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Removing Oligonucleotides


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#1 DaveC

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Posted 25 November 2004 - 06:53 AM

Hello,

I need to remove a high concentration of small single and double stranded oligos (20-40bp) from a preparation of chromatin.
The chromatin pieces are 5-50 Kb in length, and fixed in formaldehyde.

Is it possible to use rate zonal or ispycnic centrifugation to efficiently separate the oligos from the chromatin?

I don't know much about this kind of centrifugation, so any advice/protocols would be really appreciated.

Thanks! :D
Dave

#2 mikew

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Posted 06 December 2004 - 09:44 PM

You can purchase columns from Biorad etc. or prepare your own resin available from biorad or other companies that exclude small pieces of DNA.

#3 netnus

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Posted 07 December 2004 - 08:03 AM

I always use Microcon Millipore centrifuge tubes. They always work well for me. In your case,you can choose the cutoff length <1Kbp.




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