xueyuan zhao - Academia.edu (original) (raw)

Papers by xueyuan zhao

arXiv (Cornell University), Dec 30, 2019

A novel method to classify human cells is presented in this work based on the transform-domain me... more A novel method to classify human cells is presented in this work based on the transform-domain method on DNA methylation data. DNA methylation profile variations are observed in human cells with the progression of disease stages, and the proposal is based on this DNA methylation variation to classify normal and disease cells including cancer cells. The cancer cell types investigated in this work cover hepatocellular (sample size n = 40), colorectal (n = 44), lung (n = 70) and endometrial (n = 87) cancer cells. A new pipeline is proposed integrating the DNA methylation intensity measurements on all the CpG islands by the transformation of Walsh-Hadamard Transform (WHT). The study reveals the three-step properties of the DNA methylation transform-domain data and the step values of association with the cell status. Further assessments have been carried out on the proposed machine learning pipeline to perform classification of the normal and cancer tissue cells. A number of machine learning classifiers are compared for whole sequence and WHT sequence classification based on public Whole-Genome Bisulfite Sequencing (WGBS) DNA methylation datasets. The WHT-based method can speed up the computation time by more than one order of magnitude compared with whole original sequence classification, while maintaining comparable classification accuracy by the selected machine learning classifiers. The proposed method has broad applications in expedited disease and normal human cell classifications by the epigenome and genome datasets.

arXiv (Cornell University), Dec 27, 2021

New efficient source feature compression solutions are proposed based on a two-stage Walsh-Hadama... more New efficient source feature compression solutions are proposed based on a two-stage Walsh-Hadamard Transform (WHT) for Convolutional Neural Network (CNN)-based object classification in underwater robotics. The object images are firstly transformed by WHT following a two-stage process. The transform-domain tensors have large values concentrated in the upper left corner of the matrices in the RGB channels. By observing this property, the transform-domain matrix is partitioned into inner and outer regions. Consequently, two novel partitioning methods are proposed in this work: (i) fixing the size of inner and outer regions; and (ii) adjusting the size of inner and outer regions adaptively per image. The proposals are evaluated with an underwater object dataset captured from the Raritan River in New Jersey, USA. It is demonstrated and verified that the proposals reduce the training time effectively for learning-based underwater object classification task and increase the accuracy compared with the competing methods. The object classification is an essential part of a vision-based underwater robot that can sense the environment and navigate autonomously. Therefore, the proposed method is well-suited for efficient computer visionbased tasks in underwater robotics applications. Index Terms-Convolutional neural network, max-pooling, Walsh-Hadamard transform, vision-based underwater robotics.

arXiv (Cornell University), Aug 3, 2020

2017 IEEE 14th International Conference on Mobile Ad Hoc and Sensor Systems (MASS), 2017

Scalability is a major issue for Internet of Things (IoT) as the total amount of traffic data col... more Scalability is a major issue for Internet of Things (IoT) as the total amount of traffic data collected and/or the number of sensors deployed grow. In some IoT applications such as healthcare, power consumption is also a key design factor for the IoT devices. In this paper, a multi-signal compression and encoding method based on Analog Joint Source Channel Coding (AJSCC) is proposed that works fully in the analog domain without the need for power-hungry Analog-to-Digital Converters (ADCs). Compression is achieved by quantizing all the input signals but one. While saving power, this method can also reduce the number of devices by combining one or more sensing functionalities into a single device (called 'AJSCC device'). Apart from analog encoding, AJSCC devices communicate to an aggregator node (FPMM receiver) using a novel Frequency Position Modulation and Multiplexing (FPMM) technique. Such joint modulation and multiplexing technique presents three mayor advantages-it is robust to interference at particular frequency bands, it protects against eavesdropping, and it consumes low power due to a very low Signal-to-Noise Ratio (SNR) operating region at the receiver. Performance of the proposed multi-signal compression method and FPMM technique is evaluated via simulations in terms of Mean Square Error (MSE) and Miss Detection Rate (MDR), respectively.

