitochondrial Directory - Data on C.elegans genes for mitochondrial proteins lC.elegans EST - C.elegans EST db from Japan (Yuji Kohara's group) lC.elegans SWISS-PROT list - Links to C.elegans SWISS-PROT entries lWormPep - C.elegans proteins db lWormPD - C.elegans protein db 生物信息学相关数据库资源介绍 InvertebrateslDictystelium Genome Sequencing project at BCM lDictyostelium discoideum genome project at IENA lDictyDb - Dictyostelium discoideum db lDicty_cDB - Dictyostelium discoideum cDNA project lCone shells Web site lParasite genomes db and resources （寄生虫）lParasite genomes WWW site lPlasmoDB - P.falciparum genome db 生物信息学相关数据库资源介绍 InvertebrateslMalaria - WHO - Malaria db (from WHO) lP.falciparum Sanger - P.falciparum genome project at Sanger lPFDB - Plasmodium falciparum Genome db l - Plasmodium falciparum Gene Sequence Tag project （ 疟原虫）生物信息学相关数据库资源介绍 InvertebrateslMAD - Malaria Antigen db lMalaria parasite metabolic pathways lLGN - Leishmania Genome Network （利什曼虫）lTrypanosoma brucei genome project （锥体虫）lTrypanosoma cruzi genome project lkDNA - Kinetoplast Minicircle Sequence db 生物信息学相关数据库资源介绍 Plants（植物类）（植物类）lNAL - AGIS - Access to many plant genome databases at the National Agricultural Library lDemeter's genomes - Access to many plant genome databases at the USDA-ARS lMendel - Plant gene nomenclature database from CPGN lAtDB - Arabidopsis thaliana genome database lTAIR - The Arabidopsis Information Resource lMATDB - MIPS Arabidopsis thaliana db lTIGR AtGI - TIGR Arabidopsis thaliana Gene Index lAGR - Arabidopsis Genome Resource 生物信息学相关数据库资源介绍 PlantslBeanGenes - Beans genome db （豆）lBeanRef - Beans genome db and other resources lChlamyDB - Chlamydomonas reinhardtii genome db （衣藻）lCropNet - Genome mapping in crop plants （农作物）lCottonDB - Cotton genome db （棉花）lMaizeDb - Maize genome db （玉米）lINRA Maize - INRA Maize genome db lZmDB - Maize genome database lPisum sativum (pea) web site （豌豆）生物信息学相关数据库资源介绍 Plants-Rice lRGP - Rice Genome Research Program （水稻）lRiceGenes l - Monsanto rice genome site lTIGR OsGI - TIGR Rice Gene Index lTIGR GmGI - TIGR Soybean Gene Index （大豆）lSnapdragon (A.majus) web site lSorghumDB - Sorghum genome db （高粱）lSoyBase - Soybean genome db 生物信息学相关数据库资源介绍 PlantslSoyBase metabolic db - Metabolic subset of the soybean genome db lTIGR LeGI - TIGR Tomato Gene Index （西红柿）lDendrome - Forest trees genome db （树林植物）生物信息学相关数据库资源介绍 Fungi （真菌）（真菌）lFGSC - Fungal Genetics Stock Center lFGR - Fungal Genome Resource lYeast SWISS-PROT list - Links to S.cerevisiae WWW sites and to SWISS-PROT entries lSGD - Saccharomyces genome db （酵母）lYPD - Yeast protein db lMitBASE-Pilot - Db of S.cerevisiae nuclear genes involved in mitochondrial biogenesis （酵母）lYeast snoRNA - Yeast small nucleolar RNAs db lYTPdb - Yeast Transport Protein db （酵母）lPathCalling - Yeast protein-protein interaction db 生物信息学相关数据库资源介绍 Fungi lAspergillus web site lC.albicans SWISS-PROT list - Links to C.albicans WWW sites and to SWISS-PROT entries lCandida albicans - Candida albicans server at the Univ. of Minnesota （假丝酵母）lNGP - Neurospora crassa genome project（脉孢菌）lPC - Pneumocystis carinii genome project lS.pombe SWISS-PROT list - Links to S.pombe WWW sites and to SWISS-PROT entries lS.pombe NIH - Fission yeast (S.pombe) server