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PMID: 21145465 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

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

Cell ·Vol. 143 ·No. 6 ·2010-12-10 ·Pages 1018-29

Ozsolak F, Kapranov P, Foissac S, Kim SW, Fishilevich E, Monaghan AP, John B, Milos PM

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.

MeSH Terms
Gene Expression Profiling Humans Liver/metabolism Poly A/analysis Polyadenylation Saccharomyces cerevisiae/genetics,metabolism Sequence Analysis, RNA/methods
Chemicals
Poly A
Authors & Affiliations
8 authors, click to expand affiliations / ORCID
Ozsolak Fatih
Helicos BioSciences Corporation, Cambridge, MA 02139, USA. [email protected]
Kapranov Philipp
Foissac Sylvain
Kim Sang Woo
Fishilevich Elane
Monaghan A Paula
John Bino
Milos Patrice M
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Article Info
Journal
Cell
Abbr.
Cell
ISSN
1097-4172
DOI
10.1016/j.cell.2010.11.020
Email
[email protected]
Published
2010-12-10
Pages
1018-29
Language
English
Region
United States
NLM ID
0413066
PMCID
PMC3022516
Subset
IM
Grants
NHGRI NIH HHS · R01-HG005230 · United States
NIGMS NIH HHS · GM079756 · United States
NHGRI NIH HHS · R01 HG005230 · United States
NIMH NIH HHS · R01 MH060774 · United States
NIGMS NIH HHS · R01 GM079756 · United States
NHGRI NIH HHS · R01 HG005230-01 · United States
NIMH NIH HHS · MH60774 · United States
External Links
PubMed source DOI: 10.1016/j.cell.2010.11.020 PMC Full Text View journal details
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