Multi-analyte analysis of saliva biomarkers as predictors of periodontal and pre-implant disease

1. A diagnostic method to determine probability of an oral disease state comprising

(a) determining the levels of two or more biomarkers in a sample collected from a first individual, wherein a first biomarker is a bone-specific marker and a second biomarker is a plaque biofilm pathogen marker, said levels of said two or more biomarkers indicating the probability of said oral disease state, wherein the first biomarker is not type I collagen pyridinoline cross-linked telopeptide (ICTP);

wherein elevated levels of said two or more biomarkers from said first individual compared to levels of identical biomarkers from a second, healthy individual, or compared to biomarker levels of said first individual measured at an earlier time point are indicative of occurrence of oral disease in said first individual with a probability of diagnosing the disease state equal to or greater than 70%; and

(b) treating said oral disease by administering an amount of a therapeutic or prophylactic composition sufficient to reduce activity of said two or more biomarkers.

2. The method of claim 1 which determines susceptibility to oral disease and said levels of said two or more biomarkers are indicative of susceptibility to oral disease if said levels of said two or more biomarkers from said first individual are elevated compared to levels of identical biomarkers from the second individual.

3. The method of claim 1 wherein said levels of said two or more biomarkers are indicative of susceptibility to oral disease if said levels of said two or more biomarkers from said first individual are elevated compared to biomarker levels of the first individual measured at an earlier time point.

4. The method of claim 1 wherein said levels of said two or more biomarkers are indicative of progression of oral disease if said levels of said two or more biomarkers from said first individual are elevated compared to biomarker levels of the first individual measured at an earlier time point.

5. The method of claim 1 wherein the probability of diagnosing said disease is equal to or greater than 80%.

6. The method of claim 5 wherein the two or more biomarkers include the combinations of biomarkers as set out in Table 2.

7. The method of claim 1 wherein the levels of two biomarkers are determined.

8. The method of claim 1 wherein the levels of three, four, or five biomarkers are determined.

9. The method of claim 1 wherein the two or more biomarkers are selected from the group consisting of Aggregatibacter actinomycetemcomitans, Campylobacter rectus, Fusobacterium nucleatum, Prevotella intermedia, Porphyromonas gingivalis, Tannerella forsythia, Treponema denticola , matrix metalloproteinase-8 (MMP-8), matrix metalloproteinase-9 (MMP-9), osteoprotegerin (OPG), interleukin-1 beta (IL-1β), interleukin-6 (IL-6), interleukin-4 (IL-4), interleukin-10 (IL-10), interleukin-2 (IL-2), interleukin-13 (IL-13), calprotectin, tumor necrosis factor α (TNFα) and combinations thereof.

10. The method of claim 1 wherein the two or more biomarkers include the combinations of biomarkers as set out in Table 1.

11. The method of claim 1 wherein the probability is calculated in a method comprising the steps of:

determining the levels of two or more biomarkers in said first individual and a second individual,

generating a receiver operating characteristic (ROC) curve, and calculating area under said ROC curve (AUC), said area providing the probability of said oral disease.

12. The method of claim 1 wherein the sample is selected from the group consisting of a bodily fluid, tissue and organ.

13. The method of claim 12 wherein the fluid is saliva.

14. The method of claim 1 wherein the biomarker levels are biomarker protein levels in the sample.

15. The method of claim 1 wherein said oral disease is periodontal disease.

16. The method of claim 1 wherein said oral disease is peri-implant disease.

17. A kit for carrying out the method of claim 1 , the kit comprising: a) a sterile plastic tube for sample collection, and b) one or more components selected from the group consisting of one or more reagents for performing the assay, a calibration standard and a quality control sample.

18. The method of claim 1 , said two or more biomarkers further comprising determining the level of a third pro-inflammatory marker and/or the level of type I collagen pyridinoline cross-linked telopeptide (ICTP).

19. The method of claim 1 , wherein said oral disease is treated by administering an amount of a therapeutic composition to reduce activity of the two or more biomarkers.

20. The method of claim 1 wherein the composition comprises an inhibitory RNA, an antibody and/or an antibiotic.

21. The method of claim 1 wherein the probability of diagnosing said disease is equal to or greater than 90%.

22. The method of claim 21 wherein the two or more biomarkers include the combinations of biomarkers as set out in Table 3.

23. A diagnostic method to determine probability of an oral disease state comprising the step of determining the levels of two or more biomarkers in a sample collected from an individual, wherein a first biomarker is a bone-specific marker and a second biomarker is a plaque biofilm pathogen marker, said levels of said two or more biomarkers indicating the probability of said oral disease state, wherein the first biomarker is not type I collagen pyridinoline cross-linked telopeptide (ICTP);

wherein said method determines effectiveness of oral disease treatment, wherein said levels of said two or more biomarkers are indicative of effective oral disease treatment if said levels of said two or more biomarkers from said individual are decreased compared to levels of identical biomarkers from the individual measured at an earlier time point; and

wherein decreased levels of said two or more biomarkers are indicative of effective oral disease treatment in said individual with a probability equal to or greater than 70%, and

wherein increased levels of said two or more biomarkers in said individual compared to levels of identical biomarkers from the individual measured at an earlier time point are indicative of ineffective oral disease treatment, and the method then further comprises the step of treating said oral disease by administering an amount of a therapeutic composition to reduce activity of said two or more biomarkers.

24. The method of claim 23 wherein the composition comprises an inhibitory RNA, an antibody and/or an antibiotic.