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Distinct polyadenylation landscapes of diverse human tissues revealed by a modified PA-seq strategy

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Item Type:Article
Title:Distinct polyadenylation landscapes of diverse human tissues revealed by a modified PA-seq strategy
Creators Name:Ni, T. and Yang, Y. and Hafez, D. and Yang, W. and Kiesewetter, K. and Wakabayashi, Y. and Ohler, U. and Peng, W. and Zhu, J.
Abstract:Background: Polyadenylation is a key regulatory step in eukaryotic gene expression and one of the major contributors of transcriptome diversity. Aberrant polyadenylation often associates with expression defects and leads to human diseases. Results: To better understand global polyadenylation regulation, we have developed a polyadenylation sequencing (PA-seq) approach. By profiling polyadenylation events in 13 human tissues, we found that alternative cleavage and polyadenylation (APA) is prevalent in both protein-coding and noncoding genes. In addition, APA usage, similar to gene expression profiling, exhibits tissue-specific signatures and is sufficient for determining tissue origin. A 3? untranslated region shortening index (USI) was further developed for genes with tandem APA sites. Strikingly, the results showed that different tissues exhibit distinct patterns of shortening and/or lengthening of 3? untranslated regions, suggesting the intimate involvement of APA in establishing tissue or cell identity. Conclusions: This study provides a comprehensive resource to uncover regulated polyadenylation events in human tissues and to characterize the underlying regulatory mechanism.
Keywords:3' Untranslated Regions, Chromosome Mapping, Cluster Analysis, Gene Library, Organ Specificity, Polyadenylation, RNA Sequence Analysis
Source:BMC Genomics
Publisher:BioMed Central
Page Range:615
Date:11 September 2013
Official Publication:https://doi.org/10.1186/1471-2164-14-615
PubMed:View item in PubMed

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