Patent ID: 7833714

Claim:
A method for detecting and quantitating relative ratios of different nucleic acid sequence variants comprising: selecting a first set of nucleic acids comprising a first target nucleic acid sequence from a sample comprising a mixture of nucleic acid sequences with a first nucleic acid affinity matrix comprising nucleic acid probes bound to at least one bead, said probes synthesized by combinatorial synthesis, wherein the first nucleic acid affinity matrix hybridizes, under stringent conditions comprising a salt concentration of 1 M and a temperature of at least 25° C., with the first set of nucleic acids; selecting a second set of nucleic acids comprising a second target nucleic acid sequence from the sample with a second nucleic acid affinity matrix comprising nucleic acid probes bound to at least one bead, said probes synthesized by combinatorial synthesis, wherein the second nucleic acid affinity matrix hybridizes, under stringent conditions comprising a salt concentration of 1 M and a temperature of at least 25° C., with the second set of nucleic acids; binding the sample with the affinity matrices; washing the affinity matrices; eluting the selected nucleic acids that are bound to the affinity matrices; labeling the first set of selected nucleic acids with a first label; labeling the second set of selected nucleic acids with a second label, wherein the second label is not the same as the first label; hybridizing the first set of selected nucleic acids and the second set of selected nucleic acids to an array comprising probes which hybridize to the first and the second set of selected nucleic acids; and detecting the first and second labels bound to the array, thereby quantitating the relative amounts of the first and second sets of selected nucleic acids.