| A measurement error model for microarray data analysis |
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| 作者姓名： | ZHOU Yiming CHENG Jing |
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| 作者单位： | Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing 100084, China,1. Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing 100084, China; 2. State Key Laboratory of Biomembrane and Membrane Biotechnology, Tsinghua University, Beijing 100084, China; 3. National Engineering Research Center for Beijing Biochip Technology, 18 Life Science Parkway, Beijing 102206, China |
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| 基金项目： | Supported by the Department of Science and Technology of China (Grant No. 2002AA2Z2011) |
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| 摘 要： | Microarray technology has been widely used to analyze the gene expression levels by detecting fluorescence intensity in a high throughput fashion. However, since the measurement error produced from various sources in microarray experiments is heterogeneous and too large to be ignored, we propose here a measurement error model for microarray data processing, by which the standard deviation of the measurement error is demonstrated to be linearly increased with fluorescence intensity. A robust algorithm, which estimates the parameters of the measurement error model from a single microarray without replicated spots, is provided. The model and algorithm for estimating of the parameters from a given data set are tested on both the real data set and the simulated data set, and the result has been proven satisfactory. And, combining the measurement error model with traditional Z-test method, a full statistical model has been developed. It can significantly improve the statistical inference for identifying differentially expressed genes.
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| 关 键 词： | microarray measurement error model parameter estimation differentially expressed genes. |
A measurement error model for microarray data analysis |
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| ZHOU Yiming,CHENG Jing.A measurement error model for microarray data analysis[J].Progress in Natural Science,2005,15(7):614-620. |
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| Authors: | Zhou Yiming CHENG Jing |
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| Institution: | 1. Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing 100084, China
2. Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing 100084, China;State Key Laboratory of Biomembrane and Membrane Biotechnology, Tsinghua University, Beijing 100084, China;National Engineering Research Center for Beijing Biochip Technology, 18 Life Science Parkway, Beijing 102206, China |
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| Abstract: | Microarray technology has been widely used to analyze the gene expression levels by detecting fluorescence intensity in a high throughput fashion. However, since the measurement error produced from various sources in microarray experiments is heterogeneous and too large to be ignored, we propose here a measurement error model for microarray data processing, by which the standard deviation of the measurement error is demonstrated to be linearly increased with fluorescence intensity. A robust algorithm, which estimates the parameters of the measurement error model from a single microarray without replicated spots, is provided. The model and algorithm for estimating of the parameters from a given data set are tested on both the real data set and the simulated data set, and the result has been proven satisfactory. And, combining the measurement error model with traditional Z-test method, a full statistical model has been developed. It can significantly improve the statistical inference for identifying differentially expressed genes. |
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| Keywords: | microarray measurement error model parameter estimation differentially expressed genes |
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