MALDI-TOF MS and TaqMan assisted SNP genotyping of DNA isolated from formalin-fixed and paraffin-embedded tissues (FFPET).

Author(s): Jaremko M, Justenhoven C, Abraham BK, Schroth W, Fritz P, Brod S, Vollmert C, Illig T, Brauch H

Publication: Hum Mutat, 2005, Vol. 25, Page 232-8

PubMed ID: 15706592 PubMed Review Paper? No

Purpose of Paper

Conclusion of Paper

Studies

1. Study Purpose

   The purpose of this study was to determine the effects of storage of FFPE breast specimens on genotype determination using MALDI-TOF MS and the TaqMan genotyping assay.

   Summary of Findings:

   The mean successful genotype determination rates were 91% and 91.8% using the TaqMan genotyping assay and MALDI-TOF MS, respectively. When specimens were more than 14 y old, the success rates using both MALDI-TOF MS and the TaqMan genotyping assay tended to be lower than in specimens stored for less than 14 y, but the difference was not significant.

   Biospecimens

   • Tissue - Breast

   Preservative Types

   • Formalin

   Diagnoses:

   • Neoplastic - Carcinoma
   • Neoplastic - Benign

   Platform:

   Analyte	Technology Platform
   DNA	SNP assay
   DNA	MALDI-TOF MS

   Pre-analytical Factors:

   Classification	Pre-analytical Factor	Value(s)
   Storage	Storage duration	< 14 years > 14 years
   SNP assay Specific	Targeted nucleic acid	ABCB1 CYP1A1 CYP1B1 CYP2D6 CYP2C9 CYP2C19 EPHX1 ERBB2 MTHFR VEGF
   SNP assay Specific	Technology platform	TaqMan assay MALDI-TOF MS

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