Feedback Loops, Stability and Multistationarity in Dynamical Systems

Plahte, Erik; Mestl, Thomas; Omholt, Stig W.

doi:10.1142/s0218339095000381

Cited by 135 publications

(101 citation statements)

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“…It is important to note here that a positive mechanical feedback loop ensured by the mechanical induction of twist is essential for this role, as positive feedback loops are associated with transitions towards new differentiation states, in contrast with negative feedback loops that tend to stabilize a given cellular state, i.e. homeostasis (Plahte et al, 1995).…”

Section: Physiological Function For Mechanical Induction Of Twist Durmentioning

confidence: 99%

Is mechano‐sensitive expression of twist involved In mesoderm formation?

Brouzés

Supatto

Farge

2004

Biology of the Cell

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Mesoderm invagination, the first morphogenetic movement of gastrulation in the early Drososphila embryo, is controlled by the expression of the twist and snail genes. Our knowledge concerning epistatic relationships between these genes implies the existence of a poorly understood biochemical maintenance of twist expression during mesoderm invagination by the snail gene. In the light of a review detailing the role of these genes in the cell shape changes leading to invagination, and of recent findings showing the expression of twist as mechanically sensitive, we suggest that the expression of twist in the mesoderm could alternatively be maintained by mechanical strains developed during mesoderm invagination.

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Section: Physiological Function For Mechanical Induction Of Twist Durmentioning

confidence: 99%

Is mechano‐sensitive expression of twist involved In mesoderm formation?

Brouzés

Supatto

Farge

2004

Biology of the Cell

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“…Since then, these conjectures have been proven in different frameworks [20,21,22,23,24,25,26,27,28,29]. As for intersecting circuits, we will argue here that beyond the impact that circuits have on the dynamical behaviour of a network, the interactions of circuits via their intersections also account significantly for certain dynamical properties of networks.…”

Section: Circuits and Intersecting Circuitsmentioning

confidence: 90%

“Immunetworks”, intersecting circuits and dynamics

Demongeot

Elena

Noual

et al. 2011

Journal of Theoretical Biology

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This paper proposes a study of biological regulatory networks based on a multi-level strategy. Given a network, the first structural level of this strategy consists in analysing the architecture of the network interactions in order to describe it. The second dynamical level consists in relating the patterns found in the architecture to the possible dynamical behaviours of the network. It is known that circuits are the patterns that play the most important part in the dynamics of a network in the sense that they are responsible for the diversity of its asymptotic behaviours. Here, we pursue further this idea and argue that beyond the influence of underlying circuits, intersections of circuits also impact significantly on the dynamics of a network and thus need to be payed special attention to. For some genetic regulation networks involved in the control of the immune system ("immunetworks"), we show that the small number of attractors can be explained by the presence, in the underlying structures of these networks, of intersecting circuits that "inter-lock".

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“…The association of the DHAK genes with a PTS gene, and PTSdependent regulation of the operon strongly suggest that the DHAK operon belongs to the PTS regulon. to inactivation of ptsI has been observed repeatedly (5,6). Expression of the mannose operon, of which manX is the first cistron, of ptsI and of ptsG is repressed by Mlc, a transcriptional repressor of the PTS.…”

Section: Heterodimeric Dihydroxyacetone Kinase From a Ptsi Mutant Of mentioning

confidence: 99%

“…A positive feedback loop combined with a non-linear relationship is necessary for multistationarity, as first conjectured by biologists (9) and later demonstrated by mathematicians (5,6). It is significant that adaptation to environmental changes is often controlled by a regulator that in some instances positively regulates its own synthesis, in addition to controlling the expression of the genes of the regulons involved in this response.…”

Section: Is This Hypothesis Likely ?mentioning

confidence: 99%

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Notes on designing a partial genomic database: The PfSBW25 Encyclopaedia, a sequence database for Pseudomonas fluorescens SBW25

2001

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Microbiology Comment provides a platform for readers of Microbiology to communicate their personal observations and opinions in a more informal way than through the submission of papers.Most of us feel, from time to time, that other authors have not acknowledged the work of our own or other groups or have omitted to interpret important aspects of their own data. Perhaps we have observations that, although not sufficient to merit a full paper, add a further dimension to one published by others. In other instances we may have a useful piece of methodology that we would like to share.The Editors hope that readers will take full advantage of this section and use it to raise matters that hitherto have been confined to a limited audience. Christopher M. Thomas, Editor-in-chiefNotes on designing a partial genomic database : The PfSBW25 Encyclopaedia, a sequence database for Pseudomonas fluorescens SBW25Managing and analysing DNA sequence is a major problem for those research programmes that generate large amounts of short-run noncontiguous (SRNC) sequence data as is the case for many genomic-level projects. Data must be accurately collated and archived, it must be accessible and preferably in a form that enables it to be data-mined. The problem of dealing with SRNC data is one that our laboratory has had to contend with as a result of our analysis of the genome of Pseudomonas fluorescens strain SBW5. To find a way forward, we designed an SNRC database using a novel set of Perl-CGI scripts that enable storing and mining of sequence data. The use of Perl scripting means that the database is user-friendly and fully accessible from the Web, which promotes communication between collaborators. It also promotes the publication of both raw and processed data, and means that SNRC data and information derived from bioinformatic analysis can be hyperlinked with remote databases (e.g. GenBank, SWISS-PROT, PubMed etc.).Microbial DNA analysis has become highly focused in the last five years on the manipulation and analysis of whole genome (WG) DNA sequences. The first of these was the 1n8 Mbp Haemophilus influenzae Rd genome completed in 1995 and since then, 27 additional microbial genomes have been completed. The value of these WG databases is tremendous, and there is substantial support for additional whole-genome sequencing efforts. Less obvious however, is the effort being put into sequencing projects where the complete genomic sequence is neither the primary nor the long-term goal of the research effort.Many projects aim to obtain biologically relevant sequences from specific experimental strategies. One example is IVET (in vitro expression technology) screening, where genes expressed only under certain environmental circumstances are recovered (2). A second is direct fluorescence induction, where individual bacteria expressing green fluorescent protein fusions are isolated by cell sorting (4). A third approach is signature-tagged mutagenesis, in which sequences are obtained from transposons inserted into virulence genes (1). T...

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Feedback Loops, Stability and Multistationarity in Dynamical Systems

Cited by 135 publications

References 0 publications

Is mechano‐sensitive expression of twist involved In mesoderm formation?

Is mechano‐sensitive expression of twist involved In mesoderm formation?

“Immunetworks”, intersecting circuits and dynamics

Notes on designing a partial genomic database: The PfSBW25 Encyclopaedia, a sequence database for Pseudomonas fluorescens SBW25

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