Literature DB >> 23848051

Synthetic approaches to study transcriptional networks and noise in mammalian systems.

Paula Gregorio-Godoy1, David G Míguez.   

Abstract

Synthetic biology aims to build new functional organisms and to rationally re-design existing ones by applying the engineering principle of modularity. Apart from building new life forms to perform technical applications, the approach of synthetic biology is useful to dissect complex biological phenomena into simple and easy to understand synthetic modules. Synthetic gene networks have been successfully implemented in prokaryotes and lower eukaryotes, with recent approaches moving ahead towards the mammalian environment. However, synthetic circuits in higher eukaryotes present a more challenging scenario, since its reliability is compromised because of the strong stochastic nature of transcription. Here, the authors review recent approaches that take advantage of the noisy response of synthetic regulatory circuits to learn key features of the complex machinery that orchestrates transcription in higher eukaryotes. Understanding the causes and consequences of biological noise will allow us to design more reliable mammalian synthetic circuits with revolutionary medical applications.

Entities:  

Mesh:

Year:  2013        PMID: 23848051      PMCID: PMC8687214          DOI: 10.1049/iet-syb.2012.0026

Source DB:  PubMed          Journal:  IET Syst Biol        ISSN: 1751-8849            Impact factor:   1.615


  69 in total

1.  A synthetic oscillatory network of transcriptional regulators.

Authors:  M B Elowitz; S Leibler
Journal:  Nature       Date:  2000-01-20       Impact factor: 49.962

Review 2.  Computational approaches to cellular rhythms.

Authors:  Albert Goldbeter
Journal:  Nature       Date:  2002-11-14       Impact factor: 49.962

3.  A positive-feedback-based bistable 'memory module' that governs a cell fate decision.

Authors:  Wen Xiong; James E Ferrell
Journal:  Nature       Date:  2003-11-27       Impact factor: 49.962

4.  Graded and binary responses in stochastic gene expression.

Authors:  Rajesh Karmakar; Indrani Bose
Journal:  Phys Biol       Date:  2004-12       Impact factor: 2.583

5.  On the use of the word 'epigenetic'.

Authors:  Mark Ptashne
Journal:  Curr Biol       Date:  2007-04-03       Impact factor: 10.834

Review 6.  The second wave of synthetic biology: from modules to systems.

Authors:  Priscilla E M Purnick; Ron Weiss
Journal:  Nat Rev Mol Cell Biol       Date:  2009-06       Impact factor: 94.444

7.  Interactivating feedback loops within the mammalian clock: BMAL1 is negatively autoregulated and upregulated by CRY1, CRY2, and PER2.

Authors:  Wangjie Yu; Masahiko Nomura; Masaaki Ikeda
Journal:  Biochem Biophys Res Commun       Date:  2002-01-25       Impact factor: 3.575

8.  Biological function of unannotated transcription during the early development of Drosophila melanogaster.

Authors:  J Robert Manak; Sujit Dike; Victor Sementchenko; Philipp Kapranov; Frederic Biemar; Jeff Long; Jill Cheng; Ian Bell; Srinka Ghosh; Antonio Piccolboni; Thomas R Gingeras
Journal:  Nat Genet       Date:  2006-09-03       Impact factor: 38.330

Review 9.  Nature, nurture, or chance: stochastic gene expression and its consequences.

Authors:  Arjun Raj; Alexander van Oudenaarden
Journal:  Cell       Date:  2008-10-17       Impact factor: 41.582

10.  A synthetic mammalian gene circuit reveals antituberculosis compounds.

Authors:  Wilfried Weber; Ronald Schoenmakers; Bettina Keller; Marc Gitzinger; Thomas Grau; Marie Daoud-El Baba; Peter Sander; Martin Fussenegger
Journal:  Proc Natl Acad Sci U S A       Date:  2008-07-09       Impact factor: 11.205

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