SIMULTANEOUS SINGLE-MOLECULE EPIGENETIC IMAGING OF DNA METHYLATION AND HYDROXYMETHYLATION
First Claim
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1. A method for analyzing genomic DNA, comprising:
- (a) labeling a sample comprising the genomic DNA by;
(i) adding a capture tag to the ends of the DNA molecules in the sample; and
(ii) labeling molecules that comprise hydroxymethylcytosine with a first fluorophore;
(b) immobilizing the DNA molecules labeled made in step (a) on a support; and
(c) imaging individual molecules of hydroxymethylated DNA on the support.
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Abstract
Provided herein is a method for analyzing genomic DNA. In some embodiments, the method may comprise labeling a genomic sample by adding a capture tag to the ends of the DNA molecules in the sample and labeling molecules that comprise hydroxymethylcytosine with a first fluorophore, immobilizing the labeled DNA molecules on a support, and imaging individual molecules of hydroxymethylated genomic DNA on the support.
16 Citations
25 Claims
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1. A method for analyzing genomic DNA, comprising:
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(a) labeling a sample comprising the genomic DNA by; (i) adding a capture tag to the ends of the DNA molecules in the sample; and (ii) labeling molecules that comprise hydroxymethylcytosine with a first fluorophore; (b) immobilizing the DNA molecules labeled made in step (a) on a support; and (c) imaging individual molecules of hydroxymethylated DNA on the support. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18)
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19. A method for labeling cell-free DNA (cfDNA), comprising:
attaching labels to DNA molecules that comprise one or more hydroxymethylcytosine and methylcytosine nucleotides in a cfDNA sample, wherein the hydroxymethylcytosine nucleotides are labeled with a first label and the methylcytosine nucleotides are labeled with a second label that is different to the first label, to produce a labeled sample. - View Dependent Claims (20, 21, 22)
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23. A method for analyzing genomic DNA molecules, comprising:
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(a) labeling a sample comprising the genomic DNA by; (i) adding a capture tag to the ends of the DNA molecules; and (ii) attaching labels to DNA molecules that comprise one or more hydroxymethylcytosine and methylcytosine nucleotides, wherein the hydroxymethylcytosine nucleotides are labeled with a first fluorophore and the methylcytosine nucleotides are labeled with a second fluorophore, wherein the first and second fluorophores are capable of generating a FRET signal, to produce labeled genomic DNA; and (b) detecting a FRET signal from an individual molecule of the labeled genomic DNA, wherein the FRET signal is indicative of the proximity between one or more of the hydroxymethylcytosine and methylcytosine nucleotides in the genomic DNA. - View Dependent Claims (24, 25)
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Specification