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Published work

42 published item(s)

preprint2026arXiv

Can Agents Price a Reaction? Evaluating LLMs on Chemical Cost Reasoning

Large Language Models (LLMs) have become increasingly capable as tool-using agents, with benchmarks spanning diverse general agentic tasks. Yet rigorous evaluation of scientific tool use remains limited. In chemistry, recent agents can plan syntheses and invoke domain-specific tools, but evaluations often rely on curated demonstrations, expert assessment, or LLM-as-judge scoring rather than exact, judge-free ground truth. We address this gap with chemical procurement cost estimation, a practical task in which an agent must ground chemical identities, retrieve supplier quotes, select valid purchasable packs, normalize quantities, and compute cost from a reaction description. We introduce ChemCost, a benchmark of 1,427 evaluable reactions grounded to a frozen pricing snapshot covering 2,261 chemicals and 230,775 supplier quotes, supporting scalar scoring and stage-level diagnosis of grounding, retrieval, procurement, and arithmetic failures. To evaluate robustness, we further construct controlled noise-injected views that perturb chemical aliases, quantity expressions, missing fields, and input formatting. Experiments with frontier, open-weight, and chemistry-specialized LLM agents show that tool access is necessary but insufficient for solving the task. The strongest agents reach only 50.6% accuracy within 25% relative error on clean inputs and degrade substantially with realistic noise. Stage-level analysis further shows that failures arise from brittle parsing, ineffective evidence integration, invalid pack selection, and non-convergent tool use.

preprint2022arXiv

A deep learning pipeline for breast cancer ki-67 proliferation index scoring

The Ki-67 proliferation index is an essential biomarker that helps pathologists to diagnose and select appropriate treatments. However, automatic evaluation of Ki-67 is difficult due to nuclei overlapping and complex variations in their properties. This paper proposes an integrated pipeline for accurate automatic counting of Ki-67, where the impact of nuclei separation techniques is highlighted. First, semantic segmentation is performed by combining the Squeez and Excitation Resnet and Unet algorithms to extract nuclei from the background. The extracted nuclei are then divided into overlapped and non-overlapped regions based on eight geometric and statistical features. A marker-based Watershed algorithm is subsequently proposed and applied only to the overlapped regions to separate nuclei. Finally, deep features are extracted from each nucleus patch using Resnet18 and classified into positive or negative by a random forest classifier. The proposed pipeline's performance is validated on a dataset from the Department of Pathology at Hôpital Nord Franche-Comté hospital.

preprint2022arXiv

Causal Domain Adaptation with Copula Entropy based Conditional Independence Test

Domain Adaptation (DA) is a typical problem in machine learning that aims to transfer the model trained on source domain to target domain with different distribution. Causal DA is a special case of DA that solves the problem from the view of causality. It embeds the probabilistic relationships in multiple domains in a larger causal structure network of a system and tries to find the causal source (or intervention) on the system as the reason of distribution drifts of the system states across domains. In this sense, causal DA is transformed as a causal discovery problem that finds invariant representation across domains through the conditional independence between the state variables and observable state of the system given interventions. Testing conditional independence is the corner stone of causal discovery. Recently, a copula entropy based conditional independence test was proposed with a rigorous theory and a non-parametric estimation method. In this paper, we first present a mathemetical model for causal DA problem and then propose a method for causal DA that finds the invariant representation across domains with the copula entropy based conditional independence test. The effectiveness of the method is verified on two simulated data. The power of the proposed method is then demonstrated on two real-world data: adult census income data and gait characteristics data.

preprint2022arXiv

Comparison on gait characteristics between controlled and free-living conditions in old adults

Gait is an important biomarker of functional conditions and gait characteristics can help us assessing health conditions and managing progression of diseases. Most of the existing research study the gait in controlled condition, such as clinical tests. In this paper, we study the gait characteristics in free-living conditions in old adults and compare them with that in controlled conditions, i.e., Timed Up and Go (TUG) test. 65 subjects (12 patients with mobility impairment and 53 healthy controls) are recruited from elderly nursing institutions. The video data are collected from them in TUG test and free-living conditions and the 9 gait characteristics, including gait speed, are extracted from the data. Two-sample tests and independence test based on copula entropy are conducted on the extracted data to compare the characteristics in two conditions. Comparison results show that gait characteristics, such as gait speed, pace, speed variability, etc., in daily life are different from that of in TUG test. In daily life, people tend to have slow gait speed, smaller pace and speed variability, more frequent stride, and smaller acceleration range than in TUG test. We also found that gait speed, pace, and speed variability have stronger dependence with TUG score in the 3 conditions (TUG, daily life, and both) and that other 5 characteristics have stronger dependence with TUG score in both condition than in each condition. The comparison in this study suggests that TUG and daily life conditions are complementary with each other, and that TUG test can be considered as intervention on the movement state of human.