IACR Cryptology ePrint Archive, 2017

Proceedings of the International Conference on Underwater Networks & Systems, 2019

An underwater optical communication link provides high-speed data transfer between water surface ... more An underwater optical communication link provides high-speed data transfer between water surface buoys/ships and underwater vehicles for robotics applications. However, currently such optical links are severely limited by the coverage range due to the high attenuation of light in the water environment as well as by the scattering problem. A new optical transceiver structure is proposed in this work to significantly extend the coverage range by several folds, targeting to solve this coverage bottleneck problem for high-speed data transfer. The proposal is a new optical transceiver structure with hybrid nonlinear pulse position modulation and time-frequency spreading. This new scheme is able to boost the range coverage by several folds, and was verified via thorough computer simulations using realistic models tailored for the optical channel propagation environments. The proposed structure can be integrated into the existing underwater vehicles and robots to enable the next-generation range-extended and high-speed optical links for oceanic explorations.

2016 IEEE Third Underwater Communications and Networking Conference (UComms), 2016

The energy efficiency of underwater acoustic carrier aggregation in Orthogonal Frequency Division... more The energy efficiency of underwater acoustic carrier aggregation in Orthogonal Frequency Division Multiplexing (OFDM) systems is studied and an energy-efficient aggregation bandwidth selection method is proposed. Via simulations it is found that (i) the aggregation bandwidth has an optimal value maximizing the energy efficiency, (ii) this optimal aggregation bandwidth decreases with increasing distance, and (iii) the energy efficiency at this optimal bandwidth drops significantly for distances above 5 km. Based on these results, an energy-efficient aggregation bandwidth selection method is proposed for an underwater system composed of a surface buoy and Autonomous Underwater Vehicles (AUVs). The proposed method is expected to optimize the transmission energy utilization by feeding back the optimal bandwidth value from the receiver to the transmitter for different distance settings. To validate the results under varying acoustic channel conditions, field experiments on the LOON testbed hosted at the NATO STO Centre for Maritime Research and Experimentation (CMRE) are currently ongoing.

2017 IEEE International Symposium on Circuits and Systems (ISCAS), 2017

A low-power wearable wireless sensor measuring both molecular biomarkers and physiological signal... more A low-power wearable wireless sensor measuring both molecular biomarkers and physiological signals is proposed, where the former are measured by a microfluidic biosensing system while the latter are measured electrically. The low-power consumption of the sensor is achieved by an all-analog circuit implementing Analog Joint Source-Channel Coding (AJSCC) compression. The sensor is applicable to a wide range of biomedical applications that require real-time concurrent molecular biomarker and physiological signal monitoring.

The TCA cycle is a central metabolic hub necessary for ATP production and for providing precursor... more The TCA cycle is a central metabolic hub necessary for ATP production and for providing precursors used in many biosynthetic pathways. The TCA cycle also plays a very important role in plants.Thus, dysregulation of the TCA cycle flux is frequently observed in plants.The identification of transgenic poplar in several enzymes of the TCA cycle in plants demonstrated a direct connection between this metabolic pathway and the influence to TCA cycle. In this review, the main genetic and non-genetic alterations of TCA cycle in poplar will be described.

Stem Cells and Development, 2021

Homeobox B cluster (HoxB) genes play important roles in retinoic acid (RA)-induced early embryoni... more Homeobox B cluster (HoxB) genes play important roles in retinoic acid (RA)-induced early embryonic stem cells (ESCs) differentiation. Knowledge of regulation network of HoxB is important to further unveil the mechanism of ESCs differentiation. In this study, we identified two enhancers that were activated by RA treatment and 4C data showed long-range interactions between HoxB genes and the two enhancers. CRISPR/Cas9-mediated individual or compound deletion of the two enhancers significantly inhibits HoxB gene expression, and transcriptome analysis revealed that RA-induced early ESCs differentiation was blocked in the enhancer KO cells. We propose new mechanism by which two enhancers regulate HoxB gene expression by different regulation modes during RA-induced early ESCs differentiation through long-range chromatin interactions.

