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Methylation status analysis of non CpG sites.


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6 replies to this topic

#1 Bedanta Ballav Mohanty

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Posted 26 March 2014 - 07:51 PM

Hi.

I want to know how we can check the non CpG methylation status of a gene. Can MSP be used for this purpose?



#2 phage434

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Posted 05 April 2014 - 12:00 PM

Yes. It will pick up any methylated cytosine.



#3 pcrman

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Posted 08 April 2014 - 09:32 AM

it is tricky to use MSP to check non-cpg C methylation since there is not many place you can put your primers in without including a non-cpg C. 



#4 phage434

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Posted 08 April 2014 - 09:45 AM

You can use primers that are degenerate (have a Y instead of a C or T, and an R instead of a G or A).



#5 Robert

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Posted 13 May 2014 - 05:34 AM

Hi

If a software for designing MSP or BSP primers shows: "lack of CpG islands in the promoter" of studied gene, how can be determined methylation of such gene ?



#6 Lj Lee

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Posted 13 August 2014 - 05:44 PM

Hi

If a software for designing MSP or BSP primers shows: "lack of CpG islands in the promoter" of studied gene, how can be determined methylation of such gene ?

Hi Robert, 

 

I encountered the same problem as you and I'm stuck at this stage. Have you found any solution regarding to this? Or is it I'm putting the wrong sequence for promoter of my target gene? Thanks 



#7 phage434

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Posted 13 August 2014 - 07:16 PM

You need to understand what the software is doing, and not blindly rely on software that you don't understand.






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