An Integrated Environment For Automated Benchmarking And Validation Of XML-Based Applications

Testing is the dominant software verification technique used in industry; it is a critical and most expensive process during software development. Along with the increase in software complexity, the costs of testing are increasing rapidly. Faced with this problem, many researchers are working on automated testing, attempting to find methods that execute the processes of testing automatically and cut down the cost of testing. Today, software systems are becoming complicated. Some of them are composed of several different components. Some projects even required different systems to work together and support each other. The XML have been developed to facilitate data exchange and enhance interoperability among software systems. Along with the development of XML technologies, XML-based systems are used widely in many domains. In this thesis we will present a methodology for testing XML-based applications automatically. In this thesis we present a methodology called XPT (XML-based Partition Testing) which is defined as deriving XML Instances from XML Schema automatically and systematically. XPT methodology is inspired from the Category-partition method, which is a well-known approach to Black-box Test generation. We follow a similar idea of applying partitioning to an XML Schema in order to generate a suite of conforming instances; in addition, since the number of generated instances soon becomes unmanageable, we also introduce a set of heuristics for reducing the suite; while optimizing the XML Schema coverage. The aim of our research is not only to invent a technical method, but also to attempt to apply XPT methodology in real applications. We have created a proof-of-concept tool, TAXI, which is the implementation of XPT. This tool has a graphic user interface that can guide and help testers to use it easily. TAXI can also be customized for specific applications to build the test environment and automate the whole processes of testing. The details of TAXI design and the case studies using TAXI in different domains are presented in this thesis. The case studies cover three test purposes. The first one is for functional correctness, specifically we apply the methodology to do the XSLT Testing, which uses TAXI to build an automatic environment for testing the XSLT transformation; the second is for robustness testing, we did the XML database mapping test which tests the data transformation tool for mapping and populate the data from XML Document to XML database; and the third one is for the performance testing, we show XML benchmark that uses TAXI to do the benchmarking of the XML-based applications

RISE-Based Integrated Motion Control of Autonomous Ground Vehicles With Asymptotic Prescribed Performance

This article investigates the integrated lane-keeping and roll control for autonomous ground vehicles (AGVs) considering the transient performance and system disturbances. The robust integral of the sign of error (RISE) control strategy is proposed to achieve the lane-keeping control purpose with rollover prevention, by guaranteeing the asymptotic stability of the closed-loop system, attenuating systematic disturbances, and maintaining the controlled states within the prescribed performance boundaries. Three contributions have been made in this article: 1) a new prescribed performance function (PPF) that does not require accurate initial errors is proposed to guarantee the tracking errors restricted within the predefined asymptotic boundaries; 2) a modified neural network (NN) estimator which requires fewer adaptively updated parameters is proposed to approximate the unknown vertical dynamics; and 3) the improved RISE control based on PPF is proposed to achieve the integrated control objective, which analytically guarantees both the controller continuity and closed-loop system asymptotic stability by integrating the signum error function. The overall system stability is proved with the Lyapunov function. The controller effectiveness and robustness are finally verified by comparative simulations using two representative driving maneuvers, based on the high-fidelity CarSim-Simulink simulation

Gene- or region-based association study via kernel principal component analysis.

BACKGROUND: In genetic association study, especially in GWAS, gene- or region-based methods have been more popular to detect the association between multiple SNPs and diseases (or traits). Kernel principal component analysis combined with logistic regression test (KPCA-LRT) has been successfully used in classifying gene expression data. Nevertheless, the purpose of association study is to detect the correlation between genetic variations and disease rather than to classify the sample, and the genomic data is categorical rather than numerical. Recently, although the kernel-based logistic regression model in association study has been proposed by projecting the nonlinear original SNPs data into a linear feature space, it is still impacted by multicolinearity between the projections, which may lead to loss of power. We, therefore, proposed a KPCA-LRT model to avoid the multicolinearity. RESULTS: Simulation results showed that KPCA-LRT was always more powerful than principal component analysis combined with logistic regression test (PCA-LRT) at different sample sizes, different significant levels and different relative risks, especially at the genewide level (1E-5) and lower relative risks (RR = 1.2, 1.3). Application to the four gene regions of rheumatoid arthritis (RA) data from Genetic Analysis Workshop16 (GAW16) indicated that KPCA-LRT had better performance than single-locus test and PCA-LRT. CONCLUSIONS: KPCA-LRT is a valid and powerful gene- or region-based method for the analysis of GWAS data set, especially under lower relative risks and lower significant levels.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are