preprint2022arXiv

Evaluating Independence and Conditional Independence Measures

Independence and Conditional Independence (CI) are two fundamental concepts in probability and statistics, which can be applied to solve many central problems of statistical inference. There are many existing independence and CI measures defined from diverse principles and concepts. In this paper, the 16 independence measures and 16 CI measures were reviewed and then evaluated with simulated and real data. For the independence measures, eight simulated data were generating from normal distribution, normal and Archimedean copula functions to compare the measures in bivariate or multivariate, linear or nonlinear settings. Two UCI dataset, including the heart disease data and the wine quality data, were used to test the power of the independence measures in real conditions. For the CI measures, two simulated data with normal distribution and Gumbel copula, and one real data (the Beijing air data) were utilized to test the CI measures in prespecified linear or nonlinear setting and real scenario. From the experimental results, we found that most of the measures work well on the simulated data by presenting the right monotonicity of the simulations. However, the independence and CI measures were differentiated on much complex real data respectively and only a few can be considered as working well with reference to domain knowledge. We also found that the measures tend to be separated into groups based on the similarity of the behaviors of them in each setting and in general. According to the experiments, we recommend CE as a good choice for both independence and CI measure. This is also due to its rigorous distribution-free definition and consistent nonparametric estimator.

preprint2022arXiv

Hand-Object Interaction Reasoning

This paper proposes an interaction reasoning network for modelling spatio-temporal relationships between hands and objects in video. The proposed interaction unit utilises a Transformer module to reason about each acting hand, and its spatio-temporal relation to the other hand as well as objects being interacted with. We show that modelling two-handed interactions are critical for action recognition in egocentric video, and demonstrate that by using positionally-encoded trajectories, the network can better recognise observed interactions. We evaluate our proposal on EPIC-KITCHENS and Something-Else datasets, with an ablation study.

preprint2022arXiv

MQBench: Towards Reproducible and Deployable Model Quantization Benchmark

Model quantization has emerged as an indispensable technique to accelerate deep learning inference. While researchers continue to push the frontier of quantization algorithms, existing quantization work is often unreproducible and undeployable. This is because researchers do not choose consistent training pipelines and ignore the requirements for hardware deployments. In this work, we propose Model Quantization Benchmark (MQBench), a first attempt to evaluate, analyze, and benchmark the reproducibility and deployability for model quantization algorithms. We choose multiple different platforms for real-world deployments, including CPU, GPU, ASIC, DSP, and evaluate extensive state-of-the-art quantization algorithms under a unified training pipeline. MQBench acts like a bridge to connect the algorithm and the hardware. We conduct a comprehensive analysis and find considerable intuitive or counter-intuitive insights. By aligning the training settings, we find existing algorithms have about the same performance on the conventional academic track. While for the hardware-deployable quantization, there is a huge accuracy gap which remains unsettled. Surprisingly, no existing algorithm wins every challenge in MQBench, and we hope this work could inspire future research directions.

preprint2022arXiv

Subband-based Generative Adversarial Network for Non-parallel Many-to-many Voice Conversion

Voice conversion is to generate a new speech with the source content and a target voice style. In this paper, we focus on one general setting, i.e., non-parallel many-to-many voice conversion, which is close to the real-world scenario. As the name implies, non-parallel many-to-many voice conversion does not require the paired source and reference speeches and can be applied to arbitrary voice transfer. In recent years, Generative Adversarial Networks (GANs) and other techniques such as Conditional Variational Autoencoders (CVAEs) have made considerable progress in this field. However, due to the sophistication of voice conversion, the style similarity of the converted speech is still unsatisfactory. Inspired by the inherent structure of mel-spectrogram, we propose a new voice conversion framework, i.e., Subband-based Generative Adversarial Network for Voice Conversion (SGAN-VC). SGAN-VC converts each subband content of the source speech separately by explicitly utilizing the spatial characteristics between different subbands. SGAN-VC contains one style encoder, one content encoder, and one decoder. In particular, the style encoder network is designed to learn style codes for different subbands of the target speaker. The content encoder network can capture the content information on the source speech. Finally, the decoder generates particular subband content. In addition, we propose a pitch-shift module to fine-tune the pitch of the source speaker, making the converted tone more accurate and explainable. Extensive experiments demonstrate that the proposed approach achieves state-of-the-art performance on VCTK Corpus and AISHELL3 datasets both qualitatively and quantitatively, whether on seen or unseen data. Furthermore, the content intelligibility of SGAN-VC on unseen data even exceeds that of StarGANv2-VC with ASR network assistance.

preprint2021arXiv

Associations between finger tapping, gait and fall risk with application to fall risk assessment