at the NIH生物信息学相关数据库资源介绍 Fungi lPhycomyces Web site - Resource site for scientists working on Phycomyces l lEMGlib - Completely sequenced bacterial genomes and the yeast genome 生物信息学相关数据库资源介绍 Bacteria（细菌）（细菌）lICB - Identification and Classification of Bacteria lWDCM - World Data Center for Microorganisms lList of Bacterial Names with Standing in Nomenclature lMDB - TIGR Microbial db l< A>- Genome information broker for Microbial genomes lHOBACGEN - Homologous Bacterial Genes db lComparison of the transport capabilities of bacterial genomes - from Ian Paulsen lBPGD - Bacterial polysaccharide gene db 生物信息学相关数据库资源介绍 BacterialBacterial quorum sensing lMicrobeWorld - Educational site on microbes lE.coli SWISS-PROT list - Links to E.coli WWW sites and to SWISS-PROT entries lEcoWeb / EcoGene - Very comprehensive E.coli db lECCE - E.coli Cell Envelope Protein Data Collection lECDC - E.coli db collection lEcoCyc - Encyclopedia of E.coli genes and metabolism生物信息学相关数据库资源介绍 Bacteria lGenProtEC - E.coli genome and proteome db lColibri - E.coli genome db from Pasteur Insitute lECGC - E.coli Genome Center at Wisconsin University （大肠杆菌）l - E.coli home page at DDBJ lB.subtilis SWISS-PROT list - Links to B.subtilis WWW sites and to SWISS-PROT entries lSubtiList - Bacillus subtilis genomic db lNRSub - Bacillus subtilis non-redundant db [Mirror in Japan]生物信息学相关数据库资源介绍 Bacteria lMicado - Microbial advanced db (B.subtilis + E.coli) (previously known as MadBase) lBSORF - Japanese server on B.subtilis l - Actinobacillus actinomycetemcomitans strain HK1651 genome project l - Bacillus stearothermophilus strain 10 genome project l - Bordetella pertussis genome WWW site lBbDB - TIGR Borrelia burgdorferi genome db 生物信息学相关数据库资源介绍 BacterialiBGD - Integrated Buchnera genome db l - Burkholderia cepacia genome project lChlamydia - Chlamydia pneumoniae and trachomatis l - TIGR Chlamydia muridarum strain MoPn genome db lC.pneumoniae AR39 - TIGR Chlamydia pneumoniae strain AR39 genome db lC.pneumoniae J138 - Japanese Chlamydia pneumoniae strain J138 genome db 生物信息学相关数据库资源介绍 Bacterial - GTC Clostridium acetobutylicum strain ATCC 824 data l - Campylobacter jejuni strain NCTC 11168 genome WWW site l - Cytophaga hutchinsonii genome project lDrDB - TIGR Deinococcus radiodurans strain R1 genome db l - Desulfitobacterium hafniense genome project l - Enterococcus faecium genome project 生物信息学相关数据库资源介绍 Bacterial - Ferroplasma acidarmanus genome project l - Francisella tularensis genome WWW site lH.influenzae SWISS-PROT list - Links to H.influenzae WWW sites and to SWISS-PROT entries lHiDB - TIGR H.influenzae genome db lHIDC - H.influenzae db collection lH.pylori SWISS-PROT list - Links to H.pylori WWW sites and to SWISS-PROT entries 生物信息学相关数据库资源介绍 BacterialHpDB - TIGR Helicobacter pylori strain 26695 genome db lH.pylori J99 - Astra Helicobacter pylori strain J99 genome db lPyloriGene - Helicobacter pylori genmoic db lMC-1 - Magnetococcus MC-1 genome project l - Magnetospirillum magnetotacticum genome project lMycDB - Mycobacterium db lM.leprae at GTC - GTC Mycobacterium leprae data lM.leprae at Sanger - Sanger Centre M.leprae genome project lTubercuList - Mycobacterium tuberculosis strain H37Rv genome db lMtDB - TIGR Mycobacterium