Patent ID: 9359640
Filing Date: 2016-06-07
CPC Classification: C12N,C12P,C12Q

Claim Text:
1. A method for estimating the number of occurrences of a species of target molecule in a nucleic acid sample by counting individual molecular inversion probes that are specific for that species of target molecule, the method comprising: hybridizing molecular inversion probes (MIPs) to the sample, wherein the MIPs comprise 5′ and 3′ ends; ligating the MIP ends that are hybridized to complementary targets to form circularized MIPs; hybridizing a pool of labeled primers to one or more of the circularized MIPs, thereby providing hybridized primers; wherein each labeled primer comprises: (i) a primer binding site sequence, (ii) at least one label sequence that is different between two or more members of the labeled primer pool, and (iii) a priming sequence that is complementary to a region of at least one of the MIPs; extending the hybridized primers using at least a portion of the MIP to which they are hybridized as a template to obtain unique primer extension products each comprising a different label from the labeled primer and a portion that identifies the species of the MIP to which the labeled primer was hybridized; and determining at least a portion of the sequence of the primer extension products to determine the identity of the labels and the identity of the species of MIPs, wherein a number of different labels identified for each species of MIP provides an estimate of the number of the corresponding species of target in the sample.