• Bioinformatics and Biosystems
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• v.1 no.1
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• pp.67-72
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• 2006

The aim of this paper is to discuss the effect of missing values in detecting differentially expressed genes in a cDNA microarray experiment in the context of a one sample problem. We conducted a cDNA micro array experiment to detect differentially expressed genes for the metastasis of colorectal cancer based on twenty patients who underwent liver resection due to liver metastasis from colorectal cancer. Total RNAs from metastatic liver tumor and adjacent normal liver tissue from a single patient were labeled with cy5 and cy3, respectively, and competitively hybridized to a cDNA microarray with 7775 human genes. We used $M=log_2(R/G)$ for the signal evaluation, where Rand G denoted the fluorescent intensities of Cy5 and Cy3 dyes, respectively. The statistical problem comprises a one sample test of testing E(M)=0 for each gene and involves multiple tests. The twenty cDNA microarray data would comprise a matrix of dimension 7775 by 20, if there were no missing values. However, missing values occur for various reasons. For each gene, the no missing proportion (NMP) was defined to be the proportion of non-missing values out of twenty. In detecting differentially expressed (DE) genes, we used the genes whose NMP is greater than or equal to 0.4 and then sequentially increased NMP by 0.1 for investigating its effect on the detection of DE genes. For each fixed NMP, we imputed the missing values with K-nearest neighbor method (K=10) and applied the nonparametric t-test of Dudoit et al. (2002), SAM by Tusher et al. (2001) and empirical Bayes procedure by $L\ddot{o}nnstedt$ and Speed (2002) to find out the effect of missing values in the final outcome. These three procedures yielded substantially agreeable result in detecting DE genes. Of these three procedures we used SAM for exploring the acceptable NMP level. The result showed that the optimum no missing proportion (NMP) found in this data set turned out to be 80%. It is more desirable to find the optimum level of NMP for each data set by applying the method described in this note, when the plot of (NMP, Number of overlapping genes) shows a turning point.

• Asian Journal for Public Opinion Research
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• v.5 no.1
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• pp.41-62
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• 2017

The political reformation in Indonesia is a determinant factor of the change in political communications and the roles of media. Currently, the political elites need media support, since it contextually has a significant role. Whoever has a good relationship with the media, will be loved by the public. On the other hand, the media also have a vested interest in the elite in running businesses and building the power of industry. Policies and capital pose a challenge to maintaining the continuity of the media. Independence and control of media are at stake, when the interests of the media and the elite collaborate with each other and then build a benefit on both sides. Meanwhile, the role of social media also cannot be neglected. The Indonesian political communication system is characterized by the presence of social media in a pseudo-relationship between the elite and the public. This paper tries to explain the growing trends of research in the academic environment and the research trends in political practice in Indonesia after the occurrence of post-reformation era in legislative and executive elections. The method used is the meta-analysis of research outcomes of university (dissertations) and secondary data sources. Data processing is done by meta-analysis of secondary data. The results of meta-analysis research indicate that, the objective conditions, in Indonesia, especially the political conditions, stimulate new spaces in communication research. The study of political communication becomes dominant in the academic environment. In addition, communication research is also characterized by a shift from the linear perspective (positivistic paradigm) to the interactive perspective (naturalistic paradigm). On the other hand, the development of politic and governance situations in Indonesia has prompted the establishment of polling agencies that help citizens understand the maps of political power and candidates in general elections and regional head elections.

• Transactions of the Korean Society of Mechanical Engineers B
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• v.35 no.5
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• pp.451-457
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• 2011

The main objective of this study is to investigate the variation in the ignition characteristics of coals as a function of moisture content in a laminar flow reactor (LFR) equipped with a fuel moisture micro-supplier designed by the Pusan Clean Coal Center. The volatile ignition position and time were observed experimentally when a pulverized coal with moisture was fed into the LFR under burning conditions similar to those at the exit of the pulverizer and real boiler. The reaction-zone temperature along the centerline of the reactor was measured with a $70-{\mu}m$, R-type thermocouple. For different moisture contents, the volatile ignition position was determined based on an average of 15 to 20 images captured by a CCD camera using a proprietary image-processing technique. The reaction zone decreased proportionally as a function of the moisture content. As the moisture content increased, the volatile ignition positions were 2.92, 3.36, 3.96, and 4.65 mm corresponding to ignition times of 1.46, 1.68, 2.00, and 2.33 ms, respectively. These results indicate that the ignition position and time increased exponentially. We also calculated the ignition-delay time derived from the adiabatic thermal explosion. It showed a trend that was similar to that of the experimental data.

