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Extending TextAE for annotation of non-contiguous entities

  • Lever, Jake;Altman, Russ;Kim, Jin-Dong
    • Genomics & Informatics
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    • v.18 no.2
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    • pp.15.1-15.6
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    • 2020
  • Named entity recognition tools are used to identify mentions of biomedical entities in free text and are essential components of high-quality information retrieval and extraction systems. Without good entity recognition, methods will mislabel searched text and will miss important information or identify spurious text that will frustrate users. Most tools do not capture non-contiguous entities which are separate spans of text that together refer to an entity, e.g., the entity "type 1 diabetes" in the phrase "type 1 and type 2 diabetes." This type is commonly found in biomedical texts, especially in lists, where multiple biomedical entities are named in shortened form to avoid repeating words. Most text annotation systems, that enable users to view and edit entity annotations, do not support non-contiguous entities. Therefore, experts cannot even visualize non-contiguous entities, let alone annotate them to build valuable datasets for machine learning methods. To combat this problem and as part of the BLAH6 hackathon, we extended the TextAE platform to allow visualization and annotation of non-contiguous entities. This enables users to add new subspans to existing entities by selecting additional text. We integrate this new functionality with TextAE's existing editing functionality to allow easy changes to entity annotation and editing of relation annotations involving non-contiguous entities, with importing and exporting to the PubAnnotation format. Finally, we roughly quantify the problem across the entire accessible biomedical literature to highlight that there are a substantial number of non-contiguous entities that appear in lists that would be missed by most text mining systems.

A Study for impact absorption function of midsole in Cushioned Marathon Shoes (충격흡수용 마라톤화(Cushioned Shoes) 개발을 위한 중창·하지의 충격흡수기능 연구 -마라톤화 연구의 과거 & 현재를 중심으로-)

  • Park, Seung-Bum;Seo, Kuk-Woong;Kim, Yong-Jae
    • Korean Journal of Applied Biomechanics
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    • v.12 no.1
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    • pp.89-114
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    • 2002
  • The purpose of this study was to analyze impact absorption function of midsole in cushioned marathon shoes. The foot is made up of a complex interaction of bones, ligaments, and muscles. These structures help the foot alternate between being a mobile, flexible adaptor and a stable rigid lever. The foot is broken down into two functional parts, the forefoot and the rearfoot. Cushioned marathon shoes for high arches have generous cushioning for efficient and high-mileage runners. Cushioned marathon shoes are made for feet that have high arches or no excessive motion and don't roll inward or roll outward. This condition is known as underpronation. Especially, Cushioned marathon shoes are designed to reduce shock and generally have the softest (or most cushioned) midsoles and the least medial support. They are usually built on a semicurved or curved last to encourage foot motion, which is helpful for underpronators (who have rigid, immobile feet). Cushioning marathon shoes recommended for the high-arched runner, whose foot may roll outward (supinate) rather than the natural slight inward roll, or whose feet may be relatively rigid. Cushioning shoes emphasize flexibility and usually are built on a curved or semicurved last to encourage a normal motion of the foot. Cushioning shoes usually offer no medial (inner foot) support. Cushioned marathon shoes have the single-density midsole, which is stable and relatively firm for a cushioned shoe, stays the same. But the forefoot is more rounded, and the rearfoot now includes a new and supportive rearfoot cradle. A foam midsole, perhaps with layers of different densities, to provide cushioning and shock absorption. EVA (ethylene vinyl acetate) and PU (polyurethane), the materials from which these foams usually are made. EVA is slightly softer than PU. EVA and PU may be layered together in a shoe, or a shoe may have more than one density of EVA.

