Searcharxiv⌕ Search

arXiv subjects

Jie Chen

Publications and source records attributed to Jie Chen.

At least 739 records · Page 41Linked to original sources

Parallel Gaussian Process Regression with Low-Rank Covariance Matrix Approximations

Gaussian processes (GP) are Bayesian non-parametric models that are widely used for probabilistic regression. Unfortunately, it cannot scale well with large data nor perform real-time predictions due to its cubic time cost in the data size. This paper presents two parallel GP regression methods that exploit low-rank covariance matrix approximations for distributing the computational load among parallel machines to achieve time efficiency and scalability. We theoretically guarantee the predictive performances of our proposed parallel GPs to be equivalent to that of some centralized approximate GP regression methods: The computation of their centralized counterparts can be distributed among parallel machines, hence achieving greater time efficiency and scalability. We analytically compare the properties of our parallel GPs such as time, space, and communication complexity. Empirical evaluation on two real-world datasets in a cluster of 20 computing nodes shows that our parallel GPs are significantly more time-efficient and scalable than their centralized counterparts and exact/full GP while achieving predictive performances comparable to full GP.

stat.ML↗

Estimation in Phase-Shift and Forward Wireless Sensor Networks

We consider a network of single-antenna sensors that observe an unknown deterministic parameter. Each sensor applies a phase shift to the observation and the sensors simultaneously transmit the result to a multi-antenna fusion center (FC). Based on its knowledge of the wireless channel to the sensors, the FC calculates values for the phase factors that minimize the variance of the parameter estimate, and feeds this information back to the sensors. The use of a phase-shift-only transmission scheme provides a simplified analog implementation at the sensor, and also leads to a simpler algorithm design and performance analysis. We propose two algorithms for this problem, a numerical solution based on a relaxed semidefinite programming problem, and a closed-form solution based on the analytic constant modulus algorithm. Both approaches are shown to provide performance close to the theoretical bound. We derive asymptotic performance analyses for cases involving large numbers of sensors or large numbers of FC antennas, and we also study the impact of phase errors at the sensor transmitters. Finally, we consider the sensor selection problem, in which only a subset of the sensors is chosen to send their observations to the FC.

cs.IT↗

Parameter Tracking via Optimal Distributed Beamforming in an Analog Sensor Network

We consider the problem of optimal distributed beamforming in a sensor network where the sensors observe a dynamic parameter in noise and coherently amplify and forward their observations to a fusion center (FC). The FC uses a Kalman filter to track the parameter using the observations from the sensors, and we show how to find the optimal gain and phase of the sensor transmissions under both global and individual power constraints in order to minimize the mean squared error (MSE) of the parameter estimate. For the case of a global power constraint, a closed-form solution can be obtained. A numerical optimization is required for individual power constraints, but the problem can be relaxed to a semidefinite programming problem (SDP), and we show how the optimal solution can be constructed from the solution to the SDP. Simulation results show that compared with equal power transmission, the use of optimized power control can significantly reduce the MSE.

cs.IT↗

Linearly Reconfigurable Kalman Filtering for a Vector Process

In this paper, we consider a dynamic linear system in state-space form where the observation equation depends linearly on a set of parameters. We address the problem of how to dynamically calculate these parameters in order to minimize the mean-squared error (MSE) of the state estimate achieved by a Kalman filter. We formulate and solve two kinds of problems under a quadratic constraint on the observation parameters: minimizing the sum MSE (Min-Sum-MSE) or minimizing the maximum MSE (Min-Max-MSE). In each case, the optimization problem is divided into two sub-problems for which optimal solutions can be found: a semidefinite programming (SDP) problem followed by a constrained least-squares minimization. A more direct solution is shown to exist for the special case of a scalar observation; in particular, the Min-Sum-MSE solution can be found directly using a generalized eigendecomposition, and is optimally solved utilizing Rayleigh quotient, and the Min-Max-MSE problem reduces to an SDP feasibility test that can be solved via the bisection method.

cs.IT↗

Inverse Problem of Electro-seismic Conversion

When a porous rock is saturated with an electrolyte, electrical fields are coupled with seismic waves via the electro-seismic conversion. Pride derived the governing models, in which Maxwell equations are coupled with Biot equations through the electro-kinetic mobility parameter. The inverse problem of the linearized electro-seismic conversion consists in two step, namely the inversion of Biot equations and the inversion of Maxwell equations. We analyze the reconstruction of conductivity and electro-kinetic mobility parameter in Maxwell equations with internal measurements, while the internal measurements are provided by the results of the inversion of Biot equations. We show that knowledge of two internal data based on well-chosen boundary conditions uniquely determine these two parameters. Moreover, a Lipschitz type stability is proved based on the same sets of well-chosen boundary conditions.

