Transcriptional regulation by the numbers: models.
Lacramioara Bintu,Nicolas E. Buchler,Hernan G. Garcia,Ulrich Gerland,Terence Hwa,Jane Kondev,Rob Phillips +6 more
TLDR
Interactions of activators, repressors, helper molecules and RNAP are described by a single function, the "regulation factor", which culminates in an expression for the probability of RNA polymerase binding at the promoter of interest as a function of the number of regulatory proteins in the cell.About:
This article is published in Current Opinion in Genetics & Development.The article was published on 2005-04-01 and is currently open access. It has received 711 citations till now. The article focuses on the topics: Regulatory sequence & RNA polymerase.read more
Citations
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Principles of genetic circuit design
TL;DR: In this article, a review describes new tools that aid the construction of genetic circuits and discusses the failure modes encountered when assembling circuits, quantify their impact on performance, and review mitigation efforts.
Journal ArticleDOI
Growth Rate-Dependent Global Effects on Gene Expression in Bacteria
TL;DR: A feedback mechanism mediated by general growth-dependent effects that does not require explicit gene regulation if the expressed protein affects cell growth is suggested that can lead to growth bistability and promote the acquisition of important physiological functions such as antibiotic resistance and tolerance.
Principles of genetic circuit design
TL;DR: Better tools, well-characterized parts and a comprehensive understanding of how to compose circuits are leading to a breakthrough in the ability to program living cells for advanced applications, from living therapeutics to the atomic manufacturing of functional materials.
Journal ArticleDOI
Predicting expression patterns from regulatory sequence in Drosophila segmentation
TL;DR: A novel thermodynamic model is described that computes expression patterns as a function of cis-regulatory sequence and of the binding-site preferences and expression of participating transcription factors and is applied to the segmentation gene network of Drosophila melanogaster.
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Pluripotency Factors in Embryonic Stem Cells Regulate Differentiation into Germ Layers
TL;DR: By analyzing the dynamics of the transcriptional circuit that maintains pluripotency, it is found that Oct4 and Sox2, proteins that maintain ESC identity, also orchestrate germ layer fate selection.
References
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Book
Escherichia coli and Salmonella :cellular and molecular biology
TL;DR: The Enteric Bacterial Cell and the Age of Bacteria Variations on a Theme by Escherichia is described.
Journal ArticleDOI
Gene expression during the life cycle of Drosophila melanogaster.
Michelle N. Arbeitman,Eileen E. M. Furlong,Farhad Imam,Eric N. Johnson,Eric N. Johnson,Brian Null,Bruce S. Baker,Mark A. Krasnow,Matthew P. Scott,Ronald W. Davis,Kevin P. White,Kevin P. White +11 more
TL;DR: These studies define major characteristics of the transcriptional programs that underlie the life cycle, compare development in males and females, and show that large-scale gene expression data collected from whole animals can be used to identify genes expressed in particular tissues and organs or genes involved in specific biological and biochemical processes.
Book
A genetic switch
TL;DR: This genetic switch to read helps you to see from the PDF that your book chosen is absolutely right and the proper book option will influence how you read the book finished or not.
Journal ArticleDOI
On schemes of combinatorial transcription logic
TL;DR: This work shows explicit schemes to implement regulatory logic functions of increasing complexity by appropriately selecting the strengths and arranging the relative positions of the relevant protein-binding DNA sequences in the cis-regulatory region.
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Quantitative model for gene regulation by lambda phage repressor
TL;DR: The model predicts repression curves at the divergent promoters PR and PRM that control transcription of genes coding for the regulatory proteins cro and repressor, respectively, and demonstrates the importance of cooperative interactions between repressor dimers bound to the adjacent operator sites OR1 and OR2 in maintaining a stable lysogenic state.