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enriching for DNA palindromes

enriching for DNA palindromes - BioPhysics Forum

enriching for DNA palindromes - Ask Questions and Discuss BioPhysics. Talk about BioPhysics Protocols and Techniques. BioPhysics Forum


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Old 08-26-2008, 09:36 PM
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Question enriching for DNA palindromes



Does anyone have any idea how to go about enriching for DNA palindrome structures from genomic DNA?

The way I have been doing it is:
- cut up whole genome with restriction enzymes
- denaturing with boiling and high salt
- allowing the arms to "snap-back" on each other with rapid cooling
- digesting away single stranded DNA with S1 nuclease

but I'm still not getting the enrichment I want, or maybe too much single stranded DNA contamination.

Any ideas are greatly appreciated, thank you!!
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dna , enriching , palindromes


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