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Statistical modeling of nitrogen-dependent modulation of root system architecture in Arabidopsis thaliana

Journal of Integrative Plant Biology 2016年第3期58卷 254-265页

作者： Takao Araya Takuya Kubo Nicolaus von Wiren hideki takahashi Department of Biochemistry and Molecular Biology Michigan State UniversityEast LansingM148824USA Molecular Plant Nutrition Leibniz Institute of Plant Genetics and Crop Plant ResearchD-06466 GaterslebenGermany Graduate School of Environmental Science Hokkaido UniversitySapporo 060-0810Japan

Plant root development is strongly affected by nutrient availability. Despite the importance of structure and function of roots in nutrient acquisition,statistical modeling approaches to evaluate dynamic and temporal modulations of root system architecture in response to nutrient availability have remained as widely open and exploratory areas in root biology. In this study,we developed a statistical modeling approach to investigate modulations of root system architecture in response to nitrogen availability. Mathematical models were designed for quantitative assessment of root growth and root branching phenotypes and their dynamic relationships based on hierarchical con figuration of primary and lateral roots formulating the fishbone-shaped root system architecture in Arabidopsis thaliana. Time-series datasets reporting dynamic changes in root developmental traits on different nitrate or ammonium concentrations were generated for statistical analyses. Regression analyses unraveled key parameters associated with：（i） inhibition of primary root growth under nitrogen limitation or on ammonium;（ii） rapid progression of lateral root emergence in response to ammonium; and（iii） inhibition of lateral root elongation in the presence of excess nitrate or ammonium. This study provides a statistical framework for interpreting dynamic modulation of root system architecture,supported by metaanalysis of datasets displaying morphological responses of roots to diverse nitrogen supplies.

关键词： Ammonium mathematical modeling nitrate nitrogen root system architecture

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Laser-assisted direct roller imprinting of large-area microstructured optical surfaces

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Microsystems & Nanoengineering 2024年第1期10卷 257-266页

作者： Keisuke Nagato Ken takahashi Yuki Yajima Masayuki Nakao Department of Mechanical Engineering Graduate School of EngineeringThe University of Tokyo7-3-1 HongoBunkyo-kuTokyo 113-8656Japan

In this study,a high-throughput fabrication method called laser-assisted direct roller imprinting(LADRI)was developed to lower the cost of nanoimprinting large-area polymer films and to address problems associated with nanoimprinting,namely,microstructural damage and precision in flatness of entire *** LADRI,the laser directly heats the microstructured surface of the roller mold,which heats and melts the surface of a polymethyl methacrylate(PMMA)film to replicate the microstructures on the mold *** this study,the effects of laser power density,scanning speed,size of the microstructures,and contact pressure on the replication speed were investigated *** replication speed increased as the power and scanning speed ***,because the film required heating until it filled the entire depth of the microstructure,an appropriate replication speed was *** result was supported by simulation of the temperature distribution inside the mold and the PMMA using transient heat conduction *** demonstrate the applications of LADRI,two different optical surfaces were replicated:an antireflection(AR)structure with conical structures sized several hundred nanometers and a lightextraction structure with a microlens array(MLA)comprising 10μm lenses,for display and illumination,*** replication degree of the MLA was governed by the contact *** flow simulation indicated that the heat conduction and flow speeds of the melted PMMA surface were comparable within several tens of *** addition,the reflectivity of the AR structure decreased from 4 to 0.5%,and the light intensity of the light-extraction structure increased by a factor of 1.47.

