2 replies to this topic

[methdetector]

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

[cellcounter]

methdetector, 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.

[methdetector]

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

cellcounter, on Jul 9 2009, 09:53 AM, said:

methdetector, 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.