Tetramethyl pyrazine exerts anti-apoptotic and antioxidant effects in a mouse model of MPTP-induced Parkinson's disease via regulation of the expressions of Bax, Bcl-2, Nrf2 and GCLC

Purpose: To investigate the effect of tetramethyl pyrazine (TMP) on MPTP)-mediated neuronal apoptosis and oxidative imbalance in mice, and the mechanism of action involved. Methods: Forty-five mice were assigned evenly to blank control, MPTP and TMP groups. The protein concentrations of Bax, Bcl-2, cytochrome C (Cyt c), Nrf2, GCLC and cleaved caspase-3; and levels of glutathione (GSH) and thiobarbituric acid reactive products (TBARS) were evaluated and compared amongst the groups. Results: Cyt c, Bax, and cleaved caspase-3 protein levels in TMP group were significantly lower than those in MPTP group, while Bcl-2 protein expression was higher in TMP group than in MPTP mice (p < 0.05). Furthermore, TBARS was lower in TMP group than in MPTP group, while GSH level increased, relative to MPTP mice. The levels of Nrf2 and GCLC were significantly higher in TMP group than in MPTP group (p < 0.05). Conclusion: Tetramethyl pyrazine exerts anti-apoptotic and antioxidant effects on MPTP-mediated Parkinsonism via regulation of the expressions of Bax, Bcl-2, Nrf2 and glutamate-cysteine ligase catalytic subunit. Thus, TMP has potential for use in the treatment Parkinson’s disease

Insight into the Interaction of Metal Ions with TroA from Streptococcus suis

The scavenging ability of sufficient divalent metal ions is pivotal for pathogenic bacteria to survive in the host. ATP-binding cassette (ABC)-type metal transporters provide a considerable amount of different transition metals for bacterial growth. TroA is a substrate binding protein for uptake of multiple metal ions. However, the function and structure of the TroA homologue from the epidemic Streptococcus suis isolates (SsTroA) have not been characterized.Here we determined the crystal structure of SsTroA from a highly pathogenic streptococcal toxic shock syndrome (STSS)-causing Streptococcus suis in complex with zinc. Inductively coupled plasma mass spectrometry (ICP-MS) analysis revealed that apo-SsTroA binds Zn(2+) and Mn(2+). Both metals bind to SsTroA with nanomolar affinity and stabilize the protein against thermal unfolding. Zn(2+) and Mn(2+) induce distinct conformational changes in SsTroA compared with the apo form as confirmed by both circular dichroism (CD) and nuclear magnetic resonance (NMR) spectra. NMR data also revealed that Zn(2+)/Mn(2+) bind to SsTroA in either the same site or an adjacent region. Finally, we found that the folding of the metal-bound protein is more compact than the corresponding apoprotein.Our findings reveal a mechanism for uptake of metal ions in S. suis and this mechanism provides a reasonable explanation as to how SsTroA operates in metal transport

The solution structure of the unbound IgG Fc receptor CD64 resembles its crystal structure:Implications for function

