GTR Test Accession:
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GTR000553713.7
Last updated in GTR:
2020-09-11
View version history
GTR000553713.7,
last updated:
2020-09-11
GTR000553713.6,
last updated:
2020-09-09
GTR000553713.5,
last updated:
2018-07-03
GTR000553713.4,
last updated:
2018-02-22
GTR000553713.3,
last updated:
2017-12-04
GTR000553713.2,
last updated:
2017-06-02
GTR000553713.1,
registered in GTR:
2017-06-02
Last annual review date for the lab: 2024-05-20
LinkOut
At a Glance
Test purpose:
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Diagnosis;
Mutation Confirmation;
Pre-symptomatic; ...
Conditions (106):
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Triglyceride storage disease with ichthyosis;
3-Methylglutaconic aciduria type 2;
3-Methylglutaconic aciduria type 3
more...
Genes (83):
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Methods (3):
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Molecular Genetics - Deletion/duplication analysis: Next-Generation (NGS)/Massively parallel sequencing (MPS); ...
Target population: Help
Patients with clinical features suggestive of a metabolic myopathy, including …
Clinical validity:
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Not provided
Clinical utility:
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Not provided
Ordering Information
Offered by:
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Specimen Source:
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- Cell culture
- Fetal blood
- Fibroblasts
- Fresh tissue
- Isolated DNA
- Peripheral (whole) blood
- White blood cell prep
- View specimen requirements
Who can order: Help
- Genetic Counselor
- Health Care Provider
- Licensed Physician
Test Order Code:
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10049
View other test codes
View other test codes
How to Order:
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Please visit Lab website for details. Additional specimen types may be acceptable based on method. Please contact us about prenatal cases.
Order URL
Order URL
Test service:
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Clinical Testing/Confirmation of Mutations Identified Previously
OrderCode: 10049
Custom Deletion/Duplication Testing
OrderCode: 10049
Custom Sequence Analysis
OrderCode: 100, 200, 300
Maternal cell contamination study (MCC)
OrderCode: 800
OrderCode: 10049
Custom Deletion/Duplication Testing
OrderCode: 10049
Custom Sequence Analysis
OrderCode: 100, 200, 300
Maternal cell contamination study (MCC)
OrderCode: 800
Test additional service:
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Custom Prenatal Testing
OrderCode: 990
OrderCode: 990
Test development:
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Test developed by laboratory (no manufacturer test name)
Informed consent required:
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No
Pre-test genetic counseling required:
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No
Post-test genetic counseling required:
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No
Recommended fields not provided:
Lab contact for this test,
Contact policy,
Test strategy
Conditions
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Total conditions: 106
Condition/Phenotype | Identifier |
---|
Test Targets
Genes
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Total genes: 83
Gene | Associated Condition | Germline or Somatic | Allele (Lab-provided) | Variant in NCBI |
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Methodology
Total methods: 3
Method Category
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Test method
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Instrument
Deletion/duplication analysis
Next-Generation (NGS)/Massively parallel sequencing (MPS)
Other
Sequence analysis of the entire coding region
Next-Generation (NGS)/Massively parallel sequencing (MPS)
Other
Targeted variant analysis
Bi-directional Sanger Sequence Analysis
Applied Biosystems 3730 capillary sequencing instrument
Clinical Information
Test purpose:
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Diagnosis;
Mutation Confirmation;
Pre-symptomatic;
Risk Assessment;
Screening
Target population:
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Patients with clinical features suggestive of a metabolic myopathy, including muscle weakness, exercise intolerance, and rhabdomyolysis, are good candidates for this test.
Variant Interpretation:
What is the protocol for interpreting a variation as a VUS?
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The PreventionGenetics protocol for interpreting sequence variants has been carefully developed over a period of 10 years. We are conservative in our interpretations. We do not label a variant as pathogenic or benign without conclusive evidence. Although we use a variety of software to assist us in interpretation, we rely … View more
The PreventionGenetics protocol for interpreting sequence variants has been carefully developed over a period of 10 years. We are conservative in our interpretations. We do not label a variant as pathogenic or benign without conclusive evidence. Although we use a variety of software to assist us in interpretation, we rely … View more
Are family members with defined clinical status recruited to assess significance of VUS without charge?
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Yes. Please visit our website for details at https://www.preventiongenetics.com/forms.php for Targeted variant tests.
Yes. Please visit our website for details at https://www.preventiongenetics.com/forms.php for Targeted variant tests.
Will the lab re-contact the ordering physician if variant interpretation changes?
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Yes. Please visit our website for details http://preventiongenetics.com/
Yes. Please visit our website for details http://preventiongenetics.com/
Recommended fields not provided:
Clinical validity,
Clinical utility,
Is research allowed on the sample after clinical testing is complete?,
Sample negative report,
Sample positive report
Technical Information
Test Procedure:
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For PGxome® we use Next Generation Sequencing (NGS) technologies to cover the coding regions of targeted genes plus 10 bases of flanking non-coding DNA in all available transcripts along with other non-coding regions in which pathogenic variants have been identified at PreventionGenetics or reported elsewhere. As required, genomic DNA is …
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Availability:
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Tests performed
Entire test performed in-house
Entire test performed in-house
Analytical Validity:
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As of March 2016, 6.36 Mb of sequence (83 genes, 1557 exons) generated in our lab was compared between Sanger and NextGen methodologies. We detected no differences between the two methods. The comparison involved 6400 total sequence variants (differences from the reference sequences). Of these, 6144 were nucleotide substitutions and …
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Proficiency testing (PT):
Is proficiency testing performed for this test?
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Yes
Method used for proficiency testing: Help
Intra-Laboratory
Yes
Method used for proficiency testing: Help
Intra-Laboratory
VUS:
Software used to interpret novel variations
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GeneSplicer, Human Splicing Finder, MaxEntScan, Mutation Taster, NNSPLICE, PolyPhen 2, SIFT and Splice Site Finder.
Laboratory's policy on reporting novel variations Help
Sequence variants found in our patients are contributed to ClinVar. Anonymous patient sequence data will also be shared with researchers for preparation of peer-reviewed publications.
GeneSplicer, Human Splicing Finder, MaxEntScan, Mutation Taster, NNSPLICE, PolyPhen 2, SIFT and Splice Site Finder.
Laboratory's policy on reporting novel variations Help
Sequence variants found in our patients are contributed to ClinVar. Anonymous patient sequence data will also be shared with researchers for preparation of peer-reviewed publications.
Recommended fields not provided:
Test Confirmation,
Assay limitations,
Description of internal test validation method,
Citations for Analytical validity,
PT Provider,
Description of PT method,
Major CAP category, CAP category, CAP test list
Regulatory Approval
FDA Review:
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Category:
FDA exercises enforcement discretion
Additional Information
Reviews:
Clinical resources:
Molecular resources:
IMPORTANT NOTE:
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NIH makes no endorsements of tests or laboratories listed in GTR. GTR is not a substitute for medical advice.
Patients and consumers
with specific questions about a genetic test should contact a health care provider or a genetics professional.