Energy, 2021

Abstract To address the primary energy shortage problem, Japan has implemented a series of polici... more Abstract To address the primary energy shortage problem, Japan has implemented a series of policies and measures for residential energy conservation and emission reduction. Among them, the home energy management system (HEMS) as a hub connecting users and power companies to realize energy visualization has been widely studied. The research object of this study is a two-story detached residence integrated with HEMS in the “Jono Zero Carbon Smart Community” in Japan. To predict the energy consumed on the next day based on historical data, a short-term household load forecasting model based on the particle swarm optimization regression vector machine algorithm was developed. Then a dynamic pricing model was developed to guide the users' electricity consumption behavior and adjust the grid load. According to the prediction results obtained by the load forecasting model, the annual electricity charges of users under the three pricing schemes of multistep electricity pricing (MEP), time-of-use pricing (TOU), and real-time pricing (RTP) were calculated and compared. The result indicated that the annual electricity cost generated by RTP was less than those generated by MTP and TOU. In addition, after adjusting the users’ peak load and combining it with the fluctuating future electricity prices, RTP presented evident economic advantage over MTP and TOU in terms of the annual electricity cost of the users. The study results can provide policy suggestions for the future Japanese government’s promotion of RTP strategy, while acting as a reference for further developing the characteristics of HEMS and optimizing the relation between the supply and demand sides.

Artifact Digital Object Group, 2020

SCIENTIA SINICA Technologica, 2020

IEEE Transactions on Communications, 2019

Inter-cell interference is a major issue for next-generation wireless cellular networks, due to t... more Inter-cell interference is a major issue for next-generation wireless cellular networks, due to the increased user mobility, high user density, and backhaul bandwidth constraint. In this work, a unified approach is proposed to address these challenges. The proposal firstly performs a per-cell signal spreading by Zadoff-Chu (ZC) sequence, then the spread signal is precoded by a modified coordinated beamforming scheme. The proposal is robust to Doppler caused by user mobility, supports a high co-channel user capacity for ultra-dense networks, and requires only limited backhaul signaling exchange between basestations thus being suitable for massive MIMO deployment. The advantages of the proposal are firstly analyzed in theory, then evaluation results are presented to validate the proposal for MIMO and massive MIMO setups. It is found that the proposed scheme consistently outperforms the traditional scheme under various scenarios. The practical issues related to synchronization in coordinated beamforming are discussed.

Journal of Physics: Conference Series, 2019

This paper studies the multi-agent systems consensus problem considering Lur’e-type nonlinearity ... more This paper studies the multi-agent systems consensus problem considering Lur’e-type nonlinearity under directed network. Compared with the conclusions of the existing undirected communication topology, the conclusions obtained have greatly reduced the communication topology requirements and are more general. This paper designs a control protocol based on the observer, which solves the problem that the system state information is unknown. By decomposition of a specific form of the Laplacin matrix, consensus problem is converted into stability problem for low-dimensional systems. In this paper, the method of solving the control protocol is given and proved by the piecewise Lyapunov function. The simulation results show that the designed control protocol can solve the consistency problem.

IEEE Sensors Journal, 2018

To enable low-power and low-complexity wireless monitoring, an improved circuit design of Analog ... more To enable low-power and low-complexity wireless monitoring, an improved circuit design of Analog Joint Source Channel Coding (AJSCC) is proposed for wireless sensor nodes. This innovative design is based on Analog Divider Blocks (ADB) with tunable spacing between AJSCC levels. The ADB controls the switching between two types of Voltage Controlled Voltage Sources (VCVS). LTSpice simulations were performed to evaluate the performance of the circuit, and the power consumption and circuit complexity of this new ADB-based design were compared with our previous parallel-VCVS design. It is found that this improved circuit design based on ADB outperforms the design based on parallel VCVS for a large number of AJSCC levels (≥ 16), both in terms of power consumption as well as circuit complexity, thus enabling persistent and higher temporal/spatial resolution environmental sensing.

