Literature DB >> 23209130

Toward a genome-wide landscape of translational control.

Ola Larsson1, Bin Tian, Nahum Sonenberg.   

Abstract

Genome-wide analysis of translational control has taken strides in recent years owing to the advent of high-throughput technologies, including DNA microarrays and deep sequencing. Global studies have unraveled a principal role, among posttranscriptional mechanisms, for mRNA translation in determining protein levels in the cell. The impact of translational control in dynamic regulation of the proteome under different conditions is increasingly appreciated. Here we review genome-wide studies that use high-throughput techniques and bioinformatics to assess the role of mRNA translation in the regulation of protein levels; we also discuss how genome-wide data on mRNA translation can be obtained, analyzed, and used to identify mechanisms of translational control.

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Year:  2013        PMID: 23209130      PMCID: PMC3579401          DOI: 10.1101/cshperspect.a012302

Source DB:  PubMed          Journal:  Cold Spring Harb Perspect Biol        ISSN: 1943-0264            Impact factor:   10.005


  111 in total

1.  Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae.

Authors:  Yoav Arava; Yulei Wang; John D Storey; Chih Long Liu; Patrick O Brown; Daniel Herschlag
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-26       Impact factor: 11.205

2.  Proliferating cells express mRNAs with shortened 3' untranslated regions and fewer microRNA target sites.

Authors:  Rickard Sandberg; Joel R Neilson; Arup Sarma; Phillip A Sharp; Christopher B Burge
Journal:  Science       Date:  2008-06-20       Impact factor: 47.728

3.  A hierarchical network controls protein translation during murine embryonic stem cell self-renewal and differentiation.

Authors:  Prabha Sampath; David K Pritchard; Lil Pabon; Hans Reinecke; Stephen M Schwartz; David R Morris; Charles E Murry
Journal:  Cell Stem Cell       Date:  2008-05-08       Impact factor: 24.633

4.  Expression profiling reveals meiotic male germ cell mRNAs that are translationally up- and down-regulated.

Authors:  Naoko Iguchi; John W Tobias; Norman B Hecht
Journal:  Proc Natl Acad Sci U S A       Date:  2006-05-08       Impact factor: 11.205

5.  Src kinase activity coordinates cell adhesion and spreading with activation of mammalian target of rapamycin in pancreatic endocrine tumour cells.

Authors:  Alessia Di Florio; Laura Adesso; Simona Pedrotti; Gabriele Capurso; Emanuela Pilozzi; Vincenzo Corbo; Aldo Scarpa; Raffaele Geremia; Gianfranco Delle Fave; Claudio Sette
Journal:  Endocr Relat Cancer       Date:  2011-08-30       Impact factor: 5.678

6.  Activating transcription factor 4 is translationally regulated by hypoxic stress.

Authors:  Jaime D Blais; Vasilisa Filipenko; Meixia Bi; Heather P Harding; David Ron; Costas Koumenis; Bradly G Wouters; John C Bell
Journal:  Mol Cell Biol       Date:  2004-09       Impact factor: 4.272

7.  Eukaryotic initiation factor 4E binding protein family of proteins: sentinels at a translational control checkpoint in lung tumor defense.

Authors:  Yong Y Kim; Linda Von Weymarn; Ola Larsson; Danhua Fan; Jon M Underwood; Mark S Peterson; Stephen S Hecht; Vitaly A Polunovsky; Peter B Bitterman
Journal:  Cancer Res       Date:  2009-10-20       Impact factor: 12.701

8.  Tuberous sclerosis complex proteins 1 and 2 control serum-dependent translation in a TOP-dependent and -independent manner.

Authors:  Benoit Bilanges; Rhoda Argonza-Barrett; Marina Kolesnichenko; Christina Skinner; Manoj Nair; Michelle Chen; David Stokoe
Journal:  Mol Cell Biol       Date:  2007-06-11       Impact factor: 4.272

9.  Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling.

