Full counting statistics of strongly non-Ohmic transport through single molecules

We study analytically the full counting statistics of charge transport through single molecules, strongly coupled to a weakly damped vibrational mode. The specifics of transport in this regime - a hierarchical sequence of avalanches of transferred charges, interrupted by "quiet" periods - make the counting statistics strongly non-Gaussian. We support our findings for the counting statistics as well as for the frequency-dependent noise power by numerical simulations, finding excellent agreement.Comment: 4+ pages, 2 figures; minor changes, version published in Phys. Rev. Let

Electron injection in a nanotube with leads: finite frequency noise-correlations and anomalous charges

The non-equilibrium transport properties of a carbon nanotube which is connected to Fermi liquid leads, where electrons are injected in the bulk, are computed. A previous work which considered an infinite nanotube showed that the zero frequency noise correlations, measured at opposite ends of the nanotube, could be used to extract the anomalous charges of the chiral excitations which propagate in the nanotube. Here, the presence of the leads have the effect that such-noise cross-correlations vanish at zero frequency. Nevertheless, information concerning the anomalous charges can be recovered when considering the spectral density of noise correlations at finite frequencies, which is computed perturbatively in the tunneling amplitude. The spectrum of the noise cross-correlations is shown to depend crucially on the ratio of the time of flight of quasiparticles traveling in the nanotube to the ``voltage'' time which defines the width of the quasiparticle wave-packets injected when an electron tunnels. Potential applications toward the measurement of such anomalous charges in non-chiral Luttinger liquids (nanotubes or semiconductor quantum wires) are discussed.Comment: 11 pages, 5 figure

Output spectrum of a measuring device at arbitrary voltage and temperature

We calculate the noise spectrum of the electrical current in a quantum point contact which is used for continuous measurements of a two-level system (qubit). We generalize the previous results obtained for the regime of high transport voltages (when $V$ is much larger than the qubit's energy level splitting $B$ (we put $e=\hbar=1$)) to the case of arbitrary voltages and temperatures. When $V \sim B$ the background output spectrum is essentially asymmetric in frequency, i.e., it is no longer classical. Yet, the spectrum of the amplified signal, i.e., the two coherent peaks at $\omega=\pm B$ is still symmetric. In the emission (negative frequency) part of the spectrum the coherent peak can be 8 times higher than the background pedestal. Alternatively, this ratio can be seen in the directly measureable {\it excess} noise. For $V < B$ and T=0 the coherent peaks do not appear at all. We relate these results to the properties of linear amplifiers.Comment: 7 pages, 5 figures, the results generalized for arbitrary angle between the magnetic field and the observed component of the spin, minor corrections and typo

Classical and novel TSPO ligands for the mitochondrial TSPO can modulate nuclear gene expression: Implications for mitochondrial retrograde signaling

It is known that knockdown of the mitochondrial 18 kDa translocator protein (TSPO) as well as TSPO ligands modulate various functions, including functions related to cancer. To study the ability of TSPO to regulate gene expression regarding such functions, we applied microarray analysis of gene expression to U118MG glioblastoma cells. Within 15 min, the classical TSPO ligand PK 11195 induced changes in expression of immediate early genes and transcription factors. These changes also included gene products that are part of the canonical pathway serving to modulate general gene expression. These changes are in accord with real-time, reverse transcriptase (RT) PCR. At the time points of 15, 30, 45, and 60 min, as well as 3 and 24 h of PK 11195 exposure, the functions associated with the changes in gene expression in these glioblastoma cells covered well known TSPO functions. These functions included cell viability, proliferation, differentiation, adhesion, migration, tumorigenesis, and angiogenesis. This was corroborated microscopically for cell migration, cell accumulation, adhesion, and neuronal differentiation. Changes in gene expression at 24 h of PK 11195 exposure were related to downregulation of tumorigenesis and upregulation of programmed cell death. In the vehicle treated as well as PK 11195 exposed cell cultures, our triple labeling showed intense TSPO labeling in the mitochondria but no TSPO signal in the cell nuclei. Thus, mitochondrial TSPO appears to be part of the mitochondria-to-nucleus signaling pathway for modulation of nuclear gene expression. The novel TSPO ligand 2-Cl-MGV-1 appeared to be very specific regarding modulation of gene expression of immediate early genes and transcription factors

