Back to results
US 6,620,584 B1Granted
Combinatorial decoding of random nucleic acid arrays
AssigneeIllumina, Inc.
InventorsMark Chee, David R. Walt
Life of this patent
Estimating the term…
Abstract
The invention provides methods and compositions for combinatorially decoding arrays.
Claims14
A method of decoding an array composition comprising
- a) providing an array composition comprising:
- i) a substrate with a surface comprising discrete sites;
- and
- ii) a population of microspheres comprising at least a first and a second subpopulation distributed among said discrete sites, wherein each subpopulation comprises an identifier nucleic acid sequence comprising:
- 1) a primer sequence;
- and
- 2) a decoding sequence adjacent to said primer sequence;
- wherein said microspheres are distributed on said surface;
- and
- b) adding to said array composition a first set of combinatorial decoding probes each comprising:
- i) a priming sequence complementary to said primer sequence;
- ii) at least one decoding nucleotide that will basepair with at least one nucleotide of at least one of said decoding sequences;
- and
- iii) a label unique to said decoding nucleotide;
- and
- c) detecting the presence of said label;
- and
- d) removing said decoding probes and repeating steps b) and c), wherein at least one of said decoding nucleotides will basepair with a different nucleotide of said decoding sequence.
15 more elements
A method of decoding an array composition comprising
- a) providing an array composition comprising:
- i) a substrate with a surface comprising discrete sites;
- and
- ii) a population of microspheres comprising at least a first and a second subpopulation distributed among said discrete sites, wherein each subpopulation comprises an identifier nucleic acid sequence comprising:
- 1) a primer sequence;
- and
- 2) a decoding sequence adjacent to said primer sequence;
- wherein said microspheres are distributed on said surface;
- and
- b) adding to said array composition a first set of combinatorial decoding probes, wherein at least one of said decoding probes comprises at least one universal base;
- said set of combinatorial decoding probes comprises:
- i) a priming sequence complementary to said primer sequence;
- ii) at least one decoding nucleotide that will basepair with at least one nucleotide of at least one of said decoding sequences;
- and
- iii) a label unique to said decoding nucleotide;
- and
- c) detecting the presence of said label.
14 more elements
A method of decoding an array composition comprising
- a) providing an array composition comprising:
- i) a substrate with a surface comprising discrete sites;
- and
- ii) a population of microspheres comprising at least a first and a second subpopulation distributed among said discrete sites, wherein each subpopulation comprises an identifier nucleic acid sequence comprising:
- 1) a primer sequence;
- and
- 2) a decoding sequence adjacent to said primer sequence;
- wherein said microspheres are distributed on said surface;
- and
- b) adding to said array composition a first set of combinatorial decoding probes, wherein a plurality of said decoding probes comprises at least one universal base;
- said first set of combinatorial decoding probes comprises:
- i) a priming sequence complementary to said primer sequence;
- ii) at least one decoding nucleotide that will basepair with at least one nucleotide of at least one of said decoding sequences;
- and
- iii) a label unique to said decoding nucleotide;
- and
- c) detecting the presence of said label.
14 more elements
A method of decoding an array composition comprising
- a) providing an array composition comprising:
- i) a substrate with a surface comprising discrete sites;
- and
- ii) a population of microspheres comprising at least a first and a second subpopulation distributed among said discrete sites, wherein each subpopulation comprises an identifier nucleic acid sequence comprising:
- 1) a primer sequence;
- and
- 2) a decoding sequence adjacent to said primer sequence;
- wherein said microspheres are distributed on said surface;
- and
- b) adding to said array composition a first set of combinatorial decoding probes, wherein a plurality of said decoding probes comprises a plurality of universal base;
- said first set of combinatorial decoding probes comprises:
- i) a priming sequence complementary to said primer sequence;
- ii) at least one decoding nucleotide that will basepair with at least one nucleotide of at least one of said decoding sequences;
- and
- iii) a label unique to said decoding nucleotide;
- and
- c) detecting the presence of said label.
14 more elements
A kit comprising:
- a) a substrate comprising a surface with discrete sites;
- b) a population of microspheres comprising at least a first and a second subpopulation, wherein each subpopulation comprises an identifier nucleic acid sequence comprising:
- 1) a primer sequence;
- and
- 2) a decoding sequence adjacent to said primer sequence;
- and
- c) a decoder probe composition comprising a plurality of probes, wherein said plurality of probes comprise at least one universal base;
- said decoding probes comprising:
- 1) a priming sequence, wherein said priming sequence is complementary to said primer sequence of said identifier nucleic acid;
- and
- 2) at least one decoding nucleic acid, wherein said at least one decoding nucleic acid comprises a detection nucleic acid that is complementary to a nucleotide in said identifier probe, wherein said detection nucleic acid comprises a label.
8 more elements
Dependencies are inferred from the claim text.