Team:BIOTEC Dresden/Software

From 2010.igem.org

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<td>ApE</td>
<td>ApE</td>
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<td>&nbsp;</td>
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<td>ApE was used as DNA construction software to create plasmid maps, fusion constructs and to view restriction sites of commonly used endonucleases  </td>
<td><a href="http://biologylabs.utah.edu/jorgensen/wayned/ape">biologylabs.utah.edu/jorgensen/wayned/ape</td>
<td><a href="http://biologylabs.utah.edu/jorgensen/wayned/ape">biologylabs.utah.edu/jorgensen/wayned/ape</td>
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<td>NCBI Blast</td>
<td>NCBI Blast</td>
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<td>&nbsp;</td>
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<td>The online software tool blast was used both to check nucleotide and protein sequences towards their homology to the original genomic sequence </td>
<td><a href="http://blast.ncbi.nlm.nih.gov">blast.ncbi.nlm.nih.gov</td>
<td><a href="http://blast.ncbi.nlm.nih.gov">blast.ncbi.nlm.nih.gov</td>
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<td>Cell Designer</td>
<td>Cell Designer</td>
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<td>&nbsp;</td>
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<td>Cell Designer represents a tool for molecular modeling allowing to construct molecular circuits</td>
<td><a href="http://www.celldesigner.org">www.celldesigner.org</td>
<td><a href="http://www.celldesigner.org">www.celldesigner.org</td>
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<td>PartsRegistry Sequence Analysis/BLAST</td>
<td>PartsRegistry Sequence Analysis/BLAST</td>
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<td>&nbsp;</td>
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<td>The registry blast was useful to identify nucleotide sequences already submitted to the registry</td>
<td><a href="http://partsregistry.org/cgi/sequencing/">partsregistry.org/cgi/sequencing</td>
<td><a href="http://partsregistry.org/cgi/sequencing/">partsregistry.org/cgi/sequencing</td>
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<td>PlasmaDNA</td>
<td>PlasmaDNA</td>
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<td>&nbsp;</td>
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<td>PlasmaDNA was used as a specific tool for the simulation of restriction digests as well as PCR reactions</td>
<td><a href="http://research.med.helsinki.fi/plasmadna">research.med.helsinki.fi/plasmadna</td>
<td><a href="http://research.med.helsinki.fi/plasmadna">research.med.helsinki.fi/plasmadna</td>
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<td>Sequencher</td>
<td>Sequencher</td>
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<td>&nbsp;</td>
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<td>Sequencer helped to analyze the sequencing results obtained</td>
<td><a href="http://www.genecodes.com/">www.genecodes.com</a></td>
<td><a href="http://www.genecodes.com/">www.genecodes.com</a></td>
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<td>OligoAnalyzer 3.1</td>
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<td>Properties such as T<sub>m</sub>, dimerization and secondary structures of designed primers were identified </td>
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<td><a href="http://eu.idtdna.com/analyzer/applications/oligoanalyzer/Default.aspx">http://eu.idtdna.com</a></td>
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[[Category:BIOTEC_Dresden/Ressource|Software]]
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[[Category:BIOTEC_Dresden/Resource|Software]]
{{Biotec_Dresden/Bottom}}
{{Biotec_Dresden/Bottom}}

Latest revision as of 00:53, 28 October 2010

Name Description Link
ApE ApE was used as DNA construction software to create plasmid maps, fusion constructs and to view restriction sites of commonly used endonucleases biologylabs.utah.edu/jorgensen/wayned/ape
NCBI Blast The online software tool blast was used both to check nucleotide and protein sequences towards their homology to the original genomic sequence blast.ncbi.nlm.nih.gov
Cell Designer Cell Designer represents a tool for molecular modeling allowing to construct molecular circuits www.celldesigner.org
PartsRegistry Sequence Analysis/BLAST The registry blast was useful to identify nucleotide sequences already submitted to the registry partsregistry.org/cgi/sequencing
PlasmaDNA PlasmaDNA was used as a specific tool for the simulation of restriction digests as well as PCR reactions research.med.helsinki.fi/plasmadna
Sequencher Sequencer helped to analyze the sequencing results obtained www.genecodes.com
OligoAnalyzer 3.1 Properties such as Tm, dimerization and secondary structures of designed primers were identified http://eu.idtdna.com
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