Somatic Overgrowth Panel | NGS
| Genes Sequenced | Next generation sequencing of all coding regions of 49 genes sequenced including ACTB, AKT1, AKT2, AKT3, ARAF, BRAF, CCM2, CCND2, CDKN1C, DCHS1, EPHB4, FAT4, FGFR1, FGFR2, FLT4, GATA2, GJC2, GNA11, GNA14, GNAQ, HGF, HRAS, IDH1, IDH2, KIF11, KRAS, KRIT1, LZTR1, MAP2K1, MAP3K3, MET, MTOR, NF2, NRAS, PDGFRB, PIEZO1, PIK3CA, PIK3CD, PIK3R1, PIK3R2, PRKACA, PTEN, PTPN14, RASA1, SMAD3, SMO, TEK, TSC1 and TSC2. |
| Test Details | Extraction of DNA, capture of the genes to be assayed, and sequencing of the entire coding region on the Illumina platform. Identified variants previously described and other potentially pathogenic non-synonymous variants are reported with interpretations. This targeted hybrid capture-based test is designed to detect somatic single nucleotide variants, insertions and deletions (indels). At a mean depth of coverage of at least 4000x across the captured region, this test has 89.84% sensitivity for variants at a variant allelic fraction (VAF) of 1.25% and 99.48% for variants at a VAF of at least 2.5%. |
| Methodology | Next Generation Sequencing |
| Performed | Monday – Friday |
| Turnaround | 3 weeks from receipt of specimen |
| Specimen Requirements | Tissue from the affected area. Formalin fixed paraffin embedded affected tissue or fresh affected tissue in transport or tissue culture media. |
| Sample Collection | Routine Tissue Block: One (1) formalin fixed paraffin embedded (FFPE) block containing affected tissue. Fresh tissue placed in media (4 mm skin punch or tissue 4 mm in size). |
| Minimum Sample Volume | 3 millimeters |
| Storage/Transport Conditions | FFPE blocks: ambient /room temperature. Place in a sealed container (bag). Place primary container in a padded envelope. Recommend shipping by overnight. In seasonal warmer weather, include cold pack (DO NOT FREEZE). Fresh tissue: Refrigerated temperature (cold packs). Please ship in media for overnight delivery. |
| Unacceptable Conditions | FFPE specimens processed using acid decalcification are not acceptable (EDTA is acceptable) |
| CPT Code(s) | 81479 |