Test Details
Methodology
The coding region and flanking splice sites are analyzed by NGS (+/-10bp) and deletion/duplication analysis. Exon-level deletions/duplications are assessed by aCGH or by MLPA. Analysis is expanded for BRCA1/2 flanking splice sites (+/-20bp) and to include promoter sequence variants for PTEN (c.-1300 to c.-750). Clinically significant findings are confirmed by Sanger sequencing or qPCR. Results are reported using ACMG guidelines and nomenclature recommended by the Human Genome Variation Society (HGVS).
Result Turnaround Time
21 - 28 days
Turnaround time is defined as the usual number of days from the date of pickup of a specimen for testing to when the result is released to the ordering provider. In some cases, additional time should be allowed for additional confirmatory or additional reflex tests. Testing schedules may vary.
Test Includes
ATM, BARD1, BRCA1, BRCA2, BRIP1, CDH1, CHEK2, FAM175A, MRE11A, MUTYH, NF1, NBN, PALB2, PTEN, RAD50, RAD51C, RAD51D, STK11 and TP53.
Use
This assay is intended for patients with a family history consistent with an inherited cancer syndrome.
Special Instructions
A hereditary cancer clinical questionnaire should be submitted with all specimens. Contact CMBP genetic services at 800-345-4363 to coordinate testing. To order Oragene Dx 500 saliva collection kits using PeopleSoft No. 87917, contact your local Labcorp branch supply department.
Limitations
Sequencing cannot detect variants in regions not covered by this analysis, including noncoding or deep intronic variants and may not reliably detect changes in repetitive elements, such as microsatellite repeats. Sequencing may not detect mosaic variants, inversions, or other genomic rearrangements such as transposable element insertions. Sequence analysis may also be affected by allele drop-out due to the presence of a rare variant under a primer site or homopolymeric regions. The method does not allow any conclusion as to whether two heterozygous variants are present on the same or on different chromosome copies.
Copy number variations are assessed by microarray or multiple-ligation-probe amplification assay (MLPA) to detect gross deletions and duplications. Copy number analyses are designed to detect single exon, multi-exon, and full gene deletions or duplications. These analyses may not detect certain genomic rearrangements, such as translocations (balanced or unbalanced), inversions, or some partial exon rearrangements. This assay cannot determine exact breakpoints of deletions or duplications detected.
The presence of pseudogenes can interfere with the ability to detect variants in certain genes.
Each gene sequence is interpreted independently of all other gene sequences; however, variants in different genes may interact to cause or modify a typically monogenic disease phenotype.
In addition, the presence of an inherited cancer syndrome due to a different genetic cause cannot be ruled out. Any interpretation given should be clinically correlated with available information about presentation and the patient's relevant family history.
This test is not intended to detect somatic variants. Bone marrow transplantation may affect the outcome of these results. Please contact Labcorp at 1-800-345-GENE to discuss testing options.
This test was developed and its performance characteristics determined by Labcorp. It has not been cleared or approved by the Food and Drug Administration.
Specimen Requirements
Specimen
Whole blood or saliva collected in an Oragene Dx collection kit
Volume
10 mL whole blood, 2 mL saliva
Minimum Volume
7 mL whole blood, 0.5 mL saliva
Container
Lavender-top (EDTA) tube or yellow-top (ACD) tube or Oragene Dx 500 saliva collection kit
Collection Instructions
Blood is collected by routine phlebotomy. Saliva is collected by spitting into the provided container until it reaches the fill line.
Stability Requirements
Temperature | Period |
---|---|
Room temperature | 60 days |
Refrigerated | 60 days |
Storage Instructions
Room temperature
Causes for Rejection
Frozen specimen; leaking tube; clotted specimen; grossly or hemolyzed specimen; quantity not sufficient for analysis; incorrect anticoagulant; saliva collection in an incorrect container. Do not eat, drink, smoke, or chew gum 30 minutes prior to saliva sample collection. See Oragene Dx 500 saliva kit for detailed instructions.
LOINC® Map
Order Code | Order Code Name | Order Loinc | Result Code | Result Code Name | UofM | Result LOINC |
---|---|---|---|---|---|---|
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481320 | Specimen Type | 31208-2 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481321 | Preauthorization | N/A | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481322 | Result Summary | 51968-6 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481323 | Result and Interpretation | 69548-6 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481324 | Recommendations | 47042-7 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481325 | Additional Information | 77202-0 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481326 | Methodology and Limitations | 49549-9 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481327 | References | 75608-0 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481328 | Director Review | 72486-4 | |
481319 | VistaSeq Breast Cancer Panel | 73977-1 | 481329 | 51969-4 | ||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481320 | |||||
Result Code Name | Specimen Type | |||||
UofM | ||||||
Result LOINC | 31208-2 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481321 | |||||
Result Code Name | Preauthorization | |||||
UofM | ||||||
Result LOINC | N/A | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481322 | |||||
Result Code Name | Result Summary | |||||
UofM | ||||||
Result LOINC | 51968-6 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481323 | |||||
Result Code Name | Result and Interpretation | |||||
UofM | ||||||
Result LOINC | 69548-6 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481324 | |||||
Result Code Name | Recommendations | |||||
UofM | ||||||
Result LOINC | 47042-7 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481325 | |||||
Result Code Name | Additional Information | |||||
UofM | ||||||
Result LOINC | 77202-0 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481326 | |||||
Result Code Name | Methodology and Limitations | |||||
UofM | ||||||
Result LOINC | 49549-9 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481327 | |||||
Result Code Name | References | |||||
UofM | ||||||
Result LOINC | 75608-0 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481328 | |||||
Result Code Name | Director Review | |||||
UofM | ||||||
Result LOINC | 72486-4 | |||||
Order Code | 481319 | |||||
Order Code Name | VistaSeq Breast Cancer Panel | |||||
Order Loinc | 73977-1 | |||||
Result Code | 481329 | |||||
Result Code Name | ||||||
UofM | ||||||
Result LOINC | 51969-4 |