UW-OncoPlex - Cancer Gene Panel
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.
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)
- ALK fusions (including ALK-EML4, ALK-KIF5B, ALK-TFG, ALK-C2orf44)
- ROS1 fusions
- BCR-ABL (common p190 and p210 fusions only)
- MLL rearrangements
Specimen Requirements and Handling
- UW MEDICAL CENTER
- LABORATORY MEDICINE - GENETICS LAB
- 1959 NE PACIFIC ST, ROOM NW220
- SEATTLE, WA 98195-7110
- Formalin-Fixed Paraffin Embedded Tumor Tissue (FFPE)
- Purified DNA
- Peripheral Blood
- Bone Marrow
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 OP
- Indicate on the requisition any previous molecular testing that has been performed on the sample
CPT Codes & Pricing
- Full Panel: 83904 X 49, 83896 X 49, 83912 X 1
- Add-on: 83904 X 35, 83896 X 35, 83912 X 1 (See background section for an explanation of when add-on is appropriate)
For pricing information, contact Reference Laboratory Services at 1-800-256-0893
No mutation detected.
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.
For further information:
Other tests offered by the Genetics and Solid Tumor Diagnostic Laboratory
- Lab telephone: (206) 598-6429
- Supervisor: Deborah Barden, Ph.D.
- Director: Colin C. Pritchard, M.D., PhD.
- Director: Karen Stephens, Ph.D.
- Director: Jonathan Tait, M.D., Ph.D.
1. Metzker ML. Sequencing technologies - the next generation. Nat Rev Genet. (2010) 11:31-46.