常用生物信息學數(shù)據(jù)庫和分析工具網(wǎng)址

1、.常用生物信息學數(shù)據(jù)庫和分析工具網(wǎng)址數(shù)據(jù)庫因特網(wǎng)網(wǎng)址網(wǎng)上生物信息學教程EBI自修課程http:/www.ebi.ac.uk/2canNCBI自修課程/Education自修課程http:/lectures.molgen.mpg.de/online_lectures.html生物信息學常問的問題/faq/生物信息學機構(gòu)NCBI/International Nucleotide Sequence Database Collaboration.htt

2、p://collab/EBIhttp:/www.ebi.ac.uk/USDA/Sanger Centrehttp:/genomic.sanger.ac.uk/北京大學生物信息學中心數(shù)據(jù)庫信息發(fā)布及其它GenBank Release Notes/genbank/gbrel.txtdbEST summary report/dbEST/dbESTsummarv.htmlEMBL release noteshttp:/www.

3、genome.ad.jp/dbget-bin/show man?emblDDBJ release noteshttp:/www.ddbj.nig.ac.jp/ddbjnew/ddbj relnote.htmlEukaryotic promoter database release noteshttp:/www.genome.ad.jp/dbget/dbget2.htmlSwissProt release noteshttp:/www.genome.ad.jp/dbget-bin/show man?swissprotPIR release noteshttp:/www.genome.ad.jp/

4、dbget-bin/show man?pirPRF release noteshttp:/www.genome.ad.jp/dbget-bin/show man?prfPDBSTR release noteshttp:/www.genome.ad.jp/dbget-bin/show man?pdbstrProsite release noteshttp:/www.genome.ad.jp/dbget-bin/show man?prositePDB release noteshttp:/www.genome.ad.jp/dbget-bin/show man?pdbKEGG release not

5、eshttp:/www.genome.ad.jp/dbget-bin/show man?pathway核苷酸數(shù)據(jù)庫GenBank/dbEST /dbEST/index.htmldbSTS /dbSTS/index.htmldbGSS /dbGSS/index.htmlGenome (NCBI)/entrez/query.fcgi?db=G

6、enomedbSNP /SNP/HTGS/HTGS/UniGene/UniGene/EMBL核苷酸數(shù)據(jù)庫http:/www.ebi.ac.uk/emblGenome (EBI)http:/www.ebi.ac.uk/genomes/向EMBL數(shù)據(jù)庫提交序列http:/www.ebi.ac.uk/embl/Submission/webin.htmlDDBJhttp:/www.ddbj.nig.ac.jp/Plant R gene databa

7、se/rgenes啟動子數(shù)據(jù)庫Eukaryotic promoter database http:/www.epd.isb-sib.chhttp:/www.genome.ad.jp/dbget/dbget2.html轉(zhuǎn)錄因子數(shù)據(jù)庫FRANSFAChttp:/transfac.gbf.deooTFD基因注釋數(shù)據(jù)庫RAP-DBhttp:/rapdb.lab.nig.ac.jp基因分類數(shù)據(jù)庫Gene Ontology (GO)蛋白質(zhì)數(shù)據(jù)庫SWISS-PROT或TrEMBLhtt

8、p:/www.ebi.ac.uk/swissprot/http:/www.expasy.ch/sprot/PIRPRF/pkr/Welcome.dohttp:/www.prf.or.jp/PDBSTRhttp:/www.genome.ad.jpProsite/prosite結(jié)構(gòu)數(shù)據(jù)庫PDB/pdbNDB/NDB/ndb.htmlhttp:/

9、/DNA-Binding Protein Database /NDB/structure-finder/dnabind/index.htmlNMR Nucleic Acids Database/NDB/structure-finder/nmr/index.htmlProtein Plus Database/NDB/structure-finder/protein/index.htmlSwiss

10、 3Dimagehttp:/www.expasy.ch/sw3d/SCOPhttp:/scop.mrc-lmb.cam.ac.uk/scop/CATHhttp:/www.biochem.ucl.ac.uk/bsm/cath/酶、代謝和調(diào)控路徑數(shù)據(jù)庫KEGGhttp:/www.genome.ad.jp/kegg/Enzyme Nomenclature Databasehttp:/expasy.hcuge.ch/sprot/enzyme.htmlProtein Kinase Resource (PKR)/kinases/LIGANDhttp:/www.genom

11、e.ad.jp/dbget/ligand.htmlWIT/WIT/EcoCychttp:/ecocyc.PangeaSUM-BBD/umbbd/多種代謝路徑數(shù)據(jù)庫/stc-95/ResTools/biotools/biotools8.html基因調(diào)控路徑數(shù)據(jù)庫(TRANSPATH)http:/transfac.gbf.de基因組數(shù)據(jù)庫禾本科比較基因組GrainGeneBotanica

12、l Data/calflora/batanical.html日本水稻基因組 (RGP)http:/rgp.dna.affrc.go.jp水稻物理圖譜/projects/rice/fpc華大水稻基因組框架圖歐洲水稻測序（第12染色體）s.frOryGenesDB（水稻插入突變體）http:/orygenesdb.cirad.frMaize genomeBarley genomehttp:

13、//Research/barley/nabgmp.htmForage grasses genomes//Topics/Species/Grasses/Triticum genomes/index.shtmlArabidopsis genomeSoyBaseAlfalfa genomehttp:/www.a

