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Real-time 3D Microtubule Gliding Simulation Accelerated by GPU Computing

International Journal of Automation and computing 2016年第2期13卷 108-116页

作者： Gregory Gutmann Daisuke Inoue Akira Kakugo akihiko konagaya Department of Computational Intelligence and Systems Science Tokyo Institute of Technology Faculty of Science Hokkaido University Graduate School of Chemical Sciences and Engineering Hokkaido University

A microtubule gliding assay is a biological experiment observing the dynamics of microtubules driven by motor proteins fixed on a glass surface. When appropriate microtubule interactions are set up on gliding assay experiments, microtubules often organize and create higher-level dynamics such as ring and bundle structures. In order to reproduce such higher-level dynamics on computers, we have been focusing on making a real-time 3D microtubule simulation. This real-time 3D microtubule simulation enables us to gain more knowledge on microtubule dynamics and their swarm movements by means of adjusting simulation paranleters in a real-time fashion. One of the technical challenges when creating a real-time 3D simulation is balancing the 3D rendering and the computing performance. Graphics processor unit （GPU） programming plays an essential role in balancing the millions of tasks, and makes this real-time 3D simulation possible. By the use of general-purpose computing on graphics processing units （GPGPU） programming we are able to run the simulation in a massively parallel fashion, even when dealing with more complex interactions between microtubules such as overriding and snuggling. Due to performance being an important factor, a performance n, odel has also been constructed from the analysis of the microtubule simulation and it is consistent with the performance measurements on different GPGPU architectures with regards to the number of cores and clock cycles.

关键词： Microtubule gliding assay 3D computer graphics and simulation parallel computing performance analysis general- purpose computing on graphics processing units (GPGPU) compute unified device arshitecture (CUDA) DirectX.

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DNA机器人在AFM图像中的分割和识别

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计算机工程与应用 2019年第11期55卷 192-198,220页

作者：童麟韩越兴小长谷明彦上海大学计算机工程与科学学院上海200444 中国科学院大学上海高等研究院上海200000 东京工业大学综合理工研究科东京226-8502 国立情报学研究所东京101-8430

DNA机器人是一种由DNA大分子通过折纸技术制作的纳米级别的机器人,可以用于癌症的诊断和治疗。为了对DNA机器人形态进行研究,研究人员利用原子力显微镜(Atomic Force Microscope,AFM)拍摄出机器人的AFM图像。针对AFM图像多噪声及被观察... 详细信息

DNA机器人是一种由DNA大分子通过折纸技术制作的纳米级别的机器人,可以用于癌症的诊断和治疗。为了对DNA机器人形态进行研究,研究人员利用原子力显微镜(Atomic Force Microscope,AFM)拍摄出机器人的AFM图像。针对AFM图像多噪声及被观察的DNA机器人大规模重叠的特点,从除噪、分割、识别三个过程展开,提出了一种基于多尺度改进的分水岭AFM图像切割算法,以傅里叶描述子、曲率尺度空间描述符和Hu矩作为特征,实现DNA纳米机器人的分类和识别。

关键词：原子力显微镜(AFM)图像分水岭算法 DNA机器人物体识别噪声消除

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Dynamic ultrasonography for optimizing treatment position in superior mesenteric artery syndrome:Two case reports and review of literature

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World Journal of Gastroenterology 2024年第5期30卷 499-508页

作者： Nobuaki Hasegawa akihiko Oka Muyiwa Awoniyi Yuri Yoshida Hiroshi Tobita Norihisa Ishimura Shunji Ishihara Department of Internal Medicine II Shimane University Faculty of MedicineIzumo 693-8501ShimaneJapan Department of Gastroenterology Hepatology and NutritionDigestive Disease and Surgery InstituteHepatology SectionCleveland ClinicClevelandOH 44195United States Clinical Laboratory Division Shimane University HospitalIzumo 693-8501ShimaneJapan Division of Hepatology Shimane University HospitalIzumo 693-8501Japan

