期刊
METHODS
卷 67, 期 3, 页码 313-324出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.ymeth.2014.02.024
关键词
RNA-seq data; Alternative splicing; Integrative analysis
资金
- NIH [NHLBI MAPGEN U01HL108634, NIGMS R01GM105431]
- NSF [0747475]
- Direct For Biological Sciences
- Div Of Biological Infrastructure [0747475] Funding Source: National Science Foundation
Alternative splicing is an important gene regulatory mechanism that dramatically increases the complexity of the proteome. However, how alternative splicing is regulated and how transcription and splicing are coordinated are still poorly understood, and functions of transcript isoforms have been studied only in a few limited cases. Nowadays, RNA-seq technology provides an exceptional opportunity to study alternative splicing on genome-wide scales and in an unbiased manner. With the rapid accumulation of data in public repositories, new challenges arise from the urgent need to effectively integrate many different RNA-seq datasets for study alterative splicing. This paper discusses a set of advanced computational methods that can integrate and analyze many RNA-seq datasets to systematically identify splicing modules, unravel the coupling of transcription and splicing, and predict the functions of splicing isoforms on a genome-wide scale. (C) 2014 The Authors. Published by Elsevier Inc. This is an open access article under the CC BY-NC-ND license
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