Pathvysion —Detects HER2 gene amplification in tumor. Breast cancers with HER2 gene amplification are associated with poor prognosis and response to some types of chemotherapy and trastuzumab (Herceptin ®).
Urovysion — Detects aneuploidy of chromosomes 3, 7 and 17, and loss of both 9p21 loci in malignant urothelial cells.
EGFR — Detects EGFR amlifications in tumor. Studies have shown that EGR copy number at the genome level (as measured by FISH) can be a positive indicator toward response to gefitinib or erlotinib anti-EGFR therapies in non small cell lung cancer (NSCLC).
EML4/ALK — Detects fusion in the EML4/ALK genes. Clinical trial data strongly suggests that fusions in the ALK gene are a positive predictor for response to crizotinib in NSCLC patients.
Assay Design — Many different kinds of probes are available, and depending on the application, we can help in selecting the best-suited design:
Whole chromosome painting probes (WPP)
Chromosome arm painting probes (APP)
Chromosome terminal band painting probes (TPP)
Chromosome enumeration probes (CEP)
Chromosome subtelomere probes (CSP)
chromosome loci specific probes (CLP)
Probe Preparation — We regularly use synthetic DNA FISH probes for custom development services. Probes are coupled to fluorescent indicators (e.g., SpectrumOrange, SpectrumGreen, or SpectrumAqua) depening on the combination of fluorophores used in the FISH assay. Basic probe preparation steps include:
Sample Preparation — We have established specific protocols for slide preparation that enhance sensitivity and signal for multiple FISH applications, including
cell chromosome FISH (interphase, metaphase and cultured cells)
tissue chromosome FISH (formalin-fixed, paraffin-embedded tissue or cell slides)
RNA-FISH (intracellular RNA localization, RNA processing, quantitation)
In Situ Hybridization – We rely on our wealth of development SOPs to optimize FISH hybridization conditions for each custom assay.
We use state of the art episcopic fluorescence microscopy and image capture to achieve the highest resolution images possible for analysis. For interpretation, we have MD/PhD pathologist on-staff, and a strategic agreement with the largest pathology group in San Diego giving us access to 18 additional pathologists in 7 sub-specialties.