Multiple functions of a feed-forward-loop gene circuit.

No abstract is available for this paper.

• Publication year

  2005

• Venue

  Journal of Molecular Biology

• Publication date

  2005-06-10

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1016/J.JMB.2005.04.022PMID 15890368
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Robustness in gene circuits: clustering of functional responses

  2005cited by this paper
• EcoCyc: a comprehensive database resource for Escherichia coli

  2004cited by this paper
• Interchangeability of repressors for the control of the uxu and uid operons in E. coli K12

  2004cited by this paper
• Design of gene circuits: lessons from bacteria

  2004cited by this paper
• Transcriptional Organization and Regulation of the l-Idonic Acid Pathway (GntII System) in Escherichia coli

  2004cited by this paper
• Multiple regulation involved in the expression of the uxuR regulatory gene in Escherichia coli K-12

  2004cited by this paper
• Extending the classification of bacterial transcription factors beyond the helix-turn-helix motif as an alternative approach to discover new cis/trans relationships.

  2004influential reference
• RegulonDB (version 4.0): transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12

  2004cited by this paper
• The Activator of GntII Genes for Gluconate Metabolism, GntH, Exerts Negative Control of GntR-Regulated GntI Genes in Escherichia coli

  2003cited by this paper
• Dual Control by Regulators, GntH and GntR, of the GntII Genes for Gluconate Metabolism in Escherichia coli

  2003cited by this paper
• Environmental conditions and transcriptional regulation in Escherichia coli: a physiological integrative approach

  2003cited by this paper
• Singular value decomposition and principal component analysis

  2003cited by this paper
• Design principles for regulator gene expression in a repressible gene circuit.

  2003cited by this paper
• Structure and function of the feed-forward loop network motif

  2003influential reference
• A Practical Approach to Microarray Data Analysis

  2003cited by this paper
• Network motifs in the transcriptional regulation network of Escherichia coli

  2002cited by this paper
• Design principles for elementary gene circuits: Elements, methods, and examples.

  2001cited by this paper
• Allosteric regulation of the cAMP receptor protein.

  2001cited by this paper
• Regulation of the L-arabinose operon of Escherichia coli.

  2000cited by this paper
• Positive and Negative Transcriptional Regulation of the Escherichia coli Gluconate Regulon Gene gntTby GntR and the Cyclic AMP (cAMP)-cAMP Receptor Protein Complex

  1998cited by this paper
• Sequence Analysis of the GntII (Subsidiary) System for Gluconate Metabolism Reveals a Novel Pathway for l-Idonic Acid Catabolism in Escherichia coli

  1998cited by this paper
• Gene organization and transcriptional regulation of the gntRKU operon involved in gluconate uptake and catabolism of Escherichia coli.

  1997cited by this paper
• Functional characterization of roles of GalR and GalS as regulators of the gal regulon

  1997cited by this paper
• Cloning and molecular genetic characterization of the Escherichia coli gntR, gntK, and gntU genes of GntI, the main system for gluconate metabolism

  1996cited by this paper
• Rules for coupled expression of regulator and effector genes in inducible circuits.

  1996cited by this paper
• The galactose regulon of Escherichia coli

  1993cited by this paper
• Control of transcription of gal repressor and isorepressor genes in Escherichia coli

  1993cited by this paper
• A theory of alternative designs for biochemical control systems.

  1985cited by this paper
• A best possible approximation algorithm for the k--center problem

  1985cited by this paper
• A Best Possible Heuristic for the k-Center Problem

  1985cited by this paper
• A theory of alternative designs for biochemical control systems.

  1985cited by this paper
• Regulation of hexuronate system genes in Escherichia coli K-12: multiple regulation of the uxu operon by exuR and uxuR gene products

  1981cited by this paper
• Biochemical Systems Analysis: A Study of Function and Design in Molecular Biology

  1976cited by this paper
• [Regulation of hexuronate metabolism in Escherichia coli K12. Kinetics of enzyme induction of the hexuronate system].