关键词： microstructure roller conduction

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Nondestructive and active interrogation system for special nuclear material:proof of principle and initial results

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Nuclear Science and Techniques 2024年第5期35卷 216-225页

作者： Mahmoud Bakr Kai Masuda Yoshiyuki takahashi Tsuyoshi Misawa Norio Yamakawa Tomas Scott Institute of Advanced Energy Kyoto UniversityGokashoUjiKyoto 611‑0011Japan School of Physics University of BristolBs81TL Tyndall AvenueBristolUK Physics Department Faculty of ScienceAssiut UniversityAssiut 71516Egypt Research Reactor Institute Kyoto University2 Asashiro‑NishiKumatoriOsaka 590‑0494Japan Pony Industry Co.Ltd. 2‑3‑6 Kitakyuhoji‑MachiChuo‑KuOsaka 541‑0057Japan Astral Neutronics LTD Unit H5HallenBristol BS107SBUK

Herein,we employ the threshold energy neutron analysis(TENA)technique to introduce the world's first active interrogation system to detect special nuclear materials(SNMs),including U-235 and *** system utilizes a DD neutron generator based on inertial electrostatic confinement(IEC)to interrogate suspicious *** detect secondary neutrons produced during fission reactions induced in SNMs,a tensioned metastable fluid detector(TMFD)is *** current status of the system's development is reported in this paper,accompanied by the results from experiments conducted to detect 10 g of highly enriched uranium(HEU).Notably,the experimental findings demonstrate a distinct difference in the count rates of measurements with and without *** difference in count rates surpasses two times the standard deviation,indicating a confidence level of more than 96% for identifying the presence of *** paper presents and extensively discusses the proof-of-principle experimental results,along with the system's planned trajectory.

关键词： Special nuclear materials Uranium detection Inertial electrostatic confinement fusion TENA HEU CTMFD

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Fluorescence‑Based Calibration Model for In‑Situ Measurement of Micro‑scaled Lubricant Thickness Distribution at Indentation Interface

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Nanomanufacturing and Metrology 2024年第2期7卷 76-88页

作者： Motoya Yoshikawa Saeko Fujii Shotaro Kadoya Tatsuya Sugihara Masaki Michihata Satoru takahashi Department of Precision Engineering The University of TokyoHongo 7‑3‑1BunkyoTokyo 113‑8656Japan Department of Mechanical Engineering Osaka UniversityYamadaoka 2‑1SuitaOsaka 565‑0871Japan

This study proposes a model for the measurement of microscale liquid film thickness distribution using fluorescence *** interfacial conditions between the tool and the workpiece in mechanical machining are important for understanding these phenomena and *** this study,indentation tests with transparent tools were used to observe interfaces;however,it was challenging to obtain the signal from a thin fluorescent liquid film on smooth and steeply inclined ***,fluorescence-based measurement,such as laser-induced fluorescence,was *** measure the absolute thickness of the thin fluorescent film,calibration of the measurement system is ***,a theoretical model was proposed considering the multiple reflections of excitation light and fluorescence at the inclined surface between the indenter and *** measuring the profile of the surface topography of the indented workpiece and comparing the results with those measured by a surface profiler,the validity of the proposed calibration method and the performance of this measurement system were *** measured surface profiles,including scratches of 2–4μm,were in good agreement,demonstrating the validity of the proposed method.

关键词： Laser-induced fluorescence(LIF) Thickness distribution In-situ measurement Lubricant Mechanical machining

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Dependence of Lower Molding Temperature Limit and Molding Time on Molding Mechanism in Dental Thermoforming

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Materials Sciences and Applications 2024年第9期15卷 350-357页

作者： Mutsumi takahashi Masatoshi Takeuchi Department of Physiology The Nippon Dental University School of Life Dentistry at Niigata Niigata Japan TAKEUCHI Dental Clinic Kyoto Japan