BACKGROUND Superior mesenteric artery(SMA)syndrome is a rare cause of duodenal obstruction by extrinsic compression between the SMA and the aorta(SMA-Ao).Although the left lateral recumbent position is considered effective in the treatment of SMA syndrome,individual variations in the optimal patient position have been *** this report,we present two elderly cases of SMA syndrome that exhibited rapid recovery due to ultrasonographic dynamic evaluation of the optimal position for each *** SUMMARY Case 1:A 90-year-old man with nausea and *** diagnosis of SMA syndrome by computed tomography(CT),ultrasonography(US)revealed the SMA-Ao distance in the supine position(4 mm),which slightly improved in the lateral position(5.7–7.0 mm)without the passage of duodenal ***,in the sitting position,the SMA-Ao distance was increased to 15 mm accompanied by improved content ***,US indicated enhanced passage upon abdominal massage on the right *** day 2,the patient could eat comfortably with the optimal position and *** 2:An 87-year-old woman with *** the diagnosis of SMA syndrome and aspiration pneumonia by CT,dynamic US confirmed the optimal position(SMA-Ao distance was improved to 7 mm in forward-bent position,whereas it remained at 5 mm in the supine position).By day 7 when her pneumonia recovered,she could eat with the optimal *** The optimal position for SMA syndrome varies among *** US appears to be a valuable tool in improving patient outcomes.

关键词： Superior mesenteric artery syndrome Wilkie’s syndrome Cast syndrome Aorto-mesenteric compass syndrome Ultrasonography Case report

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Activation of cerebral Ras-related C3 botulinum toxin substrate(Rac) 1 promotes post-ischemic stroke functional recovery in aged mice

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Neural Regeneration Research 2024年第4期19卷 881-886页

作者： Fan Bu Jia-Wei Min Md Abdur Razzaque Ahmad El Hamamy Anthony Patrizz Li Qi akihiko Urayama Jun Li Department of Neurology University of Texas Health Science Center Department of Neurology&Psychology The Fourth Clinical Medical College of Guangzhou University of Chinese Medicine

Brain functional impairment after stroke is common;however,the molecular mechanisms of post-stroke recovery remain *** is well-recognized that age is the most important independent predictor of poor outcomes after stroke as older patients show poorer functional outcomes following *** evidence suggests that axonal regeneration and angiogenesis,the major forms of brain plasticity responsible for post-stroke recovery,diminished with advanced *** studies suggest that Ras-related C3 botulinum toxin substrate(Rac)1 enhances stroke recovery as activation of Rac1 improved behavior recovery in a young mice stroke ***,we investigated the role of Rac1 signaling in long-term functional recovery and brain plasticity in an aged(male,18 to 22 months old C57BL/6J)brain after ischemic *** found that as mice aged,Rac1 expression declined in the *** overexpression of Rac1,using lentivirus encoding Rac1 injected day 1 after ischemic stroke,promoted cognitive(assessed using novel object recognition test)and sensorimotor(assessed using adhesive removal tests)recovery on days 14–*** was accompanied by the increase of neurite and proliferative endothelial cells in the periinfarct zone assessed by *** a reverse approach,pharmacological inhibition of Rac1 by intraperitoneal injection of Rac1 inhibitor NSC23766 for 14 successive days after ischemic stroke worsened the outcome with the reduction of neurite and proliferative endothelial ***,Rac1 inhibition reduced the activation of p21-activated kinase 1,the protein level of brain-derived neurotrophic factor,and increased the protein level of glial fibrillary acidic protein in the ischemic brain on day 28 after *** work provided insight into the mechanisms behind the diminished plasticity after cerebral ischemia in aged brains and identified Rac1 as a potential therapeutic target for improving functional recovery in the older adults after stroke.

关键词： aging angiogenesis brain-derived neurotrophic factor(BDNF) cerebral ischemia cognitive recovery neurite Pak1 Rac1 sensorimotor recovery

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Verification of the Physiological Therapeutic Effects of Harvesting Activities in a Patient with Moderate Alzheimer’s Disease with Long-Term Agricultural Experience

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Open Journal of Therapy and Rehabilitation 2024年第3期12卷 236-244页

作者： Kikuo Eguchi Seigo Koura Nao Eguchi akihiko Kondou Faculty of Occupational Therapy School of Rehabilitation Reiwa Health Sciences University Fukuoka City Japan Faculty of Rehabilitation Nishikyusyu University Kanzaki City Japan Clinical Art Class Studio Takanabe City Japan