math.AP↗

Helices 2 and 3 are the initiation sites in the PrPc -> PrPsc transition

It is established that prion protein is the sole causative agent in a number of diseases in humans and animals. However, the nature of conformational changes that the normal cellular form PrPC undergoes in the conversion process to a self-replicating state is still not fully understood. The ordered C-terminus of PrPC proteins has three helices (H1, H2, and H3). Here, we use the Statistical Coupling Analysis (SCA) to infer co-variations at various locations using a family of evolutionarily related sequences, and the response of mouse and human PrPCs to mechanical force to decipher the initiation sites for transition from PrPC to an aggregation prone PrP* state. The sequence-based SCA predicts that the clustered residues in non-mammals are localized in the stable core (near H1) of PrPC whereas in mammalian PrPC they are localized in the frustrated helices H2 and H3 where most of the pathogenic mutations are found. Force-extension curves and free energy profiles as a function of extension of mouse and human PrPC in the absence of disulfide (SS) bond between residues Cys179 and Cys214, generated by applying mechanical force to the ends of the molecule, show a sequence of unfolding events starting first with rupture of H2 and H3. This is followed by disruption of structure in two strands. Helix H1, stabilized by three salt-bridges, resists substantial force before unfolding. Force extension profiles and the dynamics of rupture of tertiary contacts also show that even in the presence of SS bond the instabilities in most of H3 and parts of H2 still determine the propensity to form the PrP* state. In mouse PrPC with SS bond there are about ten residues that retain their order even at high forces.

q-bio.BM↗

Substrate Coupling Suppresses Size Dependence of Thermal Conductivity in Supported Graphene

Thermal conductivity $κ$ of both suspended and supported graphene has been studied by using molecular dynamics simulations. Obvious length dependence is observed in $κ$ of suspended single-layer graphene (SLG), while $κ$ of supported SLG is insensitive to the length. The simulation result of room temperature $κ$ of supported SLG is in good agreement with experimental value. In contrast to the decrease in $κ$ induced by inter-layer interaction in suspended few-layer graphene (FLG), $κ$ of supported FLG is found to increase rapidly with the layer thickness, reaching about 90% of that of bulk graphite at six layers, and eventually saturates at the thickness of 13.4 nm. More interestingly, unlike the remarkable substrate dependent $κ$ in SLG, the effect of substrate on thermal transport is much weaker in FLG. The underlying physics is investigated and presented.

cond-mat.mes-hall↗

Anonymous and Adaptively Secure Revocable IBE with Constant Size Public Parameters

In Identity-Based Encryption (IBE) systems, key revocation is non-trivial. This is because a user's identity is itself a public key. Moreover, the private key corresponding to the identity needs to be obtained from a trusted key authority through an authenticated and secrecy protected channel. So far, there exist only a very small number of revocable IBE (RIBE) schemes that support non-interactive key revocation, in the sense that the user is not required to interact with the key authority or some kind of trusted hardware to renew her private key without changing her public key (or identity). These schemes are either proven to be only selectively secure or have public parameters which grow linearly in a given security parameter. In this paper, we present two constructions of non-interactive RIBE that satisfy all the following three attractive properties: (i) proven to be adaptively secure under the Symmetric External Diffie-Hellman (SXDH) and the Decisional Linear (DLIN) assumptions; (ii) have constant-size public parameters; and (iii) preserve the anonymity of ciphertexts---a property that has not yet been achieved in all the current schemes.

cs.CR↗

Size-dependent radiosensitization of PEG-coated gold nanoparticles for cancer radiation therapy

Gold nanoparticles have been conceived as a radiosensitizer in cancer radiation therapy, but one of the important questions for primary drug screening is what size of gold nanoparticles can optimally enhance radiation effects. Herein, we perform in vitro and in vivo radiosensitization studies of 4.8, 12.1, 27.3, and 46.6 nm PEG-coated gold nanoparticles. In vitro results show that all sizes of the PEG-coated gold nanoparticles can cause a significant decrease in cancer cell survival after gamma radiation. 12.1 and 27.3 nm PEG-coated gold nanoparticles have dispersive distributions in the cells and have stronger sensitization effects than 4.8 and 46.6 nm particles by both cell apoptosis and necrosis. Further, in vivo results also show all sizes of the PEG-coated gold nanoparticles can decrease tumor volume and weight after 5 Gy radiations, and 12.1 and 27.3 nm PEG-coated gold nanoparticles have greater sensitization effects than 4.8 and 46.6 nm particles, which can lead to almost complete disappearance of the tumor. In vivo biodistribution confirms that 12.1 and 27.3 nm PEG-coated gold nanoparticles are accumulated in the tumor with high concentrations. The pathology, immune response, and blood biochemistry indicate that the PEG-coated gold nanoparticles do not cause spleen and kidney damages, but give rise to liver damage and gold accumulation. It can be concluded that 12.1 and 27.3 nm PEG-coated gold nanoparticles show high radiosensitivity, and these results have an important indication for possible radiotherapy and drug delivery.

