Polymeric arrays and methods for their use in binding assays

• US 6,489,159 B1
• Filed: 09/29/2000
• Issued: 12/03/2002
• Est. Priority Date: 01/07/1998
• Status: Expired due to Fees

• Current Assignee: Clontech Laboratories Incorporated (Ningbo Junsheng Investment Group Co., Ltd.)
• Original Assignee: Clontech Laboratories Incorporated (Ningbo Junsheng Investment Group Co., Ltd.)
• Inventors: Herrler, Michael, Siebert, Paul, Chenchik, Alex
• Primary Examiner(s): Siew, Jeffrey
• Application Number:
  US09/675,915
• Time in Patent Office: 795 Days
• Field of Search: 435/5, 435/6, 435/7.1, 435/97.1, 435/91.2, 536/23.1, 536/24.3, 536/24.31, 536/25.4, 530/334, 530/350
• US Class Current: 506/9
• 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 2219/00527 Sheets
• CPC Class Codes: B01J 2219/00529 DNA chips
• CPC Class Codes: B01J 2219/00605 the compounds being directly bound or immobilised to solid supports
• CPC Class Codes: B01J 2219/00608 DNA chips
• CPC Class Codes: B01J 2219/00612 the surface being inorganic
• CPC Class Codes: B01J 2219/00626 Covalent
• CPC Class Codes: B01J 2219/00637 by coating it with another layer
• CPC Class Codes: B01J 2219/00641 the porous medium being continuous, e.g. porous oxide substrates
• CPC Class Codes: B01J 2219/00722 Nucleotides
• CPC Class Codes: B01J 2219/00725 Peptides
• CPC Class Codes: C07B 2200/11 Compounds covalently bound to a solid support
• CPC Class Codes: C07H 21/00 Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
• CPC Class Codes: C12Q 1/6837 using probe arrays or probe chips C12Q1/6874 takes precedence
• 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

Abstract

Arrays of a plurality of different heterogeneous polymeric target compositions immobilized on the surface of a solid support are provided. In the subject arrays, the constituent polymeric targets of the heterogeneous target compositions are generally biopolymeric compounds, e.g., nucleic acids and proteins, where ribonucleic acids and proteins are the preferred polymeric targets in many embodiments. The subject arrays find use in a variety of different applications, including high throughput gene expression analysis applications.

Claims

1. An array of a plurality of different heterogeneous polymeric target compositions immobilized on a surface of a solid support, wherein said array is further characterized by at least one of the following features:

(a) said solid support is rigid; and

(b) said plurality of different heterogeneous polymeric target compositions includes at least one normal/disease pair of heterogeneous polymeric target compositions,

wherein each heterogeneous polymeric target composition is made up of at least about 100 different molecules.

2. The array according to claim 1, wherein said heterogeneous polymeric target compositions are made up of polymeric target constituents selected from the group consisting of nucleic acids and peptides.

3. The array according to claim 2, wherein said polymeric constituents are nucleic acids.

4. The array according to claim 3, wherein said nucleic acids are ribonucleic acids.

5. The array according to claim 4, wherein said ribonucleic acids are polyA+RNA.

6. The array according to claim 3, wherein said nucleic acids are deoxyribonucleic acids.

7. The array according to claim 3, wherein said polymeric target compositions comprise normalized amounts of nucleic acids.

8. The array according to claim 2, wherein said polymeric constituents are covalently bonded to said surface.

9. The array according to claim 2, wherein said polymeric constituents are non-covalently associated with said surface.

10. The array according to claim 1, wherein said rigid solid support is glass.

11. The array according to claim 1, wherein said normal/disease pair of polymeric target compositions is made up of a first polymeric target composition derived from a normal sample and a second polymeric target composition derived from a disease sample.

12. The array according to claim 11, wherein said normal/disease pair of polymeric target compositions comprises a plurality of target compositions each derived from a different disease sample.

13. The array according to claim 1, wherein said solid support is rigid and said polymeric target compositions are made up of nucleic acids.

14. The array according to claim 13, wherein said rigid solid support is glass.

15. The array according to claim 14, wherein said normal/disease pair of polymeric target compositions is made up of a first polymeric target composition derived from a normal sample and a second polymeric target composition derived from a disease sample.

16. A kit for use in a method of detecting a binding event between a probe and target, said kit comprising:

an array according to claim 13.

17. The array according to claim 14, wherein said normal/disease pair of polymeric target compositions comprises a plurality of target compositions each derived from a different disease sample.

18. The array according to claim 1, wherein the density of said different polymeric target compositions on the surface of said array is at least about 10/cm².

19. A method for detecting a binding event between a probe and target compound, said method comprising:

contacting a probe comprising solution with an array according to claim 1; and

detecting a binding event between at least one of said polymeric targets and said probe.

20. The method according to claim 19, wherein said probe is labeled and said detecting comprises detecting the presence of said label.

21. The method according to claim 20, wherein said label is selected from the group consisting of isotopic, fluorescent and enzymatic labels.

22. The method according to claim 19, wherein said method further comprises washing said substrate of unbound probe prior to said detecting.

23. The method according to claim 19, wherein said binding event is between members of a specific binding pair.

24. The method according to claim 23, wherein said members are peptides.

25. The method according to claim 23, wherein said binding event comprises hybridization between complementary nucleic acids.

26. The method according to claim 19, wherein said array is contacted with two different probes that are distinguishably labeled.

27. A kit for use in a method of detecting a binding event between a probe and target, said kit comprising:

an array according to claim 1.

28. The kit according to claim 27, wherein said kit further comprises one or more members of a labeled probe generation system.

29. The kit according to claim 27, wherein said kit further comprises at least one buffer medium.

30. The kit according to claim 27, wherein said kit further comprises at least one control probe.

31. The kit according to claim 30, wherein said control probe is labeled.