NDLI: Analysis and Visualization of Gene Expression Data via a Framework of Geometric Representation

Content Provider	IEEE Xplore Digital Library
Author	Shi Jinlong Luo Zhigang
Copyright Year	2009
Abstract	To understand the gene function and complex regulatory mechanisms, it is expected to be an effective way by analyzing gene expression data using various computing approaches. However, intense nonlinearity of the expression data limits the application of traditional linear classifying and clustering methods. This paper proposed a novel geometric framework for the analysis and visualization of these expression data. Expression manifold and sample manifold are defined separately by using the conception and theory of manifold in modern differential geometry. Based on this new angle of view, algorithms of manifold learning are used to embed high-dimension expression data into a low-dimension Euclidean coordinate system. The embedding process reserves the intrinsic geometry structure locally, thus new features and function patterns can be characterized in an intuitional way. Our method is applied to analyze and interpret the cell-cycle data set of Saccharomyces cerevisiae. The results show that the geometric framework is useful for the analysis of gene expression data.
Starting Page	3596
Ending Page	3599
File Size	333443
Page Count	4
File Format	PDF
ISBN	9781424449095
e-ISBN	9781424457281
DOI	10.1109/ICISE.2009.301
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2009-12-26
Publisher Place	China
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Geometry Information science Data analysis Data visualization Data engineering Gene expression Data mining Application software Monitoring Information analysis
Content Type	Text
Resource Type	Article

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4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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