A Database for TSSs of Human MicroRNAs

MicroRNAs (miRNAs) are small endogeneous non-coding RNAs of about 22nt length. These short RNAs regulate the expression of mRNAs by hybridizing with their 3'-UTRs or by translational repression. They have been shown to take crucial roles in many biological processes. Many of the current studies are focused over how mature miRNAs regulate mRNAs, even though there is very limited knowledge about their transcriptional loci. Primary miRNAs (pri-miRs) are first transcribed from the DNA, followed by the formation of precursor miRNA (pre-miR) by endonucleases activity, which finally produces mature miRNAs. Unfortunately, the identification of the loci of pri-miRs, and the associated information about transcription start sites (TSSs) and promoters is still in progress. This information, even though limited, may be useful for further study on the regulation of miRNAs. In this paper, we provide a novel database of miRNA TSSs (miRT) that might be a valuable resource for advanced research on miRNA regulation

Control of quantum thermodynamic behaviour of a charged magneto oscillator with momentum dissipation

In this work, we expose the role of environment, confinement and external magnetic field ($B$) in determining the low temperature thermodynamic behaviour in the context of cyclotron motion of a charged oscillator with anomalous dissipative coupling involving the momentum instead of the much studied coordinate coupling. Explicit expressions for different quantum thermodynamic functions (QTF) are obtained at low temperatures for different quantum heat bath characterized by spectral density function, $\mu(\omega)$. The power law fall of different QTF are in conformity with third law of thermodynamics. But, the sensitiveness of decay i.e. the power of the power law decay explicitly depends on $\mu(\omega)$. We also separately discuss the influence of confinement and magnetic field on the low temperature behavior of different QTF. In this process we demonstrate how to control low temperature behaviour of anomalous dissipative quantum systems by varying confining length $a$, $B$ and the temperature $T$. Momentum dissipation reduces effective mass of the system and we also discuss its effect on different QTF at low temperatures.Comment: 9 Pages, 3 Figures, Accepted in Phys. Rev.

Magnetic field symmetries of nonlinear transport with elastic and inelastic scattering

We study nonlinear electronic transport symmetries in Aharonov-Bohm interferometers subjected to inelastic scattering effects and show that odd (even) conductance terms are even (odd) in the magnetic field when the junction is (left-right) spatially symmetric. This observation does not hold when an asymmetry is introduced, as we show numerically, but odd conductance terms only manifest a weak breakdown of the magnetic field symmetry. Under elastic dephasing effects, the Onsager-Casimir symmetry is maintained beyond linear response and under spatial asymmetries

Flux-dependent occupations and occupation difference in geometrically symmetric and energy degenerate double-dot Aharonov-Bohm interferometers

We study the steady-state characteristics and the transient behavior of the nonequilibrium double-dot Aharonov-Bohm interferometer using analytical tools and numerical simulations. Our simple setup includes noninteracting degenerate quantum dots that are coupled to two biased metallic leads at the same strength. A magnetic flux $\Phi$ is piercing the setup perpendicularly. As we tune the degenerate dots energies away from the symmetric point we observe four nontrivial magnetic flux control effects: (i) flux dependency of the dots occupation, (ii) magnetic flux induced occupation difference between the dots, at degeneracy, (iii) the effect of "phase-localization" of the dots coherence holds only at the symmetric point, while in general both real and imaginary parts of the coherence are nonzero, and (iv) coherent evolution survives even when the dephasing strength, introduced into our model using B\"uttiker probe, is large and comparable to the dots energies and the bias voltage. Moreover, not only finite dephasing strength does not destroy the coherence features, it can provide new type of coherent oscillations. These four phenomena take place when the dots energies are gated, to be positioned away from the symmetric point, demonstrating that the combination of bias voltage, magnetic flux and gating field, can provide delicate controllability over the occupation of each of the quantum dots, and their coherence

The probe technique far-from-equilibrium: Magnetic field symmetries of nonlinear transport

The probe technique is a simple mean to incorporate elastic and inelastic processes into quantum dynamics. Using numerical simulations, we demonstrate that this tool can be employed beyond the analytically tractable linear response regime, providing a stable solution for the probe parameters: temperature and chemical potential. Adopting four probes: dephasing, voltage, temperature, and voltage-temperature, mimicking different elastic and inelastic effects, we focus on magnetic field and gate voltage symmetries of charge current and heat current in Aharonov-Bohm interferometers, potentially far-from-equilibrium. Considering electron current, we prove analytically that in the linear response regime inelastic scattering processes do not break the Onsager symmetry. Beyond linear response, even (odd) conductance terms obey an odd (even) symmetry with the threading magnetic flux, as long as the system acquires a spatial inversion symmetry. When spatial asymmetry is introduced particle-hole symmetry assures that nonlinear conductance terms maintain certain symmetries with respect to magnetic field and gate voltage. These analytic results are supported by numerical simulations. Analogous results are obtained for the electron heat current. We also demonstrate that a double-dot Aharonov-Bohm interferometer acts as a rectifier when two conditions are met: (i) many-body effects are included, here in the form of inelastic scattering, and (ii) time reversal symmetry is broken

Quantum heat transfer in harmonic chains with self consistent reservoirs: Exact numerical simulations

We describe a numerical scheme for exactly simulating the heat current behavior in a quantum harmonic chain with self-consistent reservoirs. Numerically-exact results are compared to classical simulations and to the quantum behavior under the linear response approximation. In the classical limit or for small temperature biases our results coincide with previous calculations. At large bias and for low temperatures the quantum dynamics of the system fundamentally differs from the close-to-equilibrium behavior, revealing in particular the effect of thermal rectification for asymmetric chains. Since this effect is absent in the classical analog of our model, we conclude that in the quantum model studied here thermal rectification is a purely quantum phenomenon, rooted in the quantum statistics