• Title/Summary/Keyword: Topological Analysis

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Isolation of MLL1 Inhibitory RNA Aptamers

  • Ul-Haq, Asad;Jin, Ming Li;Jeong, Kwang Won;Kim, Hwan-Mook;Chun, Kwang-Hoon
    • Biomolecules & Therapeutics
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    • v.27 no.2
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    • pp.201-209
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    • 2019
  • Mixed lineage leukemia proteins (MLL) are the key histone lysine methyltransferases that regulate expression of diverse genes. Aberrant activation of MLL promotes leukemia as well as solid tumors in humans, highlighting the urgent need for the development of an MLL inhibitor. We screened and isolated MLL1-binding ssRNAs using SELEX (${\underline{S}}ystemic$ ${\underline{E}}volution$ of ${\underline{L}}igands$ by ${\underline{E}}xponential$ enrichment) technology. When sequences in sub-libraries were obtained using next-generation sequencing (NGS), the most enriched aptamers-APT1 and APT2-represented about 30% and 26% of sub-library populations, respectively. Motif analysis of the top 50 sequences provided a highly conserved sequence: 5'-A[A/C][C/G][G/U][U/A]ACAGAGGG[U/A]GG[A/C] GAGUGGGU-3'. APT1, APT2, and APT5 embracing this motif generated secondary structures with similar topological characteristics. We found that APT1 and APT2 have a good binding activity and the analysis using mutated aptamer variants showed that the site information in the central region was critical for binding. In vitro enzyme activity assay showed that APT1 and APT2 had MLL1 inhibitory activity. Three-dimensional structure prediction of APT1-MLL1 complex indicates multiple weak interactions formed between MLL1 SET domain and APT1. Our study confirmed that NGS-assisted SELEX is an efficient tool for aptamer screening and that aptamers could be useful in diagnosis and treatment of MLL1-mediated diseases.

Experimental Validation of Topology Design Optimization Considering Lamination Direction of Three-dimensional Printing (3D 프린팅 적층 방향을 고려한 위상최적설계의 실험적 검증)

  • Park, Hee-Man;Lee, Gyu-Bin;Kim, Jin-san;Seon, Chae-Rim;Yoon, Minho
    • Journal of the Computational Structural Engineering Institute of Korea
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    • v.35 no.3
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    • pp.191-196
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    • 2022
  • In this study, the anisotropic mechanical property of fused deposition modeling three-dimensional (3D) printing based on lamination direction was verified by a tensile test. Moreover, the property was applied to solid isotropic materials with penalization-based topology optimization. The case of the lower control arm, one of the automotive suspension components, was considered as a benchmark problem. The optimal topological results varied depending on the external load and anisotropic property. Based on these results, two test specimens were fabricated by varying the lamination direction of 3D printing; a tensile test utilizing 3D non-contact strain gauge was also conducted. The measured strain was compared with that obtained by computer-aided engineering response analysis. Quantitatively, the measurement and analysis results are found to have good agreement. The effectiveness of topology optimization considering the lamination direction of 3D printing was confirmed by the experimental result.

Reinforcement layout design for deep beam based on BESO of multi-level reinforcement diameter under discrete model

  • Zhang, Hu-zhi;Luo, Peng;Yuan, Jian;Huang, Yao-sen;Liu, Jia-dong
    • Structural Engineering and Mechanics
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    • v.84 no.4
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    • pp.547-560
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    • 2022
  • By presetting various reinforcement diameters in topology optimization with the discrete model finite element analysis, an algorithm of bidirectional evolutionary structural optimization of multi-level reinforcement diameter is presented to obtain the optimal reinforcement topologies which describe the degree of stress of different parts. The results of a comparative study on different reinforcement feasible domain demonstrate that the more angle types of reinforcement are arranged in the initial domain, the higher utilization rate of reinforcement of the optimal topology becomes. According to the nonlinear finite element analysis of some deep beam examples, the ones designed with the optimization results have a certain advantage in ultimate bearing capacity, although their failure modes are greatly affected by the reinforcement feasible domain. Furthermore, the bearing capacity can be improved when constructional reinforcements are added in the subsequent design. However the adding would change the relative magnitude of the bearing capacity between the normal and inclined section, or the relative magnitude between the flexural and shear capacity within the inclined section, which affects the failure modes of components. Meanwhile, the adding would reduce the deformation capacity of the components as well. It is suggested that the inclined reinforcement and the constructional reinforcement should be added properly to ensure a desired ductile failure mode for components.

