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Comparison of RNA-Seq and Microarray in Transcriptome Profiling During T Cell Activation

ABSTRACT: Samples in this study probe the gene expression kinetics in human CCR6+ Th17 memory T cells activated under Th17 condition. Human CCR6+ Th17 memory T cells were purified from PBMC and gene expression was studied over a time course of 3 days after activation under Th17 condition. RNA from these samples was also profiled using RNA-Seq to compare different transcriptome profiling technologies. PBMCs were purified from whole blood from a healthy donor. CD4+ cells were isolated by negative selection, followed by CCR6+ purification by positive selection. Two replicates of 6 time points were taken following stimulation in Th17 polarizing conditions. This submission represents microarray component of study.

ORGANISM(S): Homo sapiens

SUBMITTER: Anton Bittner

PROVIDER: E-GEOD-48978 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Comparison of RNA-Seq and microarray in transcriptome profiling of activated T cells.

Zhao Shanrong S Fung-Leung Wai-Ping WP Bittner Anton A Ngo Karen K Liu Xuejun X

PloS one 20140116 1

To demonstrate the benefits of RNA-Seq over microarray in transcriptome profiling, both RNA-Seq and microarray analyses were performed on RNA samples from a human T cell activation experiment. In contrast to other reports, our analyses focused on the difference, rather than similarity, between RNA-Seq and microarray technologies in transcriptome profiling. A comparison of data sets derived from RNA-Seq and Affymetrix platforms using the same set of samples showed a high correlation between gene ...[more]

PMID: 24454679

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