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H. Alatas

Publications and source records attributed to H. Alatas.

6 recordsLinked to original sources

A Quantum-Gravity-Motivated GUP Effective Metric

Recent critiques have addressed certain aspects of the generalized uncertainty principle (GUP) effective metric (Ong 2023). This study presents a scale-dependent quadratic GUP effective metric, constructed through analyses of the gravity-induced phase shift (COW experiment) and the Einstein-Bohr photon box Gedanken experiment. In contrast to the procedure outlined in (Xiang et al. 2018), the momentum-dependent metric is improved by introducing an interpolating function $\Delta p (r)$, which employs the effective distance concept to accurately capture the distinct behavior of $\Delta p (r)$ in both short and long distance regimes. The resulting effective metric exhibits the same structure as that derived from the Renormalization Group (RG) theory. However, the RG parameter $\hat{\gamma}$ can now be related to the dimensionless GUP parameter $\beta_0$, thereby distinguishing this metric from the RG-based approach. The corresponding effective metric prediction demonstrates internal consistency of the model, and phenomenologically the predictions are in agreement with some quantum black hole models in some limits. The effective metric improved black hole thermodynamics and shadow predictions compared to the heuristic approach and other proposed GUP effective metrics. Furthermore, the relationship between GUP and $f(R)$ gravity (D'Agostino et al. 2026) may provide a possible future route toward a more fundamental description of GUP.

gr-qc

Dynamics of DNA Bubble in Viscous Medium

The damping effect to the DNA bubble is investigated within the Peyrard-Bishop model. In the continuum limit, the dynamics of the bubble of DNA is described by the damped nonlinear Schrodinger equation and studied by means of variational method. It is shown that the propagation of solitary wave pattern is not vanishing in a non-viscous system. Inversely, the solitary wave vanishes soon as the viscous force is introduced.

q-bio.BM

The thermal denaturation of Peyrard-Bishop model with an external potential

The impact of various types of external potentials to the Peyrard-Bishop DNA denaturation is investigated through statistical mechanics approach. The partition function is obtained using transfer integral method, and further the stretching of hydrogen bond is calculated using time independent perturbation method. It is shown that all types of external potentials accelerate the denaturation processes at lower temperature. In particular, it is argued that the Gaussian potential with infinitesimal width reproduces a constant force at one end of DNA sequence as already done in some previous works.

physics.bio-ph

Dynamics of DNA breathing in the Peyrard-Bishop model with damping and external force

The impact of damping effect and external forces to the DNA breathing is investigated within the Peyrard-Bishop model. In in the continuum limit, the dynamics of the breathing of DNA is described by the forced-damped nonlinear Schrodinger equation and studied by means of variational method. The analytical solutions are obtained for special cases. It is shown that the breather propagation is decelerated in the presence of damping factor without the external force, while the envelope velocity and the amplitude increase significantly with the presence of external force. It is particularly found that the higher harmonic terms are enhanced when the periodic force is applied. It is finally argued that the external force accelerates the DNA breathing.

physics.bio-ph

The thermodynamic properties of Davydov-Scott's protein model in thermal bath

The thermodynamic properties of Davydov-Scott monomer contacting with thermal bath is investigated using Lindblad open quantum system formalism. The Lindblad equation is investigated through path integral method. It is found that the environmental effects contribute destructively to the specific heat, and large interaction between amide-I and amide-site is not preferred for a stable Davydov-Scott monomer.

cond-mat.stat-mech

Anharmonic oscillation effect on the Davydov-Scott monomer in thermal bath

The dynamics of Davydov-Scott monomer in a thermal bath with higher order amide-site's displacement leads to anharmonic oscillation effect is investigated using full-quantum approach and the Lindblad formulation of master equation. The specific heat is calculated based on the thermodynamic partition function using the path integral method. The temperature dependence of the specific heat is studied. In the model the specific heat anomaly as pointed out in recent works by Ingold et.al is also observed. However it is found that the anomaly occurs at high temperature region, and the anharmonic oscillation restores the positivity of specific heat.

cond-mat.stat-mech