Social Network Analysis for the Effective Adoption of Recommender Systems (추천시스템의 효과적 도입을 위한 소셜네트워크 분석)

  • Park, Jong-Hak;Cho, Yoon-Ho
    • Journal of Intelligence and Information Systems
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    • v.17 no.4
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    • pp.305-316
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    • 2011
  • Recommender system is the system which, by using automated information filtering technology, recommends products or services to the customers who are likely to be interested in. Those systems are widely used in many different Web retailers such as Amazon.com, Netfix.com, and CDNow.com. Various recommender systems have been developed. Among them, Collaborative Filtering (CF) has been known as the most successful and commonly used approach. CF identifies customers whose tastes are similar to those of a given customer, and recommends items those customers have liked in the past. Numerous CF algorithms have been developed to increase the performance of recommender systems. However, the relative performances of CF algorithms are known to be domain and data dependent. It is very time-consuming and expensive to implement and launce a CF recommender system, and also the system unsuited for the given domain provides customers with poor quality recommendations that make them easily annoyed. Therefore, predicting in advance whether the performance of CF recommender system is acceptable or not is practically important and needed. In this study, we propose a decision making guideline which helps decide whether CF is adoptable for a given application with certain transaction data characteristics. Several previous studies reported that sparsity, gray sheep, cold-start, coverage, and serendipity could affect the performance of CF, but the theoretical and empirical justification of such factors is lacking. Recently there are many studies paying attention to Social Network Analysis (SNA) as a method to analyze social relationships among people. SNA is a method to measure and visualize the linkage structure and status focusing on interaction among objects within communication group. CF analyzes the similarity among previous ratings or purchases of each customer, finds the relationships among the customers who have similarities, and then uses the relationships for recommendations. Thus CF can be modeled as a social network in which customers are nodes and purchase relationships between customers are links. Under the assumption that SNA could facilitate an exploration of the topological properties of the network structure that are implicit in transaction data for CF recommendations, we focus on density, clustering coefficient, and centralization which are ones of the most commonly used measures to capture topological properties of the social network structure. While network density, expressed as a proportion of the maximum possible number of links, captures the density of the whole network, the clustering coefficient captures the degree to which the overall network contains localized pockets of dense connectivity. Centralization reflects the extent to which connections are concentrated in a small number of nodes rather than distributed equally among all nodes. We explore how these SNA measures affect the performance of CF performance and how they interact to each other. Our experiments used sales transaction data from H department store, one of the well?known department stores in Korea. Total 396 data set were sampled to construct various types of social networks. The dependant variable measuring process consists of three steps; analysis of customer similarities, construction of a social network, and analysis of social network patterns. We used UCINET 6.0 for SNA. The experiments conducted the 3-way ANOVA which employs three SNA measures as dependant variables, and the recommendation accuracy measured by F1-measure as an independent variable. The experiments report that 1) each of three SNA measures affects the recommendation accuracy, 2) the density's effect to the performance overrides those of clustering coefficient and centralization (i.e., CF adoption is not a good decision if the density is low), and 3) however though the density is low, the performance of CF is comparatively good when the clustering coefficient is low. We expect that these experiment results help firms decide whether CF recommender system is adoptable for their business domain with certain transaction data characteristics.