physics.med-ph↗

Thermal Contact Resistance Across Nanoscale Silicon Dioxide and Silicon Interface

Silicon dioxide and silicon (SiO$_{2}$/Si) interface plays a very important role in semiconductor industry. However, at nanoscale, its interfacial thermal properties haven't been well understood so far. In this paper, we systematically study the interfacial thermal resistance (Kapitza resistance) of a heterojunction composed of amorphous silicon dioxide and crystalline silicon by using molecular dynamics simulations. Numerical results have shown that Kapitza resistance at SiO$_{2}$/Si interface depends on the interfacial coupling strength remarkably. In the weak interfacial coupling limit, Kapitza resistance depends on both the detailed interfacial structure and the length of the heterojunction, showing large fluctuation among different samples. In contrast, it is almost insensitive to the detailed interfacial structure or the length of the heterojunction in the strong interfacial coupling limit, giving rise to a nearly constant value around 0.9 $\times10^{-9}$ m$^{2}$KW$^{-1}$ at room temperature. Moreover, the temperature dependent Kapitza resistance in the strong interfacial coupling limit has also been examined. Our study provides useful guidance to the thermal management and heat dissipation across nanoscale SiO$_{2}$/Si interface, in particular for the design of silicon nanowire based nano electronics and photonics devices.

cond-mat.mtrl-sci↗

Decentralized Data Fusion and Active Sensing with Mobile Sensors for Modeling and Predicting Spatiotemporal Traffic Phenomena

The problem of modeling and predicting spatiotemporal traffic phenomena over an urban road network is important to many traffic applications such as detecting and forecasting congestion hotspots. This paper presents a decentralized data fusion and active sensing (D2FAS) algorithm for mobile sensors to actively explore the road network to gather and assimilate the most informative data for predicting the traffic phenomenon. We analyze the time and communication complexity of D2FAS and demonstrate that it can scale well with a large number of observations and sensors. We provide a theoretical guarantee on its predictive performance to be equivalent to that of a sophisticated centralized sparse approximation for the Gaussian process (GP) model: The computation of such a sparse approximate GP model can thus be parallelized and distributed among the mobile sensors (in a Google-like MapReduce paradigm), thereby achieving efficient and scalable prediction. We also theoretically guarantee its active sensing performance that improves under various practical environmental conditions. Empirical evaluation on real-world urban road network data shows that our D2FAS algorithm is significantly more time-efficient and scalable than state-of-the-art centralized algorithms while achieving comparable predictive performance.

cs.LG↗

Impacts of Atomistic Coating on Thermal Conductivity of Germanium Nanowires

By using non-equilibrium molecular dynamics simulations, we demonstrated that thermal conductivity of Germanium nanowires can be reduced more than 25% at room temperature by atomistic coating. There is a critical coating thickness beyond which thermal conductivity of the coated nanowire is larger than that of the host nanowire. The diameter dependent critical coating thickness and minimum thermal conductivity are explored. Moreover, we found that interface roughness can induce further reduction of thermal conductivity in coated nanowires. From the vibrational eigen-mode analysis, it is found that coating induces localization for low frequency phonons, while interface roughness localizes the high frequency phonons. Our results provide an available approach to tune thermal conductivity of nanowires by atomic layer coating.

cond-mat.mtrl-sci↗

Quantitative Photo-acoustic Tomography with Partial Data

Photo-acoustic tomography is a newly developed hybrid imaging modality that combines a high-resolution modality with a high-contrast modality. We analyze the reconstruction of diffusion and absorption parameters in an elliptic equation and improve an earlier result of Bal and Uhlmann to the partial date case. We show that the reconstruction can be uniquely determined by the knowledge of 4 internal data based on well-chosen partial boundary conditions. Stability of this reconstruction is ensured if a convexity condition is satisfied. Similar stability result is obtained without this geometric constraint if 4n well-chosen partial boundary conditions are available, where $n$ is the spatial dimension. The set of well-chosen boundary measurements is characterized by some complex geometric optics (CGO) solutions vanishing on a part of the boundary.