A Review and Analysis on the Interim Guidelines for Alternative Assessment of the Weather Criterion by Drifting and Motion Test in Waves (표류 및 파랑중 운동 모형시험을 통한 기상기준 평가 대체안 고찰)

  • Yoon, Hyeon-Kyu;Kim, Sun-Young;Kim, Jin-Ha;Kim, Young-Shik;Hong, Sa-Young
    • Journal of the Society of Naval Architects of Korea
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    • v.43 no.5 s.149
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    • pp.529-537
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    • 2006
  • International Maritime Organization (IMO) is planning to include the Alternative Assessment of the Weather Criterion in the new Intact Stability (IS) Code to be revised. In this study, the procedure of the model test in the Interim Guidelines was reviewed by carrying out the model test and analyzing the test results. For this purpose, RO/RO passenger ship whose ratios of breadth to draft and the height of weight to draft were above 3.5 and above 0.6 respectively was selected as a test ship. Drifting test and motion test in regular waves were performed to estimate the hydrodynamic heeling lever and roll-back angle. Motion tests in waves were carried out in the three wave steepness conditions to measure roll-back angle and examine the feasibility of so called, the Three-step method. Using the test data, satisfaction of the Weather Criterion was assessed for the test ship by using the alternative method and compared with the current method.

Electromagnatic Effect Analysis inside Electrically Large Structures Using Topological Modeling and PWB Method (위상학적 모델링과 PWB Method를 이용한 대형 구조물 내부의 전자파 영향 해석)

  • Lee, Jae-Min;Jung, In-Hwan;Lee, Jae-Wook;Lee, Young-Seung;Kwon, Jong-Hwa
    • The Journal of Korean Institute of Electromagnetic Engineering and Science
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    • v.27 no.3
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    • pp.284-290
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    • 2016
  • As the recently advanced scientific developments result in high lever of the usability and the needs for the electrical equipment and devices in various situations, the safety technologies protecting malfunction and electrical critical damages including soft and hardware from the unexpectedly radiated electromagnetic interferences are required gradually. In addition, the numerical analysis for the miniaturized electrical components and equipments as well as the conventional electrical devices installed inside the electrically large enclosures and structures requires the memory requirement and time consumption too big to be handled in a realistic situation, which will result in a limitation in solving the complete set of maxwell's equations. In this paper, PWB method based on statistical theory and topological modeling with appropriate zoning concepts are introduced for the EM analysis of an electrically large complex structures.

The Load of Indicator Bacteria of Sanitary Ware in Public Restrooms (일부 공중화장실 위생설비의 오염지표세균 조사)

  • Kim, Jong-Gyu;Kim, Joong-Soon
    • Journal of Environmental Health Sciences
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    • v.40 no.1
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    • pp.63-70
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    • 2014
  • Objective: The purpose of this study was to investigate the occurrence of indicator organisms in essential sanitary ware in public restrooms. Methods: Twelve public restrooms were randomly selected. Samples at three locations (toilet seat, toilet flush handle/lever, and faucet handle) in the restrooms were collected with moistened-sterile cotton swabs and applied to media in order to determine aerobic colony count (ACC), total coliforms, and Escherichia coli. Results: Most of the samples taken in summer showed a higher level of ACC than those taken in winter (p<0.05). Female restrooms showed higher ACC levels on faucet handles and male restrooms on toilet flush handles/levers (p<0.05). Overall, faucet handles contained the greatest level of ACC, followed by toilet seats, whereas the least load was found on toilet flush handles/levers. The ACC level of samples in the restrooms in public parks, subway stations, and educational institutions varied. Total coliforms were identified in about 20% of toilet seats and faucet handles in male restrooms and faucet handles in female restrooms in summer. These locations were also the sites of positive results of E. coli isolation. Conclusions: The public restrooms were significantly more contaminated in summer than in winter. Overall, the most contaminated locations in the restrooms were toilet seats in male restrooms, and faucet handles in female restrooms. Poor hygienic status was indicated by the positive results of total coliforms and E. coli on samples from some sites. Therefore, sanitary control of restrooms should be improved. These results should be confirmed in a larger study that includes more public restrooms.