Cooling a nanomechanical resonator with quantum back-action

Quantum mechanics demands that the act of measurement must affect the measured object. When a linear amplifier is used to continuously monitor the position of an object, the Heisenberg uncertainty relationship requires that the object be driven by force impulses, called back-action. Here we measure the back-action of a superconducting single-electron transistor (SSET) on a radiofrequency nanomechanical resonator. The conductance of the SSET, which is capacitively coupled to the resonator, provides a sensitive probe of the latter's position;back-action effects manifest themselves as an effective thermal bath, the properties of which depend sensitively on SSET bias conditions. Surprisingly, when the SSET is biased near a transport resonance, we observe cooling of the nanomechanical mode from 550mK to 300mK-- an effect that is analogous to laser cooling in atomic physics. Our measurements have implications for nanomechanical readout of quantum information devices and the limits of ultrasensitive force microscopy (such as single-nuclear-spin magnetic resonance force microscopy). Furthermore, we anticipate the use of these backaction effects to prepare ultracold and quantum states of mechanical structures, which would not be accessible with existing technology.Comment: 28 pages, 7 figures; accepted for publication in Natur

Photo--assisted current and shot noise in the fractional quantum Hall effect

The effect of an AC perturbation on the shot noise of a fractional quantum Hall fluid is studied both in the weak and the strong backscattering regimes. It is known that the zero-frequency current is linear in the bias voltage, while the noise derivative exhibits steps as a function of bias. In contrast, at Laughlin fractions, the backscattering current and the backscattering noise both exhibit evenly spaced singularities, which are reminiscent of the tunneling density of states singularities for quasiparticles. The spacing is determined by the quasiparticle charge $\nu e$ and the ratio of the DC bias with respect to the drive frequency. Photo--assisted transport can thus be considered as a probe for effective charges at such filling factors, and could be used in the study of more complicated fractions of the Hall effect. A non-perturbative method for studying photo--assisted transport at $\nu=1/2$ is developed, using a refermionization procedure.Comment: 14 pages, 6 figure

Zero-point fluctuations in the ground state of a mesoscopic normal ring

We investigate the persistent current of a ring with an in-line quantum dot capacitively coupled to an external circuit. Of special interest is the magnitude of the persistent current as a function of the external impedance in the zero temperature limit when the only fluctuations in the external circuit are zero-point fluctuations. These are time-dependent fluctuations which polarize the ring-dot structure and we discuss in detail the contribution of displacement currents to the persistent current. We have earlier discussed an exact solution for the persistent current and its fluctuations based on a Bethe ansatz. In this work, we emphasize a physically more intuitive approach using a Langevin description of the external circuit. This approach is limited to weak coupling between the ring and the external circuit. We show that the zero temperature persistent current obtained in this approach is consistent with the persistent current calculated from a Bethe ansatz solution. In the absence of coupling our system is a two level system consisting of the ground state and the first excited state. In the presence of coupling we investigate the projection of the actual state on the ground state and the first exited state of the decoupled ring. With each of these projections we can associate a phase diffusion time. In the zero temperature limit we find that the phase diffusion time of the excited state projection saturates, whereas the phase diffusion time of the ground state projection diverges.Comment: 12 pages, 5 figure