Background: Harvesting activities have proven effective in reducing stress in patients with dementia. At a psychiatric hospital, occupational therapists (OT) made patients with dementia perform vegetable harvesting activities as a part of their treatment. The patients became calmer and began to smile not only after but also before and during harvesting activity. Therefore, this study aimed to measure autonomic nervous system (ANS) responses over time in a female patient in her 80s with moderate Alzheimer’s disease (AD) who had experience in farming when performing harvesting activities. Additionally, this study aimed to consider factors associated with changes in ANS responses over time and to verify the physiological therapeutic effects of harvesting activities. Methods: An OT with more than 10 years of experience and a good relationship with the patient conducted one-on-one sessions with the patient. Harvesting activity was performed in a courtyard with trees. The patient harvested lettuce (three lettuce plants) grown in a planter while sitting on a chair. Additionally, the planter was set up on a desk. ANS responses were measured over time from before to after the activity for different events at six time periods. Changes in the patient’s ANS responses were assessed during each period. Results: With the involvement of environmental factors and OT during harvesting activities, parasympathetic nervous system (PNS) activity significantly increased. This may lead to improved mental stability. Conclusion: The findings of this study indicate that implementing harvesting activities may have a positive effect on the PNS in patients with AD with long-term agricultural experience. However, further studies with a larger sample size and multidimensional evaluations are needed.

关键词： Alzheimer’s Disease Autonomic Nervous Response Harvesting Activity Therapeutic Effects

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Cellulosomal hemicellulases:Indispensable players for ensuring effective lignocellulose bioconversion

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Green Carbon 2024年第1期2卷 57-69页

作者： Min Xiao Ya-Jun Liu Edward A.Bayer akihiko Kosugi Qiu Cui Yingang Feng CAS Key Laboratory of Biofuels Qingdao Institute of Bioenergy and Bioprocess TechnologyChinese Academy of SciencesQingdao 266101China Shandong Provincial Key Laboratory of Synthetic Biology Qingdao Institute of Bioenergy and Bioprocess TechnologyChinese Academy of SciencesQingdao 266101China Shandong Engineering Laboratory of Single Cell Oil Qingdao Institute of Bioenergy and Bioprocess TechnologyChinese Academy of SciencesQingdao 266101China Shandong Energy Institute Qingdao 266101China Qingdao New Energy Shandong Laboratory Qingdao 266101China University of Chinese Academy of Sciences Beijing 100049China Department of Biomolecular Sciences The Weizmann Institute of ScienceRehovot 7610001Israel Department of Life Sciences and the National Institute for Biotechnology in the Negev Ben-Gurion University of the NegevBeer-Sheva 8499000Israel Biological Resources and Post-harvest Division Japan International Research Center for Agricultural Sciences(JIRCAS)1-1 OhwashiTsukubaIbaraki 305-8686Japan

The bioconversion of lignocellulose has attracted global attention,due to the significant potential of agricultural and forestry wastes as renewable zero-carbon resources and the urgent need for substituting fossil *** cellulosome system is a multi-enzyme complex produced by anaerobic bacteria,which comprises cellulases,hemicellulases,and associated enzymatic and non-enzymatic components that promote biomass *** enhance their efficiency in degrading recalcitrant lignocellulosic matrices,cellulosomes have been employed to construct biocatalysts for lignocellulose bioconversion,such as consolidated bioprocessing and consolidated ***,the second most abundant polysaccharides in plant cell walls,hold valuable application potential but can also induce inhibitory effects on cellulose hydrolysis,thus highlighting the indispensable roles of hemicellulases within the cellulosome *** review evaluated current research on cellulosomal hemicellulases,comparing their types,abundance,and regulation,primarily focusing on eight known cellulosome-producing species of different *** also reviewed their growth conditions,their hemicellulose-degrading capabilities,and the inhibitory effects of hemicellulose on cellulosome-based lignocellulose ***,we proposed strategies for targeted enhancement of hemicellulase in cellulosomes to improve lignocellulose bioconversion in future studies.

关键词： Cellulosome Lignocellulose Hemicellulase Saccharification Biocatalyst

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Current perspectives of viral

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World Journal of Gastroenterology 2024年第18期30卷 2402-2417页

作者： Daisuke Usuda Yuki Kaneoka Rikuo Ono Masashi Kato Yuto Sugawara Runa Shimizu Tomotari Inami Eri Nakajima Shiho Tsuge Riki Sakurai Kenji Kawai Shun Matsubara Risa Tanaka Makoto Suzuki Shintaro Shimozawa Yuta Hotchi Ippei Osugi Risa Katou Sakurako Ito Kentaro Mishima akihiko Kondo Keiko Mizuno Hiroki Takami Takayuki Komatsu Tomohisa Nomura Manabu Sugita Department of Emergency and Critical Care Medicine Juntendo University Nerima HospitalNerima 177-8521TokyoJapan Department of Sports Medicine Faculty of MedicineJuntendo UniversityBunkyo 113-8421TokyoJapan