Effectiveness and safety of a sports mouthguard depend on its thickness and material, and the thermoforming process affects these. The purpose of this study was to clarify the effects of differences in molding mechanisms on the lower molding temperature limit and molding time in dental thermoforming. Ethylene vinyl acetate resin mouthguard sheet and two thermoforming machines;vacuum blower molding machine and vacuum ejector/pressure molding machine were used. The molding pressures for suction molding were −0.018 MPa for vacuum blower molding and −0.090 MPa for vacuum ejector molding, and for pressure molding was set to 0.090 MPa or 0.450 MPa. Based on the manufacturer’s standard molding temperature of 95˚C, the molding temperature was lowered in 2.5˚C increments to determine the lower molding temperature limit at which no molding defects occurred. In order to investigate the difference in molding time depending on the molding mechanism, the duration of molding pressure was adjusted in each molding machine, and the molding time required to obtain a sample without molding defects was measured. The molding time of each molding machine were compared using one-way analysis of variance. The lower molding temperature limit was 90.0˚C for the vacuum blower machine, 77.5˚C for the vacuum ejector machine, 77.5˚C for the pressure molding machine at 0.090 MPa, and 67.5˚C for the pressure molding machine at 0.45 MPa. The lower molding temperature limit was higher for lower absolute values of molding pressure. The molding time was shorter for pressure molding than for suction molding. Significant differences were observed between all conditions except between the pressure molding machine at 0.090 MPa and 0.45 MPa (P < 0.01). A comparison of the differences in lower molding temperature limit and molding time due to molding mechanisms in dental thermoforming revealed that the lower molding temperature limit depends on the molding pressure and that the molding time is longer for suc

关键词： Thermoforming Suction Molding Pressure Molding Lower Molding Temperature Limit Molding Time

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Performance Comparison of Vision Transformer- and CNN-Based Image Classification Using Cross Entropy: A Preliminary Application to Lung Cancer Discrimination from CT Images

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Journal of Biomedical Science and Engineering 2024年第9期17卷 157-170页

作者： Eri Matsuyama Haruyuki Watanabe Noriyuki takahashi Faculty of Informatics The University of Fukuchiyama Kyoto Japan School of Radiological Technology Gunma Prefectural College of Health Sciences Gunma Japan School of Health Sciences Fukushima Medical University Fukushima Japan

This study evaluates the performance and reliability of a vision transformer (ViT) compared to convolutional neural networks (CNNs) using the ResNet50 model in classifying lung cancer from CT images into four categories: lung adenocarcinoma (LUAD), lung squamous cell carcinoma (LUSC), large cell carcinoma (LULC), and normal. Although CNNs have made significant advancements in medical imaging, their limited capacity to capture long-range dependencies has led to the exploration of ViTs, which leverage self-attention mechanisms for a more comprehensive global understanding of images. The study utilized a dataset of 748 lung CT images to train both models with standardized input sizes, assessing their performance through conventional metrics—accuracy, precision, recall, F1 score, specificity, and AUC—as well as cross entropy, a novel metric for evaluating prediction uncertainty. Both models achieved similar accuracy rates (95%), with ViT demonstrating a slight edge over ResNet50 in precision and F1 scores for specific classes. However, ResNet50 exhibited higher recall for LULC, indicating fewer missed cases. Cross entropy analysis showed that the ViT model had lower average uncertainty, particularly in the LUAD, Normal, and LUSC classes, compared to ResNet50. This finding suggests that ViT predictions are generally more reliable, though ResNet50 performed better for LULC. The study underscores that accuracy alone is insufficient for model comparison, as cross entropy offers deeper insights into the reliability and confidence of model predictions. The results highlight the importance of incorporating cross entropy alongside traditional metrics for a more comprehensive evaluation of deep learning models in medical image classification, providing a nuanced understanding of their performance and reliability. While the ViT outperformed the CNN-based ResNet50 in lung cancer classification based on cross-entropy values, the performance differences were minor and may not hold c

关键词： Lung Cancer Classification Vision Transformers Convolutional Neural Networks Cross Entropy Deep Learning

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Continuous Gum Chewing Exercise Improves Perioral Muscle Strength

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Health 2024年第8期16卷 750-762页

作者： Mutsumi takahashi Yogetsu Bando Takuya Fukui Department of Physiology The Nippon Dental University School of Life Dentistry at Niigata Niigata Japan Bando Dental Clinic Ishikawa Japan Department of Sport Science Kanazawa Gakuin University of Sport Science Ishikawa Japan Japan Gymnastics Association Trampoline Committee Tokyo Japan