  1974cited by this paper
• Régulation du métabolisme des hexuronates chez Escherichia coli K12

  1974cited by this paper

• Temporal dose inversion properties of adaptive biomolecular circuits

  2025cites this paper
• SOX10, MITF, and microRNAs: Decoding their interplay in regulating melanoma plasticity

  2025cites this paper
• Structural Hole Spanners Detection in Directed Social Networks: A Feed Forward Loop Motif Approach

  2024cites this paper
• Pillars of theoretical biology: "Biochemical systems analysis, I, II and III".

  2023cites this paper
• Emergent Bistable Switches from the Incoherent Feed-Forward Signaling of a Positive Feedback Loop.

  2021cites this paper
• Dynamical Modularity of the Genotype-Phenotype Map

  2021cites this paper
• Cell-Free Characterization of Coherent Feed-Forward Loop-Based Synthetic Genetic Circuits

  2021cites this paper
• Dynamical modules in metabolism, cell and developmental biology

  2021cites this paper
• Transcriptional Regulatory Network Topology with Applications to Bio-inspired Networking: A Survey

  2021cites this paper
• Network motif-based analysis of regulatory patterns in paralogous gene pairs

  2020cites this paper
• Multiple Realization in Systems Biology

  2020cites this paper
• Modeling and Analysis of Simple Genetic Circuits

  2020cites this paper
• Quantitative Characteristic of ncRNA Regulation in Gene Regulatory Networks.

  2019cites this paper
• Graph-based network analysis of transcriptional regulation pattern divergence in duplicated yeast gene pairs

  2019cites this paper
• A single-input binary counting module based on serine integrase site-specific recombination

  2019cites this paper
• Feed-forward regulation adaptively evolves via dynamics rather than topology when there is intrinsic noise

  2019cites this paper
• Modularity, criticality, and evolvability of a developmental gene regulatory network

  2018cites this paper
• Noise decomposition algorithm and propagation mechanism in feed-forward gene transcriptional regulatory loop

  2018cites this paper
• A Dynamic Multiple Input Description of Lactose Operon Expression

  2018cites this paper
• Adaptive evolution of feed-forward loops versus diamonds to filter out short spurious signals

  2018cites this paper
• Modelling the Evolution of Dynamic Regulatory Networks: Some Critical Insights

  2017cites this paper
• On the role of topology in regulating transcriptional cascades.

  2017cites this paper
• Evolutionary Biology: Self/Nonself Evolution, Species and Complex Traits Evolution, Methods and Concepts

  2017cites this paper
• No tradeoff between versatility and robustness in gene circuit motifs

  2016cites this paper
• Functional architecture and global properties of the Corynebacterium glutamicum regulatory network: Novel insights from a dataset with a high genomic coverage.

  2016cites this paper
• Form and function in gene regulatory networks: the structure of network motifs determines fundamental properties of their dynamical state space

  2016cites this paper
• Noise Decomposition Principle in a Coherent Feed-Forward Transcriptional Regulatory Loop

  2016cites this paper
• Understanding microRNA-mediated gene regulatory networks through mathematical modelling

  2016cites this paper
• Function does not follow form in gene regulatory circuits

  2015cites this paper
• Can biological complexity be reverse engineered?

  2015cites this paper
• Interactive regulation by the Bacillus subtilis global regulators CodY and ScoC

  2015cites this paper
• Modelling and analysis of a gene-regulatory feed-forward loop with basal expression of the second regulator.

  2014cites this paper
• Systems Biology

  2014cites this paper
• Regulation in Biological Systems

  2014cites this paper
• Similarity in targets with REST points to neural and glioblastoma related miRNAs

  2014cites this paper
• Glucocorticoid receptor coordinates transcription factor-dominated regulatory network in macrophages

  2014cites this paper
• Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks.

  2013cites this paper
• Lessons from the modular organization of the transcriptional regulatory network of Bacillus subtilis

  2013cites this paper
• Dynamic and structural constraints in signal propagation by regulatory networks.