As the world ages, elderly care becomes a big concern of the society. To address the elderly's issues on dementia and fall risk, we have investigated smart cognitive and fall risk assessment with machine learning methodology based on the data collected from finger tapping test and Timed Up and Go (TUG) test. Meanwhile, we have discovered the associations between cognition and finger motion from finger tapping data and the association between fall risk and gait characteristics from TUG data. In this paper, we jointly analyze the finger tapping and gait characteristics data with copula entropy. We find that the associations between certain finger tapping characteristics ('number of taps', 'average interval of tapping', 'frequency of tapping' of both hands of bimanual inphase and those of left hand of bimanual untiphase) and TUG score are relatively high. According to this finding, we propose to utilize this associations to improve the predictive models of automatic fall risk assessment we developed previously. Experimental results show that using the characteristics of both finger tapping and gait as inputs of the predictive models of predicting TUG score can considerably improve the prediction performance in terms of MAE compared with using only one type of characteristics.

preprint2021arXiv

Estimating Transfer Entropy via Copula Entropy

Causal discovery is a fundamental problem in statistics and has wide applications in different fields. Transfer Entropy (TE) is a important notion defined for measuring causality, which is essentially conditional Mutual Information (MI). Copula Entropy (CE) is a theory on measurement of statistical independence and is equivalent to MI. In this paper, we prove that TE can be represented with only CE and then propose a non-parametric method for estimating TE via CE. The proposed method was applied to analyze the Beijing PM2.5 data in the experiments. Experimental results show that the proposed method can infer causality relationships from data effectively and hence help to understand the data better.

preprint2021arXiv

Statistical Characteristics of Driver Acceleration Behavior and Its Probability Model

Naturalistic driving data were applied to study driver acceleration behaviour, and a probability model of the driver was proposed. First, the question of whether the database is large enough is resolved using kernel density estimation and Kullback-Liebler divergence. Next, the convergence database is utilised to achieve the bivariate acceleration distribution pattern. Subsequently, two probability models are proposed to explain the pattern. Finally, the statistical characteristics of the acceleration behaviours are studied to verify the probability models. The longitudinal and lateral acceleration behaviours always approximate a similar Pareto distribution. The braking, accelerating, and steering manoeuvres become more intense at first and then less intense as the velocity increases. These behaviours characteristics reveal the mechanism of the quadrangle bivariate acceleration distribution pattern. The bivariate acceleration behaviour of the driver will never reach a circle-shaped pattern. The bivariate Pareto distribution model can be applied to describe the bivariate acceleration behaviour of the driver.

preprint2020arXiv

Discovering Association with Copula Entropy

Discovering associations is of central importance in scientific practices. Currently, most researches consider only linear association measured by correlation coefficient, which has its theoretical limitations. In this paper, we propose a new method for discovering association with copula entropy -- a universal applicable association measure for not only linear cases, but nonlinear cases. The advantage of the method based on copula entropy over traditional method is demonstrated on the NHANES data by discovering more biomedical meaningful associations.

preprint2020arXiv

Graph Representation Learning for Merchant Incentive Optimization in Mobile Payment Marketing

Mobile payment such as Alipay has been widely used in our daily lives. To further promote the mobile payment activities, it is important to run marketing campaigns under a limited budget by providing incentives such as coupons, commissions to merchants. As a result, incentive optimization is the key to maximizing the commercial objective of the marketing campaign. With the analyses of online experiments, we found that the transaction network can subtly describe the similarity of merchants' responses to different incentives, which is of great use in the incentive optimization problem. In this paper, we present a graph representation learning method atop of transaction networks for merchant incentive optimization in mobile payment marketing. With limited samples collected from online experiments, our end-to-end method first learns merchant representations based on an attributed transaction networks, then effectively models the correlations between the commercial objectives each merchant may achieve and the incentives under varying treatments. Thus we are able to model the sensitivity to incentive for each merchant, and spend the most budgets on those merchants that show strong sensitivities in the marketing campaign. Extensive offline and online experimental results at Alipay demonstrate the effectiveness of our proposed approach.

preprint2020arXiv

Predicting TUG score from gait characteristics with video analysis and machine learning

Fall is a leading cause of death which suffers the elderly and society. Timed Up and Go (TUG) test is a common tool for fall risk assessment. In this paper, we propose a method for predicting TUG score from gait characteristics extracted from video with computer vision and machine learning technologies. First, 3D pose is estimated from video captured with 2D and 3D cameras during human motion and then a group of gait characteristics are computed from 3D pose series. After that, copula entropy is used to select those characteristics which are mostly associated with TUG score. Finally, the selected characteristics are fed into the predictive models to predict TUG score. Experiments on real world data demonstrated the effectiveness of the proposed method. As a byproduct, the associations between TUG score and several gait characteristics are discovered, which laid the scientific foundation of the proposed method and make the predictive models such built interpretable to clinical users.