Estimating the Reliability of Water Distribution Systems Using HSPDA Model and Distance Measure Method (HSPDA모형과 거리척도방법을 이용한 상수관망의 신뢰성분석)

  • Baek, Chun-Woo;Jun, Hwan-Don;Kim, Joong-Hoon
    • Journal of Korea Water Resources Association
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    • v.43 no.9
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    • pp.769-780
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    • 2010
  • Topological and hydraulic assessments to examine whether required demand and pressure are satisfied and using these assessed results as a criteria have been general methodology for reliability assessment of water distribution systems. However, many of existing studies that used nodal pressure calculated by hydraulic assessment for reliability assessment have two major issues to be solved. The one is that demand-driven analysis was used for hydraulic assessment and the other is that serviceability was not considered for reliability assessment. In addition, all of the studies used pressure-demand analysis which is suitable to hydraulic analysis for water distribution systems under abnormal operating condition considered only available nodal demand for reliability assessment. This means that advantages which can be obtained by pressure-driven analysis are not used properly and efficiently. In this study, new methodology for reliability assessment of water distribution systems using HSPDA model and distance measure method is suggested. This methodology considers both nodal pressure and nodal available demand for reliability assessment. Suggested methodology is applied to two water distribution systems to show its applicability and application results are compared with existing study.

Fluid Simulations in Academy Awarded Movies (아카데미상 영화에서 유체 시뮬레이션 기술)

  • Kim, Myung-Gyu;Oh, Seung-Taik;Choi, Byoung-Tae
    • Journal of the Korea Computer Graphics Society
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    • v.14 no.3
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    • pp.19-30
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    • 2008
  • Fluid simulation for computer graphics is a field of generating the realistic movements of water, smoke, fire, explosion, sand and related phenomena to be used in motion pictures and video games. In this paper we review the fluid simulation technologies and present a trend analysis for the simulation methods used in the recent movies. First of all, for this purpose, the two methods that are most widely used for fluid simulation are explained as well as their technical issues. These two methods are classified into Eulerian grid-based and Lagrangian particle-based approaches. Next, focusing on the achievements of the scientists and engineers that the 2008 Sci-Tech Oscar Awards are given to, the features of their fluid simulation technologies are analyzed. Finally, we anticipate that there are and will be the needs for visualizing fluid interaction with rigid and soft bodies and topological change among solid, fluid and gas, creating digital creatures based on fluid simulation and presenting interaction between creature and fluid.

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Utilization of Database in 3D Visualization of Remotely Sensed Data (원격탐사 영상의 3D 시각화와 데이터베이스의 활용)

  • Jung, Myung-Hee;Yun, Eui-Jung
    • Journal of the Institute of Electronics Engineers of Korea CI
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    • v.45 no.3
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    • pp.40-46
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    • 2008
  • 3D visualization of geological environments using remotely sensed data and the various sources of data provides new methodology to interpret geological observation data and analyze geo-information in earth science applications. It enables to understand spatio-temporal relationships and causal processes in the three-dimension, which would be difficult to identify without 3D representation. To build more realistic geological environments, which are useful to recognize spatial characteristics and relationships of geological objects, 3D modeling, topological analysis, and database should be coupled and taken into consideration for an integrated configuration of the system. In this study, a method for 3D visualization, extraction of geological data, storage and data management using remotely sensed data is proposed with the goal of providing a methodology to utilize dynamic spatio-temporal modeling and simulation in the three-dimension for geoscience and earth science applications.

