METHODS OF SEQUENCING NUCLEIC ACIDS
First Claim
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1. A method of sequencing nucleic acid, comprising:
- a) preparing single stranded fragments of a first nucleic acid having a substantially known sequence, wherein each of the fragments has a substantially known sequence;
b) preparing single stranded fragments of a second nucleic acid having an unknown sequence;
c) contacting the single stranded fragments of a) or amplification products (copies) thereof, and the single stranded fragments of b) or copies thereof under conditions that allow formation of heterohybrid nucleic acid, wherein the heterohybrid nucleic acid comprises perfectly complementary heterohybrid nucleic acid and heterohybrid nucleic acid containing a mismatch;
d) distinguishing formation of heterohybrid nucleic acid containing a mismatch from formation of heterohybrid nucleic acid which is perfectly complementary; and
e) determining sequences of the mismatches in d), thus allowing elucidation of the sequence of the second nucleic acid.
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Abstract
Disclosed are high-throughput methods for sequencing nucleic acid, which entail identifying the complete set of SNPs in a genome of interest in comparison to a wild type or reference DNA whose sequence is known or substantially known. The methods may also entail use of solid supports containing colonies of amplified nucleic acid fragments e.g., prepared by digesting genomic nucleic acid having substantially known sequence, wherein the sequence of the fragments at each coordinate is known. The supports, per se, and apparati containing them, are also provided.
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23 Claims
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1. A method of sequencing nucleic acid, comprising:
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a) preparing single stranded fragments of a first nucleic acid having a substantially known sequence, wherein each of the fragments has a substantially known sequence; b) preparing single stranded fragments of a second nucleic acid having an unknown sequence; c) contacting the single stranded fragments of a) or amplification products (copies) thereof, and the single stranded fragments of b) or copies thereof under conditions that allow formation of heterohybrid nucleic acid, wherein the heterohybrid nucleic acid comprises perfectly complementary heterohybrid nucleic acid and heterohybrid nucleic acid containing a mismatch; d) distinguishing formation of heterohybrid nucleic acid containing a mismatch from formation of heterohybrid nucleic acid which is perfectly complementary; and e) determining sequences of the mismatches in d), thus allowing elucidation of the sequence of the second nucleic acid. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20)
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- 21. A solid support comprising a plurality of coordinates, wherein each coordinate comprises a cluster of amplified single stranded fragments of a nucleic acid attached to the support at the coordinate, wherein at least a portion of the sequence of the fragments is known.
Specification