Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Comparison of Labeling Methods for gene expression analysis on the NimbleGen platform

ABSTRACT: Comparison of ds-cDNA, Indirect and Direct Random Labeling Methods for gene expression analysis on the NimbleGen platform. Expression profiles from artemisinic acid-producing S. cerevisiae strain EPY330 and non-producing strain EPY338 are compared for each labeling method tested. The labeling methods and their comparison are described in detail in Ouellet et al., BMC Biotech 2009. Strains were described in detail previously in Ro et al. BMC Biotechnol 2008, 8(1):83 [PMID: 18983675] RNA pools from strains EPY330 (sample A) and EPY338 (sample B) were reverse-transcribed and labeled in triplicate with the ds-cDNA, the Indirect and the new Direct Random method and hybridized in parallel on NimbleGen 4-plex arrays.

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Mario Ouellet

PROVIDER: E-GEOD-15816 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

A rapid and inexpensive labeling method for microarray gene expression analysis.

Ouellet Mario M Adams Paul D PD Keasling Jay D JD Mukhopadhyay Aindrila A

BMC biotechnology 20091125

<h4>Background</h4>Global gene expression profiling by DNA microarrays is an invaluable tool in biological research. However, existing labeling methods are time consuming and costly and therefore often limit the scale of microarray experiments and sample throughput. Here we introduce a new, fast, inexpensive method for direct random-primed fluorescent labeling of eukaryotic cDNA for gene expression analysis and compare the results obtained on the NimbleGen microarray platform with two other wide ...[more]

PMID: 19939278

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Dataset Information

Comparison of Labeling Methods for gene expression analysis on the NimbleGen platform

Publications

A rapid and inexpensive labeling method for microarray gene expression analysis.

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