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Cell Mol Life Sci. 2014 Sep;71(18):3537-51. doi: 10.1007/s00018-014-1637-9. Epub 2014 May 15.

RNA sequencing: from tag-based profiling to resolving complete transcript structure.

Author information

1
Department of Human Genetics, Leiden University Medical Center, 2300 RC, Leiden, The Netherlands.

Abstract

Technological advances in the sequencing field support in-depth characterization of the transcriptome. Here, we review genome-wide RNA sequencing methods used to investigate specific aspects of gene expression and its regulation, from transcription to RNA processing and translation. We discuss tag-based methods for studying transcription, alternative initiation and polyadenylation events, shotgun methods for detection of alternative splicing, full-length RNA sequencing for the determination of complete transcript structures, and targeted methods for studying the process of transcription and translation. With the ensemble of technologies available, it is now possible to obtain a comprehensive view on transcriptome complexity and the regulation of transcript diversity.

PMID:
24827995
PMCID:
PMC4143603
DOI:
10.1007/s00018-014-1637-9
[Indexed for MEDLINE]
Free PMC Article

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