Reproducibility, bioinformatic analysis and power of the SAGE method to evaluate changes in transcriptome

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dc.contributor.authorDinel, S.en
dc.contributor.authorBolduc, C.en
dc.contributor.authorBelleau, P.en
dc.contributor.authorBoivin, A.en
dc.contributor.authorYoshioka, M.en
dc.contributor.authorCalvo, E.en
dc.contributor.authorPiedboeuf, B.en
dc.contributor.authorSnyder, E. E.en
dc.contributor.authorLabrie, F.en
dc.contributor.authorSt-Amand, J.en
dc.date.accessioned2019-04-23T13:29:25Zen
dc.date.available2019-04-23T13:29:25Zen
dc.date.issued2005-01-01en
dc.description.abstractThe serial analysis of gene expression (SAGE) method is used to study global gene expression in cells or tissues in various experimental conditions. However, its reproducibility has not yet been definitively assessed. In this study, we have evaluated the reproducibility of the SAGE method and identified the factors that affect it. The determination coefficient (R-2 ) for the reproducibility of SAGE is 0.96. However, there are some factors that can affect the reproducibility of SAGE, such as the replication of concatemers and ditags, the number of sequenced tags and double PCR amplification of ditags. Thus, corrections for these factors must be made to ensure the reproducibility and accuracy of SAGE results. A bioinformatic analysis of SAGE data is also presented in order to eliminate these artifacts. Finally, the current study shows that increasing the number of sequenced tags improves the power of the method to detect transcripts and their regulation by experimental conditions.en
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1093/nar/gni025en
dc.identifier.eissn1362-4962en
dc.identifier.issn0305-1048en
dc.identifier.issue3en
dc.identifier.pmid15716308en
dc.identifier.urihttp://hdl.handle.net/10919/89096en
dc.identifier.volume33en
dc.language.isoen_USen
dc.rightsCreative Commons Attribution-NonCommercial 2.0 Genericen
dc.rights.urihttp://creativecommons.org/licenses/by-nc/2.0/en
dc.subjectgene-expression sageen
dc.subjectserial analysisen
dc.subjectskeletal-muscleen
dc.subjectmessenger-rnaen
dc.subjecthuman-genomeen
dc.subjectabundanceen
dc.subjectmicroarrayen
dc.subjecttissueen
dc.subjectyeasten
dc.titleReproducibility, bioinformatic analysis and power of the SAGE method to evaluate changes in transcriptomeen
dc.title.serialNucleic Acids Researchen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten

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