Melbourne/Software

From 2007.igem.org

< Melbourne(Difference between revisions)
 
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*[[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&qty=1&c_start=1&list_uids=3089519&uids=&dopt=gbwithparts&dispmax=1&sendto=|NCBI core nucleotide database for Gvp AF053765]]
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[[Melbourne|<return to home page>]]
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*Used for GVP component:
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**[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&qty=1&c_start=1&list_uids=3089519&uids=&dopt=gbwithparts&dispmax=1&sendto=| NCBI core nucleotide database for Gvp AF053765]
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**[http://www.ncbi.nlm.nih.gov/BLAST/| BLAST]
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**[http://www.ncbi.nlm.nih.gov/gorf/gorf.html| ORF prediction]
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**[http://au.expasy.org/tools/pi_tool.html| pI & MW (Expasy)]
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**[http://tools.neb.com/NEBcutter2/index.php NEB cutter 2.0]
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**[http://arbl.cvmbs.colostate.edu/molkit/mapper/index.html , Colostate Graphical map]
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**[http://bioweb.pasteur.fr/seqanal/interfaces/silent.html locate possible silent mutations introducing restriction sites]
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**[http://insilico.ehu.es/restriction/many_seqs/ Restriction fragments of Linear sequences only]
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**[http://www.restrictionmapper.org/ Restriction fragments of circular sequences unfortunately verbose]
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**[http://www.clcbio.com/index.php?id=1102 (CLC)]
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**[http://www.idtdna.com/analyzer/Applications/OligoAnalyzer/ oligo analyzer]
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**[http://www.kazusa.or.jp/codon/ Codon usage database]
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**[http://bioinformatics.org/sms/rev_comp.html Reverse Complement DNA]
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[http://au.expasy.org/tools/dna.html Translation tool]
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*Used for Blue light receptor component:
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*Other usefull sites:
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**[http://molbiol-tools.ca/Translation.htm List of gene finding tools]
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**[http://www.ncbi.nlm.nih.gov/BLAST/producttable.shtml| BLAST alternatives (NCBI)]
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**[http://www.shigen.nig.ac.jp/ecoli/pec/index.jsp| Profiling Ecoli chromosome]
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**[http://chemfinder.cambridgesoft.com/| Chemfinder]
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**[http://www.ebi.ac.uk/clustalw/| Clustal W alignment]
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**[http://www.sbc.su.se/~miklos/DAS/maindas.html| DAS transmembrane prediction]
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**[http://ezproxy.lib.unimelb.edu.au/login?url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?DB=pubmed| pubmed]
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**[http://www.mybio.net/biowiki/Main_Page| mybio tools]
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**[http://au.expasy.org/| EXPASY]
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** http://www.arabidopsis.org/
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** http://www.yeastgenome.org/
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**[http://www.uni-giessen.de/~gx1052/IECA/ieca.html| Ecoli database portal]

Latest revision as of 03:26, 16 July 2007

<return to home page>

  • Used for GVP component:
    • [http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&qty=1&c_start=1&list_uids=3089519&uids=&dopt=gbwithparts&dispmax=1&sendto=| NCBI core nucleotide database for Gvp AF053765]
    • [http://www.ncbi.nlm.nih.gov/BLAST/| BLAST]
    • [http://www.ncbi.nlm.nih.gov/gorf/gorf.html| ORF prediction]
    • [http://au.expasy.org/tools/pi_tool.html| pI & MW (Expasy)]
    • [http://tools.neb.com/NEBcutter2/index.php NEB cutter 2.0]
    • [http://arbl.cvmbs.colostate.edu/molkit/mapper/index.html , Colostate Graphical map]
    • [http://bioweb.pasteur.fr/seqanal/interfaces/silent.html locate possible silent mutations introducing restriction sites]
    • [http://insilico.ehu.es/restriction/many_seqs/ Restriction fragments of Linear sequences only]
    • [http://www.restrictionmapper.org/ Restriction fragments of circular sequences unfortunately verbose]
    • [http://www.clcbio.com/index.php?id=1102 (CLC)]
    • [http://www.idtdna.com/analyzer/Applications/OligoAnalyzer/ oligo analyzer]
    • [http://www.kazusa.or.jp/codon/ Codon usage database]
    • [http://bioinformatics.org/sms/rev_comp.html Reverse Complement DNA]

[http://au.expasy.org/tools/dna.html Translation tool]

  • Used for Blue light receptor component:


  • Other usefull sites:
    • [http://molbiol-tools.ca/Translation.htm List of gene finding tools]
    • [http://www.ncbi.nlm.nih.gov/BLAST/producttable.shtml| BLAST alternatives (NCBI)]
    • [http://www.shigen.nig.ac.jp/ecoli/pec/index.jsp| Profiling Ecoli chromosome]
    • [http://chemfinder.cambridgesoft.com/| Chemfinder]
    • [http://www.ebi.ac.uk/clustalw/| Clustal W alignment]
    • [http://www.sbc.su.se/~miklos/DAS/maindas.html| DAS transmembrane prediction]
    • [http://ezproxy.lib.unimelb.edu.au/login?url=http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?DB=pubmed| pubmed]
    • [http://www.mybio.net/biowiki/Main_Page| mybio tools]
    • [http://au.expasy.org/| EXPASY]
    • http://www.arabidopsis.org/
    • http://www.yeastgenome.org/
    • [http://www.uni-giessen.de/~gx1052/IECA/ieca.html| Ecoli database portal]
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