Related papers: The heterodimer auto-repression loop: a robust and…
The so-called Mixed Feedback Loop (MFL) is a small two-gene network where protein A regulates the transcription of protein B and the two proteins form a heterodimer. It has been found to be statistically over-represented in statistical…
An intuitive physical mechanism for single attosecond pulse generation in multi-cycle pulse regime is proposed. We suggest that the continuum spectra of HHG can be controlled through the modulation of carrier wave, while keeping the…
A robust plasma gating to generate a single ultra-intense attosecond pulse is developed. It is a manifestation of the hole-boring effect that limits the strongest attosecond pulse emission within one laser cycle. The generated pulse is…
We present a general analysis for the interaction of a probe laser radiation with a coherently prepared molecular Raman medium. We describe a general formalism which includes dispersive effects, such as group velocity and group velocity…
DNA loop formation is one of several mechanisms used by organisms to regulate genes. The free energy of forming a loop is an important factor in determining whether the associated gene is switched on or off. In this paper we use an elastic…
A laser-boosted relativistic solid-density paraboloidal foil is known to efficiently reflect and focus a counterpropagating laser pulse. Here we show that in the case of an ultrarelativistic counterpropagating pulse, a high-energy and…
Transcription factors are proteins that regulate gene activity by activating or repressing gene transcription. A special class of transcriptional repressors operates via a short-range mechanism, making local DNA regions inaccessible to…
Genetic oscillators play important roles in cell life regulation. The regulatory efficiency usually depends strongly on the emergence of stable collective dynamic modes, which requires designing the interactions between genetic networks. We…
We study the internal resonance, energy transfer, activation mechanism, and control of a model of DNA division via parametric resonance. While the system is robust to noise, this study shows that it is sensitive to specific fine scale modes…
We experimentally demonstrate control of molecular rotation in bulk superfluid $^4\mathrm{He}$. Metastable helium dimers, $\mathrm{He}_2^*$, are rotationally excited by a periodic train of linearly polarized femtosecond laser pulses. We…
This paper analyzes, in the context of a prokaryotic cell, the stochastic variability of the number of proteins when there is a control of gene expression by an autoregulation scheme. The goal of this work is to estimate the efficiency of…
In this contribution, a design of a synthetic calibration genetic circuit to characterize the relative strength of different sensing promoters is proposed and its specifications and performance are analyzed via an effective mathematical…
We describe the generation of stable mode-locked pulse trains from on-chip normal dispersion microresonators. The excitation of hyper-parametric oscillation is facilitated by the local dispersion disruptions induced by mode interactions.…
Biopolymer length regulation is a complex process that involves a large number of subprocesses acting simultaneously across multiple spatial and temporal scales. An illustrative example important for genomic stability is the length…
Pulse-modulated feedback is utilized in drug dosing to mimic sustained over a longer period of time manual discrete dose administration, the latter is in contrast with continuous drug infusion. The intermittent mode of dosing calls for a…
The generation of attosecond X-ray pulses has garnered significant attention within the X-ray free-electron laser (FEL) community due to their potential for ultrafast time-resolved studies. Such pulses enable the investigation of electron…
We have extended our analytically derived PDB-NMA formulation, ATMAN [1], to include protein dimers using mixed internal and Cartesian coordinates. A test case on a 1.3\AA\ resolution model of a small homodimer, ActVA-ORF6, consisting of…
By means of extensive replica-exchange simulations of generic coarse-grained models for helical polymers, we systematically investigate the structural transitions into all possible helical phases for flexible and semiflexible elastic…
Condensation of hundreds of mega-base-pair-long human chromosomes in a small nuclear volume is a spectacular phenomenon. This process is driven by the formation of chromosome loops. ATP consuming motor, condensin, interacts with chromatin…
We revisit the dynamics of a gene repressed by its own protein in the case where the transcription rate does not adapt instantaneously to protein concentration but is a dynamical variable. We derive analytical criteria for the appearance of…