- ICH GCP
- US Clinical Trials Registry
- Clinical Trial NCT04586075
UW Undiagnosed Genetic Diseases Program
Study Overview
Status
Conditions
Intervention / Treatment
Detailed Description
An estimated 10,000 rare Mendelian genetic disorders affect, in aggregate, one in twelve individuals. Importantly, just over half of these diseases have a known genetic cause. This leaves thousands of disease genes waiting to be discovered and millions of affected individuals without a diagnosis. The investigators will address these critical issues in genomic medicine by using genome sequencing and other 'omics technologies to assess patients whose comprehensive clinical workups have failed to yield a diagnosis. The hypothesis is that, when carefully selected, these undiagnosed disease patients will be a rich resource for new disease gene discovery.
This study is the research arm of the UW Undiagnosed Disease program (UW-UDP). The primary objective of this study is to discover new disease genes and expand the known phenotypes of rare Mendelian disorders. The secondary objectives are: a) Diagnose individuals with genetic disorders who have not been diagnosed using conventional clinical means and provide them with actionable knowledge to manage their disorders; b) Improve our understanding of the pathobiology of genetic disorders and the relationships between genomic variation and disease; and c) Develop and trial novel diagnostic technologies and analytics.
These objectives will be achieved through three aims:
Aim 1: Identify candidate disease variants in individuals suspected of an undiagnosed genetic disorder through the use of trio short read genome sequencing and data sharing with the rare disease databases GeneMatcher and MatchMaker Exchange.
Aim2: Further evaluate those individuals not diagnosed in Aim 1 by using novel 'omics technologies and bioinformatics algorithms. These approaches include a) ultra-long read de novo assembly-based genomic sequencing; b) RNA-Seq; c) epigenomics profiling, and d) conformational analysis of chromatin organization.
Aim 3: Provide functional assessments of selected candidate disease genes and genomic variants discovered in Aims 1 and 2 through collaborations with UW and external model organism researchers. These efforts will be facilitated through the use of a UW model organism researcher database that is linked to the Canadian Rare Diseases Models and Mechanisms Network database and an emerging global network of model organism researcher databases.
This research project is closely integrated with the UW-UDP's comprehensive clinical evaluations of undiagnosed patients. The standard clinical care component entails patient referral, collection and pre-visit assessment of medical records, and clinic visits for extensive phenotyping at the beginning of the study and for the return of results at the end of the study. The research workflow includes genome sequencing, data sharing with global disease gene discovery networks, and follow-up studies to determine causality of variants identified by genetic testing. This study will advance understanding of the pathobiology of genetic disease, improve clinical diagnostics, and aid in the diagnosis and management of individuals with previously undiagnosed rare disorders both within Wisconsin and beyond its borders.
Study Type
Enrollment (Estimated)
Contacts and Locations
Study Contact
- Name: Jadin Heilmann
- Phone Number: (608) 263-5877
- Email: research@CHGPM.wisc.edu
Study Locations
-
-
Wisconsin
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Madison, Wisconsin, United States, 53705
- Recruiting
- University of Wisconsin School of Medicine and Public Health
-
Contact:
- Study Coordinator
- Phone Number: 608-263-5877
- Email: research@CHGPM.wisc.edu
-
Principal Investigator:
- Stephen Meyn, MD PhD ABMGG
-
Principal Investigator:
- Elizabeth Petty, MD
-
-
Participation Criteria
Eligibility Criteria
Ages Eligible for Study
Accepts Healthy Volunteers
Sampling Method
Study Population
Description
Inclusion Criteria:
- The applicant has a condition that remains undiagnosed despite thorough evaluation by healthcare providers (including clinical genetic testing).
- The applicant has at least one objective finding that is likely to have an identifiable genetic etiology.
- The applicant likely has a currently undescribed/new genetic condition or a known genetic condition associated with a novel gene.
- The applicant/legal guardian agrees to the collection, storage and recurrent sharing of coded information and biomaterials for research and diagnostic purposes both within and outside of the University of Wisconsin-Undiagnosed Diseases Program (UW-UDP)
- The applicant/legal guardian agrees to receive secondary findings from genetic testing.
- The applicant/legal guardian has sufficient proficiency in English to understand the consent.
Exclusion Criteria:
- The applicant already has a diagnosis that explains the objective findings.
- A specific diagnosis is suspected and a standard clinical workup performed by the referring/primary care provider would be appropriate.