preprint2020arXiv

Variable Selection with Copula Entropy

Variable selection is of significant importance for classification and regression tasks in machine learning and statistical applications where both predictability and explainability are needed. In this paper, a Copula Entropy (CE) based method for variable selection which use CE based ranks to select variables is proposed. The method is both model-free and tuning-free. Comparison experiments between the proposed method and traditional variable selection methods, such as Distance Correlation, Hilbert-Schmidt Independence Criterion, Stepwise Selection, regularized generalized linear models and Adaptive LASSO, were conducted on the UCI heart disease data. Experimental results show that CE based method can select the `right' variables out more effectively and derive better interpretable results than traditional methods do without sacrificing accuracy performance. It is believed that CE based variable selection can help to build more explainable models.

preprint2016arXiv

A new correlation clustering method for cancer mutation analysis

Cancer genomes exhibit a large number of different alterations that affect many genes in a diverse manner. It is widely believed that these alterations follow combinatorial patterns that have a strong connection with the underlying molecular interaction networks and functional pathways. A better understanding of the generative mechanisms behind the mutation rules and their influence on gene communities is of great importance for the process of driver mutations discovery and for identification of network modules related to cancer development and progression. We developed a new method for cancer mutation pattern analysis based on a constrained form of correlation clustering. Correlation clustering is an agnostic learning method that can be used for general community detection problems in which the number of communities or their structure is not known beforehand. The resulting algorithm, named $C^3$, leverages mutual exclusivity of mutations, patient coverage, and driver network concentration principles; it accepts as its input a user determined combination of heterogeneous patient data, such as that available from TCGA (including mutation, copy number, and gene expression information), and creates a large number of clusters containing mutually exclusive mutated genes in a particular type of cancer. The cluster sizes may be required to obey some useful soft size constraints, without impacting the computational complexity of the algorithm. To test $C^3$, we performed a detailed analysis on TCGA breast cancer and glioblastoma data and showed that our algorithm outperforms the state-of-the-art CoMEt method in terms of discovering mutually exclusive gene modules and identifying driver genes. Our $C^3$ method represents a unique tool for efficient and reliable identification of mutation patterns and driver pathways in large-scale cancer genomics studies.

preprint2016arXiv

Design considerations of high-performance InGaAs/InP single-photon avalanche diodes for quantum key distribution

InGaAs/InP single-photon avalanche diodes (SPADs) are widely used in practical applications requiring near-infrared photon counting such as quantum key distribution (QKD). Photon detection efficiency and dark count rate are the intrinsic parameters of InGaAs/InP SPADs, due to the fact that their performances cannot be improved using different quenching electronics given the same operation conditions. After modeling these parameters and developing a simulation platform for InGaAs/InP SPADs, we investigate the semiconductor structure design and optimization. The parameters of photon detection efficiency and dark count rate highly depend on the variables of absorption layer thickness, multiplication layer thickness, excess bias voltage and temperature. By evaluating the decoy-state QKD performance, the variables for SPAD design and operation can be globally optimized. Such optimization from the perspective of specific applications can provide an effective approach to design high-performance InGaAs/InP SPADs.

preprint2016arXiv

Pedestrian dynamics in single-file movement of crowd with different age compositions

An aging population is bringing new challenges to the management of escape routes and facility design in many countries. This paper investigates pedestrian movement properties of crowd with different age compositions. Three pedestrian groups are considered: young student group, old people group and mixed group. It is found that traffic jams occur more frequently in mixed group due to the great differences of mobilities and self-adaptive abilities among pedestrians. The jams propagate backward with a velocity 0.4 m/s for global density around 1.75 m-1 and 0.3 m/s for higher than 2.3 m-1. The fundamental diagrams of the three groups are obviously different from each other and cannot be unified into one diagram by direct non-dimensionalization. Unlike previous studies, three linear regimes in mixed group but only two regimes in young student group are observed in the headway-velocity relation, which is also verified in the fundamental diagram. Different ages and mobilities of pedestrians in a crowd cause the heterogeneity of system and influence the properties of pedestrian dynamics significantly. It indicates that the density is not the only factor leading to jams in pedestrian traffic. The composition of crowd has to be considered in understanding pedestrian dynamics and facility design.

preprint2015arXiv

A Rewritable, Random-Access DNA-Based Storage System

We describe the first DNA-based storage architecture that enables random access to data blocks and rewriting of information stored at arbitrary locations within the blocks. The newly developed architecture overcomes drawbacks of existing read-only methods that require decoding the whole file in order to read one data fragment. Our system is based on new constrained coding techniques and accompanying DNA editing methods that ensure data reliability, specificity and sensitivity of access, and at the same time provide exceptionally high data storage capacity. As a proof of concept, we encoded parts of the Wikipedia pages of six universities in the USA, and selected and edited parts of the text written in DNA corresponding to three of these schools. The results suggest that DNA is a versatile media suitable for both ultrahigh density archival and rewritable storage applications.

