Singular Value Decomposition-based Alternative Splicing Detection.
Singular Value Decomposition-based Alternative Splicing Detection.
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DOI：
10.1198/jasa.2009.ap08283
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发表时间：
2009-09-01
影响因子：
3.7
通讯作者：
Krahe R
中科院分区：
文献类型：
--
作者：
Hu J;He X;Cote GJ;Krahe R
Altered alternative splicing has been identified as an important factor in tumorigenesis. The Affymetrix exon tiling array is designed for detecting alternative splicing events in a transcriptome-wide fashion; however, there are currently few analysis tools that are well studied for effective detection of alternative splicing events. We propose a new screening procedure based on singular value decomposition (SVD) of the residual matrix from a robust additive model fit to probe selection region (PSR) data. With this approach, we analyze the exon tiling array data from a brain cancer study conducted at the M. D. Anderson Cancer Center, and show that the proposed SVD-based approach is able to better accommodate outlying measures and capitalize on the multidimensional group-by-PSR gene expression profiles for more effective detection of group-specific alternative splicing events as well as the PSRs that are most likely associated with the alternative splicing. Lab validation confirmed some of our findings, but the list of candidates detected with our proposed method may provide a better signpost to guide further investigations.
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DOI：
10.1073/pnas.091062498
发表时间：
2001-04-24
影响因子：
11.1
作者：
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通讯作者：
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影响因子：
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DOI：
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发表时间：
2006-03-01
影响因子：
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DOI：
10.1198/016214501753382129
发表时间：
2001-12-01
影响因子：
3.7
作者：
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通讯作者：
Tusher, V