• 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.

• The Korean Journal of Applied Statistics
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• v.24 no.4
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• pp.695-708
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• 2011

Image fusion is the process of combining multiple images of the same scene into a single fused image with application to many fields, such as remote sensing, computer vision, robotics, medical imaging and military affairs. The widely used image fusion rules that use wavelet transform have been based on a simple comparison with the activity measures of local windows such as mean and standard deviation. In this case, information features from the original images are excluded in the fusion image and distorted fusion images are obtained for noisy images. In this paper, we propose the use of a nonparametric squared ranks test on the quality of variance for two samples in order to overcome the influence of the noise and guarantee the homogeneity of the fused image. We evaluate the method both quantitatively and qualitatively for image fusion as well as compare it to some existing fusion methods. Experimental results indicate that the proposed method is effective and provides satisfactory fusion results.

• Journal of Korean Neurosurgical Society
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• v.52 no.6
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• pp.523-527
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• 2012

Objective : The incidence of spontaneous spinal epidural hematoma (SSEH) is rare. Patients with SSEH, however, present disabling neurologic deficits. Clinical outcomes are variable among patients. To evaluate the adequate treatment method according to initial patients' neurological status and clinical outcome with comparison of variables affecting the clinical outcome. Methods : We included 15 patients suffered from SSEH. Patients were divided into two groups by treatment method. Initial neurological status and clinical outcomes were assessed by the American Spinal Injury Association (ASIA) impairment scale. Also sagittal hematoma location and length of involved segment was analyzed with magnetic resonance images. Other factors such as age, sex, premorbid medication and duration of hospital stay were reviewed with medical records. Nonparametric statistical analysis and subgroup analysis were performed to overcome small sample size. Results : Among fifteen patients, ten patients underwent decompressive surgery, and remaining five were treated with conservative therapy. Patients showed no different initial neurologic status between treatment groups. Initial neurologic status was strongly associated with neurological recovery (p=0.030). Factors that did not seem to affect clinical outcomes included : age, sex, length of the involved spinal segment, sagittal location of hematoma, premorbid medication of antiplatelets or anticoagulants, and treatment methods. Conclusion : For the management of SSEH, early decompressive surgery is usually recommended. However, conservative management can also be feasible in selective patients who present neurologic status as ASIA scale E or in whom early recovery of function has initiated with ASIA scale C or D.

• Journal of the Korean Association of Oral and Maxillofacial Surgeons
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• v.27 no.3
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• pp.250-257
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• 2001

Sensory dysfunction following the injury of the inferior alveolar nerve requires objective examination to get a reproducible data and to provide necessary treatment. This study was designed to evaluate if the SEP(somatosensory evoked potentials) of the mental nerve can be used as an objective method for the diagnosis of nerve injury and sensory disturbances. The subjects were nineteen patients ($37.4{\pm}11.3$ years old) who had been suffered from sensory disturbance of the unilateral lower lip and mental region for over 6 months after the inferior alveolar nerve injuries confirmed by the microsurgical explorations. The clinical neurosensory tests as SLTD(static light touch discrimination), MDD(moving direction discrimination), 2PD(two point discrimination), PPN(pin prick nociception) and accompanied pain were preceded to electro-physiologic examinations as SEP. The score of sensory dysfunction (sum score of all sensory tests) ranged from 0 to 8 were compared to the latency differences of the mental nerve SEPs. The correlation between clinical sensory scores and SEPs were tested by Spearman nonparametric rank correlation analysis, the differences in SEP latency by Kruskal-Wallis test and the latency differences according to PPN and accompanied pain by Mann-Whitney U test. This study resulted that the difference of the latencies between normal side and affected side was $2.22{\pm}2.46$ msec and correlated significantly with the neurosensory dysfunction scores (p=0.0001). Conclusively, the somatosensory evoked potentials of the mental nerve can be a useful diagnostic method to evaluate the inferior alveolar nerve injuries and the change of sensory dysfunction to be reproduced as an objective assessment.