Authors:  Nicholas T Ingolia; Sina Ghaemmaghami; John R S Newman; Jonathan S Weissman
Journal:  Science       Date:  2009-02-12       Impact factor: 47.728

10.  IRESite--a tool for the examination of viral and cellular internal ribosome entry sites.

Authors:  Martin Mokrejs; Tomás Masek; Václav Vopálensky; Petr Hlubucek; Philippe Delbos; Martin Pospísek
Journal:  Nucleic Acids Res       Date:  2009-11-16       Impact factor: 16.971

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  24 in total

1.  Translational offsetting as a mode of estrogen receptor α-dependent regulation of gene expression.

Authors:  Julie Lorent; Eric P Kusnadi; Vincent van Hoef; Richard J Rebello; Matthew Leibovitch; Johannes Ristau; Shan Chen; Mitchell G Lawrence; Krzysztof J Szkop; Baila Samreen; Preetika Balanathan; Francesca Rapino; Pierre Close; Patricia Bukczynska; Karin Scharmann; Itsuhiro Takizawa; Gail P Risbridger; Luke A Selth; Sebastian A Leidel; Qishan Lin; Ivan Topisirovic; Ola Larsson; Luc Furic
Journal:  EMBO J       Date:  2019-09-26       Impact factor: 11.598

2.  Distinct Cancer-Promoting Stromal Gene Expression Depending on Lung Function.

Authors:  Brian J Sandri; Laia Masvidal; Carl Murie; Margarita Bartish; Svetlana Avdulov; LeeAnn Higgins; Todd Markowski; Mark Peterson; Jonas Bergh; Ping Yang; Charlotte Rolny; Andrew H Limper; Timothy J Griffin; Peter B Bitterman; Chris H Wendt; Ola Larsson
Journal:  Am J Respir Crit Care Med       Date:  2019-08-01       Impact factor: 21.405

Review 3.  Principles of translational control: an overview.

Authors:  John W B Hershey; Nahum Sonenberg; Michael B Mathews
Journal:  Cold Spring Harb Perspect Biol       Date:  2012-12-01       Impact factor: 10.005

Review 4.  Translational control of immune responses: from transcripts to translatomes.

Authors:  Ciriaco A Piccirillo; Eva Bjur; Ivan Topisirovic; Nahum Sonenberg; Ola Larsson
Journal:  Nat Immunol       Date:  2014-06       Impact factor: 25.606

5.  Toward a systematic understanding of translational regulatory elements in human and viruses.

Authors:  Shira Weingarten-Gabbay; Eran Segal
Journal:  RNA Biol       Date:  2016-07-21       Impact factor: 4.652

Review 6.  Targeting the translation machinery in cancer.

Authors:  Mamatha Bhat; Nathaniel Robichaud; Laura Hulea; Nahum Sonenberg; Jerry Pelletier; Ivan Topisirovic
Journal:  Nat Rev Drug Discov       Date:  2015-03-06       Impact factor: 84.694

7.  Estimating a structured covariance matrix from multi-lab measurements in high-throughput biology.

Authors:  Alexander M Franks; Gábor Csárdi; D Allan Drummond; Edoardo M Airoldi
Journal:  J Am Stat Assoc       Date:  2015-03-01       Impact factor: 5.033

8.  Network pharmacodynamic models for customized cancer therapy.

Authors:  James M Gallo; Marc R Birtwistle
Journal:  Wiley Interdiscip Rev Syst Biol Med       Date:  2015-04-24

9.  Fibrotic extracellular matrix activates a profibrotic positive feedback loop.

Authors:  Matthew W Parker; Daniel Rossi; Mark Peterson; Karen Smith; Kristina Sikström; Eric S White; John E Connett; Craig A Henke; Ola Larsson; Peter B Bitterman
Journal:  J Clin Invest       Date:  2014-03-03       Impact factor: 14.808

10.  TranslatomeDB: a comprehensive database and cloud-based analysis platform for translatome sequencing data.

Authors:  Wanting Liu; Lunping Xiang; Tingkai Zheng; Jingjie Jin; Gong Zhang
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

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