Jing Wang

University of Science and Technology, Beijing, Peping, Beijing, China

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Publications (62)108.05 Total impact

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    ABSTRACT: Fractional-order proportional-integral (PI) and proportional-integral-derivative (PID) controllers are the most commonly used controllers in fractional-order systems. However, this paper proposes a simple integer-order control scheme for fractional-order system based on active disturbance rejection method. By treating the fractional-order dynamics as a common disturbance and actively rejecting it, active disturbance rejection control (ADRC) can achieve the desired response. External disturbance, sensor noise, and parameter disturbance are also estimated using extended state observer. The ADRC stability of rational-order model is analyzed. Simulation results on three typical fractional-order systems are provided to demonstrate the effectiveness of the proposed method.
    ISA transactions 02/2013; · 1.63 Impact Factor
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    ABSTRACT: This paper describes experimental investigations of an adaptive control for suppressing thermo-acoustic instabilities in Rijke tube. Strong coupling between pressure oscillations and unsteady heat release excites a self-sustained acoustic wave which results in a loud, annoyed sound and may also lead to a structural damage to the combustion chamber. Adaptive controller based on dynamic compensation is adopted to suppress the instabilities in Rijke tube. The controller provides proper control action in response to pressure changes in combustors. Unknown noise and disturbance will be estimated and compensated actively by adaptive controller, which makes the feedback control less dependent on the precise model of the complex thermo-acoustic processes in Rijke tube. Experiment results confirm the controller employed is effective in breaking up the oscillations in Rijke tube.
    ISA transactions 02/2013; · 1.63 Impact Factor
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    03/2012; , ISBN: 978-953-51-0405-6
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    ABSTRACT: The control of Multi-tank Liquid-level System is both a typical multivariable control problem and a typical problem that is used to verify conception and method of multivariable control. In this paper, a decoupling controller matrix is designed based on the complete decoupling method of feedforward compensation. For the decoupled objective function, the parameters of PI controller are tuned using Desired Dynamic Equation (DDE) method. The method is applied in simulations of several typical four-tank models. And robustness analysis is carried out using the Monte-Carlo stochastic experiment. The simulation results show that the method can achieve a significant decoupling among the responses of system outputs, an effective control of water level of each loop and an obvious improvement of control performance of multivariable interconnected systems.
    01/2012;
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    ABSTRACT: In high-throughput studies of diseases, terms enriched with disease-related genes based on Gene Ontology (GO) are routinely found. However, most current algorithms used to find significant GO terms cannot handle the redundancy that results from the dependencies of GO terms. Simply based on some numerical considerations, current algorithms developed for reducing this redundancy may produce results that do not account for biologically interesting cases. In this article, we present several rules used to design a tool called GO-function for extracting biologically relevant terms from statistically significant GO terms for a disease. Using one gene expression profile for colorectal cancer, we compared GO-function with four algorithms designed to treat redundancy. Then, we validated results obtained in this data set by GO-function using another data set for colorectal cancer. Our analysis showed that GO-function can identify disease-related terms that are more statistically and biologically meaningful than those found by the other four algorithms.
    Briefings in Bioinformatics 06/2011; 13(2):216-27. · 5.30 Impact Factor
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    ABSTRACT: There has been much interest in differentiating diseased and normal samples using biomarkers derived from mass spectrometry (MS) studies. However, biomarker identification for specific diseases has been hindered by irreproducibility. Specifically, a peak profile extracted from a dataset for biomarker identification depends on a data pre-processing algorithm. Until now, no widely accepted agreement has been reached. In this paper, we investigated the consistency of biomarker identification using differentially expressed (DE) peaks from peak profiles produced by three widely used average spectrum-dependent pre-processing algorithms based on SELDI-TOF MS data for prostate and breast cancers. Our results revealed two important factors that affect the consistency of DE peak identification using different algorithms. One factor is that some DE peaks selected from one peak profile were not detected as peaks in other profiles, and the second factor is that the statistical power of identifying DE peaks in large peak profiles with many peaks may be low due to the large scale of the tests and small number of samples. Furthermore, we demonstrated that the DE peak detection power in large profiles could be improved by the stratified false discovery rate (FDR) control approach and that the reproducibility of DE peak detection could thereby be increased. Comparing and evaluating pre-processing algorithms in terms of reproducibility can elucidate the relationship among different algorithms and also help in selecting a pre-processing algorithm. The DE peaks selected from small peak profiles with few peaks for a dataset tend to be reproducibly detected in large peak profiles, which suggests that a suitable pre-processing algorithm should be able to produce peaks sufficient for identifying useful and reproducible biomarkers.