14、Cotton genomeGlycine max genome/PlantGDB/glycine_max.html/PlantGDBC. elegans genome藻類（Chlamydomonas）基因組/chlamy_genome粘菌（Dictyostelium）基因組http:/dictygenom

15、Animal genomes (ArkDB)FlyBase/.bin/fbidq.html?FBgn0003075Mouse Genome Informatics /bin/query_accession?id=MGI:97555Saccharomyces Genome Database/cgi-bin/dbrun/SacchDB?find+Locus+

16、%22PGK1%22多種基因組數(shù)據(jù)庫http:/www.hgmp.mrc.ac.uk/GenomeWebRice Mutant Database文獻數(shù)據(jù)庫PubMed/PubMed/OMIM/Omim/Agricola/ag98/Rice Genetics Newsletter/newsletters/rice_geneticsProceedings of the National Academy of S

17、ciences USA (PNAS)關(guān)鍵詞為基礎(chǔ)的數(shù)據(jù)庫檢索Entrez /Entrez/Entrez Nucleotide Sequence Search/Entrez/nucleotide.htmlEntrez Protein Sequence Search/Entrez/protein.htmlBatch Entrez/Entrez/batch.

18、htmlSequence Retrieval System, Indiahttp:/bioinfo.ernet.in:80/srs5/Sequence Retrieval System, Singapore.sg:80/srs5/Sequence Retrieval System, US:80/srs/srscSequence Retrieval System, UKhttp:/srs.ebi.ac.uk/GetEntry Nucleotide & Protein Sequence Sear

19、chhttp:/ftp2.ddbj.nig.ac.jp:8000/getstart-e.htmlDatabase Search with Key Wordshttp:/ftp2.ddbj.nig.ac.jp:8080/dbsearch-e-new.htmlDBGET/LinkDBhttp:/www.genome.ad.jp/dbget/序列為基礎(chǔ)的數(shù)據(jù)庫檢索BLAST/BLAST/FASTAhttp:/www.ebi.ac.uk/fasta33/index.htmlBLITZhttp:/www2.ebi.ac.uk/bic_sw/SSearc

20、hrs.fr/bin/ssearch-guess.cgiElectronic PCR/STS/Proteome analysishttp:/www.ebi.ac.uk/proteome/Global alignment多序列分析Clustal multiple sequence alignmentBCM:9331/multi-align/multi-align.htmlEBI Clustal

21、W http:/www.ebi.ac.uk/clustaw/index.htmlClustal multiple sequence alignment修飾對序列對位排列結(jié)果的格式（Boxshade）/software/BOX_form.html系譜分析PAUP/PAUP/EBI ClustalW analysishttp:/www.ebi.ac.ukGCG packagePHYLIP/phyl

22、ip.htmlMEGA/METREE/imegHennig86/mes/hennig/software.htmlGAMBIT /mcdbio/Faculty/Lake/Research/Programs/MacClade/macclade/macclade.htmlPhylogenetic analysis/stc-95/ResTools/biotools/biotools2.h

23、tmlClustalXftp:/ftp-igbmc.u-strasbg.fr/pub/ClustalXMEGATreeViewhttp:/taxonomy.zoology.gla.ac.uk/rod/treeview.html基因結(jié)構(gòu)預(yù)測分析GENSCAN/GENSCAN.htmlhttp:/bioweb.pasteur.fr/seqanal/interfaces/genscan-simple.htmlhttp:/bioweb.pasteur.frGeneFinder/urllists/genefind.ht

24、mGene FindingGene Feature SearchesGrail/Grail-1.3GrailEXP/grailexpGeneMark /GeneMark/eukhmm.cgi/GeneMark/hmmchoice.htmlVeil/labs/compbio/veil.htmlA

25、AT/aat.htmlGENEID http:/www.imim.es/GeneIdentification/Geneid/geneid_input.htmlGenlang/sdong/genlang_home.htmlGeneParser/eesnyder/GeneParser.htmlGlimmer/labs/compbio/glimmer.htmlMZEF/gene

26、finderProcrustes/software/procrustes/Tandem Repeats Finderhttp:/C3./trf.htmlRepeatshttp:/bioweb.pasteur.fr/seqanal/interfaces/repeats.html基因分類GO Annotator/gofigure蛋白質(zhì)結(jié)構(gòu)預(yù)測分析Expasyhttp:/www.expasy.ch/CBShttp:/www.cbs.dtu.dkPredicting prot

27、ein secondary structure:9331/pssprediction/pssp.htmlPredicting protein 3D Structureshttp:/dove.embl-heidelberg.de/3D/Predicting protein structures :9331/seq-search/struc-predict.html其它分析工具和軟件BioEdit/BioEdit/bioedit.htmlPrim

28、er3（PCR引物設(shè)計）/cgi-bin/primer3/primer3_www.cgiPutative DNA Sequencing Errors Checkhttp:/www.bork.embl-heidelberg.de/Frame/MatInspectorhttp:/www.gsf.de/cgi-bin/matsearch.plFastMhttp:/www.gsf.de/cgi-bin/fastm.plWeb Signal Scanhttp:/www.dna.affrc.go.jp/htdocs/sigscan/signal.htmlBCM Search