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      常用生物信息學(xué)數(shù)據(jù)庫和分析工具網(wǎng)址
      
                    
                    
                    
                    
      
                         zhuqiaoxiaoxue
                        
                        
                        2015-09-25
                        
                            
                        
                    
      
                    
      
                        
                        
      
                    
      
                    
                    
      
                        
      
                            
                        
      
                        
      
                            
                                
      
                                    
                                        
      

                                        
                                        

                                        網(wǎng)上生物信息學(xué)教程
      EMBL biocomputing tutorials 
      http://www.bio./Embnetut/Gcg/index.html
      Plant genome dababase tutorial
      http://www.nal./pgdic

      生物信息學(xué)機構(gòu)
      NCBI
      http://www.ncbi.nlm./
      International Nucleotide Sequence Database Collaboration.
      http://www.ncbi.nlm./collab/
      EBI 
      http://www./
      USDA
      http://www.nal./
      Sanger Centre
      http://genomic./
      北京大學(xué)生物信息學(xué)中心
      http://www.cbi.pku.edu.cn

      核苷酸數(shù)據(jù)庫
      GenBank
      http://www.ncbi.nlm./
      dbEST 
      http://www.ncbi.nlm./dbEST/index.html
      dbSTS 
      http://www.ncbi.nlm./dbSTS/index.html
      dbGSS 
      http://www.ncbi.nlm./dbGSS/index.html
      Genome (NCBI)
      http://www.ncbi.nlm./entrez/query.fcgi?db=Genome
      dbSNP 
      http://www.ncbi.nlm./SNP/
      HTGS
      http://www.ncbi.nlm./HTGS/
      UniGene
      http://www.ncbi.nlm./UniGene/
      EMBL核苷酸數(shù)據(jù)庫       
      http://www./embl
      Genome (EBI)
      http://www./genomes/
      向EMBL數(shù)據(jù)庫提交序列
      http://www./embl/Submission/webin.html
      DDBJ     
      http://www.ddbj./
      Plant R gene database 
      http://www./rgenes

      啟動子數(shù)據(jù)庫
      Eukaryotic promoter database 
      http://www.epd.
      http://www.genome./dbget/dbget2.html

      轉(zhuǎn)錄因子數(shù)據(jù)庫
      FRANSFAC
      http://transfac.
      ooTFD
      http://www.

      基因分類數(shù)據(jù)庫
         Gene Ontology (GO)
      http://www.

      蛋白質(zhì)數(shù)據(jù)庫
      SWISS-PROT或TrEMBL       
      http://www./swissprot/
      http://www./sprot/
      PIR
      http://www-nbrf./pir/
      PRF       
      http://www.prf./
      PDBSTR
      _bfind?pdbstr-todayProsite    
      http://www./sprot/prosite.html

      結(jié)構(gòu)數(shù)據(jù)庫
      PDB       
      http://www./pdbhttp://www.genome./dbget-bin/www
      http://www.
      NDB      
      http://ndbserver./NDB/ndb.html
      http://ndbserver./
      DNA-Binding Protein Database 
      http://ndbserver./NDB/structure-finder/dnabind/index.html
      NMR Nucleic Acids Database
      http://ndbserver./NDB/structure-finder/nmr/index.html
      Protein Plus Database
      http://ndbserver./NDB/structure-finder/protein/index.html
      Swiss 3Dimage     
      http://www./sw3d/
      SCOP    
      http://scop.mrc-lmb./scop/
      CATH    
      http://www.biochem./bsm/cath/

      酶、代謝和調(diào)控路徑數(shù)據(jù)庫 
      KEGG 
      http://www.genome./kegg/
      Enzyme Nomenclature Database       
      http://expasy./sprot/enzyme.html
      Protein Kinase Resource (PKR)
      http://www./kinases/
      LIGAND      
      http://www.genome./dbget/ligand.html
      WIT       
      http://www.cme./WIT/
      EcoCyc 
      http://ecocyc.PangeaSystems.com/ecocyc/
      UM-BBD      
      http://www.labmed./umbbd/

      多種代謝路徑數(shù)據(jù)庫
      http://www./stc-95/ResTools/biotools/biotools8.html

      基因調(diào)控路徑數(shù)據(jù)庫(TRANSPATH)
      http://transfac.


