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Laboratory Test Directory

Targeted Oncology Microarray Analysis

Components

Name Method Department Units
Targeted Oncology Microarray Analysis Microarray analysis
Molecular Genetics

Battery Members

Genome-wide SNP/ copy number microarray analysis for Neuroblastoma and Wilms Tumor with report of targeted regions of interest.

Specimen Requirements

Whole blood

Container Type Container Size Specimen Volume
Required

Purple tube (EDTA)

4 mL 4 mL
Stability

Room temperature - 2 day(s)
Refrigerated - 1 week(s)

Specimen Preparation

  • Do not centrifuge
  • Do not freeze
  • Transport to laboratory as soon as possible

Bone marrow

Container Type Container Size Specimen Volume
Alternate

Purple tube (EDTA)

4 mL 4 mL
Stability

Refrigerated - 1 week(s)
Room temperature - 2 day(s)

Specimen Preparation

  • Do not freeze
  • Do not centrifuge
  • Transport to laboratory as soon as possible
  • Tumor sample must contain a minimum of 40% tumor

Tissue (Fresh)

Container Type Container Size Specimen Volume
Alternate

Sterile container with saline

N/A mass 0.05 grams
Stability

Room temperature - 24 hour(s)

Specimen Preparation

  • Transport to lab on ice immediately after collection
  • Keep at room temperature

Paraffin embedded tissue

Container Type Container Size Specimen Volume
Alternate

Paraffin block

N/A
Stability

Room temperature - 6 month(s)

Specimen Preparation

  • Keep at room temperature
  • Protect from heat

Tissue (Snap-frozen)

Container Type Container Size Specimen Volume
Preferred

Tissue cassette

N/A mass 0.05 grams
Alternate

Cryogenic tube

N/A mass 0.05 grams
Stability

Frozen - 24 hour(s)

Specimen Preparation

  • Freeze immediately after collection.
  • Keep frozen
  • Protect from heat
  • Transport to laboratory as soon as possible
  • Tumor sample must contain a minimum of 40% tumor

Tissue scrolls (FFPE)

Container Type Container Size Specimen Volume
Alternate

Sterile container

N/A
Stability

Room temperature - 6 month(s)

Specimen Preparation

  • Must accompany H&E slide from the same tissue block used to make FFPE scrolls
  • Protect from heat
  • Keep at room temperature

OCT-embedded tissue

Container Type Container Size Specimen Volume
Alternate

Tissue cassette

N/A mass 0.05 grams
Alternate

Cryogenic tube

N/A mass 0.05 grams
Stability

Frozen - 24 hour(s)

Specimen Preparation

  • Freeze immediately after collection.
  • Keep frozen
  • Protect from heat
  • Transport to laboratory as soon as possible
  • Tumor sample must contain a minimum of 40% tumor

Reasons for Rejection

  • Delayed or improper handling
  • Insufficient tumor content in tumor sample
  • Inadequate tissue
  • Tissue degradation
  • Wrong type of specimen
  • Post-treatment tumor specimen

Comments

Please click on the Lab Form Link in the Forms Section to print and complete the Pediatric Oncology Test Requisition Form. Submission of completed Test Requisition Form is required and submission of informed consent form is recommended (but not required). Please send all samples via overnight delivery. Saturday deliveries are accepted; please check Saturday Delivery on shipment label.

A tumor sample AND a normal (germline) sample is required. For tumor sample, please submit snap-frozen (preferred), paraffin-embedded, or OCT-embedded tumor tissue. For the normal (germline) sample, peripheral blood sample in EDTA tubes (preferred), snap-frozen, paraffin-embedded, or OCT-embedded normal tissue can be submitted.

Targeted oncology microarray analysis is performed on the Affymetrix OncoScanTM CNV platform to detect clinically significant chromosomal aberrations in the tumor to aid in prognosis and treatment assessment.We only accept neuroblastoma and Wilms tumor samples at this time.

Neuroblastoma:

This array evaluates for the following clinically significant aberrations within the cancer genome for Neuroblastoma:

  • Losses of 1p, 3p, 4p and 11q
  • Gains of 1q, 2p and 17q
  • Loss of Heterozygosity involving 1p, 3p, 4p and 11q
  • Gains of whole chromosomes will also be detected with the assay.

Information regarding other chromosome regions will not be reported, as their clinical significance in neuroblastoma is currently unknown

Wilms Tumor:

This array evaluates for the following clinically significant aberrations within the cancer genome for Wilms Tumor:

  • Losses of 1p and 16q
  • Gains of 1q
  • Loss of Heterozygosity involving 1p and 16q

Information regarding other chromosome regions will not be reported, as their clinical significance in Wilms tumor is currently unknown.

PLEASE NOTE:

  1. At least 40% tumor must be present in the submitted tumor sample. A result from a sample containing <40% tumor may be reported as unsatisfactory (no results reported) if clearly discernable abnormalities are not observed. An internal pathology review will be performed on submitted tumor samples to verify tumor content.
  2. Submission of uninvolved (germline) sample is also required. The preferred uninvolved (germline) sample is whole blood but tissue (Fresh, snap-frozen, OCT-embedded, or FFPE) is also acceptable.
  3. Tumor sample collected during or after treatment (e.g. post-chemotherapy) CANNOT be accepted. Pre-treatment relapse tumor samples can be submitted.
  4. An FFPE tissue block is preferred over FFPE tissue scrolls. If submitting FFPE tissue scrolls, an H&E slide from a consecutive cut is also required Please contact the laboratory at 614-722-2866 to request the scroll calculator application to be emailed to you to determine the number of scrolls required. Tissue blocks can be returned to the treating institution upon request.
  5. Samples submitted under a COG study protocol can also be used in most cases (some cases may require approval from the COG study chair); please call the laboratory to confirm sample availability in the COG bank.

 

Forms

Lab Form

CPT Code

  • 81406