Fresh Tissue 150 mg or 0.5-2.0 cm3 fresh tissue in transport media. Deliver within 24 hours at room temperature.
Fresh Frozen Tissue 150 mg or 0.5-2.0 cm3 tissue snap frozen at -20°C. Store at -20°C. Ship on minimum of 10 lbs. of dry ice in an insulated container by overnight courier.
FFPE preferred sample: block of five 20-um scrolls that are freshly cut before shipping to us via overnight delivery. It would be best to cut and ship Monday to be delivered to us on Tuesday.
Unacceptable Conditions
Unacceptable conditions include no tumor in tissue or specimens fixed/processed in alternative fixatives.
The CHOP Solid Tumor Panel v2.0 utilizes next-generation sequencing technology to simultaneously analyze a panel of genes known to be associated with a variety of solid tumors including pediatric solid tumors. Most cancers result from accumulation of multiple genomic alterations that lead to dysfunction of cancer-associated genes. These genomic alterations are important diagnostic, prognostic, and therapeutic markers. The CHOP Solid Tumor Panel test can provide important genomic information regarding tumor development and progression, which facilitates more accurate disease diagnosis, risk stratification, and therapeutic decision. DNA SEQUENCE ANALYSIS Two hundred thirty-eight genes known to be associated with cancer predisposition are analyzed using Next Generation Sequence (NGS) technology. All coding exons of the 238 genes and 5 base pairs of 5' and 3' flanking intronic sequences are analyzed. Certain known intronic mutations of these genes are also evaluated. Copy number variations (CNVs) of these genes are evaluated by analyzing NGS data. These CNVs are confirmed by MLPA, Real Time PCR, or ddPCR when necessary. Certain genes or exons may not be evaluated for gross copy number variations, such as genes with no known gross deletion/duplication mutations, or genes or exons with pseudogenes or highly homologous sequences in the genome. The genes included in this panel are listed below: ABL1, ACVR1, AKT1, AKT2, AKT3, ALK,APC, AR, ARAF, ARID1A, ARID1B, ARID2, ASXL1, ATM, ATR, ATRX, AURKA, AURKB, AXIN1, AXL, B2M, BAP1, BARD1, BCL2, BCL6, BCOR, BCORL1, BLM, BRAF, BRCA1, BCRA2, BRD4, BRIP1, CARD11, CBFB, CBL, CCND1, CCND2, CCND3, CCNE1, CD274, CD79B, CDC73, CDH1, CDK12, CDK4, CDK6, CDK8, CDKN1B, CDKN2A, CDKN2B, CDKN2C, CHEK1, CHEK2, CIC, CREBBP, CRKL, CRLF2, CSF1R, CTCF, CTNNB1, DAXX, DDR2, DICER1, DNMT3A, DOT1L, EED, EGFR, EP300, EPHA3, EPHA5, EPHB1, ERBB2, ERBB3, ERBB4, ERG, ESR1, ETV6, EZH2, FAM46C, FANCA, FANCC, FBXW7, FGF19, FGF3, FGF4, FGFR1, FGFR2, FGFR3, FGFR4, FLCN, FLT1, FLT3, FLT4, FOXL2, FOXP1, FUBP1, GATA1, GATA2, GATA3, GNA11, GNAQ, GNAS, GRIN2A, GSK3B, H3F3A, HGF, HIST1H1C, HIST1H3B, HNF1A, HRAS, IDH1, IDH2, IGF1R, IKBKE, IKZF1, IL7R, INPP4B, IRF4, IRS2, JAK1, JAK2, JAK3, JMJD1C, JUN, KDM5A, KDM5C, KDM6A, KDR, KEAP1, KIT, KMT2A, KMT2C, KRAS, MAP2K1, MAP2K2, MAP2K4, MAP3K1, MAPK1, MCL1, MDM2, MDM4, MED12, MEF2B, MEN1, MET, MITF, MLH1, MPL, MRE11A, MSH2, MSH6, MTOR, MUTYH, MYB, MYC, MYCN, MYD88, MYOD1, NF1, NF2, NFE2L2, NKX2-1, NOTCH1, NOTCH2, NPM1, NRAS, NTRK1, NTRK2, NTRK3, PALB2, PAX5, PBRM1, PDCD1, PDGFRA, PDGFRB, PHOX2B, PIK3CA, PIK3CG, PIK3R1, PIK3R2, PIM1, PPM1D, PPP2R1A, PRDM1, PRKAR1A, PTCH1, PTEN, PTPN11, RAD50, RAD51, RAF1, RARA, RB1, RET, RHOA, RICTOR, RNF43, ROS1, RPTOR, RUNX1, SDHA, SDHB, SDHC, SDHD, SETD2, SF3B1, SMAD2, SMAD4, SMARCA4, SMARCB1, SMO, SOCS1, SOX2, SPEN, SPOP, SRC, STAG2, STK11, SUFU, SUZ12, TERT, TET2, TGFBR2, TNFAIP3, TNFRSF14, TOP1, TP53, TP63, TSC1, TSC2, TSHR, U2AF1, VHL, WHSC1, WT1, AMER1, XPO1
CPT Codes
81455
Collection
Collect
Fresh Tissue 150 mg or 0.5-2.0 cm3 fresh tissue in transport media. Deliver within 24 hours at room temperature.
