Literature DB >> 23357469

All's well that ends well: alternative polyadenylation and its implications for stem cell biology.

Alisa A Mueller1, Tom H Cheung, Thomas A Rando.   

Abstract

Stem cell quiescence, activation, and differentiation are governed by a complex network of molecular pathways. There has been a growing recognition that posttranscriptional modifications, such as alternative polyadenylation (APA) of transcripts, play an important role in regulating gene expression and function. Recent analyses of stem cell populations have suggested that APA controls stem cell fate and behavior. Here, we review recent developments that have shaped our understanding of the control of stem cell behavior by APA and we highlight promising areas for future investigation. Published by Elsevier Ltd.

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Year:  2013        PMID： 23357469      PMCID： PMC3615088          DOI： 10.1016/j.ceb.2012.12.008

Source DB:  PubMed          Journal:  Curr Opin Cell Biol        ISSN： 0955-0674            Impact factor:   8.382


  86 in total

1.  Differential genome-wide profiling of tandem 3' UTRs among human breast cancer and normal cells by high-throughput sequencing.

Authors:  Yonggui Fu; Yu Sun; Yuxin Li; Jie Li; Xingqiang Rao; Chong Chen; Anlong Xu
Journal:  Genome Res       Date:  2011-04-07       Impact factor: 9.043

2.  Transcriptome dynamics through alternative polyadenylation in developmental and environmental responses in plants revealed by deep sequencing.

Authors:  Yingjia Shen; R C Venu; Kan Nobuta; Xiaohui Wu; Varun Notibala; Caghan Demirci; Blake C Meyers; Guo-Liang Wang; Guoli Ji; Qingshun Q Li
Journal:  Genome Res       Date:  2011-08-03       Impact factor: 9.043

3.  Genome-wide landscape of polyadenylation in Arabidopsis provides evidence for extensive alternative polyadenylation.

Authors:  Xiaohui Wu; Man Liu; Bruce Downie; Chun Liang; Guoli Ji; Qingshun Q Li; Arthur G Hunt
Journal:  Proc Natl Acad Sci U S A       Date:  2011-07-11       Impact factor: 11.205

4.  Analysis and design of RNA sequencing experiments for identifying isoform regulation.

Authors:  Yarden Katz; Eric T Wang; Edoardo M Airoldi; Christopher B Burge
Journal:  Nat Methods       Date:  2010-11-07       Impact factor: 28.547

5.  Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq.

Authors:  Peter J Shepard; Eun-A Choi; Jente Lu; Lisa A Flanagan; Klemens J Hertel; Yongsheng Shi
Journal:  RNA       Date:  2011-02-22       Impact factor: 4.942

6.  A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language?

Authors:  Leonardo Salmena; Laura Poliseno; Yvonne Tay; Lev Kats; Pier Paolo Pandolfi
Journal:  Cell       Date:  2011-07-28       Impact factor: 41.582

Review 7.  Heterogeneity in the muscle satellite cell population.

Authors:  Stefano Biressi; Thomas A Rando
Journal:  Semin Cell Dev Biol       Date:  2010-09-19       Impact factor: 7.727

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

Authors:  Fatih Ozsolak; Philipp Kapranov; Sylvain Foissac; Sang Woo Kim; Elane Fishilevich; A Paula Monaghan; Bino John; Patrice M Milos
Journal:  Cell       Date:  2010-12-10       Impact factor: 41.582

9.  Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs.

Authors:  Calvin H Jan; Robin C Friedman; J Graham Ruby; David P Bartel
Journal:  Nature       Date:  2010-11-17       Impact factor: 49.962

10.  RBM4 down-regulates PTB and antagonizes its activity in muscle cell-specific alternative splicing.

Authors:  Jung-Chun Lin; Woan-Yuh Tarn
Journal:  J Cell Biol       Date:  2011-04-25       Impact factor: 10.539
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  18 in total

1.  Accurate identification of polyadenylation sites from 3' end deep sequencing using a naive Bayes classifier.

Authors:  Sarah Sheppard; Nathan D Lawson; Lihua Julie Zhu
Journal:  Bioinformatics       Date:  2013-08-20       Impact factor: 6.937

2.  Fip1 regulates mRNA alternative polyadenylation to promote stem cell self-renewal.

Authors:  Brad Lackford; Chengguo Yao; Georgette M Charles; Lingjie Weng; Xiaofeng Zheng; Eun-A Choi; Xiaohui Xie; Ji Wan; Yi Xing; Johannes M Freudenberg; Pengyi Yang; Raja Jothi; Guang Hu; Yongsheng Shi
Journal:  EMBO J       Date:  2014-03-04       Impact factor: 11.598

Review 3.  The polyadenylation code: a unified model for the regulation of mRNA alternative polyadenylation.

Authors:  Ryan Davis; Yongsheng Shi
Journal:  J Zhejiang Univ Sci B       Date:  2014-05       Impact factor: 3.066

4.  3' UTR shortening represses tumor-suppressor genes in trans by disrupting ceRNA crosstalk.

Authors:  Hyun Jung Park; Ping Ji; Soyeon Kim; Zheng Xia; Benjamin Rodriguez; Lei Li; Jianzhong Su; Kaifu Chen; Chioniso P Masamha; David Baillat; Camila R Fontes-Garfias; Ann-Bin Shyu; Joel R Neilson; Eric J Wagner; Wei Li
Journal:  Nat Genet       Date:  2018-05-21       Impact factor: 38.330

5.  High throughput characterizations of poly(A) site choice in plants.

Authors:  Liuyin Ma; Pratap Kumar Pati; Man Liu; Qingshun Q Li; Arthur G Hunt
Journal:  Methods       Date:  2013-07-11       Impact factor: 3.608

6.  RNA-binding proteins in pluripotency, differentiation, and reprogramming.

Authors:  Diana Guallar; Jianlong Wang
Journal:  Front Biol (Beijing)       Date:  2014-10

Review 7.  Transcriptional Signatures of Aging.

Authors:  R Stegeman; V M Weake
Journal:  J Mol Biol       Date:  2017-07-03       Impact factor: 5.469

Review 8.  Molecular regulation of stem cell quiescence.

Authors:  Tom H Cheung; Thomas A Rando
Journal:  Nat Rev Mol Cell Biol       Date:  2013-06       Impact factor: 94.444

Review 9.  Regulation of pluripotency and reprogramming by RNA binding proteins.

Authors:  Dan Li; Mohamed S Kishta; Jianlong Wang
Journal:  Curr Top Dev Biol       Date:  2020-02-25       Impact factor: 4.897

10.  The Poly(C) Binding Protein Pcbp2 and Its Retrotransposed Derivative Pcbp1 Are Independently Essential to Mouse Development.

Authors:  Louis R Ghanem; Andrew Kromer; Ian M Silverman; Priya Chatterji; Elizabeth Traxler; Alfredo Penzo-Mendez; Mitchell J Weiss; Ben Z Stanger; Stephen A Liebhaber
Journal:  Mol Cell Biol       Date:  2015-11-02       Impact factor: 4.272
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