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Comprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation.

TitleComprehensive polyadenylation site maps in yeast and human reveal pervasive alternative polyadenylation.
Publication TypeJournal Article
Year of Publication2010
AuthorsOzsolak, F, Kapranov, P, Foissac, S, Kim, SWoo, Fishilevich, E, A Monaghan, P, John, B, Milos, PM
JournalCell
Volume143
Issue6
Pagination1018-29
Date Published2010 Dec 10
ISSN1097-4172
KeywordsGene Expression Profiling, Humans, Liver, Poly A, Polyadenylation, Saccharomyces cerevisiae, Sequence Analysis, RNA
Abstract

The emerging discoveries on the link between polyadenylation and disease states underline the need to fully characterize genome-wide polyadenylation states. Here, we report comprehensive maps of global polyadenylation events in human and yeast generated using refinements to the Direct RNA Sequencing technology. This direct approach provides a quantitative view of genome-wide polyadenylation states in a strand-specific manner and requires only attomole RNA quantities. The polyadenylation profiles revealed an abundance of unannotated polyadenylation sites, alternative polyadenylation patterns, and regulatory element-associated poly(A)(+) RNAs. We observed differences in sequence composition surrounding canonical and noncanonical human polyadenylation sites, suggesting novel noncoding RNA-specific polyadenylation mechanisms in humans. Furthermore, we observed the correlation level between sense and antisense transcripts to depend on gene expression levels, supporting the view that overlapping transcription from opposite strands may play a regulatory role. Our data provide a comprehensive view of the polyadenylation state and overlapping transcription.

DOI10.1016/j.cell.2010.11.020
Alternate JournalCell
PubMed ID21145465
PubMed Central IDPMC3022516
Grant ListR01-HG005230 / HG / NHGRI NIH HHS / United States
GM079756 / GM / NIGMS NIH HHS / United States
R01 MH060774 / MH / NIMH NIH HHS / United States
R01 GM079756 / GM / NIGMS NIH HHS / United States
R01 HG005230-01 / HG / NHGRI NIH HHS / United States
MH60774 / MH / NIMH NIH HHS / United States
R01 HG005230 / HG / NHGRI NIH HHS / United States