Compositions, methods, and kits for assembling probes

• US 20050048498A1
• Filed: 08/29/2003
• Published: 03/03/2005
• Est. Priority Date: 08/29/2003
• Status: Abandoned Application

• Current Assignee: Applied Biosystems LLC (Thermo Fisher Scientific Incorporated)
• Original Assignee: Applera Corporation (Thermo Fisher Scientific Incorporated)
• Inventors: Woudenberg, Timothy M., Sharaf, Muhammad A., Bahatt, Dar, Liu, Timothy Z., Ermakov, Serguei, Connell, Charles R.
• Application Number:
  US10/652,361
• Publication Number:
  US 20050048498A1
• Time in Patent Office: Days
• US Class Current: 435/6
• CPC Class Codes: C12Q 1/6816 characterised by the detection means C12Q1/6804 takes precedence
• CPC Class Codes: C12Q 2563/107 fluorescence
• CPC Class Codes: C12Q 2565/1025 labels being on the same oligonucleotide

Abstract

The present teachings generally relate to probes and probes sets for detecting analytes. The teachings also relates to compositions, methods, and kits for assembling probes comprising at least one coded molecular tag.

Claims

1. A probe comprising at least one reaction portion and at least one identity portion comprising at least one coded molecular tag.

2. The probe of claim 1, further comprising at least one capture ligand.

3. The probe of claim 1, further comprising at least one crosslinker.

4. The probe of claim 3, wherein the crosslinker is cleavable.

5. The probe of claim 1, wherein the coded molecular tag comprises a multiplicity of fluorescent reporter group species.

6. The probe of claim 5, further comprising at least one capture ligand, at least one cleavable crosslinker, or both at least one capture ligand, at least one cleavable crosslinker.

7. A probe set comprising at least one first probe comprising at least one first reaction portion and at least one second probe comprising at least one second reaction portion, wherein at least one probe further comprises at least one identity portion comprising at least one coded molecular tag.

8. The probe set of claim 7, wherein at least one probe further comprises at least one analytical portion.

9. The probe set of claim 8, wherein the at least one analytical portion comprises at least one capture ligand, at least one hybridization tag, at least one mobility modifier, at least one aptamer, or combinations thereof.

10. The probe set of claim 9, wherein at least one probe comprises at least identity portion comprising at least one coded molecular tag and at least one corresponding probe comprises at least one reporter group species.

11. The probe set of claim 10, wherein the at least one identity portion further comprises at least one capture ligand.

12. A method for assembling at least one probe comprising,

combining at least one coded molecular tag with at least one oligonucleotide comprising at least one reaction portion;

and

assembling at least one probe.

13. The method of claim 12, further comprising covalently attaching the at least one coded molecular tag to the at least one oligonucleotide.

14. The method of claim 13, wherein the covalently attaching comprises ligating the at least one probe.

15. The method of claim 14, further comprising at least one ligation template.

16. The method of claim 13, wherein the at least one probe further comprises at least one affinity tag.

17. The method of claim 13, wherein the at least one probe further comprises at least one crosslinker, at least one adapter, or at least one crosslinker and at least one adapter.

18. The method of claim 17, wherein the at least one crosslinker is cleavable.

19. The method of claim 16, wherein the at least one probe further comprises at least one hybridization tag, at least one aptamer sequence, at least one mobility modifier, or combinations thereof.

20. A method for assembling at least one probe comprising,

combining at least one coded molecular tag with at least one protein, at least one peptide, or at least one protein and at least one peptide;

and

assembling at least one probe.

21. The method of claim 20, wherein the at least one protein or the at least one peptide comprises at least one antibody, at least one peptide aptamer, at least one biotin or at least one derivative of biotin, at least one avidin or at least one derivative of avidin, at least one streptavidin or at least one derivative of streptavidin, at least one binding protein, or combinations thereof.

22. The method of claim 20, further comprising covalently attaching the at least one coded molecular tag to the at least one protein, the at least one peptide, or the at least one protein and the at least one peptide.

23. The method of claim 20, further comprising at least one affinity tag.

24. The method of claim 22, further comprising at least one crosslinker.

25. The method of claim 24, wherein the at least one crosslinker is cleavable.

26. A kit comprising, at least one coded molecular tag and at least one oligonucleotide comprising at least one reaction portion.

27. The kit of claim 26, further comprising at least one crosslinker.

28. The kit of claim 26, further comprising at least one ligation template, at least one ligation agent, at least one polymerase, or combinations thereof.

29. The kit of claim 26, further comprising at least one capture ligand, at least one hybridization tag, at least one aptamer sequence, at least one mobility modifier, or combinations thereof.

30. A kit comprising, at least one coded molecular tag and at least one peptide, at least one oligopeptide, at least one protein, or combinations thereof.

31. The kit of claim 30, wherein the at least one peptide, the at least one oligopeptide, or the at least one peptide and the at least one oligopeptide comprise at least one peptide aptamer, at least one binding peptide, or both at least one peptide aptamer and at least one binding peptide.

32. The kit of claim 30, wherein the at least protein comprises at least one antibody, at least one binding protein, or at least one antibody and at least one binding protein.

33. The kit of claim 30, further comprising at least one crosslinker.

34. The kit of claim 30, further comprising at least one capture ligand, at least one hybridization tag, at least one aptamer sequence, at least one mobility modifier, or combinations thereof.