Method for the identification and/or the quantification of a target compound obtained from a biological sample upon chips

• US 20030096321A1
• Filed: 07/01/2002
• Published: 05/22/2003
• Est. Priority Date: 05/19/1999
• Status: Abandoned Application

• Current Assignee: Nanosphere Incorporated (DiaSorin S.p.A.)
• Original Assignee: Nanosphere Incorporated (DiaSorin S.p.A.)
• Inventors: Remacle, Jose, Demarteau, Joseph
• Application Number:
  US10/189,288
• Publication Number:
  US 20030096321A1
• Time in Patent Office: Days
• US Class Current: 435/7.9
• CPC Class Codes: B01J 2219/00596 Solid-phase processes
• CPC Class Codes: B01J 2219/00608 DNA chips
• CPC Class Codes: B01J 2219/0061 The surface being organic
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00617 by chemical means
• CPC Class Codes: B01J 2219/00626 Covalent
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00677 Ex-situ synthesis followed by deposition on the substrate
• CPC Class Codes: B01J 2219/00704 integrated with the reactor apparatus
• CPC Class Codes: B01J 2219/00722 Nucleotides
• CPC Class Codes: B82Y 30/00 Nanotechnology for materials or surface science, e.g. nanocomposites
• CPC Class Codes: C12Q 1/68 involving nucleic acids
• CPC Class Codes: C12Q 1/6837 using probe arrays or probe chips C12Q1/6874 takes precedence
• CPC Class Codes: C12Q 2563/113 the label being electroactive, e.g. redox labels
• CPC Class Codes: C12Q 2563/137 Metal/ion, e.g. metal label
• CPC Class Codes: C40B 40/06 Libraries containing nucleotides or polynucleotides, or derivatives thereof
• CPC Class Codes: G01N 21/47 Scattering, i.e. diffuse reflection G01N21/25, G01N21/41 take precedence G01N21/55 takes precedence
• CPC Class Codes: G01N 33/54306 Solid-phase reaction mechanisms

Abstract

The present invention is related to a method for the identification and/or the quantification of a target compound obtained from a sample, preferably a biological sample, comprising the steps of putting into contact the target compound with a capture molecule in order in order to allow a specific binding between said target compound with a capture molecule, said capture molecule being fixed upon a surface of a solid support according to an array comprising a density of at least 20 discrete regions per cm², each of said discrete regions being fixed with one species of capture molecules, performing a reaction leading to a precipitate formed at the location of said binding, determining the possible presence of precipitate(s) in discrete region(s), and correlating the presence of the precipitate(s) at the discrete region(s) with the identification and/or a quantification of said target compound.

Claims

1. A method for an identification and/or the quantification of a target compound obtained from a sample, preferably a biological sample, comprising the steps of:

(a) putting into contact the target compound with a capture molecule in order to allow a specific binding between said target compound with a capture molecule, said capture molecule being fixed upon a surface of a solid support according to an array comprising a density of at least 20 discrete regions per cm², each of said discrete regions being fixed with one species of capture molecules;

(b) performing a reaction leading to a metallic precipitate formed at the location of said binding;

(c) determining the possible presence of precipitate(s) in discrete region(s); and

(d) correlating the presence and/or the formation of the precipitate(s) at the discrete region(s) with the identification and/or a quantification of said target compound.

2. The method of claim 1, wherein said metallic compound is a magnetic metallic compound.

3. The method of claim 1, wherein the reaction leading to the formation of the metallic precipitate is an enzymatic reaction.

4. The method of claim 1, wherein the reaction leading to the formation of the precipitate is a chemical reduction of silver in the presence of colloidal gold particles coupled to the bounded target compound.

5. The method of claim 1, wherein the specific binding between the target compound and its corresponding capture molecule is a hybridization between two nucleotide sequences.

6. The method according claim 1, wherein the capture molecule is a protein.

7. The method according claim 1, wherein the binding between the target compound and its corresponding capture molecule is a binding between an antigenic structure and its corresponding antibody or a hypervariable portion thereof.

8. The method of claim 1, wherein the binding between the target compound and its corresponding capture molecule is a binding between a receptor and its corresponding ligand.

9. The method of claim 5, wherein the capture molecule is a nucleotide sequence spotted on the surface of the solid support in the presence of a polyol.

10. The method of claim 6, wherein the target compound is identified and/or quantified according to a signal characteristic of a cell activation.

11. The method of claim 6, wherein the target compound is identified and/or quantified by a detection of a presence or a formation of a phosphate, an acetyl or a methyl group upon the target compound.

12. The method of claim 6, wherein the target compound is detected through a direct or indirect interaction with one or more molecules bound to the solid support.

13. The method of claim 1, wherein the possible presence of a precipitate is obtained by reflection, absorption or diffusion of a light beam upon said precipitate.

14. The method of claim 13, wherein the light beam is a laser beam.

15. The method of claim 1, wherein the presence of a precipitate in a discrete region is obtained by variation of an electromagnetic field or the conductance of an electric current.

