• Applied Microscopy
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• v.51
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• pp.4.1-4.12
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• 2021

Fluorescence in situ hybridization (FISH) is a technique to visualize specific DNA/RNA sequences within the cell nuclei and provide the presence, location and structural integrity of genes on chromosomes. A confocal Whole Slide Imaging (WSI) scanner technology has superior depth resolution compared to wide-field fluorescence imaging. Confocal WSI has the ability to perform serial optical sections with specimen imaging, which is critical for 3D tissue reconstruction for volumetric spatial analysis. The standard clinical manual scoring for FISH is labor-intensive, time-consuming and subjective. Application of multi-gene FISH analysis alongside 3D imaging, significantly increase the level of complexity required for an accurate 3D analysis. Therefore, the purpose of this study is to establish automated 3D FISH scoring for z-stack images from confocal WSI scanner. The algorithm and the application we developed, SHIMARIS PAFQ, successfully employs 3D calculations for clear individual cell nuclei segmentation, gene signals detection and distribution of break-apart probes signal patterns, including standard break-apart, and variant patterns due to truncation, and deletion, etc. The analysis was accurate and precise when compared with ground truth clinical manual counting and scoring reported in ten lymphoma and solid tumors cases. The algorithm and the application we developed, SHIMARIS PAFQ, is objective and more efficient than the conventional procedure. It enables the automated counting of more nuclei, precisely detecting additional abnormal signal variations in nuclei patterns and analyzes gigabyte multi-layer stacking imaging data of tissue samples from patients. Currently, we are developing a deep learning algorithm for automated tumor area detection to be integrated with SHIMARIS PAFQ.

• Journal of Korean Society of Transportation
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• v.25 no.2 s.95
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• pp.17-26
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• 2007

Because the prime objective of the current preemption methods at signalized intersections near highway-railroad grade crossings(IHRGCs) is to clear the crossing, secondary objectives such as safe pedestrian crossing time and minimized delay often are given less consideration or are ignored completely during the preemption. Under certain circumstances state-of-the-practice traffic signal preemption strategies may cause serious pedestrian safety and efficiency problems at IHRGCs. An improved transition preemption strategy(ITPS) that is specifically designed to improve intersection performance while maintaining or improving the current level of safety was developed by Cho and Rilett. Even if the new transition preemption strategy improved both the safety and efficiency of IHRGCs, the performance of the strategy is affected by train speed. Understanding the impact of this factor is essential in order to implement ITPS. In this paper, the effects of train speed were analyzed using a VISSIM simulation model which was calibrated to field conditions. It was concluded that the delay is affected more by train speed than the transitional preemption strategy and the safety of the intersection is not affected by train speed once an advanced preemption warning time(APWT) is equal to or greater than 90 seconds.

• Management & Information Systems Review
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• v.33 no.2
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• pp.301-315
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• 2014

The purpose of this study is to estimate the economic value of the Kumjung Mountain, using a Individual Travel Cost Model(ITCM). This paper compares Poisson and negative binomial count data models to measure the tourism demands. Interviewers were instructed to interview only individuals. So the sample was taken in 700. A dependent variable that is defined on the non-negative integers and subject to sampling truncation is the result of a truncated count data process. The results suggest that the truncated negative binomial model is improved overdispersion problem and more preferred than the other models in the study. This study emphasizes in particular 'travel cost' that is not only monetary cost but also including opportunity cost of 'travel time'. According to the truncated negative binomial model, estimates the Consumer Surplus(CS) values per trip of about 60,669 Korean won and the total economic value was estimated to be 252,383 Korean won.

• Journal of Soil and Groundwater Environment
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• v.11 no.1
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• pp.37-44
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• 2006

This study summarizes advantages and disadvantages of numerical methods and compares ELLAM and LEZOOMPC to develop an efficient numerical modeling technique on contaminant transport. Eulerian-Lagrangian method and Eulerian method are commonly used numerical techniques. However Eulerian-Lagrangian method does not conserve mass globally and fails to treat boundary in a straightforward manner. Also, Eulerian method has restrictions on the size of Courant number and mesh Peclet number because of time truncation error. ELLAM (Eulerian Lagrangian Localized Adjoint Method) which has been popularly used for past 10 years in numerical modeling, is known for overcoming these numerical problems of Eulerian-Lagrangian method and Eulerian method. However, this study investigates advantages and disadvantages of ELLAM and suggests a change for the better. To figure out the disadvantages of ELLAM, the results of ELLAM, LEZOOMPC (Lagrangian-Eulerian ZOOMing Peak and valley Capturing), and visual MODFLOW are compared for four examples having different mesh Peclet numbers. The result of ELLAM generates numerical oscillation at infinite of mesh Peclet number, but that of LEZOOMPC yields accurate simulations. The simulation results suggest that the numerical error of ELLAM could be alleviated by adopting some schemes in LEZOOMPC. In other words, the numerical model which combines ELLAM with backward particle tracking, forward particle tracking, adaptively local zooming, and peak/valley capturing of LEZOOMPC can be developed for not only overcoming the numerical error of ELLAM, but also keeping the numerical advantage of ELLAM.

• The Sea:JOURNAL OF THE KOREAN SOCIETY OF OCEANOGRAPHY
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• v.7 no.4
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• pp.267-285
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• 2002

Dok Island, a Pliocene volcano, lies in the southwestern part of the East Sea. Most the work to date have focused primarily on the petrolography of the island, and as a result, the morphological characteristics and internal structure of the volcanic edifices of the Dok Island remain poorly understood. To provide better constraints on these features, bathymetric data with multibeam echo sounder, 32-channel seismic and 3D gravity modeling were used in this study. Three positive topographic highs are present in the study area, and these highs satisfy the seamount criteria. They are named as Dokdo, Tamhae, and Donghae seamounts. 32-channel seismic survey was conducted to investigate the sediment thickness of the area, which shows that there are no sediments near the summit of seamounts. Away from the seamounts, however, sediment becomes thick(>2000 m) toward the western part of the study area, and sediments in the northern and southern parts are about 1000 m thick. Free-Air gravity anomalies in this study generally follow the bathymetric feature with less than -20 mGal at the western part, but increase towards the seamounts. In the summit of the Dokdo Seamount, anomalies reach over 120 mGal, and in Tamhae and Donghae seamounts, the peak anomaly shows 90 and 70 mGals, respectively. All seamounts have an isolated volcanic conduit in their centre and show regional compensation root with 0.5～1.5 km thickness. The flat-topped summit of the seamounts is probably caused by wave truncation, indicating the sea level at the time of formation of the flat-topped geometry. Comparison between the present-day sea level and subsidence level during the opening of the East Sea suggests that the seamounts in the study area have subsided by 200～300 m after the formation. Furthermore, it implies that the seamounts formed over 12～10 Ma.