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Excel tools to calculate Tm for DNA-DNA and RNA-DNA duplexes

Excel tools to calculate Tm for DNA-DNA and RNA-DNA duplexes - PCR - Polymerase Chain Reaction Forum

Excel tools to calculate Tm for DNA-DNA and RNA-DNA duplexes - PCR - Polymerase Chain Reaction Forum. Discuss and ask questions about PCR troubleshooting, PCR protocols and methods, PCR products, and PCR theory.


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Old 10-08-2007, 11:53 PM
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Default Excel tools to calculate Tm for DNA-DNA and RNA-DNA duplexes



h t t p://mihd.net/u8ihob is a link to RAR archive with several Excel tools to calculate thermodynamic parameters (dG, dH, dS, Tm) for DNA-DNA and RNA-DNA duplexes. The archive dna.rar (3.1 Mb) contains the following files: Thermodynamics_of_DNA-DNA_duplexes.xls, Thermodynamics_of_RNA-DNA_duplexes.xls, Melting_Temperature.xls, DNA_complexity_analysis_5mer.xls, DNA_complexity_analysis_7mer.xls, DNA_complexity_analysis_9mer.xls, DNA_complexity_analysis_11mer.xls. The first two files can be used to predict dG, dH, dS, and Tm of DNA-DNA or RNA-DNA duplexes according to nearest neighbor model. The third chart may be useful for quick assessment of Tm for DNA-DNA, DNA-RNA, and RNA-RNA duplexes in the presence of formamide. The last four files can be used to scan plasmid DNA sequence (size limit is 8001 bp) to estimate frequencies of 5-mer, 7-mer, 9-mer, or 11-mer repeats. I have found them useful to chose unique primers to amplify low-complexity targets. All charts are self-explanatory.
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Old 10-09-2007, 12:30 PM
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Default Re: Excel tools to calculate Tm for DNA-DNA and RNA-DNA duplexes

Hello Werewolf.
thanks for the share. How can some people be sure that the files do not contain spyware?

Why not send them as an email or post them here (upload) so we can share them?

If there is another way to post them that would be great.
cheers
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