      基因組數(shù)據(jù)庫
      禾本科比較基因組
      http://www.
      GrainGene
      http://www.
      Botanical Databases
      http://www./botanicaldatabase.htm
      Botanical Data
      http://www./calflora/batanical.html

      日本水稻基因組 (RGP)
      http://rgp.dna.affrc.

      水稻物理圖譜
      http://www.genome./projects/rice/fpc
      http://www.genome.
      華大水稻基因組框架圖
      http://www.
      歐洲水稻測序（第12染色體）
      http://www.genoscope.
      Maize genome
      http://www.agron.

      Barley genome
      http://www.css./Research/barley/nabgmp.htm

      Forage grasses genomes
      http://forages./

      http://www.forages.css./Topics/Species/Grasses/

      Triticum genomes
      http://wheat.pw./index.shtml

      Arabidopsis genome
      http://www.

      SoyBase
      http://129.186.26.94

      Alfalfa genome
      http://www.alfalfa.

      Cotton genome
      http://cottongenomecenter.

      Glycine max genome
      http://www.zmdb./PlantGDB/glycine_max.html

      http://www.zmdb./PlantGDB

      C. elegans genome
      http://www.

      藻類（Chlamydomonas）基因組
      http://www.biology./chlamy_genome

      粘菌（Dictyostelium）基因組
      http://dictygenome.bcm.

      Animal genomes (ArkDB)
      http://www.

      FlyBase
      http://flybase.bio./.bin/fbidq.html?FBgn0003075

      Mouse Genome Informatics 
      http://www.informatics./bin/query_accession?id=MGI:97555

      Saccharomyces Genome Database
      http://genome-www./cgi-bin/dbrun/SacchDB?find+Locus+%22PGK1%22

      多種基因組數(shù)據(jù)庫
      http://www.hgmp./GenomeWeb



      文獻數(shù)據(jù)庫 

      PubMed 
      http://www.ncbi.nlm./PubMed/

      OMIM
      http://www.ncbi.nlm./Omim/

      Agricola 
      http://www.nal./ag98/

      Rice Genetics Newsletter
      http://www./newsletters/rice_genetics

      Proceedings of the National Academy of Sciences USA (PNAS)
      http://intl.


      關(guān)鍵詞為基礎(chǔ)的數(shù)據(jù)庫檢索

      Entrez    
      http://www.ncbi.nlm./Entrez/

      Entrez Nucleotide Sequence Search 
      http://www.ncbi.nlm./Entrez/nucleotide.html

      Entrez Protein Sequence Search 
      http://www.ncbi.nlm./Entrez/protein.html

      Batch Entrez 
      http://www.ncbi.nlm./Entrez/batch.html

      Sequence Retrieval System, India 
      http://bioinfo.:80/srs5/

      Sequence Retrieval System, Singapore       
      http://www.bic.:80/srs5/

      Sequence Retrieval System, US 
      http://iubio.bio.:80/srs/srsc

      Sequence Retrieval System, UK 
      http://srs./

      GetEntry Nucleotide & Protein Sequence Search
      http://ftp2.ddbj.:8000/getstart-e.html

      Database Search with Key Words   
      http://ftp2.ddbj.:8080/dbsearch-e-new.html

      DBGET/LinkDB 
      http://www.genome./dbget/dbget2.html


      序列為基礎(chǔ)的數(shù)據(jù)庫檢索 

      BLAST 
      http://www.ncbi.nlm./BLAST/

      FASTA 
      http://www./fasta33/index.html

      BLITZ    
      http://www2./bicsw/

      SSearch 
      http://www2.igh./bin/ssearch-guess.cgi

      Electronic PCR
      http://www.ncbi.nlm./STS/

      Proteome analysis
      http://www./proteome/


      多序列分析

      Clustal multiple sequence alignment
      http://searchlauncher.bcm./multi-align/multi-align.html

      BCM
      http://searchlauncher.bcm./

      EBI ClustalW analysis
      http://www.


      系譜分析

      PAUP    
      http://onyx./PAUP/

      EBI ClustalW analysis
      http://www.

