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Array CGH, constitutional

Item Value
Test Update Information Microarray results are reported based on the human genome build 19 (hg19/GRCh37). Cases prior December 1st, 2011, were reported based on hg18/NCBI36. Which human genome build is used must be noted when looking up regions in publically available databases.
Approval req'd? Yes, if not ordered by Genetics, Neurology or Neonatal Intensive Care Unit faculty or fellows. Requests on inpatients require approval from Cytogenetics/Array staff.
Available Stat? No
Utilization Guidelines Tests with long turn-around times (ie. Molecular based tests and Microarrays) should only be requested on an inpatient if the result is going to affect the inpatient management.

If the patient will likely be discharged before the result will be available, the test should be requested after discharge. (NOTE: UCSF Medical Center is not reimbursed for inpatient testing).

An exception to the above may be appropriate if there is a possibility the patient will not survive to be discharged and the information is important for diagnosis and/or family decisions/management (ie. recurrence risk).
Test code ACGHC
Test group Microarray
Performed by Medical Genomics - Cytogenetics (Microarray)
In House Availability Set up once per week
Method 180K oligonucleotide CGH microarray using ISCA design

Click here to view probe locations
Patient Preparation None
Collection Instructions Insurance pre-authorization required for outpatients

Only collect samples Monday - Friday and avoid holidays.

Do not collect sample in lithium heparin (Lt. Green top).

Transport sample at room temperature as soon as possible to lab. If transport is delayed refrigerate sample.

For UCSF Samples (from remote sites) Click here for sample collection instructions

For NON-UCSF Samples Click here for Requisition form & Account set-up instructions. Note we only do institutional billing.
Container type Lavender top preferred, Dark Green top acceptable
Amount to Collect
Adult 5 mL blood
Infant/Child 3 mL blood
Sample type EDTA or Herparinized whole blood, Extracted DNA, bone marrow
Preferred volume
Adult 5 mL whole blood
Infant/child 3 mL whole blood
Extracted DNA 10 micrograms
Min. Volume
Adult 2 mL whole blood
Infant/child 2 mL whole blood
Extracted DNA 10 micrograms
UCSF Rejection Criteria Insufficient volume, unlabeled tubes, clotted samples, Samples received in Lithium-heparin (Lt. Green top) tubes
Processing notes Refrigerate samples DO NOT CENTRIFUGE OR FREEZE. Transport asap to China Basin Cytogenetics

For questions, contact the microarray laboratory at 514-8964
Normal range Normal
Synonyms Constitutional microarray; Oligo HDscan; aCGH; constitutional array CGH; chromosome microarray analysis; CMA; Oligoarray
Stability Room temperature 4 days, refrigerated 2 weeks.
Turn around times 10-14 days
Additional information An interpretation of this test by a laboratory physician will automatically be performed and billed for separately.

For questions, contact the microarray laboratory at 514-8964

Genomic aberrations that cannot be detected by array CGH assay include:
1. Balanced rearrangement (i.e. balanced translocation, balanced insertion/deletion or inversion)
2. Low level mosaicism
3. Nucleotide sequence changes (i.e. point mutation or small insertion/deletion below the level of detection – per established guidelines <200kb for duplication and deletion)
4. Epigenetic events (i.e. uni-parental disomy, imprinting mutation)
5. Imbalances of regions not represented on the microarray
6. Ploidy change without additional aberration (i.e. 69,XXX)
CPT coding 81228
LDT or Mod FDA? Yes
Last Updated 2/24/2015 1:25:19 PM
Entry Number 1185
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