• Bulletin of the Korean Chemical Society
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• v.34 no.9
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• pp.2577-2582
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• 2013

A novel stick-shaped portable sensing device featuring a microhole array interface between the polyvinylchloride-2-nitrophenyloctylether (PVC-NPOE) gel and water phase was developed for in-situ sensing of perchlorate ions in real water samples. Perchlorate sensitive sensing responses were obtained based on measuring the current changes with respect to the assisted transfer reaction of perchlorate ions by a perchlorate selective ligand namely, bis(dibenzoylmethanato)Ni(II) (Ni(DBM)2) across the polarized microhole array interface. Cyclic voltammetry was used to characterize the assisted transfer reaction of perchlorate ions by the $Ni(DBM)_2$ ligand when using the portable sensing device. The current response for the transfer of perchlorate anions by $Ni(DBM)_2$ across the micro-water/gel interface linearly increased as a function of the perchlorate ion concentration. The technique of differential pulse stripping voltammetry was also utilized to improve the sensitivity of the perchlorate anion detection down to 10 ppb. This was acquired by preconcentrating perchlorate anions in the gel layer by means of holding the ion transfer potential at 0 mV (vs. Ag/AgCl) for 30 s followed by stripping the complexed perchlorate ion with the ligand. The effect of various potential interfering anions on the perchlorate sensor was also investigated and showed an excellent selectivity over $Br^-$, $NO_2{^-}$, $NO_3{^-}$, $CO{_3}^{2^-}$, $CH_3COO^-$ and $SO{_4}^{2^-}$ ions. As a final demonstration, some regional water samples from the Sincheon river in Daegu city were analyzed and the data was verified with that of ion chromatography (IC) analysis from one of the Korean-certified water quality evaluation centers.

• Tuberculosis and Respiratory Diseases
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• v.83 no.1
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• pp.1-13
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• 2020

For the past three decades, more than a thousand of genetic studies have been performed to find out the genetic variants responsible for the risk of asthma. Until now, all of the discovered single nucleotide polymorphisms have explained genetic effects less than initially expected. Thus, clarification of environmental factors has been brought up to overcome the 'missing' heritability. The most exciting solution is epigenesis because it intervenes at the junction between the genome and the environment. Epigenesis is an alteration of genetic expression without changes of DNA sequence caused by environmental factors such as nutrients, allergens, cigarette smoke, air pollutants, use of drugs and infectious agents during pre- and post-natal periods and even in adulthood. Three major forms of epigenesis are composed of DNA methylation, histone modifications, and specific microRNA. Recently, several studies have been published on epigenesis in asthma and allergy as a powerful tool for research of genetic heritability in asthma albeit epigenetic changes are at the starting point to obtain the data on specific phenotypes of asthma. In this presentation, we mainly review the potential role of DNA CpG methylation in the risk of asthma and its sub-phenotypes including nonsteroidal anti-inflammatory exacerbated respiratory diseases.

• The Journal of Advanced Prosthodontics
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• v.10 no.3
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• pp.177-183
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• 2018

PURPOSE. The purpose of the current study was to evaluate the effect of incorporating nanoparticles of silver (NAg) and amorphous calcium phosphate (NACP) into a self-etching primer of a resin cement on the microtensile bond strength of dentin, regarding the proven antibacterial feature of NAg and remineralizing effect of NACP. MATERIALS AND METHODS. Flat, mid-coronal dentin from 20 intact extracted human third molars were prepared for cementation using Panavia F2.0 cement. The teeth were randomly divided into the four test groups (n=5) according to the experimental cement primer composition: cement primer without change (control group), primer with 1% (wt) of NACP, primer with 1% (wt) of physical mixture of NACP+Nag, and primer with 1% (wt) of chemical mixture of NACP+Nag. The resin cement was used according to the manufacturer's instructions. After storage in distilled water at $37^{\circ}C$ for 24 h, the bonded samples were sectioned longitudinally to produce $1.0{\times}1.0mm$ beams for micro-tensile bond strength testing in a universal testing machine. Failure modes at the dentin-resin interface were observed using a stereomicroscope. The data were analyzed by one-way ANOVA and Tukey's post-hoc tests and the level of significance was set at 0.05. RESULTS. The lowest mean microtensile bond strength was obtained for the NACP group. Tukey's test showed that the bond strength of the control group was significantly higher than those of the other experimental groups, except for group 4 (chemical mixture of NACP and NAg; P=.67). CONCLUSION. Novel chemical incorporation of NAg-NACP into the self-etching primer of resin cement does not compromise the dentin bond strength.

• Atmosphere
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• v.19 no.4
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• pp.319-329
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• 2009

The intensive dust observation experiment has been performed at Korea Global Atmosphere Watch Center (KGAW) in Anmyeon, Korea during each spring season from 2007 to 2009. Downward and upward hyper-spectral spectrums over the dust condition were measured to understand the hyper-spectral properties of Asian dust using both ground-based Fourier Transform Infrared Spectroscopy (FT-IR) and space-borne AIRS/Aqua. To understand the impact of the Asian dust, a Line-by-Line radiative transfer model runs to calculate the high resolution infrared spectrum over the wave number range of $500-500cm^{-1}$. Furthermore, the radiosonde, a $PM_{10}$ Sampler, a Micro Pulse Lidar (MPL), and an Aerodynamic Particle Sizer (APS) are used to understand the vertical profile of temperature and humidity and the properties of Asian dust like concentration, altitude of dust layer, and size distribution. In this study, we found the Asian dust distributed from surface up to 3-4 km and volume concentration is increased at the size range between 2 and $8{\mu}m$ The observed dust spectrums are larger than the calculated clear sky spectrums by 15~60K for downward and lower by around 2~6K for upward in the wave number range of $800-1200cm^{-1}$. For the characteristics of the spectrum during the Asian dust, the downward spectrum is revealed a positive slope for $800-1000cm^{-1}$ region and negative slope over $1100-1200cm^{-1}$ region. In the upward spectrum, slopes are opposed to the downward one. It is inferred that the difference between measured and calculated spectrum is mostly due to the contribution of emission and/or absorption of the dust particles by the aerosol amount, size distribution, altitude, and composition.

