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DNA methylation prediction in plant DNA


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#1 methdetector

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Posted 21 June 2009 - 06:48 AM

Hi, I am working on detection of DNA methylation in a particular gene of a tree species. In addition to CpG methylation, plants are known to have CpNpG and CpNpN types of methylation where N could be any nucleotide except guanine. I was wondering if there are any online tools that could help me predict methylation sites based on which I can design primers and carry out bisulfite sequencing. I am new to this field and any suggestion would be very helpful.

Thanks

#2 cellcounter

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Posted 09 July 2009 - 08:53 AM

View Postmethdetector, on Jun 21 2009, 07:48 AM, said:

Hi, I am working on detection of DNA methylation in a particular gene of a tree species. In addition to CpG methylation, plants are known to have CpNpG and CpNpN types of methylation where N could be any nucleotide except guanine. I was wondering if there are any online tools that could help me predict methylation sites based on which I can design primers and carry out bisulfite sequencing. I am new to this field and any suggestion would be very helpful.

Thanks

Check out some tools, and see if you find something useful.

#3 methdetector

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Posted 14 July 2009 - 08:18 AM

Thanks... :(
I found a tool called Kismeth meant for designing primers and in bisulfite analysis of plant DNA..i am yet to try it
hope it works



View Postcellcounter, on Jul 9 2009, 09:53 AM, said:

View Postmethdetector, on Jun 21 2009, 07:48 AM, said:

Hi, I am working on detection of DNA methylation in a particular gene of a tree species. In addition to CpG methylation, plants are known to have CpNpG and CpNpN types of methylation where N could be any nucleotide except guanine. I was wondering if there are any online tools that could help me predict methylation sites based on which I can design primers and carry out bisulfite sequencing. I am new to this field and any suggestion would be very helpful.

Thanks

Check out some tools, and see if you find something useful.






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