Fresh Frozen Tissue 150 mg or 0.5-2.0 cm3 tissue snap frozen at -20°C. Store at -20°C. Ship on minimum of 10 lbs. of dry ice in an insulated container by overnight courier.
FFPE preferred sample: block of five 20-um scrolls that are freshly cut before shipping to us via overnight delivery. It would be best to cut and ship Monday to be delivered to us on Tuesday.
Unacceptable Conditions
Unacceptable conditions include no tumor in tissue or specimens fixed/processed in alternative fixatives.
The CHOP Solid Tumor Panel v2.0 utilizes next-generation sequencing technology to simultaneously analyze a panel of genes known to be associated with a variety of solid tumors including pediatric solid tumors. Most cancers result from accumulation of multiple genomic alterations that lead to dysfunction of cancer-associated genes. These genomic alterations are important diagnostic, prognostic, and therapeutic markers. The CHOP Solid Tumor Panel test can provide important genomic information regarding tumor development and progression, which facilitates more accurate disease diagnosis, risk stratification, and therapeutic decision. DNA SEQUENCE ANALYSIS Two hundred thirty-eight genes known to be associated with cancer predisposition are analyzed using Next Generation Sequence (NGS) technology. All coding exons of the 238 genes and 5 base pairs of 5' and 3' flanking intronic sequences are analyzed. Certain known intronic mutations of these genes are also evaluated. Copy number variations (CNVs) of these genes are evaluated by analyzing NGS data. These CNVs are confirmed by MLPA, Real Time PCR, or ddPCR when necessary. Certain genes or exons may not be evaluated for gross copy number variations, such as genes with no known gross deletion/duplication mutations, or genes or exons with pseudogenes or highly homologous sequences in the genome. The genes included in this panel are listed below: ABL1, ACVR1, AKT1, AKT2, AKT3, ALK,APC, AR, ARAF, ARID1A, ARID1B, ARID2, ASXL1, ATM, ATR, ATRX, AURKA, AURKB, AXIN1, AXL, B2M, BAP1, BARD1, BCL2, BCL6, BCOR, BCORL1, BLM, BRAF, BRCA1, BCRA2, BRD4, BRIP1, CARD11, CBFB, CBL, CCND1, CCND2, CCND3, CCNE1, CD274, CD79B, CDC73, CDH1, CDK12, CDK4, CDK6, CDK8, CDKN1B, CDKN2A, CDKN2B, CDKN2C, CHEK1, CHEK2, CIC, CREBBP, CRKL, CRLF2, CSF1R, CTCF, CTNNB1, DAXX, DDR2, DICER1, DNMT3A, DOT1L, EED, EGFR, EP300, EPHA3, EPHA5, EPHB1, ERBB2, ERBB3, ERBB4, ERG, ESR1, ETV6, EZH2, FAM46C, FANCA, FANCC, FBXW7, FGF19, FGF3, FGF4, FGFR1, FGFR2, FGFR3, FGFR4, FLCN, FLT1, FLT3, FLT4, FOXL2, FOXP1, FUBP1, GATA1, GATA2, GATA3, GNA11, GNAQ, GNAS, GRIN2A, GSK3B, H3F3A, HGF, HIST1H1C, HIST1H3B, HNF1A, HRAS, IDH1, IDH2, IGF1R, IKBKE, IKZF1, IL7R, INPP4B, IRF4, IRS2, JAK1, JAK2, JAK3, JMJD1C, JUN, KDM5A, KDM5C, KDM6A, KDR, KEAP1, KIT, KMT2A, KMT2C, KRAS, MAP2K1, MAP2K2, MAP2K4, MAP3K1, MAPK1, MCL1, MDM2, MDM4, MED12, MEF2B, MEN1, MET, MITF, MLH1, MPL, MRE11A, MSH2, MSH6, MTOR, MUTYH, MYB, MYC, MYCN, MYD88, MYOD1, NF1, NF2, NFE2L2, NKX2-1, NOTCH1, NOTCH2, NPM1, NRAS, NTRK1, NTRK2, NTRK3, PALB2, PAX5, PBRM1, PDCD1, PDGFRA, PDGFRB, PHOX2B, PIK3CA, PIK3CG, PIK3R1, PIK3R2, PIM1, PPM1D, PPP2R1A, PRDM1, PRKAR1A, PTCH1, PTEN, PTPN11, RAD50, RAD51, RAF1, RARA, RB1, RET, RHOA, RICTOR, RNF43, ROS1, RPTOR, RUNX1, SDHA, SDHB, SDHC, SDHD, SETD2, SF3B1, SMAD2, SMAD4, SMARCA4, SMARCB1, SMO, SOCS1, SOX2, SPEN, SPOP, SRC, STAG2, STK11, SUFU, SUZ12, TERT, TET2, TGFBR2, TNFAIP3, TNFRSF14, TOP1, TP53, TP63, TSC1, TSC2, TSHR, U2AF1, VHL, WHSC1, WT1, AMER1, XPO1
