Spatially Encoded Biological Assays
The present invention provides assays and assay systems for use in spatially encoded biological assays. The invention provides an assay system comprising an assay capable of high levels of multiplexing where reagents are provided to a biological sample in defined spatial patterns; instrumentation capable of controlled delivery of reagents according to the spatial patterns; and a decoding scheme providing a readout that is digital in nature.
1 . (canceled)
2 . An array comprising a substrate and a plurality of encoded probes, wherein an encoded probe of the plurality of encoded probes comprises: (i) a binding agent and (ii) a coding tag, wherein the plurality of encoded probes are attached to a plurality of locations on the substrate, and wherein the coding tag of the encoded probe corresponds to a location of the plurality of locations on the substrate.
3 . The array of claim 2 , wherein the plurality of encoded probes are directly immobilized onto the location on the substrate.
4 . The array of claim 2 , wherein the plurality of encoded probes are indirectly immobilized onto the location on the substrate.
5 . The array of claim 4 , wherein the plurality of encoded probes are immobilized onto beads, and wherein the beads are immobilized onto the plurality of locations on the substrate.
6 . The array of claim 2 , wherein the plurality of encoded probes are indirectly immobilized onto the location on the substrate via linkers.
7 . The array of claim 2 , wherein the binding agent comprises an oligonucleotide.
8 . The array of claim 2 , wherein the binding agent selectively binds a biological target.
9 . The array of claim 8 , wherein the biological target comprises a nucleic acid.
10 . The array of claim 9 , wherein the nucleic acid comprises a single nucleotide polymorphism.
11 . The array of claim 9 , wherein the nucleic acid comprises a mutation.
12 . The array of claim 9 , wherein the nucleic acid is genomic DNA.
13 . The array of claim 9 , wherein the nucleic acid is mRNA.
14 . The array of claim 8 , wherein the biological target comprises a protein.
15 . The array of claim 14 , wherein the binding agent comprises an antibody.
16 . The array of claim 2 , wherein the locations on the substrate comprises wells or channels.
17 . A substrate comprising an encoded probe, wherein the encoded probe comprises:
(i) a binding agent and (ii) a coding tag, and wherein the encoded probe is attached to a location on the substrate.
18 . The substrate of claim 17 , wherein the encoded probe is directly immobilized onto the location on the substrate.
19 . The substrate of claim 17 , wherein the encoded probe is indirectly immobilized onto the location on the substrate.
20 . The substrate of claim 19 , wherein the encoded probe is immobilized onto a bead, wherein the bead is immobilized to the location onto the substrate.
21 . The substrate of claim 17 , wherein the encoded probe is indirectly immobilized onto the location on the substrate via a linker.
22 . The substrate of claim 17 , wherein the binding agent comprises an oligonucleotide.
23 . The substrate of claim 17 , wherein the binding agent selectively binds a biological target.
24 . The substrate of claim 23 , wherein the biological target comprises a nucleic acid.
25 . The substrate of claim 24 , wherein the nucleic acid comprises a single nucleotide polymorphism.
26 . The substrate of claim 24 , wherein the nucleic acid comprises a mutation.
27 . The substrate of claim 24 , wherein the nucleic acid is genomic DNA.
28 . The substrate of claim 24 , wherein the nucleic acid is mRNA.
29 . The substrate of claim 23 , wherein the biological target comprises a protein.
30 . The substrate of claim 29 , wherein the binding agent comprises an antibody.
31 . The substrate of claim 17 , wherein the location on the substrate comprises a well or a channel.