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US 2007/0178506 A1Published application
Methods and compositions for determining methylation profiles
AssigneeCold Spring Harbor Laboratory and Washington University
InventorsRobert Martienssen, Eric Richards, Zachary Lippmann, Vincent Colot
Life of this patent
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Abstract
Methods and compositions for determining the methylation profile of individuals and using the profiles to identify clones with desired traits.
Claims20
A method for determining a methylation profile of a cell, tissue or organism, the method comprising the steps of:
- a. providing a uniform population of randomly cleaved or sheared DNA from the cell or organism, wherein the DNA comprises a first portion and a second portion and each portion comprises methylated and unmethylated nucleotides;
- b. separating the second portion into a methylated DNA sub-portion and a methylated DNA sub-portion;
- c. quantifying the relative amount of at least one specific sequence in at least two DNA samples selected from the group consisting of the first portion, the methylated DNA sub-portion, and the unmethylated DNA sub-portion,
- thereby determining the methylation profile of several such nucleic acid sequences from a cell, tissue or organism.
1 more element
A polynucleotide microarray hybridizing to first and a second labeled DNA portions, wherein the portions are from uniform populations of randomly cleaved or sheared DNA from a cell or organism;
- wherein the first DNA portion comprises unmethylated and methylated DNA labeled with a first label;
- and
- wherein the second DNA portion is depleted for either unmethylated DNA or methylated DNA and the second portion of DNA is labeled with a second label different from the first label.
A method of associating heterosis with methylation profiles, the method comprising,
- crossing individuals to produce progeny;
- determining the methylation profile of the individuals and the progeny;
- and
- comparing a trait of the progeny with the methylation profiles of the individuals, thereby associating appearance of the trait with a methylation profile.
1 more element
Dependencies are inferred from the claim text.