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IEEE International Conference on e-science and Grid Computing

作者： Yogesh Simmhan Srijith Nair Sumit Monga Ravi Sahu Kuldeep Dixit Ronak Sutaria Brijesh Mishra Anamika Sharma Anand SVR Malati Hegde Rajesh Zele Sachchida N. Tripathi Department of Computational and Data Sciences Indian Institute of Science Bangalore India Department of Electrical Communication Engineering Indian Institute of Science Bangalore India Departments of Civil Engineering & Earth Sciences Indian Institute of Technology Kanpur India Centre for Urban Science & Engineering Indian Institute of Technology Bombay India Department of Electrical Engineering Indian Institute of Technology Bombay India

ISBN: (数字)9781728124513

ISBN: (纸本)9781728124520

Air pollution is a public health emergency in large cities. The availability of commodity sensors and the advent of Internet of Things (IoT) enable the deployment of a city-wide network of 1000's of low-cost real-time air quality monitors to help manage this challenge. This needs to be supported by an IoT cyber-infrastructure for reliable and scalable data acquisition from the edge to the Cloud. The low accuracy of such sensors also motivates the need for data-driven calibration models that can accurately predict the science variables from the raw sensor signals. Here, we offer our experiences with designing and deploying such an IoT software platform and calibration models, and validate it through a pilot field deployment at two mega-cities, Delhi and Mumbai. Our edge data service is able to even-out the differential bandwidths from the sensing devices and to the Cloud repository, and recover from transient failures. Our analytical models reduce the errors of the sensors from a best-case of 63% using the factory baseline to as low as 21%, and substantially advances the state-of-the-art in this domain.

关键词： Sensors Cloud computing Monitoring Air quality Calibration Logic gates Pollution measurement

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The need to implement FAIR principles in biomolecular simulations

arXiv

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arXiv 2024年

作者： Amaro, R. Åqvist, J. Bahar, I. Battistini, F. Bellaiche, A. Beltran, D. Biggin, P.C. Bonomi, M. Bowman, G.R. Bryce, R. Bussi, G. Carloni, P. Case, D. Cavalli, A. Chang, C.A. Cheatham, T.E. Cheung, M.S. Chipot, C. Chong, L.T. Choudhary, P. Cisneros, G.A. Clementi, C. Collepardo-Guevara, R. Coveney, P. Covino, R. Crawford, T.D. Dal Peraro, M. de Groot, B. Delemotte, L. De Vivo, M. Essex, J. Fraternali, F. Gao, J. Gelpí, J.L. Gervasio, F.L. Gonzalez-Nilo, F.D. Grubmüller, H. Guenza, M.G. Guzman, H.V. Harris, S. Head-Gordon, T. Hernandez, R. Hospital, A. Huang, N. Huang, X. Hummer, G. Iglesias-Fernández, J. Jensen, J.H. Jha, S. Jiao, W. Jorgensen, W.L. Kamerlin, S.C.L. Khalid, S. Laughton, C. Levitt, M. Limongelli, V. Lindahl, E. Lindorff-Larsen, K. Loverde, S. Lundborg, M. Luo, Y.L. Luque, F.J. Lynch, C.I. MacKerell, A. Magistrato, A. Marrink, S.J. Martin, H. McCammon, J.A. Merz, K. Moliner, V. Mulholland, A. Murad, S. Naganathan, A.N. Nangia, S. Noe, F. Noy, A. Oláh, J. O'Mara, M. Ondrechen, M.J. Onuchic, J.N. Onufriev, A. Osuna, S. Palermo, G. Panchenko, A.R. Pantano, S. Parish, C. Parrinello, M. Perez, A. Perez-Acle, T. Perilla, J.R. Pettitt, B.M. Pietropaolo, A. Piquemal, J.-P. Poma, A. Praprotnik, M. Ramos, M.J. Ren, P. Reuter, N. Roitberg, A. Rosta, E. Rovira, C. Roux, B. Röthlisberger, U. Sanbonmatsu, K. Schlick, T. Shaytan, A.K. Simmerling, C. Smith, J.C. Sugita, Y. Świderek, K. Taiji, M. Tao, P. Tikhonova, I.G. Tirado-Rives, J. Tuñón, I. Van Der Kamp, M.W. Van der Spoel, D. Velankar, S. Voth, G.A. Wade, R. Warshel, A. Welborn, V.V. Wetmore, S. Wong, C.F. Yang, L.-W. Zacharias, M. Orozco, M. Department of Molecular Biology University of California San DiegoCA United States Department of Cell and Molecular Biology Uppsala University Uppsala Sweden Laufer Center for Physical and Quantitative Biology Renaissance School of Medicine Stony Brook University Stony BrookNY United States Department of Biochemistry and Cell Biology Renaissance School of Medicine Stony Brook University Stony BrookNY United States Barcelona Spain European Molecular Biology Laboratory European Bioinformatics Institute Hinxton United Kingdom Structural Bioinformatics and Computational Biochemistry Department of Biochemistry University of Oxford Oxford United Kingdom Institut Pasteur Université Paris Cité CNRS UMR 3528 Computational Structural Biology Unit Paris France Department of Biochemistry and Biophysics University of Pennsylvania PhiladelphiaPA United States Division of Pharmacy and Optometry University of Manchester Manchester United Kingdom Scuola Internazionale Superiore di Studi Avanzati-SISSA Trieste Italy Computational Biomedicine Institute of Advanced Simulations IAS-5 Institute for Neuroscience and Medicine INM-9 Forschungszentrum Jülich GmbH Jülich Germany Department of Physics and Universitätsklinikum RWTH Aachen University Aachen Germany Department of Chemistry & Chemical Biology Rutgers University PiscatawayNJ United States Istituto Italiano di Tecnologia Drug Discovery and Development Bologna Italy Lausanne Switzerland Department of Chemistry University of California RiversideCA United States Department of Medicinal Chemistry College of Pharmacy University of Utah Salt Lake CityUT United States Department of Physics University of Washington SeattleWA United States Pacific Northwest National Laboratory RichlandWA United States LIA CNRS-UIUC UMR n°7019 Université de Lorraine Vandœuvre-lès-Nancy France Department of Physics University of Illinois at Urbana-Champaign UrbanaIL United States Department of Biochemistry and Molecular Biol

