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PTEN Deletion by FISH

Item Value
Available Stat? No
Test code
Test group Oncology FISH
Performed by Clinical Cancer Genomics Laboratory (CCGL)
In House Availability Test performed once a week, with DNA extraction set up on Mondays and Wednesdays, test run on Tuesday or Wednesday, day shift only
Method Fluorescent in-situ hybridization (FISH)
Collection Instructions Testing should be ordered only on surgical excision samples. Biopsy material is not appropriate. Blocks selected for MSI PCR testing must contain both tumor and normal tissue. If only tumor is present on the block, select an additional block with normal tissue

Areas of tumor must contain at least 50% tumor cells. The lab can remove adjacent non-tumor tissue, so the entire slide does not need 50% tumor cells, just the area with tumor. Contact the laboratory (415-514-1035, AGCLab@ucsf.edu) if the specimen suitability is uncertain. Label slides with pathology case number and block identification.

Complete an Applied Genomics Laboratory requisition and submit it with samples.

Click here for requisition form
Container type
Sample type Formalin-fixed, paraffin-embedded tissue on three (3) unstained slides (5 microns thick) on charged glass. One adjacent hematoxylin and eosin stained (H&E) slide should also be included. Slides should be labeled with pathology case number and block identification.
UCSF Rejection Criteria All required slides not included. Insufficient tumor or normal tissue present on slide as determined by pathologist. Slides not labeled or not accompanied by completed requisition form (if not ordered directly through Department of Pathology).
Processing notes Contact CCGL at 415-502-3252 and inform them that a sample is available for pickup and your location.
Units Ratio and number of PTEN and CEP10 signals
Normal range Normal Range: Ratio >0.8 (no deletion of PTEN); Signals >1.6 (no loss of chromosome 10)
Stability Formalin-fixed, paraffin-embedded tissues are stable indefinitely at room temperature
Turn around times 7-10 days
Additional information An interpretation of this test by a laboratory physician will automatically be performed and billed for separately.

PTEN deletion by FISH is designed to detect either a deletion of the PTEN locus or loss of the entire 10th chromosome. This feature is seen in glioblastoma, especially the small cell variant.

The clinical interpretation of this test should be evaluated within the context of the patient's medical history, other diagnostic tests, and the histologic and immunohistochemical features of the tumor.

The test was validated by the UCSF Clinical Cancer Genomics Laboratory (CCGL) to confirm performance characteristics, in compliance with current guidelines for clinical implementation
LDT or Mod FDA? Yes
Last Updated 10/1/2015 8:55:24 AM
Entry Number 1321
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