Rapid and sensitive proximity-based assay for the detection and quantification of DNA binding proteins
First Claim
1. A method of determining the activity of a DNA binding factor in a sample comprising combining two nucleic acid components with the sample wherein (a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is labeled with a fluorescence donor and the other nucleic acid component is labeled with a fluorescence acceptor, and (c) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is detected by a proximity-based luminescence detection method.
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Accused Products
Abstract
Methods to determine the activity of any and all DNA binding factors, proteins or fragments thereof based upon the detection of a change in a luminescence or fluorescence signal are provided. Preferably, a fluorescence donor is attached to a nucleic acid comprising one portion of a DNA binding element and a fluorescence acceptor is attached to a nucleic acid comprising the other portion of the same binding element. Alternatively, a microsphere bead is attached to a nucleic acid comprising one portion of a binding element and a luminescent moiety or fluorochrome is attached to a nucleic acid comprising the other portion of the same binding element. Binding of a DNA binding factor to the nucleic acid components affects a change in luminescence. These methods may also be used to detect mediating analytes, to diagnose diseases and/or screen for drugs that mediate the activity of DNA binding factors.
13 Citations
36 Claims
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1. A method of determining the activity of a DNA binding factor in a sample comprising combining two nucleic acid components with the sample wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is labeled with a fluorescence donor and the other nucleic acid component is labeled with a fluorescence acceptor, and (c) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is detected by a proximity-based luminescence detection method.
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8. A method of detecting enhanceosome proteins in a sample comprising combining a DNA molecule with said sample wherein
(a) the DNA molecule comprises at least two DNA binding elements, (b) the DNA molecule is labeled at one position with a fluorescence donor and at another position with a fluorescence acceptor, (c) the binding of one or more enhanceosome proteins to the DNA molecule is detected by a proximity-based luminescence detection method.
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12. A method of detecting or quantifying the amount of an analyte in a sample comprising combining two nucleic acid components and at least one DNA binding factor with the sample wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is labeled with a fluorescence donor and the other nucleic acid component is labeled with a fluorescence acceptor, (c) the association of the DNA binding factor to the DNA binding element is detected by a proximity-based luminescence detection method, and (d) the association of the DNA binding factor to the DNA binding element is mediated by the analyte.
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20. A method of detecting or quantifying the amount of multiple different DNA binding factors in a sample comprising combining at least two sets of nucleic acid components with the sample wherein
(a) each nucleic acid component of a set of nucleic acid components comprises a portion of a DNA binding element wherein the combination of both nucleic acid components of said set of nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component of a set of nucleic acid components is labeled with a fluorescence donor and the other nucleic acid component of a set of nucleic acid components is labeled with a fluorescence acceptor, (c) each set of nucleic acid components is labeled with a unique combination of fluorescent donor and acceptor which emits light at a unique wavelength, and (d) the binding of one or more DNA binding factors contained within the sample to the DNA binding element is detected by a proximity-based luminescence detection method.
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23. A method for diagnosing a disease mediated by a DNA binding factor comprising combining a sample obtained from a subject with at least two nucleic acid components wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is labeled with a fluorescence donor and the other nucleic acid component is labeled with a fluorescence acceptor, (c) the sample comprises cellular extracts, and (d) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is detected by a proximity-based luminescence detection method.
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30. A method of determining the activity of a DNA binding factor in a sample comprising combining two nucleic acid components with the sample wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is labeled with an enzyme, cofactor or catalyst and the other nucleic acid component is labeled with a chemiluminescent substrate or a colorimetric substrate, and (c) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is determined by the detection of a change in luminescence or color.
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31. An array comprising multiple sets of nucleic acid constructs wherein
(a) each nucleic acid component of a set of nucleic acid components comprises a portion of a DNA binding element wherein the combination of both nucleic acid components of said set of nucleic acid components comprises a complete DNA binding element, and (b) one nucleic acid component of a set of nucleic acid components is labeled with a fluorescence donor and the other nucleic acid component of a set of nucleic acid components is labeled with a fluorescence acceptor,
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34. A method of determining the activity of a DNA binding factor in a sample comprising combining two nucleic acid components with the sample wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is linked to a microsphere and the other nucleic acid component is labeled with a fluorochrome, and (c) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is detected by flow cytometry.
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35. A method of determining the affinity of a DNA binding factor for a variant nucleic acid sequence comprising combining the variant nucleic acid sequence with the DNA binding factor and two nucleic acid components wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is labeled with a fluorescence donor and the other nucleic acid component is labeled with a fluorescence acceptor, and (c) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is detected by a proximity-based luminescence detection method.
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36. A method of determining the activity of a DNA binding factor in a sample comprising combining two nucleic acid components with the sample wherein
(a) each nucleic acid component comprises a portion of a DNA binding element wherein the combination of both nucleic acid components comprises a complete DNA binding element, (b) one nucleic acid component is linked to a microsphere that is imbued with a scintillant and the other nucleic acid component is labeled with a radioisotope, and (c) the binding of a DNA binding factor or factors contained within the sample to the DNA binding element is detected by a scintillation proximity assay.
Specification