The communities that embraced data archiving efforts decades ago are now, in the era of data-driven biology, those gaining the most from the AI revolution. The structural biology community was a pioneer in this regard by establishing the Protein data Bank (PDB) in 1971 and making data accessible using the FAIR (Findable, Accessible, Interoperable and Reusable) principles even before these were articulated [1, 2]. The genomics/bioinformatics community has followed the example, establishing many widely used databases [3, 4]. By contrast, molecular simulation has been anchored in usage paradigms dating back to the seventies, when molecular dynamics (MD) simulation was first applied to study biomacromolecules [5]. At that time, MD was used by theoretical physicists and chemists in "proof of concept" simulations. Still, fifty years later, MD has evolved into a cornerstone molecular biology technique that can provide accurate quantitative analysis and property prediction. MD is now employed by tens of thousands of researchers worldwide, accounting for roughly 15% of global supercomputer usage. Unfortunately, these rich and costly data are not systematically maintained, and when further analyses are required, simulations have to be rerun-an unacceptable situation from scientific, environmental and sustainability standpoints. In this letter, we argue for a collaborative endeavor to archive MD simulation data and describe ongoing efforts to establish cost-effective and sustainable data archiving strategies. © 2024, CC BY-NC-SA.

关键词： Biotic

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Two-Dimensional Barcodes Usage in Plastic Pipes Blockchain-Based Supply-Chain

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Journal of Physics: Conference Series 2020年第1期1680卷

作者： S Kudryashov Y Madhwal I Maslov A Trepalin Y Yanovich Project Manager Bitfury Russia Bitfury 123112 Moscow Russia PhD student Center for Computational and Data-Intensive Science and Engineering Skolkovo Institute of Science and Technology (Skoltech) 121205 MoscowRussia CTO Bitfury Russia Bitfury 123112 Moscow Russia Developer Bitfury Russia Bitfury 123112 Moscow Russia Researcher Center for Computational and Data-Intensive Science and Engineering Skolkovo Institute of Science and Technology (Skoltech) 121205 Moscow Russia Researcher Laboratory of Data Mining and Predictive Modeling Institute for Information Transmission Problems (IITP RAS) 127051 Moscow Russia

The use of counterfeit products causes considerable financial damage to the states and companies. Product labeling and tracking in a blockchain-enabled system can overcome this problem. One- and two-dimensional barcodes are accessible and have cheap labeling technologies, but it can be challenging to read the labels on products with curved shapes. This paper presents the plastic pipe labeling problem and its solution with two-dimensional barcodes, integrated with a blockchain-enabled supply chain. The labeling technique choice is based on QR and Aztec barcodes readability empirical study for different barcode parameters, reading software libraries for flat and curved surfaces.

