• The Korean Journal of Applied Statistics
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• v.18 no.1
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• pp.115-127
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• 2005

DNA microarray experiments allow us to study expression of thousands of genes simultaneously, Normalization is a process for removing noises occurred during the microarray experiment, Print-tip is regarded as one main sources of noises, In this paper, we review normalization methods most commonly used in the microarray experiments, Especially, we investigate the effects of print-tips through simulated data sets.

• Proceedings of the Korean Statistical Society Conference
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• 2003.10a
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• pp.331-334
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• 2003

마이크로 어레이(microarray)실험에서 표준화(normalization)는 유전자의 발현수준에 영향을 미치는 여러 기술적인 변인을 제거하는 과정이다. cDNA microarray normalization에 있어 여러 방법이 제안되었지만, 이중 print-tip 효과가 존재할 때 사용되는 방법으로 print-tip lowess normalization이 대표적으로 사용된다. normalization에 사용되는 lowess 함수는 데이터의 특성에 따라 window width를 정해야만 연구의 목적에 맞는 결과를 도출할 수 있다. 본 논문에서는 각각의 tip에서 최적의 window width를 계산하는 절차를 논의하였다. 또한 이의 결과와 기존의 같은 window width를 사용하는 print-tip lowess normalization 결과와 비교 평가하여 normalization의 기본 원칙에 대한 타당성을 확인하였다.

• Proceedings of the Korean Society for Bioinformatics Conference
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• 2005.09a
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• pp.51-56
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• 2005

There are many sources of systematic variations in cDNA microarray experiments which affect the measured gene expression levels like differences in labeling efficiency between the two fluorescent dyes. Print-tip lowess normalization is used in situations where dye biases can depend on spot overall intensity and/or spatial location within the array. However, print-tip lowess normalization performs poorly in situation where error variability for each gene is heterogeneous over intensity ranges. We proposed the new print-tip normalization methods based on support vector machine regression(SVMR) and support vector machine quantile regression(SVMQR). SVMQR was derived by employing the basic principle of support vector machine (SVM) for the estimation of the linear and nonlinear quantile regressions. We applied our proposed methods to previous cDNA micro array data of apolipoprotein-AI-knockout (apoAI-KO) mice, diet-induced obese mice, and genistein-fed obese mice. From our statistical analysis, we found that the proposed methods perform better than the existing print-tip lowess normalization method.

• 프린팅코리아
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• v.9 no.4
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• pp.102-105
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• 2010

미국인쇄산업협회(Printing Industries of America)가 2010~2011년 미국인쇄산업을 전망하는 보고서인 을 공개했다. 이 보고서는 먼저 2007~2009년의 경제 불황에 미국 인쇄산업이 어떻게 대응하였는지에 대한 분석을 통해 거시 경제적 사이클과 인쇄산업의 변화 사이의 상관관계를 설명하고 있다. 또한 향후 2년간의 미국 경제에 대한 전망에 기반하여 인쇄산업이 경험하게 될 미래를 예측하고, 생존을 위한 전략적 팁(tip)도 제시하고 있다. 은 비록 미국 시장에 대한 예측이지만, 한국 인쇄산업에서도 유용하게 활용될 수 있는 의미 있는 시사점들을 제공해주고 있다.

• Proceedings of the Korean Statistical Society Conference
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• 2002.05a
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• pp.175-181
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• 2002

cDNA microarray experiments permit us to investigate the expression levels of thousands of genes simultaneously and to make it easy to compare gene expression from different populations. However, researchers are asked to be cautious in interpreting the results because of the unexpected sources of variation such as systematic errors from the microarrayer and the difference of cDNA dye intensity. And the scanner itself calculates both of mean and median of the signal and background pixels, so it follows a selection which raw data will be used in analysis. In this paper, we compare the results in each case of using mean and median from the raw data and normalization methods in reducing the systematic errors with arm's skin cells of old and young males. Using median is preferable to mean because the distribution of the test statistic (t-statistic) from the median is more close to normal distribution than that from mean. Scaled print tip normalization is better than global or lowess normalization due to the distribution of the test-statistic.

