Composite arrays utilizing microspheres

• US 6,429,027 B1
• Filed: 02/24/1999
• Issued: 08/06/2002
• Est. Priority Date: 12/28/1998
• Status: Expired due to Term

• Current Assignee: Illumina Incorporated
• Original Assignee: Illumina Incorporated
• Inventors: Stuelpnagel, John R., Auger, Steven R., Chee, Mark S.
• Primary Examiner(s): Ponnaluri, Padmashri
• Application Number:
  US09/256,943
• Time in Patent Office: 1,259 Days
• Field of Search: 385/12, 385/13, 385/147, 385/901, 435/4, 435/6, 435/808, 435/DIG.45, 435/DIG.1, 435/DIG.2, 435/DIG.40, 435/287.1, 435/283.1, 436/501, 436/518, 436/164, 436/172, 436/805, 436/809
• US Class Current: 436/518
• CPC Class Codes: B01J 2219/00315 Microtiter plates
• CPC Class Codes: B01J 2219/00317 Microwell devices, i.e. having large numbers of wells
• CPC Class Codes: B01J 2219/00382 Stamping
• CPC Class Codes: B01J 2219/005 Beads
• CPC Class Codes: B01J 2219/00585 Parallel processes
• CPC Class Codes: B01J 2219/00596 Solid-phase processes
• CPC Class Codes: B01J 2219/00648 by the use of solid beads
• CPC Class Codes: B01J 2219/00659 Two-dimensional arrays
• CPC Class Codes: C40B 60/14 for creating libraries
• CPC Class Codes: G01N 33/543 with an insoluble carrier for immobilising immunochemicals
• CPC Class Codes: G01N 33/54313 the carrier being characterised by its particulate form
• CPC Class Codes: G01N 33/54393 Improving reaction conditions or stability, e.g. by coating or irradiation of surface, by reduction of non-specific binding, by promotion of specific binding
• CPC Class Codes: Y10S 977/924 using nanostructure as support of dna analysis

Abstract

The invention relates to compositions and methods for decoding microsphere array sensors.

Claims

1. A composite array composition comprising:

a) a substrate with a surface comprising a plurality of assay locations, each assay location comprising an array location, said array location comprising a plurality of discrete sites; and

b) a population of microspheres comprising at least a first and a second subpopulation, wherein said first subpopulation comprises a first bioactive agent and wherein said second subpopulation comprises a second bioactive agent;

wherein said microspheres are distributed in said discrete sites in said array location.

2. A composition according to claim 1 wherein each of said assay locations comprises a substantially similar set of bioactive agents.

3. A composition according to claim 1 wherein said substrate is a microtiter plate and each assay location is a microtiter well.

4. A composition according to claim 1 wherein each discrete site is a bead well.

5. A composition according to claim 1 wherein each of said subpopulations further comprise an optical signature capable of identifying said bioactive agent.

6. A composition according to claim 1 wherein each of said subpopulations further comprise an identifier binding ligand that will bind a decoder binding ligand for identification of said bioactive agent.

12. A composition according to claim 1 or claim 7, wherein at least one of said bioactive agents comprises a nucleic acid.

13. A composition according to claim 1 or claim 7, wherein at least one of said bioactive agents comprises a protein.

14. A composition according to claim 1 or claim 7, wherein said discrete sites are wells.

15. A composition according to claim 1, wherein each of said assay locations comprises at least 1000 discrete sites per cm².

16. A composition according to claim 1, wherein each of said assay locations comprises at least 1,000,000 sites/cm².

19. A composition according to claim 1, wherein each of said assay locations comprises at least 100 discrete sites.

20. A composition according to claim 19, wherein each of said assay locations comprises at least 500 discrete sites.

21. A composition according to claim 20, wherein each of said assay locations comprises at least 10,000 discrete sites.

25. A composition according to claim 12, wherein all of said bioactive agents comprise nucleic acids.

26. A composition according to claim 25, wherein at least one of said nucleic acids is a nucleic acid analog.

7. A composite array composition comprising:

a) a first substrate with a surface comprising a plurality of assay locations;

b) a second substrate comprising a plurality of array locations, each array location comprising discrete sites; and

c) a population of microspheres comprising at least a first and a second subpopulation, wherein said first subpopulation comprises a first bioactive agent and wherein said second subpopulation comprises a second bioactive agent;

wherein said microspheres are distributed on each of said array locations and wherein said array locations fit into said assay locations.

8. A composition according to claim 7 wherein said first substrate is a microtiter plate.

9. A composition according to claim 7 or 8 wherein said second substrate comprises a plurality of fiber optic bundles comprising a plurality of individual fibers, each bundle comprising an array location, and each individual fiber comprising a bead well.

10. A composition according to claim 7 wherein each of said subpopulations further comprise an optical signature capable of identifying said bioactive agent.

11. A composition according to claim 7 wherein each of said subpopulations further comprise an identifier binding ligand that will bind a decoder binding ligand for identification of said bioactive agent.

17. A composition according to claim 7, wherein each of said array locations comprises at least 1000 discrete sites per cm².

18. A composition according to claim 7, wherein each of said array locations comprises at least 1,000,000 discrete sites per cm².

22. A composition according to claim 7, wherein each of said array locations comprises at least 100 discrete sites.

23. A composition according to claim 22, wherein each of said array locations comprises at least 500 discrete sites.

24. A composition according to claim 23, wherein each of said array locations comprises at least 10,000 discrete sites.

27. A composition according to claim 9, wherein at least one of said bioactive agents comprises a nucleic acid.

28. A composition according to claim 27, wherein all of said bioactive agents comprise nucleic acids.

29. A composition according to claim 28, wherein at least on of said nucleic acids is a nucleic acid analog.

30. A composition according to claim 9, wherein at least one of said bioactive agents comprises a protein.