• The Journal of Advanced Prosthodontics
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• v.8 no.4
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• pp.251-258
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• 2016

PURPOSE. This study was undertaken to investigate whether use of an adhesive penetration enhancer, dimethyl sulfoxide (DMSO), improves bond stability of fiber posts to root dentin using two two-step etch-and-rinse resin cements. MATERIALS AND METHODS. Forty human maxillary central incisor roots were randomly divided into 4 groups after endodontic treatment and post space preparation, based on the fiber post/cement used with and without DMSO pretreatment. Acid-etched root dentin was treated with 5% DMSO aqueous solution for 60 seconds or with distilled water (control) prior to the application of Excite DSC/Variolink II or One-Step Plus/Duolink for post cementation. After micro-slicing the bonded root dentin, push-out bond strength (P-OBS) test was performed immediately or after 1-year of water storage in each group. Data were analyzed using three-way ANOVA and Student's t-test (${\alpha}$=.05). RESULTS. A significant effect of time, DMSO treatment, and treatment${\times}$time interaction were observed (P<.001). DMSO did not affect immediate bonding of the two cements. Aging significantly reduced P-OBS in control groups (P<.001), while in DMSO-treated groups, no difference in P-OBS was observed after aging (P>.05). CONCLUSION. DMSO-wet bonding might be a beneficial method in preserving the stability of resin-dentin bond strength over time when fiber post is cemented with the tested etch-and-rinse adhesive cements.

• Smart Structures and Systems
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• v.16 no.3
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• pp.383-399
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• 2015

Today, as railways increase their capacity and speeds, it is more important than ever to be completely aware of the state of vehicles fleet's condition to ensure the highest quality and safety standards, as well as being able to maintain the costs as low as possible. Operation of a modern, dynamic and efficient railway demands a real time, accurate and reliable evaluation of the infrastructure assets, including signal networks and diagnostic systems able to acquire functional parameters. In the conventional system, measurement data are reliably collected using coaxial wires for communication between sensors and the repository. As sensors grow in size, the cost of the monitoring system can grow. Recently, auto-powered wireless sensor has been considered as an alternative tool for economical and accurate realization of structural health monitoring system, being provided by the following essential features: on-board micro-processor, sensing capability, wireless communication, auto-powered battery, and low cost. In this work, an original harvester device is designed to supply wireless sensor system battery using train bogie energy. Piezoelectric materials have in here considered due to their established ability to directly convert applied strain energy into usable electric energy and their relatively simple modelling into an integrated system. The mechanical and electrical properties of the system are studied according to the project specifications. The numerical formulation is implemented with in-house code using commercial software tool and then experimentally validated through a proof of concept setup using an excitation signal by a real application scenario.

• Journal of Radiopharmaceuticals and Molecular Probes
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• v.5 no.1
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• pp.54-60
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• 2019

Sentinel lymph node (SLN) imaging plays an important role in surgery of patients with breast cancer and melanoma. In this study, avidin (Av), a tetrameric protein glycosylated with mannose and N-acetylglucosamine molecules, was labeled with $^{64}Cu$ and then evaluated for LN imaging. $^{64}Cu$-Labeled $NeutrAvidin^{TM}$ (NAv), a non-glycosylated form of Av, was used for comparison. 1,4,7,10-Tetraazacyclododecane-N,N',N'',N'''-tetraacetic acid (DOTA)-conjugated Av and NAv were prepared from the corresponding proteins and DOTA-NHS ester, which were then labeled with copper-64 and purified using PD-10 columns. The numbers of DOTA molecules conjugated to Av and NAv were 4.9 and 3.3, respectively. [$^{64}Cu$]Cu-DOTA-conjugated Av and NAv were prepared in 93% and 73% radiochemical yields, respectively. In vitro serum stability study showed that copper-64 remained stable on all radiotracers for 24 h (>97%). MicroPET/CT images showed that high radioactivity was accumulated in LNs within 15 min after footpad-injection of radiotracers. Tissue distribution data of mice demonstrated significantly higher uptake in the popliteal (PO) LN than lumbar (LU) LN for $^{64}Cu$-labeled Av (relative % ID/g excluding the injection sites: 66.2% and 26.0%, respectively) compared with those of $^{64}Cu$-labeled NAv (43.0% and 49.2%, respectively). The results of this study suggest that mannose molecules on Av enabled the radiotracer to retain in the first LN after mouse footpad-injection.