Patent ID: 6838243

Claim:
A method for assaying for an amplification product from a first target polynucleotide, comprising: providing a sample that is suspected of containing the amplification product, wherein the amplification product is a polynucleotide comprising a first label and a capture sequence not present in the target polynucleotide at the same position, wherein the first label is a semiconductor nanocrystal, wherein the amplification product is formed by primer extension from a template and is produced by a process comprising incorporating the polynucleotide comprising the first label into the amplification product using a polymerase, wherein said template comprises a complement to the target polynucleotide and a target noncomplementary region, wherein said capture sequence is a complement to said target noncomplementary region; providing a substrate that is conjugated to a first capture probe; contacting the sample with the capture probe under a first set of hybridization conditions; wherein the capture probe is a polynucleotide that can bind to the capture sequence under said first set of hybridization conditions; and determining if the first label is associated with the substrate.