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    Please use this identifier to cite or link to this item: http://ir.nhri.org.tw/handle/3990099045/2987


    Title: Selection of DDX5 as a novel internal control for Q-RT-PCR from microarray data using a block bootstrap re-sampling scheme
    Authors: Su, LJ;Chang, CW;Wu, YC;Chen, KC;Lin, CJ;Liang, SC;Lin, CH;Whang-Peng, J;Hsu, SL;Chen, CH;Huang, CYF
    Contributors: National Institute of Cancer Research
    Abstract: Background: The development of microarrays permits us to monitor transcriptomes on a genome-wide scale. To validate microarray measurements, quantitative-real time-reverse transcription PCR (Q-RT-PCR) is one of the most robust and commonly used approaches. The new challenge in gene quantification analysis is how to explicitly incorporate statistical estimation in such studies. In the realm of statistical analysis, the various available methods of the probe level normalization for microarray analysis may result in distinctly different target selections and variation in the scores for the correlation between microarray and Q-RT-PCR. Moreover, it remains a major challenge to identify a proper internal control for Q-RT-PCR when confirming microarray measurements. Results: Sixty-six Affymetrix microarray slides using lung adenocarcinoma tissue RNAs were analyzed by a statistical re-sampling method in order to detect genes with minimal variation in gene expression. By this approach, we identified DDX5 as a novel internal control for Q-RT-PCR. Twenty-three genes, which were differentially expressed between adjacent normal and tumor samples, were selected and analyzed using 24 paired lung adenocarcinoma samples by Q-RT-PCR using two internal controls, DDX5 and GAPDH. The percentage correlation between Q-RT-PCR and microarray were 70% and 48% by using DDX5 and GAPDH as internal controls, respectively. Conclusion: Together, these quantification strategies for Q-RT- PCR data processing procedure, which focused on minimal variation, ought to significantly facilitate internal control evaluation and selection for Q-RT-PCR when corroborating microarray data.
    Keywords: Biotechnology & Applied Microbiology;Genetics & Heredity
    Date: 2007-06-01
    Relation: BMC Genomics. 2007 Jun;8:Article number 140.
    Link to: http://dx.doi.org/10.1186/1471-2164-8-140
    JIF/Ranking 2023: http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=1471-2164&DestApp=IC2JCR
    Cited Times(WOS): https://www.webofscience.com/wos/woscc/full-record/WOS:000247419700001
    Cited Times(Scopus): http://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=34347209095
    Appears in Collections:[彭汪嘉康(1996-2007)] 期刊論文
    [黃奇英(2005-2007)] 期刊論文

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