Multiplexed DNA Origami-Based Biomarker Detection Assay for Early Dx of Arthritis

Summary

Principal Investigator: John E Mueller
Abstract: DESCRIPTION (provided by applicant): Arthritis (AR) is the leading cause of disability in the United States, with 50 million Americans (22%) suffering from some form of the disease or chronic joint symptoms. The CDC estimates that, by the year 2030, 67 million adults will have AR and the economic burden will reach an annual cost of $128 billion dollars. While most AR cases are classified as osteoarthritis (OA), affecting over 27 million Americans, other forms of the disease are also prevalent, including rheumatoid arthritis, juvenile arthritis and gout. AR is associated with the breakdown of collagen and the production of inflammation-related factors such as cytokines. The degradation of Type I and Type II collagens in AR patients results in the presence of detectable peptide biomarkers in urine;these include CTX-II, CTX-I and C2C. The levels of these biomarkers in urine track with the extent of cartilage damage in patients. The Osteoarthritis Biomarkers Network has classified these biomarkers regarding their applicability to OA diagnosis, prognosis and efficacy of treatment. Because AR can progress slowly, and often patients with cartilage degeneration are asymptomatic for years, diagnosing AR in its early stages and monitoring its progression has been a major challenge. We propose to develop a non-invasive, highly sensitive diagnostic assay for AR using DNA origami molecules that can detect these three biomarkers. In Phase I, we will evaluate the feasibility of performing DNA origami selections against the CTX-II, CTX-I and C2C peptides to identify DNA sequences that we will develop as probes in an assay to specifically diagnose AR. Three aims are proposed: AIM1: Design and construct a DNA origami library for AR biomarker selections. AIM 2: Isolate DNA origami molecules that interact with AR biomarker peptides. AIM 3: Identify and characterize DNA origami molecules that bind the AR biomarkers. Due to the DNA origami molecular structure, the interaction between these molecules and the AR biomarkers should exhibit increased binding affinities, which contributes significantly to the sensitivity and ingenuty of this diagnostic assay. This assay will provide the medical community with a reliable, non-invasive test for AR that offers increased sensitivity and convenience relative to current assays. Following successful completion of our Phase I aims, this work will continue into Phase II, with the development of a label-free, highly sensitive detection assay, using silicon nanowires to signal the presence of these biomarkers in urine. The development of a non-invasive multiplex diagnostic assay for AR has the potential to result in a clinical paradigm shift from therapies tha are largely palliative to one that focuses on identifying persons with early stage AR. The assay will also have a prognostic and treatment efficacy value for monitoring cartilage breakdown in patients receiving various treatments. Further, this assay will provide the necessary surveillance and an excellent vehicle to motivate afflicted individuals to make lifestyle-changing decisions (e.g. weight loss) to increase their quality of life. Lastly, if the feasibility of the method is demonstrated, the method could be applied to other candidate biomarkers in AR.
Funding Period: 2013-06-01 - 2014-05-31
more information: NIH RePORT

Research Grants

  1. Pacific NorthWest Regional Center of Excellence (PNWRCE)
    Jay A Nelson; Fiscal Year: 2013
  2. Early Detection and Quantification of OA
    Karen A Hasty; Fiscal Year: 2013
  3. Molecular Analyses and Interventions for Biodefense and Emerging Pathogens
    Olaf Schneewind; Fiscal Year: 2013
  4. JointADventure: A Worksite Activity-Diet Intervention for Chronic Knee Pain
    Rowland W Chang; Fiscal Year: 2013
  5. Novel Biomarkers and Causal Pathways in RA Susceptbility
    Karen H Costenbader; Fiscal Year: 2013
  6. Autoimmunity Center of Excellence (ACE) at Stanford
    CHARLES GARRISON FATHMAN; Fiscal Year: 2013
  7. DF/HCC Kidney Cancer SPORE
    David McDermott; Fiscal Year: 2013
  8. Center for Narcolepsy and Related Disorders (P50)
    Emmanuel J Mignot; Fiscal Year: 2013
  9. Mechanisms and Markers of Prostate Cancer Metastases
    ROBERT LOUIS VESSELLA; Fiscal Year: 2013

Detail Information

Research Grants31

  1. Pacific NorthWest Regional Center of Excellence (PNWRCE)
    Jay A Nelson; Fiscal Year: 2013
    ..pseudomallei host pathogen response during both the septicemic as well as the intracellular phases of the disease. ..
  2. Early Detection and Quantification of OA
    Karen A Hasty; Fiscal Year: 2013
    ....
  3. Molecular Analyses and Interventions for Biodefense and Emerging Pathogens
    Olaf Schneewind; Fiscal Year: 2013
    ..Research and training at the GLRCE is governed by a mechanism involving ongoing review of scientific excellence and translational goals, inter-institutional advisory boards and external scientific advisory bodies. ..
  4. JointADventure: A Worksite Activity-Diet Intervention for Chronic Knee Pain
    Rowland W Chang; Fiscal Year: 2013
    ....
  5. Novel Biomarkers and Causal Pathways in RA Susceptbility
    Karen H Costenbader; Fiscal Year: 2013
    ....
  6. Autoimmunity Center of Excellence (ACE) at Stanford
    CHARLES GARRISON FATHMAN; Fiscal Year: 2013
    ..The Stanford ACE proposes clinical research projects that encompass three different autoimmune diseases (SSc, psoriatic arthritis and SJIA), and proposes to study the MoA of therapeutics for preventing or treating different Al diseases. ..
  7. DF/HCC Kidney Cancer SPORE
    David McDermott; Fiscal Year: 2013
    ..The overall goal of the DF/HCC Kidney Cancer SPORE is the translation of biological and technological advances into clinically meaningful advances for patients with kidney cancer. ..
  8. Center for Narcolepsy and Related Disorders (P50)
    Emmanuel J Mignot; Fiscal Year: 2013
    ..We also want to understand why the immune system destroys hypocretin neurons in narcolepsy and to prevent/cure it. ..
  9. Mechanisms and Markers of Prostate Cancer Metastases
    ROBERT LOUIS VESSELLA; Fiscal Year: 2013
    ..It also conducts pre-clinical xenograft studies and provides statistical support to the overall P01 program. Core B is the Administrative Core which provides overall administrative support to the investigators. ..