preprint2015arXiv

Discrete Element Crowd Model for Pedestrian Evacuation Through an Exit

A series of accidents caused by crowd within the last decades evoked a lot of scientific interest in modeling the movement of pedestrian crowds. Based on discrete element method, a granular dynamic model, in which human body is simplified as self-driven sphere, is proposed to simulate the characteristics of crowd flow through an exit. In this model, the repulsive force among people is considered to have an anisotropic feature, and the physical contact force due to body deformation is quantified by the Hertz contact model. The movement of human body is simulated by applying the second Newton's law. The crowd flow through an exit at different desired velocities is studied and simulation results indicated that crowd flow exhibits three distinct states, i.e., smooth state, transition state and phase separation state. In the simulation, clogging phenomenon occurs more easily when the velocity of desired is high and the exit may as a result be totally blocked at a desired velocity of 1.6m/s or above, leading to faster-to-frozen effect.

preprint2015arXiv

DNA-Based Storage: Trends and Methods

We provide an overview of current approaches to DNA-based storage system design and accompanying synthesis, sequencing and editing methods. We also introduce and analyze a suite of new constrained coding schemes for both archival and random access DNA storage channels. The mathematical basis of our work is the construction and design of sequences over discrete alphabets that avoid pre-specified address patterns, have balanced base content, and exhibit other relevant substring constraints. These schemes adapt the stored signals to the DNA medium and thereby reduce the inherent error-rate of the system.

preprint2015arXiv

Forster resonance energy transfer, absorption and emission spectra in multichromophoric systems: III. Exact stochastic path integral evaluation

A numerically exact path integral treatment of the absorption and emission spectra of open quantum systems is presented that requires only the straightforward solution of a stochastic differential equation. The approach converges rapidly enabling the calculation of spectra of large excitonic systems across the complete range of system parameters and for arbitrary bath spectral densities. With the numerically exact absorption and emission operators one can also immediately compute energy transfer rates using the multi-chromophoric Forster resonant energy transfer formalism. Benchmark calculations on the emission spectra of two level systems are presented demonstrating the efficacy of the stochastic approach. This is followed by calculations of the energy transfer rates between two weakly coupled dimer systems as a function of temperature and system-bath coupling strength. It is shown that the recently developed hybrid cumulant expansion is the only perturbative method capable of generating uniformly reliable energy transfer rates and spectra across a broad range of system parameters.

preprint2015arXiv

High-efficiency and low-jitter Silicon single-photon avalanche diodes based on nanophotonic absorption enhancement

Silicon single-photon avalanche diode (SPAD) is a core device for single-photon detection in the visible and the near-infrared range, and widely used in many applications. However, due to limits of the structure design and device fabrication for current silicon SPADs, the key parameters of detection befficiency and timing jitter are often forced to compromise. Here, we propose a nanostructured silicon SPAD, which achieves high detection efficiency with excellent timing jitter simultaneously over a broad spectral range. The optical and electric simulations show significant performance enhancement compared with conventional silicon SPAD devices. This nanostructured devices can be easily fabricated and thus well suited for practical applications.

preprint2015arXiv

Modeling pedestrian evacuation movement in a swaying ship

With the advance in living standard, cruise travel has been rapidly expanding around the world in recent years. The transportation of passengers in water has also made a rapid development. It is expected that ships will be more and more widely used. Unfortunately, ship disasters occurred in these years caused serious losses. It raised the concern on effectiveness of passenger evacuation on ships. The present study thus focuses on pedestrian evacuation features on ships. On ships, passenger movements are affected by the periodical water motion and thus are quite different from the characteristic when walking on static horizontal floor. Taking into consideration of this special feature, an agent-based pedestrian model is formulized and the effect of ship swaying on pedestrian evacuation efficiency is investigated. Results indicated that the proposed model can be used to quantify the special evacuation process on ships.

preprint2014arXiv

Förster resonance energy transfer, absorption and emission spectra in multichromophoric systems: I. Cumulant expansions

We study the Förster resonant energy transfer (FRET) rate in multichromophoric systems. The multichromophoric FRET rate is determined by the overlap integral of the donor's emission and acceptor's absorption spectra, which are obtained via 2nd-order cumulant expansion techniques developed in this work. We calculate the spectra and multichromophoric FRET rate for both localized and delocalized systems. (i) The role of the initial entanglement between the donor and its bath is found to be crucial in both the emission spectrum and the multichromophoric FRET rate. (ii) The absorption spectra obtained by the cumulant expansion method are quite close to the exact one for both localized and delocalized systems, even when the system-bath coupling is far from the perturbative regime. (iii) For the emission spectra, the cumulant expansion can give very good results for the localized system, but fail to obtain reliable spectra of the high excitations of a delocalized system, when the system-bath coupling is large and the thermal energy is small. (iv) Even though, the multichromophoric FRET rate is good enough since it is determined by the overlap integral of the spectra.

