Strategies for Minimization of Sequence Artifacts from FFPE
Reagent Kit is an advanced version of the Genisphere([R]) technology Affymetrix licensed last year.
In contrast, array-based genotyping platforms produced comparable results for copy number alteration, single nucleotide variation, and loss of heterozygosity between FFPE
and snap-frozen specimens.
Using HRM and Sanger sequencing, we have previously demonstrated that uracil-derived FFPE
sequence artifacts may occur at appreciable levels and, in some cases such as low DNA template amounts, can masquerade as potentially real variants (12).
presidents also criticise member states' "lack of political courage" to consider other areas for potential savings, such as the multiple seats of the European Parliament or the "pharaoh-like office building for Mr Van Rompuy".
This was true for all 3 specimen types, FFPE
, FNA, and PB/BM.
Given that FFPE
DNA is highly degraded, we omitted the restriction enzyme treatment.
Microarray analysis of FFPE
provides a robust molecular approach to the problem.
While technological advancements afford the molecular analysis of formalin-fixed, paraffin-embedded (FFPE
) biospecimens, efforts have achieved varying levels of success, which may be a result of differences in FFPE
processing regimens or extraction techniques.
DNA isolated from FFPE
tissue samples is often highly fragmented and chemically degraded.
FISH is a potent adjunct to immunohistochemistry (IHC) for histopathology samples; it allows the analyst to visualize abnormalities in the context of specimen architecture.
specimens were used to isolate RNA from samples, which were classified as normal lung tissue, primary tumors, and lymph-node metastases according to pathological confirmation.