FcγRI (CD64) is the only high-affinity Fcγ receptor found on monocytes, macrophages, eosinophils, neutrophils and dendritic cells. It binds immunoglobulin G (IgG) antibody-antigen complexes at its Fc region to trigger key immune responses. CD64 contains three immunoglobulin-fold extracellular domains (D1, D2 and D3) and a membrane-spanning region. Despite the importance of CD64, no solution structure for this is known to date. To investigate this, we used analytical ultracentrifugation, small-angle X-ray scattering, and atomistic modelling. Analytical ultracentrifugation revealed that CD64 was monomeric with a sedimentation coefficient s020,w of 2.53 S, together with some dimer. Small-angle X-ray scattering showed that its radius of gyration RG was 3.3–3.4 nm and increased at higher concentrations to indicate low dimerization. Monte Carlo modelling implemented in the SASSIE-web package generated 279,162 physically-realistic trial CD64 structures. From these, the scattering best-fit models at the lowest measured concentrations that minimised dimers revealed that the D1, D2 and D3 domains were structurally similar to those seen in three CD64 crystal structures, but showed previously unreported flexibility between D1, D2 and D3. Despite the limitations of the scattering data, the superimposition of the CD64 solution structures onto crystal structures of the IgG Fc-CD64 complex showed that the CD64 domains do not sterically clash with the IgG Fc region, i.e. the solution structure of CD64 was sufficiently compact to allow IgG to bind to its high-affinity Fcγ receptor. This improved understanding may result in novel approaches to inhibit CD64 function, and opens the way for the solution study of the full-length CD64-IgG complex.</p

The solution structure of the unbound IgG Fc receptor CD64 resembles its crystal structure: Implications for function

FcγRI (CD64) is the only high-affinity Fcγ receptor found on monocytes, macrophages, eosinophils, neutrophils and dendritic cells. It binds immunoglobulin G (IgG) antibody-antigen complexes at its Fc region to trigger key immune responses. CD64 contains three immunoglobulin-fold extracellular domains (D1, D2 and D3) and a membrane-spanning region. Despite the importance of CD64, no solution structure for this is known to date. To investigate this, we used analytical ultracentrifugation, small-angle X-ray scattering, and atomistic modelling. Analytical ultracentrifugation revealed that CD64 was monomeric with a sedimentation coefficient s020,w of 2.53 S, together with some dimer. Small-angle X-ray scattering showed that its radius of gyration RG was 3.3–3.4 nm and increased at higher concentrations to indicate low dimerization. Monte Carlo modelling implemented in the SASSIE-web package generated 279,162 physically-realistic trial CD64 structures. From these, the scattering best-fit models at the lowest measured concentrations that minimised dimers revealed that the D1, D2 and D3 domains were structurally similar to those seen in three CD64 crystal structures, but showed previously unreported flexibility between D1, D2 and D3. Despite the limitations of the scattering data, the superimposition of the CD64 solution structures onto crystal structures of the IgG Fc-CD64 complex showed that the CD64 domains do not sterically clash with the IgG Fc region, i.e. the solution structure of CD64 was sufficiently compact to allow IgG to bind to its high-affinity Fcγ receptor. This improved understanding may result in novel approaches to inhibit CD64 function, and opens the way for the solution study of the full-length CD64-IgG complex

Penerapan Pendekatan Pengajaran Terbalik (Reciprocal Teaching) Untuk Meningkatkan Kemandirian Belajar Biologi Siswa Kelas Vii-g SMP N 5 Karanganyar Tahun Pelajaran 2010/ 2011

– The objective of this study is to improve student independence in learning biology by implementing Inverted Teaching Approach (Reciprocal Teaching) on Environmental Management material. This research is a classroom action research. This research was conducted in two cycles. Each cycle consisted of planning, implementation of the action,observation, and reflection. The subjects of the study were VII-G class students of SMP Negeri 5 Karanganyar in the academic year of 2010/2011. The number of the students was 32. The technique and instrumen of collectiing data were questionnaire, observation, and interviews. The technique of analyzing data was descriptive analysis techniques. Triangulation technique was used in data validation. The results proved that by implementing Inverted Teaching Approach (Reciprocal Teaching) students\u27 independence in learning biology enhanced. It is based on the results of questionnaires, observations and interviews. The questionnaire of students\u27 learning independence showed that the mean percentage of students\u27 achievement in each indicator in pre-cycle, cycle I, and cycle II was 67.97%, 72.55%, and 77.58% respectively. The observation of students\u27 learning independence showed that the mean percentage of students\u27 achievement in each indicator in pre-cycle, cycle I, and cycle II was 39.68%, 67.5%, and 80.62% respectively. It can be concluded that the implementation of Inverted Teaching Approach (Reciprocal Teaching) can enhance students learning independence