GTR Test Accession:
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GTR000521392.3
Last updated in GTR: 2019-02-28
View version history
GTR000521392.3, last updated: 2019-02-28
GTR000521392.2, last updated: 2017-02-27
GTR000521392.1, last updated: 2016-02-26
Last annual review date for the lab: 2023-12-01
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At a Glance
Test purpose:
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Diagnosis;
Mutation Confirmation
Conditions (3):
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Tuberous sclerosis syndrome; Tuberous sclerosis 1; Tuberous sclerosis 2
Genes (2):
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TSC1 (9q34.13), TSC2 (16p13.3)
Methods (3):
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Molecular Genetics - Deletion/duplication analysis: Multiplex Ligation-dependent Probe Amplification (MLPA); ...
Target population: Help
Mainly cases fulfilling Tuberous sclerosis clinical diagnsotic criteria where it …
Clinical validity:
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Not provided
Clinical utility:
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Establish or confirm diagnosis;
Guidance for management;
Lifestyle planning; ...
Ordering Information
Offered by:
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Manufacturer's name:
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ICO-IMPPC_HC_Panel_V2.1
Specimen Source:
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- Fresh tissue
- FFPE tumors
- Isolated DNA
- Cord blood
- Cell culture
- Frozen tissue
- Peripheral (whole) blood
- Paraffin block
- Chorionic villi
- White blood cell prep
- Saliva
- View specimen requirements
Who can order: Help
- Licensed Physician
- Physician Assistant
- Public Health Mandate
- Health Care Provider
- Genetic Counselor
Test Order Code:
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TSC (direct or complet)
Lab contact:
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Contact Policy:
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Laboratory can only accept contact from health care providers. Patients/families are encouraged to discuss genetic testing options with their health care provider.
How to Order:
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Test service:
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Custom Deletion/Duplication Testing
Custom Sequence Analysis
Custom Balanced Chromosome Rearrangement Studies
Clinical Testing/Confirmation of Mutations Identified Previously
Result interpretation
Custom Sequence Analysis
Custom Balanced Chromosome Rearrangement Studies
Clinical Testing/Confirmation of Mutations Identified Previously
Result interpretation
Test additional service:
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Custom mutation-specific/Carrier testing
Custom Prenatal Testing
Custom Prenatal Testing
Test development:
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Test developed by laboratory (no manufacturer test name)
Informed consent required:
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Yes
Test strategy:
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1) Once we will have the necessary documentation (order form, informed consent and pedigree for familiar cases), the physician / researcher applicant will receive an e-mail confirming the cost of the study to be performed. 2) In case of compliance, the physician / investigator applicant must respond to this e-mail, …
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Pre-test genetic counseling required:
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Yes
Post-test genetic counseling required:
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Yes
Conditions
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Total conditions: 3
Condition/Phenotype | Identifier |
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Test Targets
Genes
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Total genes: 2
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
Multiplex Ligation-dependent Probe Amplification (MLPA)
Sequence analysis of select exons
Bi-directional Sanger Sequence Analysis
Sequence analysis of the entire coding region
Bi-directional Sanger Sequence Analysis
* Instrument: Not provided
Clinical Information
Test purpose:
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Diagnosis;
Mutation Confirmation
Clinical utility:
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Establish or confirm diagnosis
Guidance for management
Lifestyle planning
Predictive risk information for patient and/or family members
Reproductive decision-making
Guidance for management
Lifestyle planning
Predictive risk information for patient and/or family members
Reproductive decision-making
Target population:
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Mainly cases fulfilling Tuberous sclerosis clinical diagnsotic criteria where it is needed a genetic confirmation (complete study) or in cases where the analysis is needed to detect the presence of a previously identified mutation in a family (direct study)
Variant Interpretation:
What is the protocol for interpreting a variation as a VUS?
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We follow Clinical Molecular Genetic Society recommendations for the interpretation and reporting of unclassified variants (VUS).
We follow Clinical Molecular Genetic Society recommendations for the interpretation and reporting of unclassified variants (VUS).
Will the lab re-contact the ordering physician if variant interpretation changes?
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Yes.
Yes.
Recommended fields not provided:
Clinical validity,
Are family members with defined clinical status recruited to assess significance of VUS without charge?,
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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DNA is extracted from a patient's sample. An NGS library is prepared and enriched by capture in solution using our custom hereditary cancer sub-exome target panel (ICO-IMPPC_HC_Panel_V2.0), which include the whole coding regions of TSC1 (LRG_486) and TSC2 (LRG_487) genes among others. Enriched library is sequenced in a Illumina platform …
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Test Confirmation:
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Mutation is detected DNA level by NGS and validated by an independent technique (Sanger). Splicing mutations that are not previously described are also validated at RNA levels. Studies from patients with mosaicism two independent affected tissues from the same patient are analyzed to detect both first and second hits.
Availability:
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Tests performed
Entire test performed in-house
Entire test performed in-house
Analytical Validity:
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95% (n=20)
Assay limitations:
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Deep intronic mutations, copy number alterations and gross rearrangements, mosaicism
Proficiency testing (PT):
Is proficiency testing performed for this test?
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No
Method used for proficiency testing: Help
Intra-Laboratory
No
Method used for proficiency testing: Help
Intra-Laboratory
VUS:
Software used to interpret novel variations
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Polyphen, SIFT, PROVEAN, Condel, HSF, NNSplice, SpliceAIDs,
Polyphen, SIFT, PROVEAN, Condel, HSF, NNSplice, SpliceAIDs,
Recommended fields not provided:
Citations to support 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
Clinical resources:
Practice guidelines:
Consumer resources:
IMPORTANT NOTE:
NIH does not independently verify information submitted to GTR; it relies on submitters to provide information that is accurate and not misleading.
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.