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UW-OncoPlex - Cancer Gene Panel

Questions: 1-800-256-0893

Background

UW-OncoPlex is a multiplexed gene sequencing panel that detects mutations in tumor tissue in 194 cancer-related genes (listed in the methods below). The panel includes genes related to cancer treatment, prognosis, and diagnosis. The test uses next-generation "deep" sequencing to detect most classes of mutations, including single nucleotide variants, small insertions and deletions (indels), gene amplifications, and selected gene-fusions. UW-OncoPlex will be ordered as "full panel" or "add-on". The add-on test will be selected by the lab when one or more components of the UW-OncoPlex panel is also ordered (e.g. EGFR mutations + UW-OncoPlex) or has already been done.

Methods

The following genes are sequenced on an Illumina instrument to detect single nucleotide variants, small insertions and deletions, gene amplifications, and selected translocations: ABCB1, ABCC2, ABCC4, ABCG2, ABL1, ABL2, AKT1, AKT2, AKT3, ALK, APC, ASXL1, ATM, AURKA, AURKB, BAK1, BAP1, BCL2, BCL2L11, BCOR, BCR, BRAF, C1orf144, CBL, CBLB, CCND1, CCNE1, CDH1, CDK4, CDK6, CDK8, CDKN2A, CEBPA, CHEK1, CHEK2, COMT, CREBBP, CRLF2, CSF1R, CTNNB1, CYP1B1, CYP2C19, CYP2C8, CYP2D6, CYP3A4, CYP3A5, DDR2, DNMT3A, DPYD , EGFR, EIF3A, EML4, EPHA3, EPHA5, EPHB2, EPHB6, ERBB2, ERBB3, ERBB4, ERCC2, ESR1, ESR2, ETV6, EZH2, FBXW7, FCGR1A, FCGR2A, FCGR3A, FGFR1, FGFR2, FGFR3, FGFR4, FLT1, FLT4, GAB2, GATA1, GATA2, GNA11, GNAQ, GNAS, GRIN2A, GRM3, GSTP1, GUCY1A2, HDAC4, HIF1A, HNF1A, HRAS, IDH1, IDH2, IGF1R, IKZF1, IL7R, ITPA, JAK1, JAK2, JAK3, KDM6A, KDR, KIF5B, KIT, KRAS, LRP2, MAN1B1, MAP2K1, MAP2K2, MAP2K4, MAPK1, MC1R, MCL1, MDM2 , MDM4, MEN1, MET, MITF, MLH1, MLL, MPL, MRE11A, MSH2, MSH6, MTHFR, MUTYH, MYC, MYCL1, MYCN, NF1, NF2, NKX2-1, NOTCH1, NOTCH2, NPM1, NQO1, NRAS, NRP2, PAX5, PBRM1, PDGFRA, PDGFRB, PIK3CA, PIK3R1, PML, PMS2, PRPF40B, PTCH1, PTEN, PTPN11, PTPRD, RAF1, RARA, RB1, RET, RICTOR, ROS1, RPS14, RUNX1, SF1, SF3B1, SLC19A1, SLC22A2, SLCO1B3, SMAD2, SMAD3, SMAD4, SMARCA4, SMARCB1, SMO, SOD2, SPRY4, SRC, SRSF2, STK11, SULT1A1, SUZ12, TET2, TFG, TGFBR2, TP53, TPMT, TRRAP, TSC1, TSC2, TYMS, TYR, U2AF1, U2AF65, UGT1A1, UMPS, VHL, WT1, and ZRSR2.

Gene Fusions and Rearrangements Detected (assay version 2)

Turnaround Time

8 weeks

Specimen Requirements and Handling

Shipping Address

Acceptable Specimens

Tissue samples (FFPE): Send EITHER (a) slides, OR (b) tissue block: (a) Instructions for slide specimens: 1 slide at 4-micron thickness stained with hematoxylin-and-eosin AND 10 unstained, non-baked slides at 10-micron thickness (a minimum of 5 unstained slides is acceptable). Unstained slides can be on charged or uncharged slides. Note: Sections should contain as much tumor tissue as possible. (b) Instructions for tissue block specimen: Provide complete tissue block containing tumor tissue. If there is more than one tissue block, please provide the block that has the greatest amount of tumor tissue. Tissue block will be returned at completion of testing. Ship at room temperature.

Purified DNA: (Reference hematoxylin-and-eosin stained slide and pathology report required): 5 ug minimum. Ship specimen refrigerated for overnight delivery.

Blood: 6 mL blood in LAVENDER TOP (EDTA) tube. Ship specimen refrigerated for overnight delivery. Specimen can be held for up to 24 hours before shipping if refrigerated.

Bone Marrow: 1 to 2 mL Bone Marrow in LAVENDER TOP (EDTA) tube. Ship specimen refrigerated for overnight delivery. Specimen can be held for up to 24 hours before shipping if refrigerated.

For further details regarding specimen collection, handling and transport, see the Laboratory Medicine Online Test Guide for OPX

Requisition Form

CPT Codes & Pricing

CPT coding

For pricing information, contact Reference Laboratory Services at 1-800-256-0893

Reference Range

No mutation detected.

Genetic Counseling

Genetic counseling can be useful to patients and families considering genetic testing. The laboratory can provide referrals to genetics clinics in the patient’s locale or a listing can be found at http://www.genetests.org.

Further Information

For further information:

References

1. Metzker ML. Sequencing technologies - the next generation. Nat Rev Genet. (2010) 11:31-46.

2014-03-24 17:00