Methods for diagnosing and treating systemic lupus erythematosus disease and compositions thereof
First Claim
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1. A method of diagnosing a subject with systemic lupus erythematosus, the method comprising the step of comparing:
- a) a level of expression of a marker in a sample from the subject, wherein the marker is selected from the group consisting of markers listed in Tables 1 and 3-8, and b) a normal level of expression of the marker in a control sample, wherein a substantial difference between the level of expression of the marker in the sample from the subject and the normal level is an indication that the subject is afflicted with systemic lupus erythematosus.
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Abstract
The present invention is directed to novel methods for diagnosis and prognosis of Systemic lupus erythematosus by identifying differentially expressed genes. Moreover, the present invention is also directed to methods that can be used to screen test compounds and therapies for the ability to inhibit systemic lupus erythematosus. Additionally, methods and molecule targets (genes and their products) for therapeutic intervention in systemic lupus erythematosus are described.
45 Citations
58 Claims
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1. A method of diagnosing a subject with systemic lupus erythematosus, the method comprising the step of comparing:
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a) a level of expression of a marker in a sample from the subject, wherein the marker is selected from the group consisting of markers listed in Tables 1 and 3-8, and b) a normal level of expression of the marker in a control sample, wherein a substantial difference between the level of expression of the marker in the sample from the subject and the normal level is an indication that the subject is afflicted with systemic lupus erythematosus. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17)
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18. A method of diagnosing a subject with systemic lupus erythematosus, the method comprising the step of comparing:
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a) a level of expression in a sample of the subject of each of a panel of markers independently selected from the markers listed in Tables 1 and 3-8, and b) a normal level of expression of the panel of markers obtained from a control sample, wherein the level of expression of the panel of markers is substantially different, relative to the corresponding normal level of expression of the panel of markers, indicates that the subject is afflicted with systemic lupus erythematosus. - View Dependent Claims (19, 20, 21, 22)
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23. A method for monitoring the progression of systemic lupus erythematosus in a subject, the method comprising the steps of:
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a) detecting in a subject sample at a first point in time, a level of expression of at least one marker, wherein the at least one marker is selected from the group consisting of markers listed in Tables 1 and 3-8;
b) repeating step a) at a subsequent point in time with the at least one marker;
c) detecting a substantial difference between the levels of expression detected in steps a) and b);
wherein the substantial difference between the levels of expression indicates that the subject has progressed to a different stage of systemic lupus erythematosus. - View Dependent Claims (24, 25, 26)
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27. A method of assessing the efficacy of a test compound for inhibiting systemic lupus erythematosus in a subject, the method comprising the step of comparing:
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a) expression of a marker in a first sample obtained from the subject and exposed to the test compound, wherein the marker is selected from the group consisting of markers listed in Tables 1 and 3-8, and b) expression of the same marker in a second sample obtained from the subject, wherein the second sample is not exposed to the test compound, wherein a substantially different level of expression of the marker in the first sample, relative to the second sample, is an indication that the test compound is efficacious for inhibiting systemic lupus erythematosus in the subject. - View Dependent Claims (28, 29)
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30. A method of assessing the efficacy of a therapy for inhibiting systemic lupus erythematosus in a subject, the method comprising the steps of comparing:
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a) expression of a marker in a first sample obtained from the subject prior to providing at least a portion of the therapy to the subject, wherein the marker is selected from the group consisting of markers listed in Tables 1 and 3-8, and b) expression of the marker in a second sample following provision of the portion of the therapy, wherein a substantially different level of expression of the marker in the second sample, relative to the first sample, is an indication that the test compound is efficacious for inhibiting systemic lupus erythematosus in the subject. - View Dependent Claims (31, 32)
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33. A method of screening test compounds for inhibitors of systemic lupus erythematosus, the method comprising the steps of:
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a) obtaining a sample comprising cells from the subject;
b) separately maintaining aliquots of the sample in the presence of a plurality of test compounds;
c) comparing the expression levels of a marker in each of the aliquots, wherein the marker is selected from the group consisting of markers listed in Tables 1 and 3-8; and
d) selecting one of the test compounds which induces a substantially different level of expression of the marker in the aliquot containing that test compound, relative to other test compounds. - View Dependent Claims (34, 35)
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36. A kit for diagnosing a subject with systemic lupus erythematosus, the kit comprising reagents for assessing expression of a marker selected from the group consisting of markers listed in Tables 1 and 3-8.
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37. A kit for diagnosing systemic lupus erythematosus in a subject, the kit comprising a nucleic acid probe wherein the probe specifically binds with a transcribed polynucleotide corresponding to a marker selected from the group consisting of markers listed in Tables 1 and 3-8.
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38. A kit for assessing the suitability of each of a plurality of compounds for inhibiting progression of systemic lupus erythematosus in a subject, the kit comprising:
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a) the plurality of compounds; and
b) a reagent for assessing expression of a marker selected from the group consisting of markers listed in Tables 1 and 3-8.
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39. A kit for diagnosing systemic lupus erythematosus in a subject, the kit comprising an antibody, wherein the antibody specifically binds with a protein corresponding to a marker selected from the group consisting of markers listed in Tables 1 and 3-8.
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40. A method of modulating a level of expression of a marker selected from the markers listed in Tables 1 and 3-8, the method comprising providing to diseased cells of a subject an antisense oligonucleotide complementary to a polynucleotide corresponding to the marker.
- 41. A method of modulating a level of expression of a marker selected from the markers listed in Tables 1 and 3-8, the method comprising providing to diseased cells of a subject a protein.
- 43. A method of modulating a level of expression of a marker selected from the markers listed in Tables 1 and 3-8, the method comprising providing to diseased cells of a subject an antibody.
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46. A method of localizing a therapeutic moiety to diseased tissue comprising exposing the tissue to an antibody which is specific to a protein encoded from a marker listed in Tables 1 and 3-8.
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47. A method of localizing a therapeutic moiety to diseased tissue comprising exposing the tissue to a plurality of antibodies which are each specific to a protein encoded from a marker listed in Tables 1 and 3-8.
- 48. A method of screening for a test compound capable of modulating the activity of a protein encoded from a marker listed in Tables 1 and 3-8, the method comprising combining the protein and the test compound, and determining the effect of the test compound on the therapeutic efficacy of the protein.
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49. A method of screening for a bioactive agent capable of interfering with the binding of a protein encoded from a marker listed in Tables 1 and 3-8 and an antibody which binds to the protein, the method comprising:
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a) combining the protein, a bioactive agent and an antibody which binds to the protein; and
b) determining the binding of the protein or fragment thereof and the antibody. - View Dependent Claims (52)
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50. An antibody which specifically binds to a protein encoded from a marker listed in Tables 1 and 3-8.
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53. A peptide encoded from markers listed in Tables 1 and 3-8.
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55. A composition capable of modulating an immune response in a subject, the composition comprising a protein encoded from a marker listed in Tables 1 and 3-8, and a pharmaceutically acceptable carrier.
- 56. A biochip comprising a panel of markers selected from the group of markers listed in Tables 1 and 3-8.
Specification