      GCG package      
      http://www./

      PHYLIP 
      http://evolution.genetics./phylip.html

      MEGA/METREE 
      http://www.bio./imeg

      Hennig86       
      http://www./~mes/hennig/software.html

      GAMBIT 
      http://www.lifesci./mcdbio/Faculty/Lake/Research/Programs/

      MacClade     
      http://phylogeny./macclade/macclade.html

      Phylogenetic analysis
      http://www./stc-95/ResTools/biotools/biotools2.html

      ClustalX
      ftp://ftp-igbmc.u-strasbg.fr/pub/ClustalX

      MEGA
      http://www.


      基因結(jié)構(gòu)預(yù)測分析 

      GENSCAN 
      http://genes./GENSCAN.html

      http://bioweb./seqanal/interfaces/genscan-simple.html

      http://bioweb.

      GeneFinder
      http://genomic./gf/gf.shtml 

      http://www./nucleo.html

      Gene Feature Searches       
      http://dot.imgen.bcm.:9331/

      Grail       
      http://compbio./Grail-1.3/

      GrailEXP
      http://grail.lsd./grailexp/

      GeneMark 
      http://opal.biology./GeneMark/eukhmm.cgi

      http://genemark.biology./GeneMark/hmmchoice.html

      Veil 
      http://www.cs./labs/compbio/veil.html

      AAT       
      http://genome.cs./aat.html

      GENEID 
      http://www./GeneIdentification/Geneid/geneid_input.html

      Genlang 
      http://cbil.humgen./~sdong/genlang_home.html

      GeneParser 
      http://beagle./~eesnyder/GeneParser.html

      Glimmer 
      http://www.cs./labs/compbio/glimmer.html

      MZEF    
      http://www./genefinder

      Procrustes     
      http://www-hto./software/procrustes/


      基因分類 

      GO Annotator
      http://udgenome.ags./gofigure


      蛋白質(zhì)結(jié)構(gòu)預(yù)測分析

      Expasy   
      http://www./

      CBS
      http://www.cbs.

      Predicting protein secondary structure      
      http://dot.imgen.bcm.:9331/pssprediction/pssp.html

      Predicting protein 3D Structures      
      http://dove./3D/

      Predicting protein structures 
      http://dot.imgen.bcm.:9331/seq-search/struc-predict.html


      其它分析工具和軟件

      Putative DNA Sequencing Errors Check    
      http://www.bork./Frame/

      MatInspector 
      http://www./cgi-bin/matsearch.pl

      FastM    
      http://www./cgi-bin/fastm.pl

      Web Signal Scan 
      http://www.dna.affrc./htdocs/sigscan/signal.html

      BCM Search Launcher       
      http://dot.imgen.bcm.:9331/seq-util/seq-util.html

      Webcutter     
      http://www./cutter/cut2.html

      Translate DNA to protein    
      http://www./tools/dna.html

      ABIM    
      http://www-biol./english/logligne.html

      sequence motifs:

      Pfam      
      http://www./Pfam/

      http://pfam./

      ProDom 
      http://protein.toulouse./prodom.html

      PRINTS 
      http://www.biochem./bsm/dbbrowser/PRINTS/


      其它

      多種數(shù)據(jù)庫、分析工具和生物信息學(xué)機構(gòu)
      http://www./stc-95/Restools/biotools

      多種數(shù)據(jù)庫和分析工具
      http://www./Tools/

      Comparative sequence analysis
      http://www.bork./


      功能基因組分析

      Transcription profiling technologies 
      http://www.ncbi.nlm./ncicgap/expression_tech_info.html

      Protocols for cDNA array technology   
      http://cmgm./pbrown/array.html

      Data management and analysis of gene expression arrays
      http://www.nhgri./DIR/LCG/15k/HTML/

      Examples of commercially available filter arrays:

      GeneFiltersTM (Research Genetics)     
      http://www.

      Gene Discovery Arrays (Genome Systems)       
      http://www.

      AtlasTM Arrays (CLONTECH)     
      http://www.
       
                                          		
                                
      
                                  
                        
      
                    
      



                
      
                
      
                    
                    
                        
      
                            
                                
        
                                    		
                        
        
                            
                
        
                
        
                
                
                
        
                
        


                

                
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