Patent ID: 9063156
Filing Date: 2015-06-23
Classification: C12Q,G01N

Abstract:
1. A method of determining a consensus binding site of a binding partner on a random array of optically resolvable polymer molecules, said determining comprising: (i) providing optically resolvable reaction sites arrayed on a substrate and synthesizing a plurality of different polymer molecules wherein a single polymer molecule is synthesized at each of the optically resolvable reaction sites, wherein the synthesizing comprises exposing the reaction sites to a reaction mixture comprising a plurality of different types of monomers, wherein each type is linked to a detectably distinct label, under conditions that promote enzyme-mediated incorporation of the monomers into the single polymer molecule, and further wherein the synthesizing is performed in the presence of the binding partner, thereby generating a random array of optically resolvable polymer molecules, and further wherein the different polymer molecules are polynucleotides or polypeptides and the binding partner is selected from the group consisting of a protein, a carbohydrate, or a nucleic acid; (ii) monitoring each of the reaction sites during said synthesizing to generate a set of time sequences of incorporations of the monomers at each of the reaction sites, thereby determining the sequences of the optically resolvable polymer molecules and mapping their locations on the substrate, wherein the monitoring comprises detecting the detectably distinct label; (iii) monitoring each of the reaction sites during said synthesizing to detect binding of the binding partner to a subset of the optically resolvable polymer molecules at the optically resolvable reaction sites on the substrate; and (iv) using the sequences of the optically resolvable polymer molecules determined in (ii), identifying a common monomer sequence in the sequences of the subset of the optically resolvable polymer molecules to which the binding partner bound in (iii), wherein the common monomer sequence is the consensus binding site for the binding partner, thereby identifying the consensus binding site of the binding partner.