Methyl Primer Express Software
15.10.2019by admin
I use Methyl Primer Express 1.0 to make an approximation and then manually change it for my convenience. I am not sure if you need to downloaded it or they e-mail you the software, but is free for.
Dear All, First I would like to thank all of those participating with their great posts and discussions in this wonderful forum. I would like to check whether I'm getting the right results or not! As I'm not an expert in this field (It's really urgent). Deluxe v610 drivers.
Methyl Primer Express Software V1.0 Download
My project is about checking the methylation status of candidate genes with a defined CpG island in Human cancer cell line and gDNA from matched tissue samples. I found 5 candidates but no one have a previously reported MSP primers so I used Methyl Primer Express v1.0 (from ABI) to make the primers. That is what I have done:- 1- I got promoter sequences from promoter database at: (I found promoter seq of only 1st four genes) 2- I BLASTn the promoter seq. To find whether it will match the candidate genes or not. (The result was OK!) 3- I insert the promoter seq.
In Methyl Primer Express v1.0 and followed the software default (the default criteria is attached to the post). 4- I had the MSP primers for my genes (Attched)& for the last genes I also got the MSP primers (Attached) after using a method similar to that of pcrman (Also I want to know if those primers are still OK if they don't have one of the following (found them in literature):- A- 20-30 bp in length B- GC content similar to that of the template.
Methyl Primer Express Software V1 0
C- Avoid streches of polypurines/polypyrimidines. D- Distance between primers should not be more than 3kb. E- Best to have mismaches at the 5' of the primers.
F- M primers must contain Cs in the CpG context at 3'. G- U primers must have Ts located after Gs in 5' and 3'. H- No complementarity at 3' of the F & R primers. Finally, please accept my apology for such a long post. Thanks in advance for your kind help, Regards, methylationman.
Welcome to MethPrimer! MethPrimer is a program for designing bisulfite-conversion-based Methylation PCR Primers. Currently, it can design primers for two types of bisulfite PCR: 1) Methylation-Specific PCR (MSP) and 2) Bisulfite-Sequencing PCR (BSP) or Bisulfite-Restriction PCR.
MethPrimer can also predict CpG islands in DNA sequences Input Sequence: A DNA sequences in any format. No editing is required before input. Output: MethPrimer returns results in both text and graphic view including results of primer picking and CpG island prediction.