    PLoS ONE 01/2011; 6(10):e26294. · 3.73 Impact Factor
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    ABSTRACT: Finding candidate cancer genes playing causal roles in carcinogenesis is an important task in cancer research. The non-randomness of the co-mutation of genes in cancer samples can provide statistical evidence for these genes' involvement in carcinogenesis. It can also provide important information on the functional cooperation of gene mutations in cancer. However, due to the relatively small sample sizes used in current high-throughput somatic mutation screening studies and the extraordinary large-scale hypothesis tests, the statistical power of finding co-mutated gene pairs based on high-throughput somatic mutation data of cancer genomes is very low. Thus, we proposed a stratified FDR (False Discovery Rate) control approach, for identifying significantly co-mutated gene pairs according to the mutation frequency of genes. We then compared the identified co-mutated gene pairs separately by pre-selecting genes with higher mutation frequencies and by the stratified FDR control approach. Finally, we searched for pairs of pathways annotated with significantly more between-pathway co-mutated gene pairs to evaluate the functional roles of the identified co-mutated gene pairs. Based on two datasets of somatic mutations in cancer genomes, we demonstrated that, at a given FDR level, the power of finding co-mutated gene pairs could be increased by pre-selecting genes with higher mutation frequencies. However, many true co-mutation between genes with lower mutation rates will still be missed. By the stratified FDR control approach, many more co-mutated gene pairs could be found. Finally, the identified pathway pairs significantly overrepresented with between-pathway co-mutated gene pairs suggested that their co-dysregulations may play causal roles in carcinogenesis. The stratified FDR control strategy is efficient in identifying co-mutated gene pairs and the genes in the identified co-mutated gene pairs can be considered as candidate cancer genes because their non-random co-mutations in cancer genomes are highly unlikely to be attributable to chance.
    Molecular BioSystems 01/2011; 7(4):1158-66. · 3.35 Impact Factor
  • Wei Wei, Dong-Hai Li, Jing Wang
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    ABSTRACT: The chaos control of uncertain unified chaotic systems is considered. Cascade adaptive control approach with only one control input is presented to stabilize states of the uncertain unified chaotic system at the zero equilibrium point. Since an adaptive controller based on dynamic compensation mechanism is employed, the exact model of the unified chaotic system is not necessarily required. By choosing appropriate controller parameters, chaotic phenomenon can be suppressed and the response speed is tunable. Sufficient condition for the asymptotic stability of the approach is derived. Numerical simulation results confirm that the cascade adaptive control approach with only one control signal is valid in chaos control of uncertain unified chaotic systems.
    Chinese Physics B 01/2011; 20(4). · 1.15 Impact Factor
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    ABSTRACT: The basolateral 50-pS K channels are stimulated by a cAMP-dependent pathway and inhibited by cytochrome P-450-omega-hydroxylase-dependent metabolism of arachidonic acid (AA) in the rat thick ascending limb (TAL). We now used the patch-clamp technique to examine whether stimulation of adenosine A(₂a) receptor modulates the inhibitory effect of AA on the basolateral 50-pS K channels in the medullary TAL. Stimulation of adenosine A(₂a) receptor with CGS-21680 or inhibition of phospholipase A₂ (PLA₂) with AACOCF3 increased the 50-pS K channel activity in the TAL. Western blot demonstrated that application of CGS-21680 decreased the phosphorylation of PLA(2) at serine residue 505, an indication of inhibiting PLA₂ activity. In the presence of CGS-21680, inhibition of PLA₂ had no further effect on the basolateral 50-pS K channels. The possibility that CGS-21680-induced stimulation of the basolateral 50-pS K channels was partially achieved by inhibition of PLA₂ in the TAL was also supported by the observation that CGS-21680 had no additional effect in the presence of AACOCF3. Moreover, stimulation of adenosine A(₂a) receptor with CGS-21680 also abolished the inhibitory effect of AA and 20-hydroxyeicosatetraenoic acid (20-HETE) on the 50-pS K channels. The effect of CGS-21680 on AA and 20-HETE-mediated inhibition of the 50-pS K channels was mediated by cAMP because application of membrane-permeable cAMP analog, dibutyryl-cAMP, not only increased the 50-pS K channel activity but also abolished the inhibitory effect of AA and 20-HETE. We conclude that stimulation of adenosine A(₂a) receptor increased the 50-pS K channel activity in the TAL, an effect that is achieved by suppression of PLA₂ activity and 20-HETE-induced inhibition.
    AJP Renal Physiology 01/2011; 300(4):F906-13. · 4.42 Impact Factor
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    JCP. 01/2011; 6:1064-1070.
