Searcharxiv⌕ Search
Home/Archive/arXiv

arXiv · 1809.08840

On three genetic repressilator topologies

Masa Dukaric·Hassan Errami·Roman Jerala·Tina Lebar·Valery G. Romanovski·Janos Toth·Andreas Weber
View original source ↗Read source document ↗Export metadata ↓

Abstract

Novel mathematical models of three different repressilator topologies are introduced. As designable transcription factors have been shown to bind to DNA non-cooperatively, we have chosen models containing non-cooperative elements. The extended topologies involve three additional transcription regulatory elements---which can be easily implemented by synthetic biology---forming positive feedback loops. This increases the number of variables to six, and extends the complexity of the equations in the model. To perform our analysis we had to use combinations of modern symbolic algorithms of computer algebra systems Mathematica and Singular. The study shows that all the three models have simple dynamics what can also be called regular behaviour: they have a single asymptotically stable steady state with small amplitude oscillations in the 3D case and no oscillation in one of the 6D cases and damping oscillation in the second 6D case. Using the program QeHopf we were able to exclude the presence of Hopf bifurcation in the 3D system.

Explore related subjects

math.DS

Keep this discovery

BibTeXRIS

Masa Dukaric, Hassan Errami, Roman Jerala, Tina Lebar, Valery G. Romanovski, Janos Toth, Andreas Weber. 2018-09-24. On three genetic repressilator topologies. https://arxiv.org/abs/1809.08840

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related papers

arXiv2026

Admissible Fourier Lengths, KAM Reducibility, and Spectral Applications

We develop a perturbative KAM reducibility theory for one-frequency $\mathrm{SL}(2,\mathbb{R})$ cocycles based on an admissible Fourier length $\ell$. The regularity relevant to the iteration is measured by positive adapted Fourier width rather than ordinary smoothness in the Euclidean length $|n|$. The same length governs Fourier decay, truncation and resonance scales, and the arithmetic condition controlling the small divisors. This framework contains the classical analytic and Gevrey settings, while non-monotone choices of $\ell$ allow classical nowhere differentiable Weierstrass-type perturbations and continuous perturbations outside every positive H\"older class. As spectral applications, we obtain purely absolutely continuous spectrum for every phase and $1/2$-H\"older continuity of the integrated density of states for the associated quasiperiodic Schr\"odinger operators. The Aubry dual has pure point spectrum for Lebesgue almost every dual phase, with eigenfunctions exponentially localized in the metric induced by $\ell$. We also construct nowhere differentiable quasiperiodic potentials with purely absolutely continuous Cantor spectrum.

math.DS↗
arXiv2026

Dynamics inside the attracting basins of some skew products

Polynomial skew products in $\mathbb{C}^2$ are maps of the form $F(z,w)=(P(z),Q(z,w))$, where $P$ and $Q$ are polynomials. Their local dynamics have been widely investigated. In this paper, we study the global dynamics inside Fatou components of some skew products. We consider all the inverse images in a Fatou component of a given point and use the Kobayashi metric to measure the distance between points. In the cases we consider, there are always arbitrarily large Kobayashi balls in the complement of these inverse sets.

math.DS↗
arXiv2026

Ergodicity of dynamical systems without uniqueness of orbits

Recently, there has been considerable interest in the study of non-deterministic dynamical systems. To analyze the chaotic behavior of such systems from a measure-theoretic viewpoint, it is desirable to consider ergodicity. However, the classical definition of ergodicity involves invariant sets, whose definition is not unique for non-deterministic dynamical systems. Thus, we are led to the question of which invariance yields an interesting definition of ergodicity. Here, we propose a definition based on the strong backward invariance and show that analogs of classical results hold. We also consider implications of the Birkhoff ergodic theorem for systems without uniqueness of orbits.

math.DS↗