Exploring Gene Expression Data, Using Plots

This paper describes how to explore gene expression data using a combination of graphical and numerical methods. We start from the general methodology for multivariate data visualization, describing heatmaps, parallel coordinate plots and scatterplots. We propose new methods for gene expression data analysis using direct manipulation graphics. With linked scatterplots and parallel coordinate plots we explore gene expression data differently than many common practices. To check replicates in relation to treatments we introduce a new type of plot called a ”replicate line” plot. There is a worked example, that focuses on an experimental study containing two two-level factors, genotype and cofactor presence, with two replicates.

並列關鍵字

Alpha-blending ； data visualization ； dendrogram ； direct manipulation graphics ； gene expression microarray ； heatmap ； interactive graphics ； linked plots ； multivariate data ； parallel coordinate plots

被引用紀錄

Tsai, C. W. (2012). 人類胸腺T細胞α鏈接受器庫互補決定區3重要性之研究 [doctoral dissertation, National Taiwan University]. Airiti Library. https://doi.org/10.6342/NTU.2012.03174

巫宗鴻（2015）。貝氏網路於智慧家庭中行為預測之研究〔碩士論文，國立中正大學〕。華藝線上圖書館。https://www.airitilibrary.com/Article/Detail?DocID=U0033-2110201614024636

WU, C. C. (2016). 再生與非再生基因調控網路之系統分析及再生醫學上之應用 [doctoral dissertation, National Tsing Hua University]. Airiti Library. https://www.airitilibrary.com/Article/Detail?DocID=U0016-0411201614432072

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Exploring Gene Expression Data, Using Plots

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