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    ABSTRACT: Since diseases might be related with each other, systematically assessing their relationships could provide us novel insight into their mechanisms. One of the most important methods to study diseases' relationships is to calculate their phenotype similarity scores based on the text and clinical synopsis parts of their records in the OMIM database. However, as demonstrated in this paper, the similarity score between two diseases is highly dependent on the numbers of medical terms in the records describing the diseases (termed as record size). Because the descriptions of some diseases tend to be more detailed due to research biases, the similarity scores between these diseases tend to be larger. Thus, applications based on this phenotype similarity measure are problematic. In this paper, we also discuss some reasonable approaches to study the relationships between diseases, which may avoid the biased applications of disease similarity scores.
    Bioinformatics and Biomedical Engineering (iCBBE), 2010 4th International Conference on; 07/2010
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    ABSTRACT: Data of somatic mutation screening of cancer genomes have provided us huge amounts of information for identifying new cancer genes. Current methods for identifying candidate cancer genes based on gene mutation frequencies tend to find cancer genes with high mutation frequencies. However, many genes with low mutation frequencies might also play important roles during tumorigenesis. Based on the assumption that genes with similar phylogenetic profiles and protein-protein interactions might have similar functions and their disruptions might lead to similar disease phenotypes, we proposed a new approach to find candidate cancer genes. First, we searched for protein-protein interaction subnetworks within which proteins have similar phylogenetic profiles, termed as co-evolving gene modules. Then, we identified genes that have at least one non-synonymous mutation in cancer genomes and directly interact with known cancer genes in the same co-evolving gene modules and predicted them as candidate cancer genes. In this way, we found 15 candidate cancer genes, among which only two genes had been identified previously as candidate cancer genes using the methods based on gene mutation frequencies. Thus, the candidate cancer genes with low mutation frequencies can be found by our method.
    Hereditas (Beijing) 07/2010; 32(7):694-700.
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    ABSTRACT: Hundreds of genes that are causally implicated in oncogenesis have been found and collected in various databases. For efficient application of these abundant but diverse data sources, it is of fundamental importance to evaluate their consistency. First, we showed that the lists of cancer genes from some major data sources were highly inconsistent in terms of overlapping genes. In particular, most cancer genes accumulated in previous small-scale studies could not be rediscovered in current high-throughput genome screening studies. Then, based on a metric proposed in this study, we showed that most cancer gene lists from different data sources were highly functionally consistent. Finally, we extracted functionally consistent cancer genes from various data sources and collected them in our database F-Census. Although they have very low gene overlapping, most cancer gene data sources are highly consistent at the functional level, which indicates that they can separately capture partial genes in a few key pathways associated with cancer. Our results suggest that the sample sizes currently used for cancer studies might be inadequate for consistently capturing individual cancer genes, but could be sufficient for finding a number of cancer genes that could represent functionally most cancer genes. The F-Census database provides biologists with a useful tool for browsing and extracting functionally consistent cancer genes from various data sources.
    BMC Bioinformatics 02/2010; 11:76. · 3.02 Impact Factor
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    ABSTRACT: MOTIVATION: Studying the evolutionary conservation of cancer genes can improve our understanding of the genetic basis of human cancers. Functionally related proteins encoded by genes tend to interact with each other in a modular fashion, which may affect both the mode and tempo of their evolution. RESULTS: In the human PPI network, we searched for subnetworks within each of which all proteins have evolved at similar rates since the human and mouse split. Identified at a given co-evolving level, the subnetworks with non-randomly large sizes were defined as co-evolving modules. We showed that proteins within modules tend to be conserved, evolutionarily old and enriched with housekeeping genes, while proteins outside modules tend to be less-conserved, evolutionarily younger and enriched with genes expressed in specific tissues. Viewing cancer genes from co-evolving modules showed that the overall conservation of cancer genes should be mainly attributed to the cancer proteins enriched in the conserved modules. Functional analysis further suggested that cancer proteins within and outside modules might play different roles in carcinogenesis, providing a new hint for studying the mechanism of cancer.
    Bioinformatics 02/2010; 26(7):919-24. · 5.47 Impact Factor
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    ABSTRACT: Semantic similarity scores for protein pairs are widely applied in functional genomic researches for finding functional clusters of proteins, predicting protein functions and protein-protein interactions, and for identifying putative disease genes. However, because some proteins, such as those related to diseases, tend to be studied more intensively, annotations are likely to be biased, which may affect applications based on semantic similarity measures. Thus, it is necessary to evaluate the effects of the bias on semantic similarity scores between proteins and then find a method to avoid them. First, we evaluated 14 commonly used semantic similarity scores for protein pairs and demonstrated that they significantly correlated with the numbers of annotation terms for the proteins (also known as the protein annotation length). These results suggested that current applications of the semantic similarity scores between proteins might be unreliable. Then, to reduce this annotation bias effect, we proposed normalizing the semantic similarity scores between proteins using the power transformation of the scores. We provide evidence that this improves performance in some applications. Current semantic similarity measures for protein pairs are highly dependent on protein annotation lengths, which are subject to biological research bias. This affects applications that are based on these semantic similarity scores, especially in clustering studies that rely on score magnitudes. The normalized scores proposed in this paper can reduce the effects of this bias to some extent.
