System and method of deconvolving multiplexed fluorescence spectral signals generated by quantum dot optical coding technology

• US 8,360,321 B2
• Filed: 04/02/2008
• Issued: 01/29/2013
• Est. Priority Date: 04/02/2007
• Status: Expired due to Fees

• Current Assignee: Fio Corporation
• Original Assignee: Fio Corporation
• Inventors: Lee, Jeongjin, Chan, Warren Che Wor, Xiang, Qing, Klostranec, Jesse
• Primary Examiner(s): HESS, DANIEL A
• Application Number:
  US12/594,430
• Publication Number:
  US 20110284639A1
• Time in Patent Office: 1,763 Days
• Field of Search: 235/459.1, 235/458.1, 235/468, 235/491
• US Class Current: 235/468
• CPC Class Codes: C40B 20/04 Identifying library members by means of a tag, label, or other readable or detectable entity associated with the library members, e.g. decoding processes
• CPC Class Codes: G01J 3/4406 Fluorescence spectrometry
• CPC Class Codes: G01N 2021/6417 Spectrofluorimetric devices
• CPC Class Codes: G01N 2021/6441 with two or more labels
• CPC Class Codes: G01N 2201/1293 resolving multicomponent spectra

Abstract

A method deconvolves a multiplexed fluorescence spectral signal into its component single-color fluorescence spectra emitted by contributing fluorophore types. A spectral database contains a parameter set for each of the component spectra. Optical codes are received as the multiplexed signals. A sliding window technique estimates a number and location of local peaks for the component spectra. Allowable variation ranges are assigned for the corresponding parameter sets. Each multiplexed signal is deconvolved into a sum of parametric values to generate a list of its component spectra. Encoded and received optical codes, in the form of multiplexed signals, are decoded and identified by their component spectra and contributing fluorophore types. A system for deconvolving the multiplexed signals includes a spectral database containing the parameter sets, a detection element receiving the optical codes, and a signal processor encoded to analyze and deconvolve the multiplexed signals.

Claims

1. A method of deconvolving a mixed fluorescence spectral signal into its component single-color fluorescence spectra emitted by contributing fluorophore types, wherein the method comprises:

a) a database providing step of providing a spectral database that contains parameter sets, one for each of the component single-color fluorescence spectra;

b) a receiving step of receiving one or more encoded optical codes, each in the form of one said mixed fluorescence spectral signal emitted by a combination of the contributing fluorophore types; and

c) an analysis step, of analyzing each said mixed fluorescence spectral signal, comprising;

i) a peak estimation substep of using a sliding window technique, with reference to the parameter sets contained in the spectral database, to initially identify and estimate the number and location of local peak regions for each of the component single-color fluorescence spectra;

ii) a constraint setup substep of assigning allowable variation ranges for each of the parameter sets corresponding to one of the local peak regions for each said component single-color fluorescence spectra; and

iii) a deconvolution substep of deconvolving the mixed fluorescence spectral signal into a sum of parametric values, with reference to the parameter sets contained in the spectral database, so as to generate a list of its said component single-color fluorescence spectra;

whereby each encoded and received one of said optical codes, in the form of one said mixed fluorescence spectral signal, is decoded and identified by its said component single-color fluorescence spectra corresponding to its said contributing fluorophore types.

2. A method according to claim 1, wherein one or more of the contributing fluoxophore types are contributing quantum dot (QD) types, and wherein one or more of the encoded optical codes are encoded QD optical codes.

3. A method according to claim 1, wherein in the constraint setup substep, one or more weighting factors are assigned for each of the local peak regions.

4. A method according to claim 1, further comprising a curve modelling step, before the database providing step, of (i) using an automated non-linear optimization technique to reduce each of the component single-color fluorescence spectra to a Gaussian curve, and (ii) generating and recording, in the spectral database, the parameter sets for each of the component single-color fluorescence spectra;

and wherein in the deconvolution substep, the parametric values are Gaussian parametric values.

5. A method according to claim 4, wherein the automated non-linear optimization technique is a trust-region (TR) fitting technique.

6. A method according to claim 4, wherein in the curve modelling step, the automated non-linear optimization technique minimizes the first two terms of a Taylor approximation to an error function.

7. A method according to claim 6, wherein the error function is the difference between data and the objective curve function.

8. A method according to claim 4, wherein in the curve modelling step, the automated non-linear optimization technique is performed according to the formula

9. A method according to claim 1, wherein the contributing fluorophore types in each said combination have measurable absolute fluorescence intensities;

and wherein the method further comprises a set selection step, before the receiving step, of selecting an optimal set of the optical codes, with each of the optical codes being selected such that, given a predetermined maximum potential measurement error, measured absolute fluorescence intensities for each said combination of said contributing fluorophore types are discrete from one another.

10. A method according to claim 9, wherein the predetermined maximum potential measurement error is about ten (10) percent.

11. A method according to claim 1, further comprising a differentiation step, after the deconvolution substep, of differentiating the optical codes from one another on the basis of measured absolute fluorescence intensities of the fluorophore types in each said combination, given a predetermined maximum potential measurement error.

12. A method according to claim 1, wherein the fluorophore types in each said combination have calculable fluorescence intensity ratios;

and wherein the method further comprises a set selection step, before the receiving step, of selecting an optimal set of the optical codes, with each of the optical codes being selected such that the fluorescence intensity ratios for each said combination are separated from each other by a predetermined minimum intensify ratio difference (MIRD).

13. A method according to claim 12, wherein the predetermined MIRD is about 0.3.

14. A method according to claim 1, further comprising a differentiation step, after the deconvolution substep, of calculating fluorescence intensity ratios of the fluorophore types in each said combination, and differentiating the optical codes from one another by the calculated fluorescence intensity ratios, given a predetermined minimum intensity ratio difference (MIRD) separating the fluorescence intensity ratios of the fluorophore types for each said combination.

