Validation of oligoarrays for quantitative exploration of the transcriptome

V. Nygaard, FT Liu, M. Holden, W.P. Kuo, J. Trimarchi, L. Ohno-Machado, C.L. Cepko, A. Frigessi, I.K. Glad, M.A. van de Wiel, E. Hovig, H. Lyng

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Abstract

Background: Oligoarrays have become an accessible technique for exploring the transcriptome, but it is presently unclear how absolute transcript data from this technique compare to the data achieved with tag-based quantitative techniques, such as massively parallel signature sequencing (MPSS) and serial analysis of gene expression (SAGE). By use of the TransCount method we calculated absolute transcript concentrations from spotted oligoarray intensities, enabling direct comparisons with tag counts obtained with MPSS and SAGE. The tag counts were converted to number of transcripts per cell by assuming that the sum of all transcripts in a single cell was 5·10
Original languageEnglish
Pages (from-to)258
JournalBMC Genomics
Volume9
DOIs
Publication statusPublished - 2008

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