Whole genome expression analysis system
First Claim
1. A method for simultaneously determining a genetic expression profile for an individual member of a species relative to an entire standard genome for the species, said method comprising:
- distributing a liquid sample into an array of reaction chambers of a substrate, said array having a primer set and a probe for each of a plurality of polynucleotide targets for the entire standard genome, said liquid sample having substantially all genetic material of said member, each of said reaction chambers having said primer set and said probe for at least one of said plurality of polynucleotide targets and a polymerase;
amplifying said liquid sample in said array;
detecting a signal emitted by at least one of said probes; and
identifying said genetic expression profile in response to said signal.
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Abstract
A method for simultaneously determining a genetic expression profile for an individual member of a species relative to an entire standard genome for the species. The method can comprise distributing a liquid sample into an array of reaction chambers of a substrate. The array can comprise a primer set and a probe for each polynucleotide target along the entire standard genome. The liquid sample can comprise substantially all genetic material of the member. Each of the reaction chambers can comprise the primer set and the probe for at least one of the polynucleotide targets and a polymerase. The method can further comprise amplifying the liquid sample in the array, detecting a signal emitted by at least one of the probes, and identifying the genetic expression profile in response to the signal.
94 Citations
55 Claims
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1. A method for simultaneously determining a genetic expression profile for an individual member of a species relative to an entire standard genome for the species, said method comprising:
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distributing a liquid sample into an array of reaction chambers of a substrate, said array having a primer set and a probe for each of a plurality of polynucleotide targets for the entire standard genome, said liquid sample having substantially all genetic material of said member, each of said reaction chambers having said primer set and said probe for at least one of said plurality of polynucleotide targets and a polymerase;
amplifying said liquid sample in said array;
detecting a signal emitted by at least one of said probes; and
identifying said genetic expression profile in response to said signal. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13)
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14. A microplate assembly for simultaneously determining a genetic expression profile for an individual member of a species relative to an entire standard genome for the species, said microplate assembly comprising:
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a substrate;
at least about 1000 reaction chambers formed in an array on said substrate, said array having a primer set and a probe for each of a plurality of polynucleotide targets within the entire standard genome, each of said reaction chambers having said primer set and said probe for at least one of said plurality of polynucleotide targets and a polymerase; and
a cover. - View Dependent Claims (15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28)
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29. A system for simultaneously determining a genetic expression profile in a liquid sample obtained from an individual member of a species relative to an entire standard genome for the species, said system comprising:
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a substrate;
at least about 1000 reaction chambers formed in an array on said substrate, said array having a primer set and a probe for each of a plurality of polynucleotide targets within the entire standard genome, each of said reaction chambers having said primer set and said probe for at least one of said plurality of polynucleotide targets and a polymerase;
a cover;
amplification reagents for performing an amplification reaction;
a filling system in fluid communication with each of said reaction chambers for filling the liquid sample and said amplification reagents into each of said reaction chambers;
a thermal cycling system in thermal communication with each of said reaction chambers for controlling a temperature during said amplification reaction;
an excitation system disposed proximate said reaction chambers to excite at least one of said probes to emit a signal; and
a detection system detecting said signal. - View Dependent Claims (30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45)
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46. A method for simultaneously determining a genetic expression profile for an individual member of a species relative to an entire standard genome for the species, said method comprising:
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distributing a liquid sample into an array of material retention regions of a substrate, said array having a primer set and a probe for each of a plurality of polynucleotide targets for the entire standard genome, said liquid sample having substantially all genetic material of said member, each of said material retention regions having said primer set and said probe for at least one of said plurality of polynucleotide targets and a polymerase;
sealing said array of material retention regions with a cover;
inverting said array of material retention regions such that said liquid sample contacts said cover;
amplifying said liquid sample in said array;
detecting a signal emitted by at least one of said probes; and
identifying said genetic expression profile in response to said signal. - View Dependent Claims (47, 48, 49, 50, 51, 52, 53, 54, 55)
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Specification