preprint2014arXiv

Non-Markovian dynamics of mixed-state geometric phase of dissipative qubits

We investigate the geometric phase of a two-level atom (qubit) coupled to a bosonic reservoir with Lorentzian spectral density, and find that for the non-Markovian dynamics in which rotating-wave approximation (RWA) is performed, geometric phase has a $π$-phase jump at the nodal point. However, the exact result without RWA given by hierarchy equation of motion method shows that there is no such a phase jump or nodal structure in geometric phase. Thus our results demonstrate that the counter-rotating terms significantly contribute to the geometric phase in multi-mode Hamiltonian under certain circumstances.

preprint2014arXiv

Quantum Fisher information and spin squeezing in one-axis twisting model

We consider the quantum Fisher information and spin squeezing in one-axis twisting model with a coherent spin state $|θ_{0},ϕ_{0}\rangle$. We analytically discuss the dependence of the two parameters: spin squeezing parameter $ξ^2_{K}$ and the average parameter estimation precision $χ^2$ on the polar angle $θ_{0}$ and the azimuth angle $ϕ_0$. Moreover, we discuss the effects of the collisional dephasing on the dynamics of the two parameters. In this case, the analytical solution of $ξ^2_K$ is also obtained.

preprint2013arXiv

Fisher information under decoherence in Bloch representation

The dynamics of two variants of quantum Fisher information under decoherence are investigated from a geometrical point of view. We first derive the explicit formulas of these two quantities for a single qubit in terms of the Bloch vector. Moreover, we obtain analytical results for them under three different decoherence channels, which are expressed as affine transformation matrices. Using the hierarchy equation method, we numerically study the dynamics of both the two information in a dissipative model and compare the numerical results with the analytical ones obtained by applying the rotating-wave approximation. We further express the two information quantities in terms of the Bloch vector for a qudit, by expanding the density matrix and Hermitian operators in a common set of generators of the Lie algebra $\mathfrak{su}(d)$. By calculating the dynamical quantum Fisher information, we find that the collisional dephasing significantly diminishes the precision of phase parameter with the Ramsey interferometry.

preprint2012arXiv

Efficient Energy Transfer in Light-Harvesting Systems, II: Quantum-Classical Comparison, Flux Network, and Robustness Analysis

Following the calculation of optimal energy transfer in thermal environment in our first paper (Wu et al., New J. Phys., 2010, 12, 105012), full quantum dynamics and leading-order `classical' hopping kinetics are compared in the seven-site Fenna-Matthews-Olson (FMO) protein complex. The difference between these two dynamic descriptions is due to higher-order quantum corrections. Two thermal bath models, classical white noise (the Haken-Strobl-Reineker model) and quantum Debye model, are considered. In the seven-site FMO model, we observe that higher-order corrections lead to negligible changes in the trapping time or in energy transfer efficiency around the optimal and physiological conditions (2% in the HSR model and 0.1% in the quantum Debye model for the initial site at BChl 1). However, using the concept of integrated flux, we can identify significant differences in branching probabilities of the energy transfer network between hopping kinetics and quantum dynamics (26% in the HSR model and 32% in the quantum Debye model for the initial site at BChl 1). This observation indicates that the quantum coherence can significantly change the distribution of energy transfer pathways in the flux network with the efficiency nearly the same. The quantum-classical comparison of the average trapping time with the removal of the bottleneck site, BChl 4, demonstrates the robustness of the efficient energy transfer by the mechanism of multi-site quantum coherence. To reconcile with the latest eight-site FMO model, the quantum-classical comparison with the flux network analysis is summarized in the appendix. The eight-site FMO model yields similar trapping time and network structure as the seven-site FMO model but leads to a more disperse distribution of energy transfer pathways.

preprint2012arXiv

Entanglement Dynamics of Two Qubits in a Common Bath

We derive a set of hierarchical equations for qubits interacting with a Lorentz-broadened cavity mode at zero temperature, without using the rotating-wave, Born, and Markovian approximations. We use this exact method to reexamine the entanglement dynamics of two qubits interacting with a common bath, which was previously solved only under the rotating-wave and single-excitation approximations. With the exact hierarchy equation method used here, we observe significant differences in the resulting physics, compared to the previous results with various approximations. Double excitations due to counter-rotating-wave terms are also found to have remarkable effects on the dynamics of entanglement.

preprint2012arXiv

Fully integrated InGaAs/InP single-photon detector module with gigahertz sine wave gating

InGaAs/InP single-photon avalanche diodes (SPADs) working in the regime of GHz clock rates are crucial components for the high-speed quantum key distribution (QKD). We have developed for the first time a compact, stable and user-friendly tabletop InGaAs/InP single-photon detector system operating at a 1.25 GHz gate rate that fully integrates functions for controlling and optimizing SPAD performance. We characterize the key parameters of the detector system and test the long-term stability of the system for continuous operation of 75 hours. The detector system can substantially enhance QKD performance and our present work paves the way for practical high-speed QKD applications.