Viral hepatitis represents a major danger to public health,and is a globally leading cause of *** five liver-specific viruses:Hepatitis A virus,hepatitis B virus,hepatitis C virus,hepatitis D virus,and hepatitis E virus,each have their own unique epidemiology,structural biology,transmission,endemic patterns,risk of liver complications,and response to antiviral *** remain few options for treatment,in spite of the increasing prevalence of viral-hepatitiscaused liver ***,chronic viral hepatitis is a leading worldwide cause of both liver-related morbidity and mortality,even though effective treatments are available that could reduce or prevent most patients’*** 2016,the World Health Organization released its plan to eliminate viral hepatitis as a public health threat by the year 2030,along with a discussion of current gaps and prospects for both regional and global eradication of viral ***,treatment is sufficiently able to prevent the disease from reaching advanced ***,future therapies must be extremely safe,and should ideally limit the period of treatment necessary.A better understanding of pathogenesis will prove beneficial in the development of potential treatment strategies targeting infections by viral *** review aims to summarize the current state of knowledge on each type of viral hepatitis,together with major innovations.

关键词： Hepatitis A virus Hepatitis B virus Hepatitis C virus Hepatitis D virus Hepatitis E virus Current perspectives

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Visible light responsive photocatalysts developed by substitution with metal cations aiming at artificial photosynthesis

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Frontiers in Energy 2021年第3期15卷 568-576页

作者： Yuichi YAMAGUCHI akihiko KUDO Department of Applied Chemistry Faculty of ScienceTokyo University of ScienceTokyo 162-8601Japan

To solve resource,energy,and environmental issues,development of sustainable clean energy system is strongly *** recent years,hydrogen has been paid much attention to as a clean *** hydrogen production by water splitting using a photocatalyst as artificial photosynthesis is a promising method to solve these *** utilization of visible light comprised of solar light is essential for practical *** strategies,i.e.,doping,control of valence band,and formation of solid solution are often utilized as the useful methods to develop visible light responsive *** minireview introduces the recent work on visible-light-driven photocatalysts developed by substitution with metal cations of those strategies.

关键词： visible light responsive photocatalyst water splitting artificial photosynthesis:metal ion substitution

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Remarks on Herz-Type Hardy Spaces Dedicated to Professor Kozo Yabuta on the occasion of his 60th birthday

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Acta Mathematica Sinica,English Series 2001年第2期17卷 339-360页

作者： akihiko MIYACHI Department of Mathematics Tokyo Woman's Christian University. 2-6-1 Zempukuji. Suginami-ku. Tokyo 167-8585. JAPAN

Basic properties of the Herz-type Hardy spaces HKqa,p, such as the boundedness of singular integral operators and the fractional integration operators, atomic decomposition, dense subspaces, etc., are established in t... 详细信息

关键词： Herz-type Hardy space Singular integral Flactional integration Multilinear operator.

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Trigger elimination of polymorphic ventricular tachycardia and ventricular fibrillation by catheter ablation:trigger and substrate modification

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The Journal of Biomedical Research 2015年第1期29卷 44-51页

作者： akihiko Nogami Cardiovascular Division University of Tsukuba

Ventricular fibrillation （VF） is a malignant arrhythmia, usually initiated by a ventricular premature contraction （VPC） during the vulnerable period of cardiac repolarization. Ablation therapy for VF has been described and increasingly reported. Targets for VF triggers are VPCs preceded by Purkinje potentials or from the right ventricular outflow tract （RVOT） in structurally normal hearts, and VPC triggers preceded by Purkinje potentials in ischemic cardiomyopathy. During the session, mapping should be focused on the earliest activation and determining the earliest potential is the key to a successful ablation. However, suppression of VF can be achieved by not only the elimination of triggering VPCs, but also by substrate modification of possible reentry circuits in the Purkinje network, or between the PA and RVOT. The most important issue before the ablation session is the recording of the 12-lead ECG of the triggering event, which can prove invaluable in regionalizing the origin of the triggering VPC for more detailed mapping. In cases where the VPC is not spontaneous or inducible, ablation may be performed by pace mapping. Further studies are needed to evaluate the precise mechanisms of this arrhythmia.

关键词： catheter ablation inherited arrhythmias polymorphic ventricular tachycardia Purkinje network right ventricular outflow tract ventricular fibrillation

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