tuberculosis strain Oshkosh genome db lM.tuberculosis at GTC - GTC Mycobacterium tuberculosis data 生物信息学相关数据库资源介绍 BacterialM.tuberculosis at Sanger - Sanger Centre M.tuberculosis H37Rv genome project lM.tuberculosis secreted proteins lM.tuberculosis structural genomics consortium lM.genitalium SWISS-PROT list - Links to M.genitalium SWISS-PROT entries lMgDB - TIGR Mycoplasma genitalium genome db l - Mycoplasma pneumoniae genome project生物信息学相关数据库资源介绍 Bacteria lN.meningitidis A - Sanger Centre Neisseria meningitidis serogroup A strain Z2491 genome project lN.meningitidis B - TIGR Neisseria meningitidis serogroup B strain MC58 genome db l - Neisseria gonorrhoeae strain FA 1090 genome project l - Nitrosomonas europaea genome project l - Nostoc punctiforme genome project 生物信息学相关数据库资源介绍 Bacterial - Prochlorococcus marinus genome project lP.aeruginosa project - Pseudomonas aeruginosa genome project lP.aeruginosa db - Pseudomonas aeruginosa genome db l - Pseudomonas fluorescens genome project lRhizobium pNGR234a SWISS-PROT list - Links to Rhizobium plasmid pNGR234a SWISS-PROT entries lRhizobium pNGR234a analysis lRsGDB - Rhodobacter sphaeroides genome db l - Rhodobacter sphaeroides genome project 生物信息学相关数据库资源介绍 Bacterial - Rhodopseudomonas palustris genome project lR.prowazekii SWISS-PROT list - Links to prowazekii SWISS-PROT entries l - Rickettsia prowazekii strain Madrid E genome project lS.typhimurium SWISS-PROT list - Links to S.typhimurium SWISS-PROT entries lRhizoBase - Sinorhizobium loti genome project l - Sinorhizobium meliloti genome project 生物信息学相关数据库资源介绍 Bacterial - Sphingomonas aromaticivorans genome project l - Staphylococcus aureus strain NCTC 8325 genome project l - Streptococcus mutans strain UAB159 genome project l - Streptococcus pyogenes strain M1 genome project lPCC 6803 SWISS-PROT list - Links to Synechocystis PCC 6803 SWISS-PROT entries lCyanoBase - Synechocystis PCC 6803 db 生物信息学相关数据库资源介绍 BacterialSynechococcus - Marine synechococcus genome project l - Thermomonospora fusca genome project lTmDB - TIGR Thermotoga maritima genome db lTpDB - TIGR Treponema pallidum genome db l - Trichodesmium erythraeum genome project l - Ureaplasma urealyticum genome WWW site lVcDB - TIGR Vibrio cholerae genome db l - Xanthomonas cititi genome WWW site 生物信息学相关数据库资源介绍 Bacterial - Xylella fastidiosa genome WWW site lX.fastidiosa at DOE - DOE Xylella fastidiosa genome project l - Yersinia pestis genome WWW site lPhytophthora Genome Initiative Database - Oomycete sequences and genetic maps 生物信息学相关数据库资源介绍 Archaea（古细菌）（古细菌）l - Aeropyrum pernix K1 genome db lAfDB - TIGR Archaeoglobus fulgidus genome db lHalobacterium NRC-1 - Halobacterium strain NRC-1 genome project l - Methanobacterium thermoautotrophicum genome db lM.jannaschii SWISS-PROT list - Links to M.jannaschii SWISS-PROT entries lMjDB - TIGR Methanococcus jannaschii genome db lMjFdb - Methanococcus jannaschii functions db生物信息学相关数据库资源介绍 Archaea l - Methanosarcina barkeri genome project l - Pyrococcus abyssi genome project and db l - Pyrococcus horikoshii OT3 db lSGP - Sulfolobus solfataricus strain P2 genome project l - Thermoplasma acidophilum genome project 生物信息学相关数据库资源介绍 致谢！l参考“中国科学院上海生命科学研究院生物信息中心 ”网页编写l地址生物信息学相关数据库资源介绍 。