- The UW-UDP is unlikely to improve on the comprehensive workup the applicant has already received.
- The applicant's symptoms are likely multifactorial or due to a non-genetic cause.
Study Plan
How is the study designed?
Design Details
- Observational Models: Cohort
- Time Perspectives: Prospective
Cohorts and Interventions
Group / Cohort |
Intervention / Treatment |
---|---|
Undiagnosed Disease Group
Blood or other relevant biological samples obtained from consenting research subjects will be banked and extracted for DNA and RNA.
|
The initial evaluation begins with short-read genome sequencing of DNA extracted from blood of affected individual(s) and participating family members (The most common approach will be trio whole genome sequencing, which involves the affected child + their parents). Additional evaluation may include: functional assessments, animal modeling, reverse phenotyping (may require an interim visit), epigenetic profiling, or clinical database matching through selective sharing of coded patient data with external collaborators (e.g., via Matchmaker Exchange and Phenome Central), long read genome sequencing, de novo genome assembly, RNA sequencing, and novel bioinformatics analyses |
What is the study measuring?
Primary Outcome Measures
Outcome Measure |
Time Frame |
---|---|
Number of New Disease Genes Discovered
Time Frame: up to 5 years
|
up to 5 years
|
Number of Expanded Disease Gene Phenotypes
Time Frame: up to 5 years
|
up to 5 years
|
Secondary Outcome Measures
Outcome Measure |
Measure Description |
Time Frame |
---|---|---|
Number of Participants who are Diagnosed in 5 years
Time Frame: up to 5 years
|
A secondary objective of this study is to diagnose individuals with genetic disorders who have not been diagnosed using conventional clinical means and provide them with actionable knowledge to manage their disorders.
This will be measured as the rate of diagnosis over the entire study.
|
up to 5 years
|
Number of Participants Diagnosed per Analytical Technique
Time Frame: up to 5 years
|
A secondary aim of this study is to develop and trial novel diagnostic technologies and analytics.
The diagnosis rate per novel analytic technique will be assessed.
|
up to 5 years
|
Diagnostic Rate by Disease Presentation
Time Frame: up to 5 years
|
To improve understanding of the pathobiology of genetic disorders and the relationships between genomic variation and disease, number of participants diagnosed by disease presentation will be reported.
|
up to 5 years
|
Collaborators and Investigators
Sponsor
Investigators
- Principal Investigator: Stephen Meyn, MD PhD ABMGG, University of Wisconsin, Madison
Study record dates
Study Major Dates
Study Start (Actual)
Primary Completion (Estimated)
Study Completion (Estimated)
Study Registration Dates
First Submitted
First Submitted That Met QC Criteria
First Posted (Actual)
Study Record Updates
Last Update Posted (Actual)
Last Update Submitted That Met QC Criteria
Last Verified
More Information
Terms related to this study
Keywords
Additional Relevant MeSH Terms
Other Study ID Numbers
- 2020-0700
- SMPH (Other Identifier: UW Madison)
- Protocol Version 8/20/2020 (Other Identifier: UW Madison)
Plan for Individual participant data (IPD)
Plan to Share Individual Participant Data (IPD)?
IPD Plan Description
Data from the UW-UDP will be shared via PhenomeCentral (https://www.phenomecentral.org) and Matchmaker Exchange (https://www.matchmakerexchange.org/).
Data, images, and/or specimens will be shared in compliance with the NIH Genomic Data Sharing Policy and with other clinicians and researchers who may have similar patients and/or specific expertise/assays relevant to the participant's disorder. In this regard, a limited amount of non-PHI containing patient data will be shared with pre-vetted model organism collaborators at UW and elsewhere via our Center's local node of the Rare Diseases Models and Mechanisms Network (http://rdmmn.biotech.wisc.edu). This network facilitates the identification of model organism researchers who are willing and able to functionally assess the pathogenicity of candidate disease gene variants in rare disease patients (see http://www.rare-diseases-catalyst-network.ca for details).
Drug and device information, study documents
Studies a U.S. FDA-regulated drug product
Studies a U.S. FDA-regulated device product
This information was retrieved directly from the website clinicaltrials.gov without any changes. If you have any requests to change, remove or update your study details, please contact register@clinicaltrials.gov. As soon as a change is implemented on clinicaltrials.gov, this will be updated automatically on our website as well.
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