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Analysis of methylation using nucleic acid arrays

  • US 20060292585A1
  • Filed: 08/26/2005
  • Published: 12/28/2006
  • Est. Priority Date: 06/24/2005
  • Status: Abandoned Application
First Claim
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1. A method for determining the methylation status of a plurality of cytosines in a sample comprising genomic DNA, said method comprising:

  • (a) fragmenting the sample with a first restriction enzyme that is insensitive to the methylation status of cytosines and a second restriction enzyme that is sensitive to the methylation status of cytosines to generate a first collection of fragments;

    (b) adding a ligase to the first collection of fragments so that the ends of fragments are ligated together to form circular fragments, thereby generating a second collection of fragments;

    (c) digesting linear fragments in the second collection of fragments;

    (d) amplifying circular fragments in the second collection of fragments to generate a third collection of fragments;

    (e) hybridizing the third collection of fragments to an array to obtain a hybridization pattern; and

    (f) determining the methylation status of selected cytosines by analyzing the hybridization pattern.

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