Credit Evaluation Model for Medical Venture Business By the Analytic Hierarchy Process (AHP를 이용한 의료기기 벤처기업의 신용평가모형)

  • Park, Cheol-Soo;Kim, Mahn-Sool
    • Asia-Pacific Journal of Business Venturing and Entrepreneurship
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    • v.6 no.2
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    • pp.133-147
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    • 2011
  • This study presents the credit evaluation model for medical venture business which has been growing within the recent decade. We develop the model with two steps. At the first step, the evaluation indexes for each of the financial and non-financial factors of a firm are listed. At the second step, the weight for each index is measured by using the Analytic Hierarchy Process of Saaty(1980). The financial factors consists of 5 upper level indexes and 10 lower level indexes. The upper level indexes of the financial sector are profitability, safety, utilization, growth, and productivity. And the non-financial factors consists of 5 upper level indexes and 17 lower lever indexes. The upper level indexes in this sector are manager's competence, technical capability, marketability, business validity, and reliability. In order to get the empirical results for our model, we conduct the questionnaire survey targeting the credit assessment officers, who are practicing at the financial institutions or the credit guarantee company located within the Wonju Medical Devices Cluster.

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Reconstruction of the Shoulder using Rotational Latissimus Dorsi Flap in the Malignant Fibrous Histiocytoma (악성 섬유성 조직구종에서 광배근피판을 이용한 견관절 재건술)

  • Han, Chung-Soo;Chung, Duke-Whan;Lee, Young-Ho;Im, Yang-Jin
    • Archives of Reconstructive Microsurgery
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    • v.10 no.2
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    • pp.111-117
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    • 2001
  • Introduction : The Functional muscle transfer is used to reconstruct the injuried muscle and paralysis of the shoulder. Especially transfer of the trapezius has been the treatment of choice but it has disadvantages of inadequate function and deformed contour, and instability of humeral head in case of acromion resection. We report an operation for shoulder reconstruction after wide resection of malignant fibrous histiocytoma, using rotational latissimus dorsi flap and review the operation method and clinical outcome. Materials and Methods : A patient, 53 year old, with malignant fibrous histiocytoma in the acromioclavicular joint area had been underwent wide excision, including the deltoid, clavicular head of pectoralis major, part of trapezius, lateral 1/3 of clavicle and acromion including scapular spine. The rotational latissimus dorsi flap with its neurovascular pedicle was dissected and then placed over the resected area and transfer of muscle attached at coracoid process was done to achieve stability of the humeral head. The range of motion of the shoulder and test of muscle power were evaluated for functional outcome. Total follow-up period is 2 years 11 months. Results : At last follow-up, the range of motion of the shoulder is abduction $90^{\circ}$, flexion $90^{\circ}$, internal rotation $40^{\circ}$, external rotation $50^{\circ}$ and the muscle power is 4 grade in all direction and then we obtained good functional results. There are no complications such as instability or subluxation of the humeral head and deformed contour and he is a disease-free survival state. Conclusions : The transfered latissimus dorsi flap provides adequate lever arm and stabilization and covering of the humeral head by sufficient muscle volume and width. This procedure can be useful not only for the paralysed deltoid reconstruction but also for use in reconstructive surgery after wide resection of the shoulder for malignant tumor.

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Stability of the offshore large purseiner in Korea (한국 근해 대형 선망 어선의 복원성)

  • Ham, Sang-Jun;Kang, Il-Kwon;Kim, Hyung-Seok;Jo, Hyo-Jae;Kim, Jung-Chang
    • Journal of the Korean Society of Fisheries and Ocean Technology
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    • v.47 no.3
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    • pp.241-247
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    • 2011
  • Marine casualties of vessel are said to be in most case caused by human error, but it would be valid for the assumption that the ship is built with high quality and then should be acceptable to the safety standards. It means that the inherent characteristics of a ship should be the first consideration on the safety of ship. Therefore it is basically necessary for navigator to grasp the inherent stability of his ship and ensure that the ship complies with the minimum statutory standards of stability. This study is to realize the stability of the Korean offshore large purseiner varying with loading conditions by the inclining data and some calculations. The author compared the stability of the ship with IMO criteria and domestic rule, and proposed some improvement for the safety of the ship. The results are summarized as follows ; The values of GM of the ship according to the loading condition in navigation satisfy both of the IMO criteria and the domestic rule, but in case of the area under the GZ curves between the heel angles of $30^{\circ}$ and $40^{\circ}$, and the heel angle occuring the maximum righting lever not satisfy the IMO rule at the fishing ground departure and arrival conditions in the haul in net situation. The initial metacentric height of the ship is very large, but the range of stability and the occurring angle of the maximum GZ are very small, so even small inclining can bring about the beam end. The best method of improvement for that is to increase the freeboard of the model among the variables.