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AA-ICP: Iterative Closest Point with Anderson Acceleration

AA-ICP: Iterative Closest Point with Anderson Acceleration

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IEEE International Conference on Robotics and Automation (ICRA)

作者： Artem L. Pavlov Grigory WV. Ovchinnikov Dmitry Yu. Derbyshev Dzmitry Tsetserukou Ivan V. Oseledets Space Center Skolkovo Innovation Center Moscow Russia Computational and Data-Intensive Science and Engineering Skolkovo Institute of Science and Technology Moscow Institute of Physics and Technology Space Center Skolkovo Institute of Science and Technology Center for Computational and Data-Intensive Science and Engineering Skolkovo Institute of Science and Technology

Iterative Closest Point (ICP) is a widely used method for performing scan-matching and registration. Being simple and robust, this method is still computationally expensive and may be challenging to use in real-time applications with limited resources on mobile platforms. In this paper we propose a novel effective method for acceleration of ICP which does not require substantial modifications to the existing code. This method is based on an idea of Anderson acceleration which is an iterative procedure for finding a fixed point of contractive mapping. The latter is often faster than a standard Picard iteration, usually used in ICP implementations. We show that ICP, being a fixed point problem, can be significantly accelerated by this method enhanced by heuristics to improve overall robustness. We implement proposed approach into Point Cloud Library (PCL) and make it available online. Benchmarking on the real-world data fully supports our claims.

关键词： Iterative closest point algorithm Acceleration History Convergence Three-dimensional displays Robots Two dimensional displays

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Mechanistic Modeling and Multiscale Applications for Precision Medicine: Theory and Practice

Network and Systems Medicine

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Network and Systems Medicine 2020年第1期3卷 36-56页

作者： Stalidzans, Egils Zanin, Massimiliano Tieri, Paolo Castiglione, Filippo Polster, Annikka Scheiner, Stefan Pahle, Jürgen Stres, Blaž List, Markus Baumbach, Jan Lautizi, Manuela Van Steen, Kristel Schmidt, Harald H.H.W. Computational Systems Biology Group University of Latvia Riga Latvia Latvian Biomedical Reasearch and Study Centre Riga Latvia Centro de Tecnología Biomédica Universidad Politécnica de Madrid Pozuelo de Alarcón Spain CNR National Research Council IAC Institute for Applied Computing Rome Italy Oslo Norway Institute for Mechanics of Materials and Structures Vienna University of Technology Vienna Austria BioQuant Heidelberg University Heidelberg Germany Department of Animal Science University of Ljubljana Ljubljana Slovenia Faculty of Civil and Geodetic Engineering University of Ljubljana Ljubljana Slovenia Department of Automation Biocybernetics and Robotics Jozef Stefan Institute Ljubljana Slovenia Big Data in BioMedicine Research Group Chair of Experimental Bioinformatics TUM School of Weihenstephan Technical University of Munich Freising Germany Chair of Experimental Bioinformatics TUM School of Weihenstephan Technical University of Munich Freising Germany Computational Systems Medicine Research Group Chair of Experimental Bioinformatics TUM School of Weihenstephan Technical University of Munich Freising Germany BIO-Systems Genetics GIGA-R University of Liège Liège Belgium BIO3 - Systems Medicine Department of Human Genetics KU Leuven Leuven Belgium Department of Pharmacology and Personalised Medicine Faculty of Health Medicine and Life Science Maastricht University Maastricht Netherlands

Drug research, therapy development, and other areas of pharmacology and medicine can benefit from simulations and optimization of mathematical models that contain a mathematical description of interactions between systems elements at the cellular, tissue, organ, body, and population level. This approach is the foundation of systems medicine and precision medicine. Here, simulated experiments are performed with computers (in silico) first, and they are then replicated through lab experiments (in vivo or in vitro) or clinical studies. In turn, these experiments and studies can be used to validate or improve the models. This iterative loop of dry and wet lab work is successful when biomedical researchers tightly collaborate with data scientists and modelers. From an educational point of view, the interdisciplinary research in systems biology can be sustained most effectively when specialists have been trained to have both a strong background in the disciplines of biology or modeling and strong communication skills, which make them able to communicate with other specialists. This overview addresses possible interdisciplinary communication gaps. Focusing our attention on biomedical researchers, we describe the reasons for using modeling and ways to collaborate with modelers, including their needs for specific biological expertise and data. This review includes an introduction to the principles of several widely used mechanistic modeling methods, focusing on their areas of applicability as well as their limitations. A potential complementary role of machine-learning methods in the development of mechanistic models is also discussed. The descriptions of the methods also include links to corresponding modeling software tools as well as practical examples of their application. Finally, we also explicitly address different aspects of multiscale modeling approaches that allow a more complete and holistic perspective of the human body. © Egils Stalidzans et al. 2020 Published b