15. A method according to claim 1, wherein for each of the optical codes, the combination of the contributing fluorophore types is contained within or secured to a microbead adapted for detection of a target molecule within a clinical sample.

16. A method according to claim 1, further comprising an irradiation step, before the receiving step, of irradiating the combination of the contributing fluorophore types with electromagnetic frequency (EMF) radiation, such that the combination emits the mixed fluorescence spectral signal.

17. A method according to claim 16, wherein in the irradiation step, a laser irradiates the combination.

18. A method according to claim 16, wherein the EMF radiation has an EMF wavelength of about 488 nm.

19. A method according to claim 1, wherein the database providing step, the receiving step, and the analysis step are performed onboard a handheld detection device.

20. A method according to claim 1, wherein the contributing fluorophore types vary from one another based on the color and/or the intensity thereof.

21. A method according to claim 1, wherein each said combination of contributing fluorophore types varies from each other said combination based on the color and/or the intensity of the contributing fluorophore types of each said combination.

22. A method according to claim 1, wherein four colors of contributing fluorophore types are provided, and five intensities for each of said colors of contributing fluorophore types are provided.

23. A system for deconvolving a mixed fluorescence spectral signal into its component single-color fluorescence spectra emitted by contributing fluorophore types, with the system being for use with one or more encoded optical codes, with each of the optical codes being in the form of one said mixed fluorescence spectral signal emitted by a combination of the contributing fluorophore types, wherein the system comprises:

a) a spectral database containing parameter sets, one for each of the component single-color fluorescence spectra;

b) a detection element operatively receiving the optical codes; and

c) a signal processor operative to analyze each said mixed fluorescence spectral signal, with the signal processor being encoded (i) to operatively execute a sliding window technique, with reference to the parameter sets contained in the spectral database, for initial identification and estimation of the number and location of local peak regions for each of the component single-color fluorescence spectra;

(ii) to assign allowable variation ranges for each of the parameter sets corresponding to one of the local peak regions for each said component single-color fluorescence spectra; and

(iii) to operatively deconvolve the mixed fluorescence spectral signal into a sum of parametric values, with reference to the parameter sets contained in the spectral database, so as to generate a list of its said component single-color fluorescence spectra;

whereby the system decodes and identifies each encoded and received one of said optical codes, in the form of one said mixed fluorescence spectral signal, by its said component single-color fluorescence spectra corresponding to its said contributing fluorophore types.

24. A system according to claim 23 adapted for use with contributing quantum dot (QD) types as one of more of the contributing fluorophore types, and encoded QD optical codes as one or more of the encoded optical codes.

25. A system according to claim 23, wherein the signal processor is additionally encoded to assign one or more weighting factors for each of the local peak regions.

26. A system according to claim 23, further comprising a fluorometer to measure the component single-color fluorescence spectra for each of the contributing fluorophore types, and a spectral processor encoded to operatively reduce each of the component single-color fluorescence spectra to a Gaussian curve;

and wherein the parametric values comprise Gaussian parametric values.

27. A system according to claim 23, wherein the spectral processor reduces each of the component single-color fluorescence spectra to said Gaussian curve according to the formula

28. A system according to claim 23, wherein the detection element is operative to measure absolute fluorescence intensities of contributing fluorophore types in each said combination;

and wherein the system further comprises a predetermined set of the optical codes, with each of the optical codes in the predetermined set being such that, given a predetermined maximum potential measurement error, the absolute fluorescence intensities measured for each said combination of said contributing fluorophore types are discrete from one another.

29. A system according to claim 28, wherein the predetermined maximum potential measurement error is about ten (10) percent.

30. A system according to claim 23, wherein the signal processor is additionally encoded to operatively differentiate the optical codes from one another on the basis of measured absolute fluorescence intensities of the fluorophore types in each said combination, given a predetermined maximum potential measurement error.

31. A system according to claim 23, wherein the signal processor is operative to calculate fluorescence intensity ratios of the fluorophore types in each said combination;

and wherein the system further comprises a predetermined set of the optical codes, with each of the optical codes in the predetermined set being such that the fluorescence intensity ratios for each said combination are separated from each other by a predetermined minimum intensity ratio difference (MIRD).

32. A system according to claim 31, wherein the predetermined MIRD is about 0.3.

33. A system according to claim 23, wherein the signal processor is additionally encoded (i) to operatively calculate fluorescence intensity ratios of the fluorophore types in each said combination, and (ii) to differentiate the optical codes from, one another by the calculated fluorescence intensity ratios, given a predetermined minimum intensity ratio difference (MIRD) separating the fluorescence intensity ratios of the fluorophore types for each said combination.

34. A system according to claim 23, further comprising a microbead containing or securing the combination of the contributing fluorophore types for each of the optical codes, with each said microbead being adapted for detection of a target molecule within a clinical sample.

35. A system according to claim 23, further comprising an irradiating element to operatively irradiate the combination of the contributing fluorophore types with electromagnetic frequency (EMF) radiation, such that the combination emits the mixed fluorescence spectral signal.

36. A system according to claim 35, wherein the irradiating element is a laser.

37. A system according to claim 35, wherein the EMF radiation has an EMF wavelength of about 488 run.

38. A system according to claim 23, further comprising a handheld detection device enclosure substantially enclosing the detection element and the signal processor, with the spectral database being carried onboard the handheld detection device.

39. A system according to claim 23 adapted for use with fluorophore types that vary from one another based on the color and/or the intensity thereof.

40. A system according to claim 23 adapted for use with four different colors of contributing fluorophore types, and adapted for use with five different intensities for each of said colors of contributing fluorophore types.