16. The method of claim 1, wherein the step for determining a possible presence of a precipitate in a discrete region of the solid support surface is obtained by projecting a transmission light from a first light source onto said surface during a transmission mode time period, on a detector from said first light source which has been transmitted through said solid support and projecting diffuse scattering light from the same light source or a second light source onto said solid support during similar or other than said reflection mode time period and detecting reemitted light on said detector from said solid support surface.

17. The method of claim 1, which is a high-throughput screening identification and/or quantification method of target compound(s) upon corresponding capture molecules, wherein the solid support comprises between 4-well and 1536-well arrays disposed according to a multiple well microtitre plate format.

18. The method of claim 17, wherein said multiple wells microtitre plate is selected from the group consisting of 24-well, 96-well, 384-well and 1536-well microtitre plate formats.

19. The method of claim 1, wherein the support bearing capture molecules is inserted or is part of a pipette.

20. The method of claim 1, wherein the array present on the solid support surface is washed by a series of pipette(s) being disposed on an arm and moving according to X/Y axes of said solid support surface.

21. The method of claim 1, wherein the amount of precipitates corresponding to a detected and/or quantified target compound is compared to at least two different arrays.

22. The method of claim 21, wherein a target compound amount detected in a tested sample which statistically differ from a reference sample, represents a pattern of target compound typical of the tested sample.

36. A computer program comprising program code means for performing the steps of determining the possible presence of a precipitate in discrete regions and correlating the presence of said precipitate at the discrete regions with the identification and/or the quantification of a target compound, according to the method of claim 1, when said program is run on a computer.

37. A computer program product comprising program code means stored on a computer readable medium for performing the steps of determining the possible presence of a precipitate in a discrete region and correlating the presence of the precipitate at the discrete region with the identification and/or the quantification of a target compound, according to the method of claim 1, when said program is run on a computer.

23. A diagnostic and/or quantification apparatus of a target compound obtained from a sample comprising:

(a) a solid support with an array surface comprising at least 4 discrete regions per cm2/surface, each of said region being fixed with one species of capture molecule corresponding to a target compound;

(b) a detection and/or quantification device of a metallic precipitate upon the surface of said solid support and resulting in a binding of said target compound upon a corresponding capture molecule;

(c) possibly a reading device of information(s) recorded upon said solid support;

(d) a computer programmed to;

(1) possibly recognize the discrete regions bearing capture molecules,

(2) collect the results obtained from said detection and/or quantification device, possibly comparing with the information(s) obtained from said reading device; and

(3) carry out a detection and/or quantification of said target compound(s).

24. The apparatus of claim 23, wherein said solid support with an array surface comprises at least 10 discrete regions per cm²/surface.

25. The apparatus of claim 23, wherein said a solid support with an array surface comprises at least 20 discrete regions per cm²/surface.

26. The apparatus of claim 23, wherein the detection and/or the quantification device contains a detector with either a linear or a matricial sensor.

27. The apparatus of claim 26, wherein the detector of the transmitted or diffracted light is selected from the group consisting of one or more diode(s), a CCD camera, a CMOS camera and a fiber optic bundle.

28. Diagnostic and/or quantification apparatus of claim 23, wherein the detection and/or quantification device of precipitate comprises a first light source providing a transmission mode light to the solid support and a second light source or same light source providing diffuse scattering (diffraction) light to said solid support, a detector and a computer program to interact with said detector such that said detector detects light transmitted from said support in response to application of light from said first light source and said detector detected reemitted light in response to application of light from said second light source wherein said device is configured to cause the first light source to provide a transmission mode light to the solid support, preferably during a first time period, and to cause a second light source to provide diffuse scattering light to said sample preferably (during a time period other than said first time period).

29. The apparatus of claim 28, comprising a light source obtained from a circular neon tube, a black background (and possibly a white moveable translucent surface) disposed between the solid support and the source light or wherein the source light is disposed between the solid support and said white surface.

30. The apparatus of claim 23, which is a high-throughput screening apparatus, wherein the solid support surface comprises multiple arrays surfaces disposed according to a multiple well microtitre plate format.

31. The apparatus of claim 30, wherein the multiple wells microtitre plate format is selected from the group consisting of 36-well, 384-well and 1536-well microtitre plate formats.

32. The apparatus of claim 30, which further comprises an arm bearing the detection and/or quantification device which moves according to X/Y axes of the solid support surface, or multiple of it.

33. The apparatus of claim 30, wherein the detection is performed simultaneously or consecutively by a computer controlled moving device which analyses discrete regions bearing capture molecules present on the solid support surface and attribute the results obtained from the detection and/or quantification device to each sample initially introduced in the array surface.

34. The apparatus of claim 30, comprising an automatic liquid handling device for pipeting in the array surface.

35. The apparatus of claim 32, wherein the device moves according to steps of 9 mm or multiple of it.