Parallel methods for genomic analysis
First Claim
Patent Images
1. A parallel method for polynucleotide sequencing, comprising:
- a) preparing a library comprising a collection of two or more sample-tagged polynucleotide clones;
b) carrying out a nucleic acid sequencing reaction on the library wherein a first sequencing primer binding site or no sequencing primer binding site is used to generate a plurality of tagged reaction products from the sample-tagged clones in the collection;
c) separating the reaction products according to size;
d) collecting fractions of the separated reaction products;
e) amplifying the products collected in step (d) to generate tagged amplicons;
f) hybridizing the tagged amplicons to an array comprising tag complements; and
g) determining a plurality of polynucleotide sequences of the sample-tagged clones by detecting the hybridizations to deconvolute a plurality of sequence ladders for the sample-tagged clones in the collection.
0 Assignments
0 Petitions
Accused Products
Abstract
The present invention provides parallel methods for determining nucleotide sequences and physical maps of polynucleotides associated with sample tags. This information can be used to determine the chromosomal locations of sample-tagged polynucleotides. In one embodiment, the polynucleotides are derived from genomic DNA coupled to insertion elements. As a result, the invention also provides parallel methods for locating the integration sites of insertion elements in the genome.
162 Citations
30 Claims
-
1. A parallel method for polynucleotide sequencing, comprising:
-
a) preparing a library comprising a collection of two or more sample-tagged polynucleotide clones;
b) carrying out a nucleic acid sequencing reaction on the library wherein a first sequencing primer binding site or no sequencing primer binding site is used to generate a plurality of tagged reaction products from the sample-tagged clones in the collection;
c) separating the reaction products according to size;
d) collecting fractions of the separated reaction products;
e) amplifying the products collected in step (d) to generate tagged amplicons;
f) hybridizing the tagged amplicons to an array comprising tag complements; and
g) determining a plurality of polynucleotide sequences of the sample-tagged clones by detecting the hybridizations to deconvolute a plurality of sequence ladders for the sample-tagged clones in the collection. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27)
-
-
28. A parallel method for polynucleotide sequencing, comprising:
-
a) preparing a library comprising sample-tagged polynucleotide clones;
b) carrying out a nucleic acid sequencing reaction on the library to generate a plurality of tagged reaction products;
c) separating the reaction products according to size;
d) collecting fractions of the separated reaction products;
e) hybridizing the products collected in step (d) to an array comprising tag complements;
f) amplifying the hybridized reaction products in situ; and
g) determining a plurality of polynucleotide sequences of the sample-tagged clones by detecting the amplified reaction products to deconvolute a plurality of sequence ladders for the sample-tagged clones. - View Dependent Claims (29, 30)
-
Specification