  2013cites this paper
• Dynamic modularity in discrete-time models of regulatory networks

  2012cites this paper
• Global relative input-output sensitivities of the feed-forward loops in genetic networks

  2012cites this paper
• Global relative parameter sensitivities of the feed-forward loops in genetic networks

  2012cites this paper
• The inheritance of process: a dynamical systems approach.

  2012cites this paper
• Evolvability of feed-forward loop architecture biases its abundance in transcription networks

  2012cites this paper
• Theory on the Dynamics of Feedforward Loops in the Transcription Factor Networks

  2012cites this paper
• miRNA regulation of Sdf1 chemokine signaling provides genetic robustness to germ cell migration

  2011cites this paper
• Structure-function relations are subtle in genetic regulatory networks.

  2011cites this paper
• Methods for and results from the study of design principles in molecular systems.

  2011cites this paper
• Non-transcriptional regulatory processes shape transcriptional network dynamics

  2011cites this paper
• Symmetry invariance for adapting biological systems

  2010cites this paper
• The construction of transcription factor networks through natural selection

  2010cites this paper
• BIOACTIVE FATTY ACID SUPPLEMENTATION AND RISK FACTORS FOR THE METABOLIC SYNDROME

  2010cites this paper
• Form and function in small biological networks

  2010cites this paper
• A model for improving microbial biofuel production using a synthetic feedback loop

  2010cites this paper
• Functional motifs in biochemical reaction networks.

  2010cites this paper
• Quantifying evolvability in small biological

  2009cites this paper
• Mathematical modelling of the regulation of spa (protein A) transcription in Staphylococcus aureus.

  2009cites this paper
• Optimizing information flow in small genetic networks. II. Feed-forward interactions.

  2009cites this paper
• Topology of Plant Metabolic Networks

  2009cites this paper
• Quantifying Global Tolerance of Biochemical Systems: Design Implications for Moiety-Transfer Cycles

  2009cites this paper
• Investigation of a Biological Repair Scheme

  2009cites this paper
• Transcriptional Networks Regulating Embryonic Stem Cell Fate Decisions

  2009cites this paper
• Quantifying evolvability in small biological networks.

  2008cites this paper
• Analysis of Biological Networks

  2008cites this paper
• Serially regulated biological networks fully realise a constrained set of functions.

  2008cites this paper
• Mutual interaction in network motifs robustly sharpens gene expression in developmental processes.

  2008cites this paper
• Uri Alon, An Introduction to Systems Biology: Design Principles of Biological Circuits, Chapman & Hall/CRC, London, ISBN 1584886420, GBP 30.99, 2007 (320 pp.).

  2008cites this paper
• The biphasic behavior of incoherent feed-forward loops in biomolecular regulatory networks.

  2008cites this paper
• Determinants of bistability in induction of the Escherichia coli lac operon.

  2008cites this paper
• Evolutionary modelling of feed forward loops in gene regulatory networks

  2008cites this paper
• Remarks on feedforward circuits, adaptation, and pulse memory.

  2008cites this paper
• Centrality Analysis Methods for Biological Networks and Their Application to Gene Regulatory Networks

  2008cites this paper
• Dynamics and Correlated Noise in Gene Regulation

  2008cites this paper
• Functions of bifans in context of multiple regulatory motifs in signaling networks.

  2007influential citation
• Dynamic cumulative activity of transcription factors as a mechanism of quantitative gene regulation

  2007cites this paper
• Synthetic promoters: genetic control through cis engineering.

  2007cites this paper
• Network motifs: theory and experimental approaches

  2007cites this paper
• Coordinate Transcriptional Repression of Liver Fatty Acid-binding Protein and Microsomal Triglyceride Transfer Protein Blocks Hepatic Very Low Density Lipoprotein Secretion without Hepatosteatosis*

  2006cites this paper
• Internal-sensing machinery directs the activity of the regulatory network in Escherichia coli.

  2006cites this paper
• The incoherent feed-forward loop accelerates the response-time of the gal system of Escherichia coli.

  2006cites this paper
• Optimal Signal Processing in Small Stochastic Biochemical Networks

  2006cites this paper
• Differential evolutionary conservation of motif modes in the yeast protein interaction network

  2006cites this paper