Journal:
Article Title: Genomic Analysis of Anti-Hepatitis B Virus (HBV) Activity by Small Interfering RNA and Lamivudine in Stable HBV-Producing Cells
doi: 10.1128/JVI.79.22.14392-14403.2005
Figure Lengend Snippet: The fidelity and reproducibility of microarray profiling. (A) The CapitalBio's long oligonucleotide (Operon 70-mer) microarray and Affymetrix's short oligonucleotide (25-mer) HG U133A 2.0 microarray platform were compared, and the correlation coefficient (R value) between the two platforms was 0.787 when the total of 6754 common genes were detected using the two platforms, employing the same batch of RNA extracted from HeLa and HEK293 cell lines. (B) Self-to-self comparison of the gene expression. For each test and control sample, two hybridizations were performed by using a reversal fluorescence strategy. The change of magnitude of self-to-self expression profiling was within twofold, which indicated that a change less than twofold could be considered to represent the noise level of the microarray experiment. The two lines parallel in the graph represent 2- and 0.5-fold changes in expression. (C) The determination of global gene expression of HepG2.2.15 versus HepG2 cells was repeated three times independently. For each test and control sample in one independent experiment, two hybridizations were performed by using a reverse fluorescence strategy. Two sets of the expression ratios were chosen to determine the reproducibility of microarray results. The Pearson linear correlation coefficient value (R) was 0.956. (D) Comparison of expression measurement by quantitative RT-PCR and microarray. The expression changes in the selected 17 genes showed good agreement between the two methods.
Article Snippet: The reason for this is that the fidelity of our microarray is twofold; therefore, genes with a change of less than twofold fell into the “gray zone” of microarray analysis, which means that the calculated up- or down-regulation change of these genes may not be precise, and hence it is reasonable to conclude that parts of these five genes may have some disparities in terms of their regulation changes when the two methodologies were applied. fig ft0 fig mode=article f1 fig/graphic|fig/alternatives/graphic mode="anchored" m1 Open in a separate window FIG. 7. caption a7 The fidelity and reproducibility of microarray profiling. (A) The CapitalBio's long oligonucleotide (Operon 70-mer) microarray and Affymetrix's short oligonucleotide (25-mer) HG U133A 2.0 microarray platform were compared, and the correlation coefficient (R value) between the two platforms was 0.787 when the total of 6754 common genes were detected using the two platforms, employing the same batch of RNA extracted from HeLa and HEK293 cell lines. (B) Self-to-self comparison of the gene expression.
Techniques: Microarray, Expressing, Fluorescence, Quantitative RT-PCR
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