Methylation-specific PCR (MSP) is still the method of choice for a single gene methylation study. The proper design of the primer pairs is a prerequisite for obtaining reliable PCR results. Despite numerous protocols describing the rules for MSP primer design, none of them provide a comprehensive...
PCR primers can be designed with pen and paper, but—especially with the added concerns of MSP—“it just becomes inherently easier to do that with software,” says Herman, whose lab developed an application, MSPprimer, specifically to design primers for MSP [2]. MSPprimer incorporates all ...
Methylation-specific PCR (MS-PCR or MSP) is one of the most commonly used methods for gene/sequence-specific detection of DNA methylation. The DNA undergoes bisulfite conversion of cytosine to uracil and then the methylated sequences are selectively amplified with primers specific for methylation. ...
Step 2: Primer Design PCR primer design for MS-HRM is critical—the free online tool from Applied Biosystems, Methyl Primer Express Software v1.0, was developed specifically for primer design in methylation studies (www.appl...
Results:MethPrimer,basedonPrimer3,isaprogram fordesigningPCRprimersformethylationmapping.It firsttakesaDNAsequenceasitsinputandsearches thesequenceforpotentialCpGislands.Primersare thenpickedaroundthepredictedCpGislandsoraround regionsspecifiedbyusers.MethPrimercandesignprimers ...
Existing primer design programs developed for standard PCR cannot handle primer design for bisulfite-conversion-based PCRs due to changes in DNA sequence context caused by bisulfite treatment and many special constraints both on the primers and the region to be amplified for such experiments. ...
Methylation-specific polymerase chain reaction (PCR) (MSP) is frequently used to study gene silencing by promoter hypermethylation. However, non-specific primer design can lead to false-positive detection of methylation. We present a novel, web-based algorithm for the design of primers for bisulfite...
However, high-throughput design of primers for BT-DNA amplification is hampered by limits in throughput and functionality of existing tools, requiring users to repeatedly perform specific tasks manually. Consequently, the design of PCR primers for BT-DNA remains a tedious and time-consuming process...
High-yield, converted DNA is ideal for PCR, Methylation Specific PCR (MSP), arrays, library preps, Next-Generation sequencing, etc. DESCRIPTION The EZ-96 DNA Methylation-Lightning MagPrep Kit is the fastest magnetic bead-based DNA bisulfite conversion kit for high-throughput and automated methylati...
Methylation-Specific PCR Protocol pp 305–323 Cite this protocol DNA Methylation Part of the book series:Methods in Molecular Biology((MIMB,volume 507)) 7106Accesses Abstract Methylation-specific polymerase chain reaction (MSP) is a technique that has facilitated the detection of promoter ...