Capture reactions
First Claim
Patent Images
1. A method of performing a molecular inversion probe capture reaction, the method comprising:
- denaturing a nucleic acid;
fragmenting the nucleic acid into nucleic acid fragments in order to expose a target site for a molecular inversion probe that was not exposed prior to fragmenting, wherein the fragmenting step occurs during the denaturing step, and wherein the nucleic acid is fragmented and denatured by heating the nucleic acid in a buffer system to shift a pH of the buffer system;
introducing a plurality of molecular inversion probes under conditions such that the molecular inversion probe hybridizes to the target site on the nucleic acid fragment, and wherein each of the plurality of molecular inversion probes is configured to capture a different subregion of the target site, and wherein each subregion is different and overlaps with at least one other subregion on the same strand;
circularizing the hybridized molecular inversion probe to form a circularized probe/target nucleic acid molecule;
isolating the circularized probe/target nucleic acid molecule;
linearizing the circularized probe/target nucleic acid molecule, thereby forming a linearized probe/target nucleic acid molecule;
conducting an amplification reaction with the linearized probe/target nucleic acid molecule to generate an amplification product, wherein the amplification reaction introduces a barcode sequence to the amplification product; and
sequencing the amplification product.
7 Assignments
0 Petitions
Accused Products
Abstract
The invention generally relates to methods of performing a capture reaction. In certain embodiments, the method involves obtaining a nucleic acid, fragmenting the nucleic acid, and capturing a target sequence on the nucleic acid fragment using a capture moiety, such as a molecular inversion probe.
200 Citations
6 Claims
-
1. A method of performing a molecular inversion probe capture reaction, the method comprising:
-
denaturing a nucleic acid; fragmenting the nucleic acid into nucleic acid fragments in order to expose a target site for a molecular inversion probe that was not exposed prior to fragmenting, wherein the fragmenting step occurs during the denaturing step, and wherein the nucleic acid is fragmented and denatured by heating the nucleic acid in a buffer system to shift a pH of the buffer system; introducing a plurality of molecular inversion probes under conditions such that the molecular inversion probe hybridizes to the target site on the nucleic acid fragment, and wherein each of the plurality of molecular inversion probes is configured to capture a different subregion of the target site, and wherein each subregion is different and overlaps with at least one other subregion on the same strand; circularizing the hybridized molecular inversion probe to form a circularized probe/target nucleic acid molecule; isolating the circularized probe/target nucleic acid molecule; linearizing the circularized probe/target nucleic acid molecule, thereby forming a linearized probe/target nucleic acid molecule; conducting an amplification reaction with the linearized probe/target nucleic acid molecule to generate an amplification product, wherein the amplification reaction introduces a barcode sequence to the amplification product; and sequencing the amplification product. - View Dependent Claims (2, 3, 4, 5)
-
-
6. A method of improving performance of capture reactions using molecular inversion probes having two targeting arms, the method comprising:
-
denaturing a nucleic acid; fragmenting the nucleic acid into nucleic acid fragments in order to expose a target site having one or more bases to molecular inversion probes that were not exposed prior to fragmenting, the molecular inversion probes being designed such that each molecular inversion probes is configured to capture a different subregion of the target site, and wherein each subregion is different and overlaps with at least one other subregion on the same strand, wherein the fragmenting step occurs during the denaturing step, and wherein the nucleic acid is fragmented and denatured by heating the nucleic acid in a buffer system to shift a pH of the buffer system; introducing the molecular inversion probes under conditions such that the molecular inversion probes hybridize to the target site on the nucleic acid fragment; circularizing the hybridized molecular inversion probes to form circularized probe/target nucleic acid molecules; isolating the circularized probe/target nucleic acid molecules; linearizing the circularized probe/target nucleic acid molecules, thereby forming linearized probe/target nucleic acid molecules; conducting an amplification reaction with the linearized probe/target nucleic acid molecules to generate one or more amplification products, wherein the amplification reaction introduces a barcode sequence to the amplification products; and sequencing the amplification products; and wherein at least one targeting arm of each of the more than one molecular inversion probe does not hybridize to a same sequence of the nucleic acid.
-
Specification