Comparison of Hybridization-based and Sequencing-based Gene Expression Technologies on Biological Replicates

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Comparison of Hybridization-based and Sequencing-based Gene Expression Technologies on Biological Replicates

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dc.contributor.author Jenssen, Tor-Kristian
dc.contributor.author Trimarchi, Jeff
dc.contributor.author Punzo, Claudio
dc.contributor.author Ohno-Machado, Lucila
dc.contributor.author Hovig, Eivind
dc.contributor.author Patrick Kuo, Winston
dc.contributor.author Liu, Fang
dc.contributor.author Cepko, Connie
dc.date.accessioned 2011-03-10T00:33:38Z
dc.date.issued 2007
dc.identifier.citation Liu, Fang, Tor-Kristian Jenssen, Jeff Trimarchi, Claudio Punzo, Connie L Cepko, Lucila Ohno-Machado, Eivind Hovig, and Winston Patrick Kuo. 2007. Comparison of hybridization-based and sequencing-based gene expression technologies on biological replicates. BMC Genomics 8: 153. en_US
dc.identifier.issn 1471-2164 en_US
dc.identifier.uri http://nrs.harvard.edu/urn-3:HUL.InstRepos:4740120
dc.description.abstract Background: High-throughput systems for gene expression profiling have been developed and have matured rapidly through the past decade. Broadly, these can be divided into two categories: hybridization-based and sequencing-based approaches. With data from different technologies being accumulated, concerns and challenges are raised about the level of agreement across technologies. As part of an ongoing large-scale cross-platform data comparison framework, we report here a comparison based on identical samples between one-dye DNA microarray platforms and MPSS (Massively Parallel Signature Sequencing). Results: The DNA microarray platforms generally provided highly correlated data, while moderate correlations between microarrays and MPSS were obtained. Disagreements between the two types of technologies can be attributed to limitations inherent to both technologies. The variation found between pooled biological replicates underlines the importance of exercising caution in identification of differential expression, especially for the purposes of biomarker discovery. Conclusion: Based on different principles, hybridization-based and sequencing-based technologies should be considered complementary to each other, rather than competitive alternatives for measuring gene expression, and currently, both are important tools for transcriptome profiling. en_US
dc.language.iso en_US en_US
dc.publisher BioMed Central en_US
dc.relation.isversionof doi://10.1186/1471-2164-8-153 en_US
dc.relation.hasversion http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1899500/pdf/ en_US
dash.license LAA
dc.title Comparison of Hybridization-based and Sequencing-based Gene Expression Technologies on Biological Replicates en_US
dc.type Journal Article en_US
dc.description.version Version of Record en_US
dc.relation.journal BMC Genomics en_US
dash.depositing.author Cepko, Connie
dc.date.available 2011-03-10T00:33:38Z
dash.affiliation.other HMS^Ophthalmology en_US
dash.affiliation.other HMS^Genetics en_US

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