• Journal of the Korean Regional Science Association
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• v.34 no.2
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• pp.49-64
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• 2018

In this study, we propose a methodology of center setting based on commuter traffic in the Seoul metropolitan area, and compared with the center setting method in previous studies. For this purpose, the center was derived by performing factor analysis and spatial autocorrelation analysis using the interregional commuting traffic for the administrative districts of the metropolitan area. In addition, we compared the results of applying each methodology of previous studies by classifying the methodologies into four categories: single index - based, multiple index - based, nonparametric, and spatial statistical method. As a result, some similar centers including major centers in Seoul were derived, but different results were obtained for each methodology and it was found that there were limitations in setting the multi sub-centers. Through this study, it can be reaffirmed that it is necessary to establish and supplement the spatial structure plan based on the new center system in the situation where the seoul metropolitan area of the polycentric spatial structure is now being discussed in the context of the urban realms.

• Journal of Veterinary Clinics
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• v.27 no.1
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• pp.66-70
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• 2010

Reference interval is critical for interpreting laboratory results, monitoring response to therapy and predicting the prognosis of the patients in clinical settings. The aim of the present study was to update established reference intervals for routine hematologic and serum chemistry values for a population of clinically healthy dogs (range, 1-8 years) seen in an animal hospital. Blood was obtained by venipuncture while animals were physically restrained, and samples were analyzed for 9 chemistries on MS9-5H (Melot Schloesing Lab, France) and 6 hematology on Vet Test 8008 (IDEXX, USA). Data from 105 dogs (52 males and 53 females) for hematology and 113 dogs (37 males and 76 females) for chemistry were used to determine reference intervals using the parametric, nonparametric and bootstrap methods. Prior to analysis, all parameters were tested for normal distribution using Anderson-Darling criterion. Of the 9 biochemical analytes, alkaline phosphatase, alanine aminotransferase, aspartate aminotransferase, creatinine, total protein, and glucose concentrations did not fit normal distribution for both original and transformed data. All but eosinophil count satisfied normal distribution for either original or transformed data. Parametric method can be used for original cholesterol concentrations, RBC, WBC, and neutrophil counts. This technique can also be used for power-transformed values of blood urea nitrogen concentrations and for logarithm of lymphocyte and monocyte counts. Non-parametric or bootstrap method was the preferred choice for the remaining 7 biochemical parameters and eosinophil count as they did not follow normal distributions. All three statistical techniques performed in similar reference intervals. When establishing reference intervals for clinical laboratory data, it is essential to assess the distribution of the original data to increase the accuracy of the interval, and non-parametric or bootstrap methods are of alternative for the data that do not fit normal distribution.

• Korean Journal of Social Welfare
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• v.44
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• pp.7-35
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• 2001

Little empirical study has been conducted concerning board function effectiveness and organizational performance in nonprofit nongovernmental human service organizations in Korea. Using the evaluations of 107 board members and 17 executive directors in Korean Community Chest and 16 regional community chests, this study attempted to examine the level of board function effectiveness and its relationship with organizational performance in these community chests. This study used board function scale developed by Holland and Jackson (1998) to measure board function effectiveness in the following 6 dimensions: contextual dimension: educational dimension: interpersonal dimension: analytical dimension: political dimension: and strategic dimension. This study showed that using 4 points scale, mean of overall board function effectiveness evaluated by board members is 2.62 and mean of overall board function effectiveness evaluated by executive directors is 2.73. That is, it showed that means of overall board function effectiveness are located in the middle point between negative evaluation and positive evaluation. On the other hand, using parametric correlation analysis method, it was found that in these community chests the association between board function effectiveness and organizational performance measured by fund-raising growth rate in $1999{\sim}2000\;and\;1998{\sim}2000$ is very weak and statistically nonsignificant. This study also revealed that using nonparametric correlation analysis method, the association between consensus level in evaluation by board members and executive directors about board function effectiveness, and organizational performance is still very weak and statistically nonsignificant. Finally, this study discussed the direction of future research in board function effectiveness and its relationship with organizational performance and the areas of board management that requires substantial efforts for promoting effectiveness of nonprofit human service organizations in Korea.