preprint2012arXiv

Photon-assisted Landau-Zener transition: Role of coherent superposition states

We investigate a Landau-Zener (LZ) transition process modeled by a quantum two-level system (TLS) coupled to a photon mode when the bias energy is varied linearly in time. The initial state of the photon field is assumed to be a superposition of coherent states, leading to a more intricate LZ transition. Applying the rotating-wave approximation (RWA), analytical results are obtained revealing the enhancement of the LZ probability by increasing the average photon number. We also consider the creation of entanglement and the change of photon statistics during the LZ process. Without the RWA, we find some qualitative differences of the LZ dynamics from the RWA results, e.g., the average photon number no longer monotonically enhances the LZ probability. The ramifications and implications of these results are explored.

preprint2012arXiv

Spin Squeezing under Non-Markovian Channels by Hierarchy Equation Method

We study spin squeezing under non-Markovian channels, and consider an ensemble of $N$ independent spin-1/2 particles with exchange symmetry. Each spin interacts with its own bath, and the baths are independent and identical. For this kind of open system, the spin squeezing under decoherence can be investigated from the dynamics of the local expectations, and the multi-qubit dynamics can be reduced into the two-qubit one. The reduced dynamics is obtained by the hierarchy equation method, which is a exact without rotating-wave and Born-Markov approximation. The numerical results show that the spin squeezing displays multiple sudden vanishing and revival with lower bath temperature, and it can also vanish asymptotically.

preprint2011arXiv

Optimal measurements to access classical correlations of two-qubit states

We analyze the optimal measurements accessing classical correlations in arbitrary two-qubit states. Two-qubit states can be transformed into the canonical forms via local unitary operations. For the canonical forms, we investigate the probability distribution of the optimal measurements. The probability distribution of the optimal measurement is found to be centralized in the vicinity of a specific von Neumann measurement, which we call the maximal-correlation-direction measurement (MCDM). We prove that for the states with zero-discord and maximally mixed marginals, the MCDM is the very optimal measurement. Furthermore, we give an upper bound of quantum discord based on the MCDM, and investigate its performance for approximating the quantum discord.

preprint2011arXiv

Quantum spin squeezing

This paper reviews quantum spin squeezing, which characterizes the sensitivity of a state with respect to an SU(2) rotation, and is significant for both entanglement detection and high-precision metrology. We first present various definitions of spin squeezing parameters, explain their origin and properties for typical states, and then discuss spin-squeezed states produced with the Ising and the nonlinear twisting Hamiltonians. Afterwards, we explain correlations and entanglement in spin-squeezed states, as well as the relations between spin squeezing and quantum Fisher information, where the latter plays a central role in quantum metrology. We also review the applications of spin squeezing for detecting quantum chaos and quantum phase transitions, as well as the influence of decoherence on spin-squeezed states. Finally, several experiments are discussed including: producing spin squeezed states via particle collisions in Bose-Einstein condensates, mapping photon squeezing onto atomic ensembles, and quantum non-demolition measurements.

preprint2010arXiv

Spin squeezing and concurrence

We study the relations between spin squeezing and concurrence, and find that they are qualitatively equivalent for an ensemble of spin-1/2 particles with exchange symmetry and parity, if we adopt the spin squeezing criterion given by the recent work (G. Toth et al. Phys. Rev. Lett. 99, 250405 (2007)). This suggests that the spin squeezing has more intimate relations with pairwise entanglement. We exemplify the result by considering a superposition of two Dicke states.

preprint2010arXiv

Spin Squeezing, Negative Correlations, and Concurrence in the Quantum Kicked Top Model

We study spin squeezing, negative correlations, and concurrence in the quantum kicked top model. We prove that the spin squeezing and negative correlations are equivalent for spin systems with only symmetric Dicke states populated. We numerically analyze spin squeezing parameters and concurrence in this model, and find that the maximal spin squeezing direction, which refers to the minimal pairwise correlation direction, is strongly influenced by quantum chaos. Entanglement (spin squeezing) sudden death and sudden birth occur alternatively for the periodic and quasi-periodic cases, while only entanglement (spin squeezing) sudden death is found for the chaotic case.

preprint2009arXiv

Many-body reduced fidelity susceptibility in Lipkin-Meshkov-Glick model

We study the reduced fidelity susceptibility $χ_{r}$ for an $M$-body subsystem of an $N$-body Lipkin-Meshkov-Glick model with $τ=M/N$ fixed. The reduced fidelity susceptibility can be viewed as the response of subsystem to a certain parameter. In noncritical region, the inner correlation of the system is weak, and $χ_{r}$ behaves similar with the global fidelity susceptibility $χ_{g}$, the ratio $η=χ_{r}/χ_{g}$ depends on $τ$ but not $N$. However, at the critical point, the inner correlation tends to be divergent, then we find $χ_{r}$ approaches $χ_{g}$ with the increasing the $N$, and $η=1$ in the thermodynamic limit. The analytical predictions are perfect agreement with the numerical results.

