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Whole genome amplification induced bias in the detection of KRAS-mutated cell populations during colorectal carcinoma tissue testing
J. Stranska, S. Jancik, R. Slavkovsky, V. Holinkova, M. Rabcanova, P. Vojta, M. Hajduch, J. Drabek,
Jazyk angličtina Země Německo
Typ dokumentu časopisecké články, práce podpořená grantem
Grantová podpora
NT14282
MZ0
CEP - Centrální evidence projektů
Digitální knihovna NLK
Plný text - Článek
Zdroj
Odkazy
PubMed
25655305
DOI
10.1002/elps.201400136
Knihovny.cz E-zdroje
- MeSH
- genom lidský genetika MeSH
- genomika metody MeSH
- genotypizační techniky metody MeSH
- geny ras genetika MeSH
- kolorektální nádory genetika MeSH
- lidé MeSH
- sekvenční analýza DNA MeSH
- techniky amplifikace nukleových kyselin metody MeSH
- Check Tag
- lidé MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
Whole genome amplification replicates the entire DNA content of a sample and can thus help to circumvent material limitations when insufficient DNA is available for planned genetic analyses. However, there are conflicting data in the literature whether whole genome amplification introduces bias or reflects precisely the spectrum of starting DNA. We analyzed the origins of discrepancies in KRAS (Kirsten rat sarcoma viral oncogene homolog gene) mutation detection in six of ten samples amplified using the GenomePlex® Tissue Whole Genome Amplification kit 5 (WGA5; Sigma-Aldrich, St. Louis, MO, USA) and KRAS StripAssay® (KRAS SA; ViennaLab Diagnostics, Vienna, Austria). We undertook reextraction, reamplification, retyping, authentication, reanalysis, and reinterpretation to determine whether the discrepancies originated during the preanalytical, analytical, and/or interpretative phase of genotyping. We conclude that a combination of glass slide/sample heterogeneity and biased amplification due to stochastic effects in the early phases of whole genome amplification (WGA) may have adversely affected the results obtained. Our findings are relevant for both forensic genetics testing and massively parallel sequencing using preamplification.
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