HopeSeq Glioma

SIMULTANEOUS ANALYSIS OF MUTATIONS, FUSIONS, COPY NUMBER VARIATIONS, MGMT METHYLATION, MICROSATELLITE INSTABILITY ANALYSIS (MSI) BY PCR AND PD-L1 IMMUNOSTAIN

Hotspot Mutation Analysis of 87 Genes
AKT1, AKT2, AKT3, ALK, AR, ARAF, AXL, BRAF, BTK, CBL, CCND1, CDK4, CDK6, CHEK2, CSF1R, CTNNB1, DDR2, EGFR, ERBB2, ERBB3, ERBB4, ERCC2, ESR1, EZH2, FGFR1, FGFR2,  FGFR3, FGFR4, FLT3, FOXL2, GATA2, GNA11, GNAQ, GNAS, H3F3A, HIST1H3B, HNF1A, HRAS, IDH1, IDH2, JAK1, JAK2, JAK3, KDR, KIT, KNSTRN, KRAS, MAGOH, MAP2K1, MAP2K2, MAP2K4, MAPK1, MAX, MDM4, MED12, MET, MTOR, MYC, MYCN, MYD88, NFE2L2, NRAS, NTRK1, NTRK2, NTRK3, PDGFRA, PDGFRB, PIK3CA, PIK3CB, PPP2R1A, PTPN11, RAC1, RAF1, RET, RHEB, RHOA, ROS1, SF3B1, SMAD4, SMO, SPOP, SRC, STAT3, TERT, TOP1, U2AF1, XPO1

Full-length Mutation Analysis of 48 Genes
ARID1A, ATM, ATR, ATRX, BAP1, BRCA1, BRCA2, CDK12, CDKN1B, CDKN2A, CDKN2B, CHEK1, CREBBP, FANCA, FANCD2, FANCI, FBXW7, MLH1, MRE11A, MSH2, MSH6, NBN, NF1, NF2, NOTCH1, NOTCH2, NOTCH3, PALB2, PIK3R1, PMS2, POLE, PTCH1, PTEN, RAD50, RAD51, RAD51B, RAD51C, RAD51D, RB1, RNF43, SETD2, SLX4, SMARCA4, SMARCB1, STK11, TP53, TSC1, TSC2

Fusion Analysis of 51 Genes
AKT2, ALK, AR, AXL, BRAF, BRCA1, BRCA2, CDKN2A, EGFR, ERBB2, ERBB4, ERG, ESR1, ETV1, ETV4, ETV5, FGFR1, FGFR2, FGFR3, FGR, FLT3, JAK2, KRAS, MDM4, MET, MYB,  MYBL1, NF1, NOTCH1, NOTCH4, NRG1, NTRK1, NTRK2, NTRK3, NUTM1, PDGFRA, PDGFRB, PIK3CA, PPARG, PRKACA, PRKACB, PTEN, RAD51B, RAF1, RB1, RELA, RET, ROS1, RSPO2, RSPO3, TERT

Copy Number Analysis of 47 Genes
AKT1, AKT2, AKT3, ALK, AR, AXL, BRAF, CCND1, CCND2, CCND3, CCNE1, CDK2, CDK4, CDK6, CDKN2A, CDKN2B, EGFR, ERBB2, ESR1, FGF3, FGF19, FGFR1, FGFR2, FGFR3, FGFR4,  FLT3, IGF1R, KIT, KRAS, MDM2, MDM4, MET, MYC, MYCL, MYCN, NTRK1, NTRK2, NTRK3, PDGFRA, PDGFRB, PIK3CA, PIK3CB, PPARG, RICTOR, TERT, TSC1, TSC2

Publications

Published online at the 2016 ASCO Annual Meeting:
Detection of MGMT promoter methylation in malignant gliomas.
Author(s): Michelle Afkhami, M.D., Vandana Sharma, M.S., Maria Cuellar, Massimo D’Apuzzo, M.D., Ph.D., Behnam Badie, M.D., Jana Portnow, M.D., Raju Pillai, M.D., Patricia Aoun, M.D., M.P.H., Milhan Telatar, Ph.D., City of Hope, Duarte, CA (Journal of Clinical Oncology 34, 2016)

Mnemonic
Solid Tumor NGS
 
Methodology
Insert method here
 
Performed
Mon-Fri
 
Reported
10-14 working days
 

Specimen Required

  • Patient Preparation:
  • Collect:
    • FFPE (formalin-fixed, paraffin-embedded) Block or
    • 1 H&E and 19 USS (unstained slides) at 10 microns
  • Specimen Preparation: FFPE or H&E and USS
  • Storage/Transport Temperature: Include ice pack during transport
  • Unacceptable Conditions: 
  • Remarks: 
  • Stability: Ambient:  ; Refrigerated:  ; Frozen:
 
CPT Code(s)
81455, 81287, 81301, 88381, G0452 (x3)
 
Aliases
Solid Tumor Next Generation Sequencing