• Archives of Plastic Surgery
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• v.45 no.3
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• pp.207-213
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• 2018

This review article presents an assessment of trends in statistical methods and an evaluation of their appropriateness in articles published in the Archives of Plastic Surgery (APS) from 2012 to 2017. We reviewed 388 original articles published in APS between 2012 and 2017. We categorized the articles that used statistical methods according to the type of statistical method, the number of statistical methods, and the type of statistical software used. We checked whether there were errors in the description of statistical methods and results. A total of 230 articles (59.3%) published in APS between 2012 and 2017 used one or more statistical method. Within these articles, there were 261 applications of statistical methods with continuous or ordinal outcomes, and 139 applications of statistical methods with categorical outcome. The Pearson chi-square test (17.4%) and the Mann-Whitney U test (14.4%) were the most frequently used methods. Errors in describing statistical methods and results were found in 133 of the 230 articles (57.8%). Inadequate description of P-values was the most common error (39.1%). Among the 230 articles that used statistical methods, 71.7% provided details about the statistical software programs used for the analyses. SPSS was predominantly used in the articles that presented statistical analyses. We found that the use of statistical methods in APS has increased over the last 6 years. It seems that researchers have been paying more attention to the proper use of statistics in recent years. It is expected that these positive trends will continue in APS.

• Journal of the Korea Society of Computer and Information
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• v.21 no.12
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• pp.11-18
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• 2016

Magnetic resonance image (MRI) is widely used in brain research field and medical image. Especially, non-invasive brain activation acquired image technique, which is functional magnetic resonance image (fMRI) is used in brain study. In this study, we investigate brain activation occurred by LED light stimulation. For investigate of brain activation in experimental small animal, we used high magnetic field 9.4T MRI. Experimental small animal is Balb/c mouse, method of fMRI is using echo planar image (EPI). EPI method spend more less time than any other MRI method. For this reason, however, EPI data has low contrast. Due to the low contrast, image pre-processing is very hard and inaccuracy. In this study, we planned the study protocol, which is called block design in fMRI research field. The block designed has 8 LED light stimulation session and 8 rest session. All block is consist of 6 EPI images and acquired 1 slice of EPI image is 16 second. During the light session, we occurred LED light stimulation for 1 minutes 36 seconds. During the rest session, we do not occurred light stimulation and remain the light off state for 1 minutes 36 seconds. This session repeat the all over the EPI scan time, so the total spend time of EPI scan has almost 26 minutes. After acquired EPI data, we performed the analysis of this image data. In this study, we analysis of EPI data using statistical parametric map (SPM) software and performed image pre-processing such as realignment, co-registration, normalization, smoothing of EPI data. The pre-processing of fMRI data have to segmented using this software. However this method has 3 different method which is Gaussian nonparametric, warped modulate, and tissue probability map. In this study we performed the this 3 different method and compared how they can change the result of fMRI analysis results. The result of this study show that LED light stimulation was activate superior colliculus region in mouse brain. And the most higher activated value of segmentation method was using tissue probability map. this study may help to improve brain activation study using EPI and SPM analysis.

• Journal of Korean Society for Atmospheric Environment
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• v.25 no.2
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• pp.154-166
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• 2009

In this study, 1-hour integrated $PM_{2.5}$ mass and chemical composition concentrations were monitored at the St. Louis-Midwest Supersite in Illinois. Time-resolved samples were collected one week in each of June 2001 (22 June to 28 June), November 2001 (7 November to 13 November), and March 2002 (19 March to 25 March). A total of 427 samples were collected by CAMM (continuous ambient mass monitor) and 15 compounds were analyzed by AAS, PILS (particle-into-liquid sampler), and TOT (thermal optical transmittance) method. PMF was applied to identify the sources and apportion the $PM_{2.5}$ mass to each source for highly time resolved data. In addition, the nonparametric regression (NPR) was applied to identify the predominant directions of local sources relative to wind direction. Also, this study performed compare the NPR analysis and location of actual local point sources at the St. Louis area. The PMF modeling identified nine sources and the average mass was apportioned to gasoline vehicle, road dust, zinc smelter, copper production, secondary sulfate, diesel emission, secondary nitrate, iron+steel, and lead smelter, respectively. These results suggested that this study results will be help for $PM_{2.5}$ source apportionment studies at similar metropolitan area, establish $PM_{2.5}$ standard, and establish effective emissions reduction strategies in Korea.