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

• US 7,321,829 B2
• Filed: 05/19/2000
• Issued: 01/22/2008
• Est. Priority Date: 05/19/1999
• Status: Expired due to Term

• Current Assignee: Nanosphere Incorporated (DiaSorin S.p.A.)
• Original Assignee: Eppendorf Array Technologies SA (Eppendorf Se)
• Inventors: Zammatteo, Nathalie, Alexandre, Isabelle, Hamels, Sandrine, De Longueville, Francoise, Remacle, Jose, Demarteau, Joseph, Houbion, Yves
• Primary Examiner(s): Zhou; Shubo (Joe)
• Application Number:
  US09/574,626
• Publication Number:
  US 20030124522A1
• Time in Patent Office: 2,804 Days
• Field of Search: 435/6, 435/7.21, 435/7.9, 435/21, 435/28, 435/7.2, 702/19, 702/20, 422/50
• US Class Current: 702/19
• CPC Class Codes: B01J 2219/00596 Solid-phase processes
• CPC Class Codes: B01J 2219/00608 DNA chips
• 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 to allow a specific binding between the target compound with a capture molecule, the 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 the discrete regions being fixed with one species of capture molecules, performing a reaction leading to a precipitate formed at the location of the 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 the target compound.

Claims

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

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

performing a catalytic reduction of a metal present in solution leading to formation of a metallic precipitate in one or more of said discrete regions;

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

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

2. The method according to claim 1, wherein said metallic precipitate is a magnetic metallic compound.

3. The method according to claim 1, wherein the catalytic reduction leading to the formation of the metallic precipitate is a reduction of a metal in the presence of an enzyme.

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

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

7. The method according to claim 1, wherein the binding between the target compound and its corresponding capture molecule is a reaction between a receptor and its corresponding ligand.

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

9. The method of claim 8, wherein the light beam is a laser beam.

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

11. The method according to claim 1, for the quantification of volume of one or more precipitate(s) upon a defined surface of the solid support, wherein images of said defined surface containing one or more precipitate(s) and corresponding to different views, said images containing analogue information, are taken by one or more camera(s) upon illumination by one or more illuminant source(s), spatially arranged relatively to each other according to a predetermined pattern and wherein the corresponding image analogue information of said defined surface containing said precipitate(s) are transformed and converted into digital form or a set of digital forms and compared to a first and to a second reference standards to determine the volume of the precipitate(s) to be quantified.

12. The method according to claim 11, wherein the first reference standard corresponds to a digital form or a set of digital forms obtained from analogue information contained in images taken on the surface of said solid support without precipitate.

13. The method according to claim 12, wherein the second reference standard corresponds to a digital form or a set of digital forms obtained from analogue information contained in images taken on the surface of said solid support containing precipitate(s) of known volume.

14. The method of claim 1, wherein said metallic precipitate is formed on the surface of a particle associated with said target compound.

15. The method of claim 1, wherein said sample is a biological sample.

31. A computer comprising program code stored thereon for performing the steps of determining the possible presence and quantification of a precipitate in discrete regions and correlating the presence and quantification 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 code is run on said computer.

32. A computer program product comprising program code means stored on a computer readable medium for performing the steps of determining the possible presence and quantification of a precipitate in a discrete region and correlating the presence and quantification 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.

16. A diagnostic and/or quantification apparatus comprising:

a solid support comprising an array comprising at least 20 discrete regions per cm² comprising multiple species of capture molecules, each of said discrete regions being fixed with one species of capture molecule which recognizes a target compound, wherein binding of said target compound to one or more of said multiple species of capture molecules leads to a catalytic reduction of a metal present in solution, and a formation of a metallic precipitate in one or more of said discrete region(s);

a detection and quantification device for detecting and quantifying said precipitate in said discrete region(s); and

a computer programmed to collect the results obtained from said detection and quantification device.

17. The apparatus according to claim 16, comprising one or more sensor(s) provided with camera(s) and with one or more illuminant source(s) which are spatially arranged relatively to each other according to a predetermined pattern and which are associated with an analogue information acquisition system, said information being measured by using sensor(s) and being converted into digital form by a processing unit.

18. The apparatus according to claim 17, wherein the camera(s) are CCD or CMOS camera(s).

19. The apparatus according to claim 17, wherein the illuminant source is an infra-red light having a wavelength similar to a metal crystal contained in the precipitate(s).

20. The apparatus according to claim 17, which comprises a set of illuminant sources regularly spaced from each other in a plane, each of said sources corresponding to a light spot being automatically switched on, simultaneously or successively.

21. The apparatus according to claim 17, which comprises one camera and one illuminant source placed above the solid support, said camera and illuminant source being movable in three dimensions in space.

22. The apparatus according to claim 17, which comprises two or more cameras oppositely arranged in a plane and placed above the solid support, the apparatus comprising further one or more illuminant source(s) placed under the solid support.

23. The apparatus according to claim 17, which comprises three or more cameras arranged according to a triangular plane or another regular or irregular pattern and placed above the solid support and further comprising one or more illuminant source(s) placed under the solid support.

24. The apparatus according to claim 17, which comprises, placed above the solid support, one camera and a first illuminant source and, under said camera, a second illuminant source placed under the solid support, the two illuminant sources being placed almost symmetrically according to the position of the solid support.

25. The apparatus of claim 16, wherein the information(s) recorded upon said solid support are barcodes.

26. The apparatus of claim 16, wherein the results are the formation of a precipitate at a specific location.

27. The apparatus of claim 16, further comprising a device for reading information recorded upon said solid support.

28. The apparatus of claim 27, wherein said device for reading information comprises a bar code reader.

29. The apparatus of claim 16 wherein said computer is programmed to recognize discrete regions bearing said capture molecules.

30. The apparatus of claim 16, wherein said computer is programmed to detect and/or quantitate said target compounds.