math.AP↗

Phase-Only Analog Encoding for a Multi-Antenna Fusion Center

We consider a distributed sensor network in which the single antenna sensor nodes observe a deterministic unknown parameter and after encoding the observed signal with a phase parameter, the sensor nodes transmit it simultaneously to a multi-antenna fusion center (FC). The FC optimizes the phase encoding parameter and feeds it back to the sensor nodes such that the variance of estimation error can be minimized. We relax the phase optimization problem to a semidefinite programming problem and the numerical results show that the performance of the proposed method is close to the theoretical bound. Also, asymptotic results show that when the number of sensors is very large and the variance of the distance between the sensor nodes and FC is small, multiple antennas do not provide a benefit compared with a single antenna system; when the number of antennas $M$ is large and the measurement noise at the sensor nodes is small compared with the additive noise at the FC, the estimation error variance can be reduced by a factor of $M$.

cs.IT↗

A Universal Gauge for Thermal Conductivity of Silicon Nanowires With Different Cross Sectional Geometries

By using molecular dynamics simulations, we study thermal conductivity of silicon nanowires (SiNWs) with different cross sectional geometries. It is found that thermal conductivity decreases monotonically with the increase of surface-to-volume ratio (SVR). More interestingly, a simple universal linear dependence of thermal conductivity on SVR is observed for SiNWs with modest cross sectional area (larger than 20 nm^2), regardless of the cross sectional geometry. As a result, among different shaped SiNWs with the same cross sectional area, the one with triangular cross section has the lowest thermal conductivity. Our study provides not only a universal gauge for thermal conductivity among different cross sectional geometries, but also a designing guidance to tune thermal conductivity by geometry.

cond-mat.mes-hall↗

Phonon Coherent Resonance and Its Effect on Thermal Transport In Core-Shell Nanowires

We study heat current autocorrelation function and thermal conductivity in core-shell nanowires by using molecular dynamics simulations. Interestingly, a remarkable oscillation effect in heat current autocorrelation function is observed in core-shell NWs, while the same effect is absent in pure silicon nanowires, nanotube structures and random doped nanowires. Detailed characterizations of the oscillation signal reveal that this intriguing oscillation is caused by the coherent resonance effect of the transverse and longitudinal phonon modes. This phonon resonance results in the localization of the longitudinal modes, which leads to the reduction of thermal conductivity in core-shell nanowires. Our study reveals that a coherent mechanism can be used to tune thermal conductivity in core-shell nanowires.

cond-mat.mtrl-sci↗

Hydrophobic and ionic-interactions in bulk and confined water with implications for collapse and folding of proteins

Water and water-mediated interactions determine thermodynamic and kinetics of protein folding, protein aggregation and self-assembly in confined spaces. To obtain insights into the role of water in the context of folding problems, we describe computer simulations of a few related model systems. The dynamics of collapse of eicosane shows that upon expulsion of water the linear hydrocarbon chain adopts an ordered helical hairpin structure with 1.5 turns. The structure of dimer of eicosane molecules has two well ordered helical hairpins that are stacked perpendicular to each other. As a prelude to studying folding in confined spaces we used simulations to understand changes in hydrophobic and ionic interactions in nano droplets. Solvation of hydrophobic and charged species change drastically in nano water droplets. Hydrophobic species are localized at the boundary. The tendency of ions to be at the boundary where water density is low increases as the charge density decreases. Interaction between hydrophobic, polar, and charged residue are also profoundly altered in confined spaces. Using the results of computer simulations and accounting for loss of chain entropy upon confinement we argue and then demonstrate, using simulations in explicit water, that ordered states of generic amphiphilic peptide sequences should be stabilized in cylindrical nanopores.

cond-mat.soft↗

Beam based calibration of X-ray pinhole camera in SSRF

The Shanghai Synchrotron Radiation Facility (SSRF) contains a 3.5-GeV storage ring serving as a national X-ray synchrotron radiation user facility characterized by a low emittance and a low coupling. The stability and quality of the electron beams are monitored continuously by an array of diagnostics. In particular, an X-ray pinhole camera is employed in the diagnostics beamline of the ring to characterize the position, size, and emittance of the beam. The performance of the measurement of the transverse electron beam size is given by the width of the point spread function (PSF) of the X-ray pinhole camera. Typically the point spread function of the X-ray pinhole camera is calculated via analytical or numerical method. In this paper we will introduce a new beam based calibration method to derive the width of the PSF online.

nucl-ex↗