Effect of Xingyo-tang on Learning and Memory Performances in Mice

  • Kim, Ki-Bong;Chang, Gyu-Tae;Kim, Jang-Hyun
    • Journal of Physiology & Pathology in Korean Medicine
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    • v.19 no.1
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    • pp.254-261
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    • 2005
  • The effects on memory and learning ability of the Korean herbal medicine, Xingyo-tang(XGT, 神交湯), which consists of Ginseng Radix(人蔘) 4 g, Liriopis Tuber(麥門冬) 40 g, Morindae Officinalis Radix(巴戟天) 40 g, Biotae Semen(柏子仁) 20 g, Dioscoreae Rhizoma(山藥) 40 g, Euryales Semen(?實) 20 g, Scrophulariae Radix(玄蔘) 40 g, Salviae Miltiorrhizae Radix(丹蔘) 12 g, Poria(茯神) 12 g, Cuscutae Semen(免絲子) 40 g, was investigated. The effects of XGT on learning and memory performance were examined in normal or memory impaired mice by using avoidance tests, Pentobarbital -induced sleep test, fear conditioning task, novel object recognition task, and water maze task. Hot water extract from XGT was used for the studies. Learning ability and memory are based on modifications of synaptic strength among neurons that are simultaneously active. Enhanced synaptic coincidence detection leads to better learning and memory. The XGT-treated (30 mg/100 g and 60 mg/100 g, p.o.) mice exhibit superior ability in learning and memorizing when performing various behavioral tasks. XGT did not affect the passive avoidance responses of normal mice in the step through and step down tests, the conditioned and unconditioned avoidance responses of normal mice in the shuttle box, lever press performance tests, and the ambulatory activity of normal mice in normal condition. In contrast, XGT produced ameliorating effects on the memory retrieval impairment induced by ethanol. XGT also improved the memory consolidation disability induced by electric convulsive shock (ECS). XGT extended the sleeping time induced by pentobarbital dose-dependently, suggesting its transquilizing or antianxiety action. These results suggest that XGT has an improving effect on the impaired learning through the effects on memory registration and retrieval.

Development of Force Measuring Device in Learning Wind Tunnel Used for Transportation Technology Class (수송 기술에 적합한 학습용 풍동의 힘 측정 장치 개발)

  • Choi, Jun-Seop;Lee, Sung-Gu
    • 대한공업교육학회지
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    • v.32 no.1
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    • pp.117-133
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    • 2007
  • The purpose of this study was to develop the force measuring device of learning wind tunnel, teaching-learning materials in order to enhance understanding of flight principle and give interest about aviation technology in secondary school. The content of this study was consisted of the development and experiment of force measuring device for learning wind tunnel. The main results of this study were as follows: This device developed here is simple structure applying lever principle instead of the comparatively expensive load cell used in engineering college or a aviation research institute and so on. Measurement of lift and drag as well as the comparison experiment of a fluid resistance is possible with only one device developed here. The lift coefficient with angle of attack has shown the same tendency in both of theoretical and experimental values. And the stall phenomenon was found under the larger angle of attack of experimental rather than expected theoretical values. The drag coefficient with angle of attack has shown the same tendency in both of theoretical and experimental values. And drag coefficient the rate of increasement of the experimental values increased more gently than its theoretical values.