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Identification of microarray probe signals constantly present in multiple sample types (part 1)

ABSTRACT: The correlation of the RNA profiles obtained by microarray analysis was compared with that obtained from RNA-Seq by using reduced complexity sperm datasets. This resolved as a series of discordant probes. The extent of discordancy among other datasets was then determined. A correlative study between probe’s signal intensity from Illumina bead arrays with its transcript level detected by next generation sequencing technique was performed. RNAs from sperm and testis samples were applied

ORGANISM(S): Homo sapiens

SUBMITTER: Stephen Krawetz

PROVIDER: E-GEOD-39526 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Identification of artifactual microarray probe signals constantly present in multiple sample types.

Mao Shihong S Souza Aletheia Lima AL Goodrich Robert J RJ Krawetz Stephen A SA

BioTechniques 20120801 2

The detection, identification, and quantitation of transcripts have evolved from simple Northern analysis, cDNA cloning, and sequencing to RT-PCR, microarrays, and now digital gene expression using ultra-high-throughput RNA sequencing (RNA-Seq). During the course of our studies we observed that some microarray probes show very high signal intensity values yet are discordant when compared with RNA-Seq. A total of 99 probes from approximately 30,000 were identified as consistently discordant in fo ...[more]

PMID: 23030061

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