    BMC Bioinformatics 01/2010; 11:290. · 3.02 Impact Factor
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    ABSTRACT: PID controller has simple structure and easy applicability with strong performance robustness. Decentralized PID controller and decoupling PID controller are widely adopted in the control of two-input-two-output (TITO) processes. Firstly, a simple decoupling controller matrix and a desired dynamic decoupling controller matrix are designed according to the idea of coupling matrix. And then three schemes of controller including decentralized PID controller, simple PID decoupling controller and desired dynamic PID decoupling controller are provided based on the excellent characteristic of DDE. Lastly, the Monte-Carlo stochastic experiment is introduced to analyze performance robustness of the controllers. The simulation experiments illustrate that the simple decoupling control scheme has the ability of complete decoupling and better performance robustness.
    01/2010;
  • Min Zhang, Jing Wang, Donghai Li
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    ABSTRACT: Based on the desired dynamic equation (DDE), PID control systems were designed for common processes, higher-order processes, non-minimum phase processes and integrating processes. Also Dynamic simulation and performance robustness test were made for systems. During the design process, the approximate plant models were not needed, the PID controller parameters were achieved by choosing the desired dynamic equation (DDE) coefficients and disturbance observer parameters. Finally, control performances were compared between DDE and internal model control (IMC). The simulation results show that DDE-PID method achieved lower overshoot, shorter settling time and better performance robustness.
    01/2010;
  • Bioinformatics. 01/2010; 26:919-924.
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    ABSTRACT: The functional knowledge of cancer proteins and cancer pathways is currently limited and not detailed enough, remaining as a major hurdle to cancer studies. Particularly, many cancer proteins are only annotated to high-level general GO categories. Here, we apply an efficient algorithm, by constructing function-specific protein-protein interaction sub-networks, to find finer functions of the cancer proteins compiled in Cancer Gene Census database. By exploiting their previously known functions, 193 cancer proteins are predicted to finer functional categories, with F score higher than 0.6. Furthermore, because cancer proteins contribute to carcinogenesis through alterations of some essential cellular functions, discovering additional proteins involved in such functions is also of importance for uncovering the mechanisms of cancer. To approximate cancer functions, 37 specific functions significantly enriched with known cancer proteins are selected. With F score higher than 0.6, 221 proteins are predicted to these cancer functions, improving the connection of the function-specific interaction sub-networks and thus delineating cancer functions more integrally and clearly.
    01/2010;
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    ABSTRACT: Multiple-input-multiple-output (MIMO) processes with time delays commonly appear in chemical and industrial practice. For MIMO processes, a PID decoupling controller is devised based on unity feedback closed-loop control structure and combined with the characteristics of strong robustness of the Desired Dynamic Equation (DDE) method for two-degree-of-freedom (2-DOF) PID controllers. The design of the PID controller is achieved through setting a static decoupling controller on the input of the controlled process. And for additive and multiplicative uncertainty disturbance usually encountered in practice, the sufficient and necessary condition of guaranteeing robust stability of the control system is analyzed and a determination method is provided based on the spectral radius criterion. This controller can not only achieve a significant decoupling among the nominal responses of system outputs, but also realize the online tuning of adjustable parameter. Comparing with the deficiency of numerical calculation method, this design is simple and widely applicable. Finally, some simulation examples are supplied to demonstrate the superiority of the proposed method.
    01/2010;

Publication Stats

898 Citations
108.05 Total Impact Points

Institutions

  • 2010–2011
    • University of Science and Technology, Beijing
      Peping, Beijing, China
  • 2007–2011
    • University of Electronic Science and Technology of China
      • School of Life Science and Technology
      Hua-yang, Sichuan, China
  • 2007–2010
    • Harbin Medical University
      • • College of Bioinformatics Science and Technology
      • • Department of Bioinformatics
      Harbin, Heilongjiang Sheng, China
  • 2002–2008
    • Peking University Third Hospital
      Peping, Beijing, China
  • 2002–2006
    • Purdue University
      • School of Electrical and Computer Engineering
      West Lafayette, IN, United States