Optimized method for LID biosensor resonance detection

• US 7,509,239 B2
• Filed: 03/09/2007
• Issued: 03/24/2009
• Est. Priority Date: 03/10/2006
• Status: Expired due to Fees

• Current Assignee: Corning Incorporated
• Original Assignee: Corning Incorporated
• Inventors: Gollier, Jacques, Piech, Garrett A., Webb, Michael B., Wu, Qi
• Primary Examiner(s): Lau; Tung S
• Assistant Examiner(s): SUN, XIUQIN
• Application Number:
  US11/716,425
• Publication Number:
  US 20070276608A1
• Time in Patent Office: 746 Days
• Field of Search: 702/191, 356/369, 736/02, 435/6
• US Class Current: 702/191
• CPC Class Codes: G01J 3/02 Details
• CPC Class Codes: G01J 3/0218 using optical fibers
• CPC Class Codes: G01J 3/1895 using fiber Bragg gratings or gratings integrated in a waveguide
• CPC Class Codes: G01J 3/28 Investigating the spectrum using colour filters G01J3/51
• CPC Class Codes: G01J 3/2803 using photoelectric array detector
• CPC Class Codes: G01N 21/7743 the reagent-coated grating coupling light in or out of the waveguide

Abstract

An optical interrogation system is described herein that can interrogate a label-independent-detection (LID) biosensor and monitor a biological event on top of the biosensor without suffering from problematical parasitic reflections and/or problematical pixelation effects. In one embodiment, the optical interrogation system is capable of interrogating a biosensor and using a low pass filter algorithm to digitally remove problematic parasitic reflections contained in the spectrum of an optical resonance which makes it easier to determine whether or not a biological event occurred on the biosensor. In another embodiment, the optical interrogation system is capable of interrogating a biosensor and using an oversampling/smoothing algorithm to reduce oscillations in the estimated location of an optical resonance caused by the problematical pixelation effect which makes it easier to determine whether or not a biological event occurred on the biosensor.

Claims

1. An optical interrogation system comprising:

a launch system that emits an optical beam towards a biosensor;

a receive system that collects an optical beam from the biosensor and then outputs a signal which is representative of the collected optical beam; and

a processor that reduces pixelation oscillations in an optical resonance of the signal by oversampling at least a portion of the optical resonance, smoothing if needed the optical resonance and calculating a resonance location or centroid that is based on the smoothed-oversampled optical resonance.

2. The optical interrogation system of claim 1, wherein said processor oversamples and then smoothes the optical resonance or said processor smoothes and then oversamples the optical resonance.

3. The optical interrogation system of claim 1, wherein said centroid has a threshold that can be raised due to the oversampling of the optical resonance such that the threshold effectively excludes background noise and excludes pixelation oscillations which are not desired in the smoothed-oversampled optical resonance.

4. The optical interrogation system of claim 1, wherein said oversampled optical resonance is smoothed by:

a low pass filter;

an interpolation process;

a cubic spline interpolation process.

5. The optical interrogation system of claim 1, wherein said optical resonance is oversampled and smoothed by:

calculating a Fourier transform of the optical resonance;

multiplying the Fourier transform by a filter function;

adding zeros on a left and a right of the filtered function; and

calculating an inverse Fourier transform to obtain the smoothed-oversampled optical resonance.

6. The optical interrogation system of claim 1, wherein said optical resonance is oversampled and smoothed by:

oversampling the optical resonance in the signal to resemble a stairstep function; and

convolving the oversampled optical resonance by a low pass filter.

7. A method for interrogating a biosensor, said method comprising the steps of:

emitting an optical beam towards a biosensor;

collecting an optical beam from the biosensor

generating a signal which corresponds to the collected optical; and

reducing oscillations in an optical resonance of the signal caused by a problematical pixelation effect by;

oversampling at least a portion of the optical resonance;

smoothing if needed the optical resonance; and

calculating a resonance location or centroid that is based on the smoothed-oversampled optical resonance.

8. The method of claim 7, wherein said oversampling step and said smoothing step are interchangeable in sequence.

9. The method of claim 7, wherein said centroid has a threshold that can be raised due to the oversampling of the optical resonance such that the threshold effectively excludes background noise and excludes pixelation oscillations which are not desired in the smoothed-oversampled optical resonance.

10. The method of claim 7, wherein said oversampled optical resonance is smoothed by:

a low pass filter;

an interpolation process;

a cubic spline interpolation process.

11. The method of claim 7, wherein said oversampling step and smoothing step are performed by:

calculating a Fourier transform of the optical resonance;

multiplying the Fourier transform by a filter function;

adding zeros on a left and a right of the filtered function; and

calculating an inverse Fourier transform to obtain the smoothed-oversampled optical resonance.

12. The method of claim 7, wherein said oversampling step and smoothing step are performed by:

oversampling the optical resonance to resemble a stairstep function; and

convolving the oversampled optical resonance by a low pass filter.

13. The method of claim 7, wherein the entire optical resonance within the signal is oversampled and smoothed.

14. The method of claim 7, wherein a portion of the optical resonance within the signal that is located near a threshold in the centroid is oversampled and smoothed.