Variational Methods for Biomolecular Modeling

Structure, function and dynamics of many biomolecular systems can be characterized by the energetic variational principle and the corresponding systems of partial differential equations (PDEs). This principle allows us to focus on the identification of essential energetic components, the optimal parametrization of energies, and the efficient computational implementation of energy variation or minimization. Given the fact that complex biomolecular systems are structurally non-uniform and their interactions occur through contact interfaces, their free energies are associated with various interfaces as well, such as solute-solvent interface, molecular binding interface, lipid domain interface, and membrane surfaces. This fact motivates the inclusion of interface geometry, particular its curvatures, to the parametrization of free energies. Applications of such interface geometry based energetic variational principles are illustrated through three concrete topics: the multiscale modeling of biomolecular electrostatics and solvation that includes the curvature energy of the molecular surface, the formation of microdomains on lipid membrane due to the geometric and molecular mechanics at the lipid interface, and the mean curvature driven protein localization on membrane surfaces. By further implicitly representing the interface using a phase field function over the entire domain, one can simulate the dynamics of the interface and the corresponding energy variation by evolving the phase field function, achieving significant reduction of the number of degrees of freedom and computational complexity. Strategies for improving the efficiency of computational implementations and for extending applications to coarse-graining or multiscale molecular simulations are outlined.Comment: 36 page

Continuation for thin film hydrodynamics and related scalar problems

This chapter illustrates how to apply continuation techniques in the analysis of a particular class of nonlinear kinetic equations that describe the time evolution through transport equations for a single scalar field like a densities or interface profiles of various types. We first systematically introduce these equations as gradient dynamics combining mass-conserving and nonmass-conserving fluxes followed by a discussion of nonvariational amendmends and a brief introduction to their analysis by numerical continuation. The approach is first applied to a number of common examples of variational equations, namely, Allen-Cahn- and Cahn-Hilliard-type equations including certain thin-film equations for partially wetting liquids on homogeneous and heterogeneous substrates as well as Swift-Hohenberg and Phase-Field-Crystal equations. Second we consider nonvariational examples as the Kuramoto-Sivashinsky equation, convective Allen-Cahn and Cahn-Hilliard equations and thin-film equations describing stationary sliding drops and a transversal front instability in a dip-coating. Through the different examples we illustrate how to employ the numerical tools provided by the packages auto07p and pde2path to determine steady, stationary and time-periodic solutions in one and two dimensions and the resulting bifurcation diagrams. The incorporation of boundary conditions and integral side conditions is also discussed as well as problem-specific implementation issues

Hedgehog-interacting protein is highly expressed in endothelial cells but down-regulated during angiogenesis and in several human tumors

BACKGROUND: The Hedgehog (Hh) signaling pathway regulates a variety of developmental processes, including vasculogenesis, and can also induce the expression of pro-angiogenic factors in fibroblasts postnatally. Misregulation of the Hh pathway has been implicated in a variety of different types of cancer, including pancreatic and small-cell lung cancer. Recently a putative antagonist of the pathway, Hedgehog-interacting protein (HIP), was identified as a Hh binding protein that is also a target of Hh signaling. We sought to clarify possible roles for HIP in angiogenesis and cancer. METHODS: Inhibition of Hh signaling by HIP was assayed by measuring the induction of Ptc-1 mRNA in TM3 cells treated with conditioned medium containing Sonic hedgehog (Shh). Angiogenesis was assayed in vitro by EC tube formation on Matrigel. Expression of HIP mRNA was assayed in cells and tissues by Q-RT-PCR and Western blot. HIP expression in human tumors or mouse xenograft tumors compared to normal tissues was assayed by Q-RT-PCR or hybridization of RNA probes to a cancer profiling array. RESULTS: We show that Hedgehog-interacting protein (HIP) is abundantly expressed in vascular endothelial cells (EC) but at low or undetectable levels in other cell types. Expression of HIP in mouse epithelial cells attenuated their response to Shh, demonstrating that HIP can antagonize Hh signaling when expressed in the responding cell, and supporting the hypothesis that HIP blocks Hh signaling in EC. HIP expression was significantly reduced in tissues undergoing angiogenesis, including PC3 human prostate cancer and A549 human lung cancer xenograft tumors, as well as in EC undergoing tube formation on Matrigel. HIP expression was also decreased in several human tumors of the liver, lung, stomach, colon and rectum when compared to the corresponding normal tissue. CONCLUSION: These results suggest that reduced expression of HIP, a naturally occurring Hh pathway antagonist, in tumor neo-vasculature may contribute to increased Hh signaling within the tumor and possibly promote angiogenesis