IEEE transactions on biomedical circuits and systems, Jun 1, 2018

Wireless all-analog biosensor design for the concurrent microfluidic and physiological signal mon... more Wireless all-analog biosensor design for the concurrent microfluidic and physiological signal monitoring is presented in this paper. The key component is an all-analog circuit capable of compressing two analog sources into one analog signal by the analog joint source-channel coding (AJSCC). Two circuit designs are discussed, including the stacked-voltage-controlled voltage source (VCVS) design with the fixed number of levels, and an improved design, which supports a flexible number of AJSCC levels. Experimental results are presented on the wireless biosensor prototype, composed of printed circuit board realizations of the stacked-VCVS design. Furthermore, circuit simulation and wireless link simulation results are presented on the improved design. Results indicate that the proposed wireless biosensor is well suited for sensing two biological signals simultaneously with high accuracy, and can be applied to a wide variety of low-power and low-cost wireless continuous health monitoring...

Proceedings of the Institution of Mechanical Engineers, Part C: Journal of Mechanical Engineering Science, 2014

With increasing need for high-speed, high-temperature, and oil-free turbomachinery, gas foil bear... more With increasing need for high-speed, high-temperature, and oil-free turbomachinery, gas foil bearings (GFBs) have been considered to be the best substitutes for traditional oil-lubricated bearings. A multi-cantilever foil bearing (MCFB), a novel GFB with multi-cantilever foil strips serving as the compliant underlying structure, was designed, fabricated, and tested. A series of static and dynamic load tests were conducted to measure the structural stiffness and equivalent viscous damping of the prototype MCFB. Experiments of static load versus deflection showed that the proposed bearing has a large mechanical energy dissipation capability and a pronounced nonlinear static stiffness that can prevents overly large motion amplitude of journal. Dynamic load tests evaluated the influence of motion amplitude, loading orientation and misalignment on the dynamic stiffness and equivalent viscous damping with respect to excitation frequency. The test results demonstrated that the dynamic stif...

Industrial Lubrication and Tribology, 2015

Purpose – The purpose of this paper is to investigate the effects of misalignment on the static a... more Purpose – The purpose of this paper is to investigate the effects of misalignment on the static and dynamics characteristics of bump-type foil bearings (BFBs). High-speed and high-temperature oil-free turbomachinery can be realized with the use of gas foil bearings (GFBs). GFBs have a flexible supporting structure; thus, they can tolerate a higher degree of misalignment compared with rolling element bearings. Design/methodology/approach – A test rig for GFBs has been developed to measure the effects of misalignment on the structure characteristics of bump-type foil bearings. The link-spring model, which is the foil structure model presented previously by the authors, is used as a basis in the present study to predict the static and dynamic performances of the foil structure. In general, predictions of the dynamic characteristics exhibit good agreement with the measurements acquired from the dynamic load tests. Findings – Results from the static tests show that GFBs develop high stif...

Proceedings of the Institution of Mechanical Engineers, Part J: Journal of Engineering Tribology, 2015

Gas foil bearings have bright application prospects in oil-free turbomachinery such as aircraft a... more Gas foil bearings have bright application prospects in oil-free turbomachinery such as aircraft air cycle machines, compressors, and gas turbines. To extend the applicability of foil bearings to high-speed and heavy-load systems, the axial force produced primarily by the pressure difference between the turbine and compressor sides must be taken into consideration. The thrust disc of the rotor is typically used to sustain the axial force and maintain the attitude of the rotor in a rotor-bearing system. In an analytical model used to predict the performance of gas foil thrust bearings, fluid–structure interaction must be considered because of the coupling effects of hydrodynamic lubrication and the compliance of bearing surface. In this study, a link-spring structural model was employed to calculate the equivalent vertical stiffness of the bump foil. This model exhaustively considered the effect of three factors: flexibility of the bump foil, interactions between bumps and frictional ...