Objective: The purpose of this study was to examine the effects of continuous gum chewing exercise on perioral muscle strength. Methods: Thirty healthy adults (24.1 ± 2.0 years) with normal occlusion performed gum chewing exercise 3 times daily for 3 months. Each exercise session lasted 5 min and involved alternating of chewing 10 times using the left molars and then 10 times using the right molars, with the mouth closed. The effect of the exercise on oral function was evaluated by measuring tongue pressure (TP), cheek pressure (CP), and labial closure strength (LCS) immediately before starting exercise, at 2 weeks and 1, 2, and 3 months after starting exercise, and at 3 months after cessation of exercise. Changes in TP, CP, and LCS according to sex and duration of exercise were analyzed by repeated two-way ANOVA. Results: Measurements for all muscles were significantly greater in men than in women at all time points. After starting exercise, TP was markedly increased at 2 months in men and women, and both CP and LCS were markedly increased at 2 weeks in men and at 1 month in women. These effects persisted for 3 months. Three months after cessation of exercise, TP, CP, and LCS tended to decrease, but were not significantly attenuated as compared with 3 months after beginning of exercise in either sex. Conclusion: The results of this study revealed that gum chewing exercise contributed to an improvement in perioral muscle strength, and that this effect was maintained for at least 3 months after discontinuation of exercise.

关键词： Oral Function Gum Chewing Exercise Tongue Pressure Cheek Pressure Labial Closure Strength

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Caspase-11 mediated inflammasome activation in macrophages by systemic infection of *** exacerbates arthritis

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International Journal of Oral Science 2024年第3期16卷 499-514页

作者： Tokuju Okano Hiroshi Ashida Noriko Komatsu Masayuki Tsukasaki Tamako Iida Marie Iwasawa Yuto takahashi Yasuo Takeuchi Takanori Iwata Miwa Sasai Masahiro Yamamoto Hiroshi Takayanagi Toshihiko Suzuki Department of Bacterial Pathogenesis Infection and Host ResponseGraduate School of Medical and Dental SciencesTokyo Medical and Dental UniversityTokyoJapan Department of Immunology Graduate School of Medicine and Faculty of MedicineThe University of TokyoTokyoJapan Department of Osteoimmunology Graduate School of Medicine and Faculty of MedicineThe University of TokyoTokyoJapan Department of Lifetime Oral Health Care Science Graduate School of Medical and Dental SciencesTokyo Medical and Dental UniversityTokyoJapan Department of Periodontology Graduate School of Medical and Dental SciencesTokyo Medical and Dental UniversityTokyoJapan Department of Immunoparasitology Research Institute for Microbial DiseasesOsaka UniversityOsakaJapan

Clinical studies have shown that Aggregatibacter actinomycetemcomitans(***)is associated with aggressive periodontitis and can potentially trigger or exacerbate rheumatoid arthritis(RA).However,the mechanism is poorly ***,we show that systemic infection with *** triggers the progression of arthritis in mice anti-collagen antibody-induced arthritis(CAIA)model following IL-1βsecretion and cell infiltration in paws in a manner that is dependent on caspase-11-mediated inflammasome activation in *** administration of polymyxin B(PMB),chloroquine,and anti-CD11b antibody suppressed inflammasome activation in macrophages and arthritis in mice,suggesting that the recognition of lipopolysaccharide(LPS)in the cytosol after bacterial degradation by lysosomes and invasion via CD11b are needed to trigger arthritis following inflammasome activation in *** data reveal that the inhibition of caspase-11-mediated inflammasome activation potentiates aggravation of RA induced by infection with *** work highlights how RA can be progressed by inflammasome activation as a result of periodontitis-associated bacterial infection and discusses the mechanism of inflammasome activation in response to infection with ***.