• The Korean Journal of Applied Statistics
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• v.22 no.3
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• pp.585-594
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• 2009

Researchers of microarray experiment transpose processed images of raw data to possible data of statistical analysis: it is preprocessing. Preprocessing of microarray has image filtering, imputation and normalization. There have been studied about several different methods of normalization and imputation, but there was not further study on the order of the procedures. We have no further study about which things put first on our procedure between normalization and imputation. This study is about the identification of differentially expressed genes(DEG) on the order of the preprocessing steps using two-dye cDNA microarray in colon cancer and gastric cancer. That is, we check for compare which combination of imputation and normalization steps can detect the DEG. We used imputation methods(K-nearly neighbor, Baysian principle comparison analysis) and normalization methods(global, within-print tip group, variance stabilization). Therefore, preprocessing steps have 12 methods. We identified concordance measure of DEG using the datasets to which the 12 different preprocessing orders were applied. When we applied preprocessing using variance stabilization of normalization method, there was a little variance in a sensitive way for detecting DEG.

• Proceedings of the IEEK Conference
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• 2001.10a
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• pp.165-170
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• 2001

The main purpose of this study is to generate a fine copper oxide powder of high purity, with a compact structure and a uniform particle size by a spray pyrolysis process. The raw material is a waste copper chloride solution formed in the manufacturing process of Print Circuit Board (PCB). This study also examines the influences of various factors on the properties of the generated powder. These factors include the reaction temperature, the inflow speed of the raw material solution, the inflow speed of the air, the size of the nozzle tip, and the concentration of the raw material solution. It is discovered that, as the reaction temperature increases from 80$0^{\circ}C$ to 100$0^{\circ}C$ , the particle size of the generated powder increases accordingly, and that the structure of the powder becomes much more compact. When the reaction temperature is 100$0^{\circ}C$, the particle size of the generated powder increases as the concentration of copper in the raw material solution increases to 40g/l, decreases as the concentration increases up to 120g/l, and increases again as the concentration reaches 200g/1. In the case of a lower concentration of the raw material solution, the generated powder appears largely in the form of CuO. As the concentration increases, however, the powder appears largely in the form of CuCl. When the concentration of copper in the raw material solution is 120g/1, the particle size of the generated powder increases as the inflow speed of the raw material solution increases. When the concentration of copper in the raw material solution is 120g/1, there is no evident change in the particle size of the generated powder as the size of the nozzle tip and the air pressure increases. When the concentration is 40g/1, however, the particle size keeps increasing until the air pressure increases to 0.5kg/$\textrm{cm}^2$, but decreases remarkably as the air pressure exceeds 0.5kg/$\textrm{cm}^2$.

• Fisheries and Aquatic Sciences
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• v.5 no.1
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• pp.36-42
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• 2002

Microarrayer is used to make DNA chip and microarray that contain hundreds to thousands of immobilized DNA probes on surface of a microscope slide. This paper shows the develop-ment results for a printing type of microarrayer. It realizes a typical, low-cost and efficient microarrayer for generating low density micro array. The microarrayer is developed by using a prependicular type robot with three axes. It is composed of a computer-controlled three-axes robot and a pen tip assembly. The key component of the arrayer is the print-head containing the tips to immobilize cDNA, genomic DNA or similar biological material on glass surface. The robot is designed to automatically collect probes from two 96-well plates with up to 12 pens at the same time. To prove the performance of the developed microarrayer, we use the general water types of inks such as black, blue and red. The inks are distributed at proper positions of 96 well plates and the three color inks are immobilized on the slide glass under the operation procedure. As the result of the test, we can see that it has sufficient performance for the production of low integrated DNA chip consisted of 96 spots within $1cm^2$ area.

• Proceedings of the KSME Conference
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• 2003.04a
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• pp.899-904
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• 2003

Microarrayer makes DNA chip and microarray that contain hundreds to thousands of immobilized DNA probes on surface of a microscope slide. This paper shows the development results for a printing type of microarrayer. It realizes a typical, low-cost and efficient microarrayer for generating low density microarray. The microarrayer is developed by using a robot of three-axes perpendicular type. It is composed of a computer-controlled three-axes robot and a pen tip assembly. The key component of the arrayer is the print-head containing the tips to immobilize cDNA, genomic DNA or similar biological material on glass surface. The robot is designed to automatically collect probes from two 96-well plates with up to 32 tips at the same time. To prove the performance of the developed microarrayer, the general water types of inks such as black, blue and red. The inks are distributed at proper positions of 96 well plates and the three color inks are immobilized on the slide glass under the operation procedure. As the result of the test, it can be shown that it has sufficient performance for the production of low integrated DNA chip consisted of 96 spots within 1 $cm^2$ area.