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EZ-96 DNA Methylation-Gold™ MagPrep

Complete, high-throughput, bisulfite conversion of GC-rich DNA in less than 3 hours.
A coupled heat denaturation/conversion reaction step streamlines the conversion of non-methylated cytosines into uracil.
High throughput (96-well), automated desulphonation and recovery of bisulfite-treated DNA.
Eluted, ultra-pure DNA is ideal for use in subsequent molecular-based analyses.

Product Size Catalog # Price Qty
EZ-96 DNA Methylation-Gold™ MagPrep 4x96 rxns D5042
$621.00
EZ-96 DNA Methylation-Gold™ MagPrep 8x96 rxns D5043
$990.00

About EZ-96 DNA Methylation-Gold™ MagPrep

The EZ-96 DNA Methylation-Gold™ MagPrep integrates DNA denaturation and bisulfite conversion processes into one-step coupled to a magnetic bead based clean-up for high-throughput methylation analysis. This is accomplished using temperature denaturation to replace chemical denaturation with sodium hydroxide in the previous protocols. Also, the kit has been streamlined for high yield recovery of DNA following DNA bisulfite conversion. Desulphonation and clean-up of the converted DNA is performed while bound to the MagBinding Beads. The kits have been designed to minimize template degradation, loss of DNA during treatment and clean-up, and to provide complete conversion of unmethylated cytosines. Recovered DNA is ideal for PCR amplification for downstream analyses including endonuclease digestion, sequencing, microarrays, etc.

Learn More About Bisulfite Conversion Click to see which kit is right for you


Equipment Magnetic Stand, Heating element for 96-well plate.
Conversion Efficiency >99% of non-methylated cytosine residues are converted to uracil; >99% protection of methylated cytosines.
Optimal DNA Input Samples containing between 500 pg to 2 µg of DNA. For optimal results, the amount of input DNA should be from 200 to 500 ng.

DNA sequencing results following bisulfite treatment. DNA with methylated C at nucleotide position #5 was processed using the EZ DNA Methylation™ Kit. The recovered DNA was amplified by PCR and then sequenced directly. The methylated cytosine at position #5 remains intact while the unmethylated cytosines at positions #7, 9, 11, 14 and 15 are completely converted into uracil following bisulfite treatment (detected as thymine following PCR).


Methylation Plot From Reduced Representation Bisulfite Sequencing (RRBS). Data shows the relative percentage of methylation at individual CpG sites in mouse DNA. Methylation percentage is shown across a ~3 Mb region of mouse chromosome 19. Bisulfite sequencing libraries were prepared using mouse genomic DNA prepped with the Genomic Clean & Concentrator™ (D4010, D4011 – Zymo Research) and bisulfite converted using EZ DNA Methylation™ technology prior to Next-Gen sequencing.

Step 1

Add 130 µl of CT Conversion Reagent to 20 µl* of a DNA sample in a Conversion Plate.  Mix the samples by pipetting up and down.

Step 2

Seal the plate with the provided film.  Transfer the Conversion Plate to a thermal cycler and perform the following steps:

1.   98 °C  for 8 minutes

2.   54 °C  for 60 minutes

3.     4 °C  storage for up to 20 hours 

Step 3

Pre-heat a plate heating element to 55 °C.

Step 4

Add 600 µl of M-Binding Buffer and 10 µl of MagBinding Beads to each well of a Collection Plate.

Step 5

Transfer the samples from the Conversion Plate into the Collection Plate containing the M-Binding Buffer and MagBinding Beads.  Mix by pipetting up and down 3-6 times and, if available, vortexing at 1,300-1,500 rpm for 30 seconds (e.g. Tecan - Te-Shake™).

Step 6

Let plate stand at room temperature for 5 minutes, then transfer plate to a magnetic stand for an additional 5 minutes or until beads pellet and supernatant is cleared.  With the plate on the magnetic stand remove the supernatant and discard.

Step 7

Remove the Collection Plate from the magnetic stand for this and each subsequent buffer addition.  Add 400 µl of M-Wash Buffer to the beads.  Re-suspend the beads by pipetting up and down or vortexing the plate at 1,300-1,500 rpm for 30 seconds.  Replace the plate on the magnetic stand for 3 minutes or until beads pellet.  Remove and discard supernatant.

Step 8

Add 200 µl of M-Desulphonation Buffer to the beads.  Re-suspend the beads by pipetting up and down or vortexing for 30 seconds.  Let plate stand at room temperature (20°C-30°C) for 15-20 minutes.  After the incubation, replace the plate on the magnetic stand for 3 minutes or until beads pellet.  Remove and discard supernatant.

Step 9

Add 400 µl of M-Wash Buffer to the beads.  Re-suspend the beads by pipetting up and down or vortexing for 30 seconds. Replace the plate on the magnetic stand for 3 minutes or until beads pellet.  Remove and discard supernatant.  Repeat this wash step.

Step 10

Transfer the plate to a heating element at 55°C for 20-30 minutes to dry the beads and remove residual M-Wash Buffer.

Step 11

Add 25 µl of M-Elution Buffer directly to the dried beads and pipette or vortex for 30 seconds to re-suspend.  Heat the elution at 55°C for 4 minutes then transfer the plate to the magnetic stand for 1 minute or until beads pellet.  Remove the supernatant and transfer to a clean Elution Plate.

The DNA is ready for immediate analysis or can be stored at or below -20°C for later use.  For long term storage, store at or below -70°C.  We recommend using 1-4 µl of eluted DNA for each PCR, however, up to 25 µl can be used if necessary.  The elution volume can be <25 µl depending on the requirements of your experiments, but small elution volumes will yield higher DNA concentrations.

For specific notes and additional information, please see the product protocol PDF.
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