OncoSpan is a well-characterized, cell line-derived Reference Standard containing over 380 variants across 152 key cancer genes.  Variants are present between 1-100% allelic frequency (AF), with 50 variants present at ≤ 20% AF for LOD determination of your assay. Every batch of OncoSpan DNA has 25 variants confirmed by ddPCR, in addition to being fully exome sequenced (Batches before 54952 were sequenced at 500x coverage on an Illumina platform using the Agilent SureSelect Human All Exon V6 kit. Batches from 54952 are sequenced at 500x coverage by Revvity Omics using the Agilent CREV3 kit and an Illumina platform). This provides you with an accurate and reliable truth set for comparison to your assay’s performance. You will receive a password upon ordering to download the raw NGS data for your batch (bam, bed and vcf files). Alternatively, for your convenience we have also listed the 386 high confidence variants in an easy-to-access excel document that can be downloaded.

Technical Data

Format: FFPE

Genes Covered: ABL1, AKT1, AKT2, ALK, APC, AR, ARID1A, ATR, ATRX, AXL, BARD1, BCL6, BLM, BMPR1A, BRAF, BRCA1, BRCA2, BTK, BUB1B, CARD11, CCND1, CCND3, CCNE1, CD79B, CDh2, CDK12, CDK4, CEP57, CFH, CREBBP, CSF1R, CTNNB1, DDR2, DIS3L2, DNMT3A, EGFR, EML4, EP300, EPCAM, ERBB2, ERBB3, ERCC1, ERCC2, ERCC4, ERCC5, ERG, ETS1, ETV4, EWSR1, EXT1, FANCA, FANCD2, FANCE, FANCG, FANCI, FANCM, FBXW7, FGF10, FGF2, FGF3, FGF6, FGFR1, FGFR3, FLCN, FLI1, FLT1, FLT3, FZR1, GATA2, GATA3, GEN1, GNA11, GNAS, HNF1A, HRAS, IDh2, IDh4, JAK1, JAK2, JAK3, KDR, KIT, KRAS, LDLR, MAGI1, MAP2K1, MAP2K2, MAX, MDM4, MED12, MET, MLh2, MLLT3, MMAB, MRE11, MSh4, MSH6, MTOR, NBN, NF1, NFE2L2, NOTCh1, NOTCh4, NOTCh6, NRAS, NRG1, NTRK1, NTRK3, PDGFRA, PDGFRB, PIK3CA, PIK3CD, PIK3CG, PIK3R1, PMS2, PPARG, PPP2R2A, PRKAR1A, PROC, PTCh2, PTPN11, RAD51B, RAD54L, RAF1, RB1, RBM45, RECQL4, RET, RHBDF2, ROS1, RPS6KB1, SDHB, SF3B1, SF3B2, SLTM, SLX4, SMARCB1, SMO, SMOX, STK11, TERT, TET2, TFRC, TP53, TP53BP1, TSC1, TSC2, WRN, XPA, XPC, ZNF395

Allelic Frequencies: 1% - 92.5% for ddPCR-verified variants

Product Information

Verified Mutations:

Unit Size: 1 FFPE section

Fixation: 4% PFA

Section Size: 15 µm

Cell Density: 3 x 10⁸ cells per block. Approx. 3.5 x 10⁵ cells per section

Expected DNA yield: >400ng using Maxwell® 16 FFPE plus RSC DNA Purification Kit (Promega)

Storage: 4˚C

Expiration: See all product shelf life information

Quality Control

Allelic Frequency: Droplet Digital PCR™

Genotype: Next Generation Sequencing

Quality: Agarose gel electrophoresis

Quantification: QuantiFluor®

Intended use: For assay developers and molecular diagnostic labs for routine performance monitoring of molecular biology assays. Research use only. Not for diagnostic procedures.

OncoSpan publications

Read these research articles citing the use of OncoSpan reference standards.

• Validation of a pan-cancer targeted next generation sequencing panel in New Zealand | New Zealand Journal of Medical Laboratory Science
• Enabling variant calling in challenging FFPE samples by coupling a novel library preparation chemistry with exome sequencing | Journal of Clinical Oncology
• Moving towards a local testing solution for undetermined thyroid fine-needle aspirates: validation of a novel custom DNA-based NGS panel | Journal of Clinical Pathology
• Performance Analysis of Three Bioinformatic Variant Callers Using a Somatic Reference Standard | Children's Mercy Kansas City