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1. (WO2012051476) MID-INFRARED IMAGING OF MICROARRAYS
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CLAIMS

1. A method for detecting presence or absence of a target in a sample, the method comprising:

contacting a capture probe attached to an addressable location on a solid infrared absorbing surface with the sample under conditions effective to form a hybridization complex between the capture probe and the target, and binding to the target a mid-infrared reflective metal after contacting with the capture probe;

exposing the contacted capture probe and solid surface to light having a wavenumber of 4000 cm! to 900 cm"1; and

determining, in external reflection mode, any reflectance from the solid surface with the contacted capture probes, wherein measurable mid-infrared reflectance indicates the presence of the target in the sample.

2. The method of claim 1, comprising exposing the contacted capture probe and solid surface to light having a wavenumber of 1400 cm"1 to 956 cm"1.

3. The method of claim 1, wherein the target is conjugated to a nanoparticle prior to contacting with the capture probe to form the hybridization complex.

4. The method of claim 3, wherein the mid-infrared reflective metal is silver.

5. The method of claim 4, wherein the nanoparticle is a gold nanoparticle.

6. The method of claim 1, wherein the target is biotinylated and is then conjugated with a streptavidin-nanoparticle conjugated after contacting with the capture probe to form the hybridization complex.

7. The method of claim 6, wherein the mid-infrared reflective metal is silver.

8. The method of claim 7, wherein the nanoparticle is a gold nanoparticle.

9. The method of claim 1, wherein reflectance is detected with a mercury cadmium telluride focal plane array infrared detector.

10. The method of any one of claims 1-9, further comprising quantification of the amount of target that is hybridized by integrating the intensity over a selected spatial range defined by pixels over a hybridized spot.

11. The method of claim 1, wherein the capture probe attached to the solid support is in the form of a microarray.

12. The method of claim 1, wherein the capture probe or the target is a nucleic acid.

13. The method of claim 1, wherein the capture probe or the target is a peptide.

14. The method of claim 1, wherein the capture probe or the target is an antibody.

15. The method of claim 1, wherein the capture probe is a gene-specific oligoprobe complimentary to a unique sequence present within a target gene of a pathogenic organism.

16. The method of claim 15, wherein the pathogenic organism is a pathogen found in contaminated food.

17. The method of claim 15, wherein the pathogenic organism found is a

Mycoplasma species or a Yersinia species.

18. A method for identifying a defect in a biological microarray formed on a glass substrate,

contacting a biological microarray on an infrared absorbing substrate with a solution comprising a target to hybridize with each spot of the microarray under conditions effective to permit hybridization and binding to the target with a mid- infrared reflective metal either prior to or after contacting the microarray, wherein each spot on the microarray comprises a nucleic acid capture probe;

imaging the hybridized microarray with mid-infrared radiation to produce an image; and

identifying a defect in the microarrays from the spot morphology or relative reflectance intensity in the image.

19. A method for comparing relative quantities of a target in two or more samples, the method comprising:

contacting a capture probe attached to an addressable location on a solid infrared absorbing surface with a sample to be analyzed for a target under conditions effective to form a hybridization complex between the capture probe and the target, and binding to the target a mid-infrared reflective metal after contacting with the capture probe;

imaging the hybridized microarray with mid- infrared radiation to produce an image and to determine relative intensity of the image for the target for the sample;

repeating the contacting and imaging steps for the target in a second sample; and comparing the relative intensities of the images for the target in the two samples to determine the relative quantities of the target in the two samples.