关键词： CD11b inflam infection

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Transmembrane serine protease 4 expression in the prognosis of radical resection for biliary tract cancer

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World Journal of Gastrointestinal Surgery 2024年第8期16卷 2555-2564页

作者： Yoshiyuki Shibata Takeshi Sudo Sho Tazuma Naoki Tanimine Takashi Onoe Yosuke Shimizu Atsushi Yamaguchi Kazuya Kuraoka Shinya takahashi Hirotaka Tashiro Department of Surgery National Hospital Organization Kure Medical Center and Chugoku Cancer CenterHiroshima 737-0023Japan Department of Gastroenterology National Hospital Organization Kure Medical Center and Chugoku Cancer CenterHiroshima 737-0023Japan Department of Diagnostic Pathology National Hospital Organization Kure Medical Centerand Chugoku Cancer CenterHiroshima 737-0023Japan Department of Surgery Graduate School of Biochemical and Health ScienceHiroshima UniversityHiroshima 734-8551Japan

BACKGROUND Recent advancements in biliary tract cancer(BTC)treatment have expanded beyond surgery to include adjuvant therapy,yet the prognosis remains *** prognostic biomarkers could enhance the assessment of patients who have undergone radical resection for *** To determine transmembrane serine protease 4(TMPRSS4)utility as a prognostic biomarker of radical resection for *** Medical records of patients who underwent radical resection for BTC,excluding intrahepatic cholangiocarcinoma,were retrospectively *** associations between TMPRSS4 expression and clinicopathological factors,overall survival,and recurrence-free survival were *** Among the 85 patients undergoing radical resection for BTC,46(54%)were *** TMPRSS4-positive group exhibited significantly higher preoperative carbohydrate antigen 19-9(CA19-9)values and greater lymphatic invasion than the TMPRSS4-negative group(P=0.019 and 0.039,respectively).Postoperative overall survival and recurrence-free survival were significantly worse in the TMPRSS4-positive group(median survival time:25.3 months vs not reached,P<0.001;median survival time:28.7 months vs not reached,P=0.043,respectively).Multivariate overall survival analysis indicated TMPRSS4 positivity,pT3/T4,and resection status R1 were independently associated with poor prognosis(P=0.032,0.035 and 0.030,respectively).TMPRSS4 positivity correlated with preoperative CA19-9 values≥37 U/mL and pathological tumor size≥30 mm(P=0.016 and 0.038,respectively).CONCLUSION TMPRSS4 is a potential prognostic biomarker of radical resection for BTC.

关键词： Biliary tract cancer Biomarker Prognosis Radical resection Transmembrane serine protease 4

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Using Cross Entropy as a Performance Metric for Quantifying Uncertainty in DNN Image Classifiers: An Application to Classification of Lung Cancer on CT Images

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Journal of Biomedical Science and Engineering 2024年第1期17卷 1-12页

作者： Eri Matsuyama Masayuki Nishiki Noriyuki takahashi Haruyuki Watanabe Faculty of Informatics University of Fukuchiyama Kyoto Japan Graduate School of Radiological Sciences International University of Health and Welfare Tochigi Japan School of Health Sciences Fukushima Medical University Fukushima Japan School of Radiological Technology Gunma Prefectural College of Health Sciences Gunma Japan

Cross entropy is a measure in machine learning and deep learning that assesses the difference between predicted and actual probability distributions. In this study, we propose cross entropy as a performance evaluation metric for image classifier models and apply it to the CT image classification of lung cancer. A convolutional neural network is employed as the deep neural network (DNN) image classifier, with the residual network (ResNet) 50 chosen as the DNN archi-tecture. The image data used comprise a lung CT image set. Two classification models are built from datasets with varying amounts of data, and lung cancer is categorized into four classes using 10-fold cross-validation. Furthermore, we employ t-distributed stochastic neighbor embedding to visually explain the data distribution after classification. Experimental results demonstrate that cross en-tropy is a highly useful metric for evaluating the reliability of image classifier models. It is noted that for a more comprehensive evaluation of model perfor-mance, combining with other evaluation metrics is considered essential. .

关键词： Cross Entropy Performance Metrics DNN Image Classifiers Lung Cancer Prediction Uncertainty

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