Detection and quantification of analytes in solution using polymers

• US 7,977,048 B2
• Filed: 01/13/2005
• Issued: 07/12/2011
• Est. Priority Date: 01/13/2004
• Status: Expired due to Fees

• Current Assignee: PathoGenetix, Inc. (Toxic Reports LLC)
• Original Assignee: PathoGenetix, Inc. (Toxic Reports LLC)
• Inventors: Gilmanshin, Rudolf
• Primary Examiner(s): Martinell; James
• Application Number:
  US11/035,417
• Publication Number:
  US 20050153354A1
• Time in Patent Office: 2,371 Days
• Field of Search: None
• US Class Current: 435/6
• CPC Class Codes: G01N 33/542 with steric inhibition or signal modification, e.g. fluorescent quenching

Abstract

The invention relates to methods and systems for identifying, quantitating and/or analyzing analytes from samples. The analytes may be organic or inorganic in nature and include but are not limited to pathogens such as viruses.

Claims

1. A method for detecting an analyte in a sample comprising

contacting a sample with a polymer having bound to it a plurality of analyte-specific binding partners,

detecting binding of an analyte to at least one of the plurality of analyte-specific binding partners, and

determining a labeling pattern of the polymer while the plurality of analyte-specific binding partners is bound to the polymer,

wherein the labeling pattern of the polymer is a spatial pattern of detectable labels along the length of the polymer that indicates the identity of the analyte, and wherein the polymer is a non-naturally occurring nucleic acid.

2. The method of claim 1, wherein the analyte is a plurality of analytes, the polymer is a plurality of polymers, and the analyte-specific partner is a plurality of analyte-specific polymers.

3. The method of claim 1, wherein the analyte-specific binding partner is an antibody.

4. The method of claim 1, wherein binding of the analyte to the analyte specific binding partner is detected using a secondary analyte-specific binding partner.

5. The method of claim 4, wherein the secondary analyte-specific binding partner is conjugated to a detectable label.

6. The method of claim 4, wherein the analyte-specific binding partner and the secondary analyte-specific binding partner is each labeled with a member of a FRET pair.

7. The method of claim 1, wherein the analyte is directly detectable and binding of the analyte to the analyte-specific binding partner is directly detected.

8. The method of claim 1, wherein the labeling pattern of the polymer is a spatial pattern of one or more sequence-specific probes bound along the length of the polymer.

9. The method of claim 1, wherein the detectable labels are conjugated to one or more sequence-specific probes.

10. The method of claim 1, wherein the detectable labels are incorporated into the polymer.

11. The method of claim 1, further comprising quantifying analyte concentration in the sample by determining an amount of analyte bound to the plurality of analyte-specific binding partners and comparing with a standard curve.

12. The method of claim 1, further comprising harvesting an analyte-bound polymer.

13. The method of claim 12, further comprising analyzing the analyte bound to the polymer.

14. The method of claim 1, wherein the analyte is a nucleic acid, a carbohydrate, a protein, a peptide, a lipid, a toxin, a cell, a spore, a cellular fragment or a spore fragment.

15. The method of claim 1, wherein the polymer is elongated prior to or simultaneously with determining the labeling pattern of the polymer.

16. The method of claim 1, wherein the labeling pattern of the polymer is a spatial pattern of analyte-specific binding partners bound along the length of the polymer.

17. The method of claim 1, wherein the labeling pattern of the polymer is determined using a focused flow through an electric field.

18. A method for detecting an analyte in a sample comprising

contacting a sample with a polymer having bound to it an analyte-specific binding partner,

detecting binding of an analyte to the analyte-specific binding partner, and

determining a labeling pattern of the polymer while the plurality of analyte-specific binding partners is bound to the polymer,

wherein the labeling pattern of the polymer indicates the identity of the analyte, and the polymer is a non-naturally occurring nucleic acid that is at least 80 kilobases in length.

19. A method for detecting an analyte in a sample comprising

contacting a sample with a polymer having bound to it a plurality of analyte-specific binding partners,

detecting binding of an analyte to at least one of the plurality of analyte-specific binding partners, and

determining a labeling pattern of the polymer while the plurality of analyte-specific binding partners is bound to the polymer,

wherein the polymer is a non-naturally occurring nucleic acid, the labeling pattern of the polymer is a spatial pattern of analyte-specific binding partners bound along the length of the polymer or one or more sequence-specific probes bound along the length of the polymer, and the labeling pattern of the polymer indicates the identity of the analyte.