Translucent solid matrix assay device dor microarray analysis

• US 20060211044A1
• Filed: 02/17/2004
• Published: 09/21/2006
• Est. Priority Date: 02/24/2003
• Status: Abandoned Application

• Current Assignee: PriTest Inc.
• Original Assignee: PriTest Inc.
• Inventors: Green, Lawrence R.
• Application Number:
  US10/550,629
• Publication Number:
  US 20060211044A1
• Time in Patent Office: Days
• US Class Current: 435/7.100
• CPC Class Codes: B01J 19/0046 Sequential or parallel reactions, e.g. for the synthesis of polypeptides or polynucleotides; Apparatus and devices for combinatorial chemistry or for making molecular arrays synthesis methods per se C40B50/00
• CPC Class Codes: B01J 2219/00315 Microtiter plates
• CPC Class Codes: B01J 2219/00527 Sheets
• CPC Class Codes: B01J 2219/00533 essentially rectangular
• CPC Class Codes: B01J 2219/00536 in the shape of disks
• CPC Class Codes: B01J 2219/00605 the compounds being directly bound or immobilised to solid supports
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00659 Two-dimensional arrays
• CPC Class Codes: B01J 2219/00722 Nucleotides
• CPC Class Codes: B01J 2219/00725 Peptides
• CPC Class Codes: B01J 2219/0074 Biological products
• CPC Class Codes: C40B 40/06 Libraries containing nucleotides or polynucleotides, or derivatives thereof
• CPC Class Codes: C40B 40/10 Libraries containing peptides or polypeptides, or derivatives thereof
• CPC Class Codes: C40B 60/14 for creating libraries
• CPC Class Codes: G01N 33/54306 Solid-phase reaction mechanisms
• CPC Class Codes: G01N 33/54373 involving physiochemical end-point determination, e.g. wave-guides, FETS, gratings
• CPC Class Codes: G01N 33/548 Carbohydrates, e.g. dextran
• CPC Class Codes: G06T 2207/30072 Microarray; Biochip, DNA array; Well plate
• CPC Class Codes: G06T 3/4007 based on interpolation, e.g. bilinear interpolation image demosaicing G06T3/4015; edge-driven or edge-based scaling G06T3/403
• CPC Class Codes: G06T 5/40 : using histogram techniques
• CPC Class Codes: G06T 5/92 : based on global image properties
• CPC Class Codes: G06T 7/80 : Analysis of captured images to determine intrinsic or extrinsic camera parameters, i.e. camera calibration

Abstract

The present invention concerns methods and compositions relating to translucent matrix arrays. In certain embodiments, the arrays are reconfigurable. Reconfigurable arrays may be produced using small linker molecules, such as aptamers or affibodies, which preferably bind to an IgG specific portion of antibodies. Such arrays may be used to detect any target that binds selectively or specifically to an IgG. Translucent matrix arrays may utilize cellophane, rayon or a translucent, colloidal form of nitrocellulose to coat the substrate. Other embodiments concern methods of data analysis and apparatus for analyte detection. Certain embodiments concern a total optical assay device (TOAD™), which may be used with GRABBER™ slides and/or FOOTPAD™ microtiter well assay devices.

Claims

1-18. -18. (canceled)

19. A method of data analysis comprising:

capturing a plurality of calibration images using an imager, the image comprising a plurality of pixels;

obtaining a plurality of pixel signals for each of the plurality of calibration images;

creating an average interpolation function to produce interpolated average signal values for the imager; and

creating an interpolation function for each pixel to produce interpolated signal values for the pixel.

20. The method of claim 19, wherein each of the plurality of calibration images is at a different exposure level.

21. The method of claim 19, wherein the exposure levels for the calibration images are spaced evenly over a range of exposure levels.

22. The method of claim 19, wherein the average interpolation function and the interpolation function for each pixel are based on linear interpolation.

23. The method of claim 19, further comprising:

capturing a test image at a test exposure level;

obtaining a plurality of pixel signals for the test image; and

producing a plurality of corrected pixel signal values for the test image.

24. The method of claim 23, wherein producing the plurality of corrected signal values for the test image comprises multiplying each of the plurality of pixel signals by the average interpolation function for the imager divided by the interpolation function for the pixel.

25. The method of claim 23, further comprising producing a plurality of leveled signal values for the plurality of corrected signal values.

26. The method of claim 25, wherein producing the plurality of leveled signal values for the plurality of corrected signal values comprises:

producing a histogram of the plurality of corrected signal values;

determining a high threshold and a low threshold for the histogram; and

determining leveled signal values based on comparisons between the corrected test signals and the high threshold and low threshold.

27. The method of claim 26, further comprising setting a leveled signal value for a pixel to zero if a corrected test signal value for the pixel is less than the low threshold.

28. A machine-readable medium having stored thereon data representing sequences of instructions that, when executed by a processor, cause the processor to perform operations comprising:

receiving a plurality of pixel signal values for each of a plurality of calibration images captured by an imager;

creating an average interpolation function to produce interpolated average signal values for the imager; and

creating an interpolation function for each pixel to produce interpolated signal values for the pixel.

29. The medium of claim 28, further comprising instructions that, when executed by the processor, cause the processor to perform operations comprising:

producing leveled signal values for the plurality of corrected signal values.

30. The medium of claim 29, wherein producing leveled signal values for the plurality of corrected signal values comprises:

producing a histogram of the corrected signal values;

determining a high threshold and a low threshold for the histogram; and

determining leveled signal values based on comparisons between the corrected test signals and the high threshold and low threshold.

31. The medium of claim 30, further comprising instructions that, when executed by the processor, cause the processor to perform operations comprising:

setting a leveled signal value for a pixel to a depth value for the imager multiplied times a difference between the corrected test signal for the pixel and the low threshold and divided by a difference between the high threshold and the low threshold if the corrected signal value for the pixel is greater than or equal to the low threshold and less than or equal to the high threshold.

33. The device of claim 32, further comprising a machine readable medium according to claim 28.

32. A total optical assay device comprising:

a light-tight casing with a lid;

a stage below the lid, the stage to hold slides or microtiter well plates;

a focusing lens below the stage;

an imaging device below the lens, the imaging device arranged to obtain optical images of slides or microtiter well plates on the stage;

a base to hold the imaging device in position; and

a cooling device.

34. An optical assay device comprising:

a circular disk to fit into a well of a microtiter plate;

a probe-binding membrane attached to the bottom of the disk;

a stem attached to the top of the disk; and

a handle attached to the top of the stem.

35. The device of claim 34, wherein the membrane is rayon, cellophane or translucent nitrocellulose.

36. The device of claim 34, further comprising a multiplicity of spots bound to the lower surface of the membrane.

37. (canceled)