2D Human Pose Estimation based on Object Detection using RGB-D information

  • Park, Seohee;Ji, Myunggeun;Chun, Junchul
    • KSII Transactions on Internet and Information Systems (TIIS)
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    • v.12 no.2
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    • pp.800-816
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    • 2018
  • In recent years, video surveillance research has been able to recognize various behaviors of pedestrians and analyze the overall situation of objects by combining image analysis technology and deep learning method. Human Activity Recognition (HAR), which is important issue in video surveillance research, is a field to detect abnormal behavior of pedestrians in CCTV environment. In order to recognize human behavior, it is necessary to detect the human in the image and to estimate the pose from the detected human. In this paper, we propose a novel approach for 2D Human Pose Estimation based on object detection using RGB-D information. By adding depth information to the RGB information that has some limitation in detecting object due to lack of topological information, we can improve the detecting accuracy. Subsequently, the rescaled region of the detected object is applied to ConVol.utional Pose Machines (CPM) which is a sequential prediction structure based on ConVol.utional Neural Network. We utilize CPM to generate belief maps to predict the positions of keypoint representing human body parts and to estimate human pose by detecting 14 key body points. From the experimental results, we can prove that the proposed method detects target objects robustly in occlusion. It is also possible to perform 2D human pose estimation by providing an accurately detected region as an input of the CPM. As for the future work, we will estimate the 3D human pose by mapping the 2D coordinate information on the body part onto the 3D space. Consequently, we can provide useful human behavior information in the research of HAR.

Plant responses to nano and micro structured carbon allotropes: Water imbibition by maize seeds upon exposure to multiwalled carbon nanotubes and activated carbon

  • Dasgupta-Schubert, N.;Tiwari, D.K.;Francis, E. Reyes;Martinez Torres, P.;Villasenor Cendejas, L.M.;Lara Romero, J.;Villasenor Mora, C.
    • Advances in nano research
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    • v.5 no.3
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    • pp.245-251
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    • 2017
  • Multiwalled carbon-nanotubes (MWCNT) and micro-structured carbon, such as biochar or activated carbon (AC), have been seen to significantly increase the growth indices of certain plant species such as maize (Zea mays L.). Seed imbibition is the stage where environmental factors that affect water transport across the seed coat barrier, make a large impact. This work explores the effect on water imbibition by maize seeds when the aqueous environment surrounding the seed is diluted by small concentrations (10 and 20 mg/l) of pristine MWCNT (p-MWCNT), carboxylate functionalized MWCNT (COO-MWCNT) and AC. The degree of sensitivity of the process to (i) large structural changes is seen by utilizing the nano (the MWCNT) and the micro (the AC) allotropic forms of carbon; (ii) to small changes in the purity and morphology of the p-MWCNT by utilizing 95% pure and 99% pure p-MWCNTs of slightly differing morphologies; and (iii) to MWCNT functionalization by using highly pure (97%) COO-MWCNT. Water imbibition was monitored over a 15 hour period by Near Infrared Thermography (NIRT) and also by seed weighing. Seed surface topography was seen by SEM imaging. Analysis of the NIRT images suggests rapid seed surface topological changes with the quantity of water imbibed. While further work is necessary to arrive at a conclusive answer, this work shows that the imbibition phase of the maize seed is sensitive to the presence of MWCNT even to small differences in the purity of the p-MWCNT and to small differences in the physicochemical properties of the medium caused by the hydrophilic COO-MWCNT.

Analysis on Status and Trends of SIAM Journal Papers using Text Mining (텍스트마이닝 기법을 활용한 미국산업응용수학 학회지의 연구 현황 및 동향 분석)

  • Kim, Sung-Yeun
    • The Journal of the Korea Contents Association
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    • v.20 no.7
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    • pp.212-222
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    • 2020
  • The purpose of this study is to understand the current status and trends of the research studies published by the Society for Industrial and Applied Mathematics which is a leader in the field of industrial mathematics around the world. To perform this purpose, titles and abstracts were collected from 6,255 research articles between 2016 and 2019, and the R program was used to analyze the topic modeling model with LDA techniques and a regression model. As the results of analyses, first, a variety of studies have been studied in the fields of industrial mathematics, such as algebra, discrete mathematics, geometry, topological mathematics, probability and statistics. Second, it was found that the ascending research subjects were fluid mechanics, graph theory, and stochastic differential equations, and the descending research subjects were computational theory and classical geometry. The results of the study, based on the understanding of the overall flows and changes of the intellectual structure in the fields of industrial mathematics, are expected to provide researchers in the field with implications of the future direction of research and how to build an industrial mathematics curriculum that reflects the zeitgeist in the field of education.