Combinatorial oligonucleotide PCR: a method for rapid, global expression analysis
First Claim
1. A method of subjecting a DNA molecule to a DNA synthesis reaction, comprising the steps of:
- a) preparing a DNA molecule by attaching a first linker sequence at one end of the DNA molecule and attaching a second linker sequence, different from said first linker sequence, at the other end of the DNA molecule; and
b) subjecting said DNA to a DNA synthesis reaction with a primer set comprising;
i) a first primer set population, wherein the 5′
sequence of primers of said first primer set population is complementary to said first linker sequence and the 3′
sequence of primers of said first primer set population comprises a specificity region; and
ii) a second primer set population, wherein the 5′
sequence of primers of said second primer primer set population is complementary to said second linker sequence and the 3′
sequence of primers of said second primer set population comprises a specificity region;
wherein said specificity regions of said first and second primer set populations comprise random combinations of A, T, G and C.
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Abstract
The present invention relates to a method for the detection of gene expression and analysis of both known and unknown genes. The invention is a highly sensitive, rapid and cost-effective means of monitoring gene expression, as well as for the analysis and quantitation of changes in gene expression for a defined set of genes and in response to a wide variety of events.” It is an important feature of the present invention that no single molecular species of cDNA gives rise to more than one fragment in the collection of products which are subsequently amplified and representative of each expressed gene. This achievement is facilitated by immobilizing the cDNA prior to digesting and then digesting with sequentially with two frequently cutting enzymes. Linker oligomers are ligated to each cut site following the respective digestion. Primers, complementary to the oligomer sequence with an additional 3′ variable sequence are used to amplify the fragments. Using an array of fragments theoretically facilitates the amplification of all of the possible messages in a given sample.
44 Citations
51 Claims
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1. A method of subjecting a DNA molecule to a DNA synthesis reaction, comprising the steps of:
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a) preparing a DNA molecule by attaching a first linker sequence at one end of the DNA molecule and attaching a second linker sequence, different from said first linker sequence, at the other end of the DNA molecule; and b) subjecting said DNA to a DNA synthesis reaction with a primer set comprising; i) a first primer set population, wherein the 5′
sequence of primers of said first primer set population is complementary to said first linker sequence and the 3′
sequence of primers of said first primer set population comprises a specificity region; andii) a second primer set population, wherein the 5′
sequence of primers of said second primer primer set population is complementary to said second linker sequence and the 3′
sequence of primers of said second primer set population comprises a specificity region;wherein said specificity regions of said first and second primer set populations comprise random combinations of A, T, G and C. - 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, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51)
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Specification