preprint1994arXiv

$Pb_{0.4}Bi_{1.6}Sr_{2}Ca_{1}Cu_{2}O_{8+x}$ and Oxygen Stoichiometry: Structure, Resistivity, Fermi Surface Topology and Normal State Properties

$Pb_{0.4}Bi_{1.6}Sr_2CaCu_2O_{8+x}$ ($Bi(Pb)-$2212) single crystal samples were studied using transmission electron microscopy (TEM), $ab-$plane ($ρ_{ab}$) and $c-$axis ($ρ_c$) resistivity, and high resolution angle-resolved ultraviolet photoemission spectroscopy (ARUPS). TEM reveals that the modulation in the $b-$axis for $Pb(0.4)-$doped $Bi(Pb)-$2212 is dominantly of $Pb-$type that is not sensitive to the oxygen content of the system, and the system clearly shows a structure of orthorhombic symmetry. Oxygen annealed samples exhibit a much lower $c-$axis resistivity and a resistivity minimum at $80-130$K. He-annealed samples exhibit a much higher $c-$axis resistivity and $dρ_c/dT<0$ behavior below 300K. The Fermi surface (FS) of oxygen annealed $Bi(Pb)-$2212 mapped out by ARUPS has a pocket in the FS around the $\bar{M}$ point and exhibits orthorhombic symmetry. There are flat, parallel sections of the FS, about 60\% of the maximum possible along $k_x = k_y$, and about 30\% along $k_x = - k_y$. The wavevectors connecting the flat sections are about $0.72(π, π)$ along $k_x = k_y$, and about $0.80(π, π)$ along $k_x = - k_y$, rather than $(π,π)$. The symmetry of the near-Fermi-energy dispersing states in the normal state changes between oxygen-annealed and He-annealed samples.

preprint1994arXiv

Observation of a van Hove Singularity in $Bi_{2}Sr_{2}Ca_{1}Cu_{2}O_{8+x}$ with Angle Resolved Photoemission

We have performed high energy resolution angle-resolved photoemission studies of the normal state band structure of oxygen overdoped $Bi_{2}Sr_{2}Ca_{1}Cu_{2}O_{8+x}$. We find that there is an extended saddle point singularity in the density of states along $Γ-\bar{M}-Z$ direction. The data also indicate that there is an asymmetry in the Fermi surface for both the $Γ-\bar{M}-Z$ and perpendicular directions.

preprint1994arXiv

Temperature dependence of the superconducting gap anisotropy in Bi$_{2}$Sr$_{2}$Ca$_{1}$Cu$_{2}$O$_{8+x}$

We present the first detailed data of the momentum-resolved, temperature dependence of the superconducting gap of $Bi_{2}Sr_{2}Ca_{1}Cu_{2}O_{8+x}$, complemented by similar data on the intensity of the photoemission superconducting condensate spectral area. The gap anisotropy between the $Γ-\bar{M}$ and $Γ-X$ directions increases markedly with increasing temperature, contrary to what happens for conventional anisotropic-gap superconductors such as lead. Specifically, the size of the superconducting gap along the $Γ-X$ direction decreases to values indistinguishable from zero at temperatures for which the gap retains virtually full value along the $Γ-\bar{M}$ direction.

preprint1993arXiv

Effect of Iodine Doping on Bi$_{2}$Sr$_{2}$Ca$_{1}$Cu$_{2}$O$_{x}$: Charge Transfer or Interlayer Coupling?

A comparative study has been made of iodine-intercalated Bi$_{2}$Sr$_{2}$Ca$_{1}$Cu$_{2}$O$_{x}$ single crystal and 1 atm O$_{2}$ annealed Bi$_{2}$Sr$_{2}$Ca$_{1}$Cu$_{1}$O$_{x}$ single crystal using AC susceptibility measurement, X-ray photoemission (XPS) and angle-resolved ultraviolet photoemission spectroscopy (ARUPS). AC susceptibility measurement indicates that O$_{2}$-doped samples studied have T$_{c}$ of 84 $^{o}$K, whereas T$_{c}$ of Iodine-doped samples studied are 80 $^{o}$K. XPS Cu 2p core level data establish that the hole concentration in the CuO$_{2}$ planes are essentially the same for these two kinds of samples. ARUPS measurements show that electronic structure of the normal states near the Fermi level has been strongly affected by iodine intercalation. We conclude that the dominant effect of iodine doping is to alter the interlayer coupling.