alignment of gene expression profiles from test samples against a reference database new method for context-specific interpretation of microarray data一致性测试样本的基因表达谱与参考数据库特定于上下文的解释的微阵列数据的新方法.pdfVIP

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alignment of gene expression profiles from test samples against a reference database new method for context-specific interpretation of microarray data一致性测试样本的基因表达谱与参考数据库特定于上下文的解释的微阵列数据的新方法.pdf

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alignment of gene expression profiles from test samples against a reference database new method for context-specific interpretation of microarray data一致性测试样本的基因表达谱与参考数据库特定于上下文的解释的微阵列数据的新方法

Kilpinen et al. BioData Mining 2011, 4:5 /content/4/1/5 BioData Mining METHODOLOGY Open Access Alignment of gene expression profiles from test samples against a reference database: New method for context-specific interpretation of microarray data * * Sami K Kilpinen , Kalle A Ojala and Olli P Kallioniemi * Correspondence: sami.k. Abstract kilpinen@helsinki.fi; Olli. Kallioniemi@helsinki.fi Background: Gene expression microarray data have been organized and made Institute for Molecular Medicine Finland (FIMM), University of available as public databases, but the utilization of such highly heterogeneous Helsinki, Tukholmankatu 8, Helsinki, reference datasets in the interpretation of data from individual test samples is not as Finland developed as e.g. in the field of nucleotide sequence comparisons. We have created a rapid and powerful approach for the alignment of microarray gene expression profiles (AGEP) from test samples with those contained in a large annotated public reference database and demonstrate here how this can facilitate interpretation of microarray data from individual samples. Methods: AGEP is based on the calculation of kernel density distributions for the levels of expression of each gene in each reference tissue type and provides a quantitation of the similarity between the test sample and the reference tissue types as well as the identity o