Devices and methods for targeted polynucleotide applications
AssigneeDimension Genomics Inc
InventorsMichael David Austin, William K. Ridgeway
Life of this patent
Estimating the term…
Abstract
Disclose herein are methods and devices for interrogating a region of interest within an immobilized nucleic acid molecule with a contact probe, where said region of interest is determined at least in part through an analysis of said molecule's physical map generated by optical interrogation.
Claims137
A method of characterizing a region of interest of a nucleic acid molecule, comprising
- i) attaching the nucleic acid molecule to a surface of at least one point on the nucleic acid
- ii) determining a physical map of at least a portion of the nucleic acid molecule
- iii) comparing the physical map of at least a portion of the nucleic acid molecule to a Reference to identify a segment of the physical map that has a co-relationship to the at least a segment of the Reference
- iv) correlating the segment of the physical map of at least a portion of the nucleic acid molecule that differs from the correlating Reference to a region of interest on the nucleic acid molecule;
- v) subjecting the region of interest on the nucleic acid molecule to a second physical characterization.
A method of analyzing a nucleic acid, comprising generating a physical map of the nucleic acid in no more than 1 second, comparing the physical map to a reference, and generating a second physical map of a portion of the nucleic acid.
A system for analyzing a nucleic acid comprising an open surface to which the nucleic acid is attached, a lens for capturing an optical signal indicative of a physical map of the nucleic acid, and an contact probe for determining a characteristic of a subregion of the nucleic acid.
A method of analyzing a nucleic acid, comprising
- a. attaching the nucleic acid to a surface;
- b. determining a physical map for at least a portion of the nucleic acid;
- c. using the physical map to identify a region of interest in the nucleic acid molecule;
- and
- d. subjecting the region of interest on the nucleic acid molecule to a second physical characterization.
A method of analyzing a population of nucleic acids, comprising generating distinct physical maps of members of the population of nucleic acids, and directing a contact probe to a region within at least one physical map, wherein at least one physical map is generated per molecule within the population per second.
A method of characterizing a region of interest of a nucleic acid molecule, comprising
- a. attaching the nucleic acid molecule to a surface of at least one point on the nucleic acid
- b. determining a physical map of at least a portion of the nucleic acid molecule
- c. identifying at least one landmark by comparing the physical map of at least a portion of the nucleic acid molecule to a reference
- d. calculating the spatial extent of a region of interest relative to the landmark
- e. subjecting the region of interest on the nucleic acid molecule to a second physical characterization.
Dependencies are inferred from the claim text.