关键词： Iterative methods

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Relativistic slingshot: A source for single circularly polarized attosecond x-ray pulses

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Physical Review E 2020年第6期102卷 061201(R)-061201(R)页

作者： Jingwei Wang Sergei V. Bulanov Min Chen Bifeng Lei Yuxue Zhang Rishat Zagidullin Veronika Zorina Wei Yu Yuxin Leng Ruxin Li Matt Zepf Sergey G. Rykovanov State Key Laboratory of High Field Laser Physics CAS Center for Excellence in Ultra-intense Laser Science Shanghai Institute of Optics and Fine Mechanics (SIOM) Chinese Academy of Sciences (CAS) Shanghai 201800 China Collaborative Innovation Center of IFSA Shanghai Jiao Tong University Shanghai 200240 China Institute of Physics ASCR v.v.i. (FZU) ELI-Beamlines Project 182 21 Prague Czech Republic Key Laboratory for Laser Plasmas (MoE) School of Physics and Astronomy Shanghai Jiao Tong University Shanghai 200240 China Helmholtz Institute Jena Fröbelstieg 3 07743 Jena Germany Faculty of Physics and Astronomy Friedrich-Schiller-Universität Jena 07743 Jena Germany Center for Computational and Data-Intensive Science and Engineering Skolkovo Institute of Science and Technology Moscow 121205 Russia

We propose a mechanism to generate a single intense circularly polarized attosecond x-ray pulse from the interaction of a circularly polarized relativistic few-cycle laser pulse with an ultrathin foil at normal incidence. Analytical modeling and particle-in-cell simulation demonstrate that a huge charge-separation field can be produced when all the electrons are displaced from the target by the incident laser, resulting in a high-quality relativistic electron mirror that propagates against the tail of the laser pulse. The latter is efficiently reflected as well as compressed into an attosecond pulse that is also circularly polarized.

关键词： High intensity laser-plasma interactions X-ray generation in plasmas Relativistic plasmas Particle-in-cell methods Test-particle methods

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COVID-19 mRNA Vaccine Degradation Prediction Using LR and LGBM Algorithms

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Journal of Physics: Conference Series 2021年第1期1997卷

作者： Soon Hwai Ing Azian Azamimi Abdullah Nor Hazlyna Harun Shigehiko Kanaya Faculty of Electronic Engineering Technology Universiti Malaysia Perlis (UniMAP) Perlis Malaysia. Medical Devices and Life Sciences Cluster Sport Engineering Research Centre Centre of Excellence (SERC) Universiti Malaysia Perlis (UniMAP) Perlis Malaysia. Data Science Research Lab School of Computing School of Computing Universiti Utara Malaysia Sintok Kedah. Computational Systems Biology Lab Graduate School of Information Science Nara Institute of Science and Technology Ikoma Nara Japan.

The threatening Coronavirus which was assigned as the global pandemic concussed not only the public health but society, economy and every walks of life. Some measurements are taken to stifle the spread and one of the best ways is to carry out some precautions to prevent the contagion of SARS-CoV-2 virus to uninfected populaces. Injecting prevention vaccines is one of the precaution steps under the grandiose blueprint. Among all vaccines, it is found that mRNA vaccine which shows no side effect with marvellous effectiveness is the most preferable candidates to be considered. However, degradation had become its biggest drawback to be implemented. Hereby, this study is held with desideratum to develop prediction models specifically to predict the degradation rate of mRNA vaccine for COVID-19. Two machine learning algorithms, which are, Linear Regression (LR) and Light Gradient Boosting Machine (LGBM) are proposed for models development using Python language. dataset comprises of thousands of RNA molecules that holds degradation rates at each position from Eterna platform is extracted, pre-processed and encoded with label encoding before loaded into algorithms. The results show that LGBM (0.2447) performs better than LR (0.3957) for this study when evaluated with the RMSE metric.

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The Obscured Fraction of Quasars at Cosmic Noon

arXiv

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arXiv 2022年

作者： Vijarnwannaluk, Bovornpratch Akiyama, Masayuki Schramm, Malte Ueda, Yoshihiro Matsuoka, Yoshiki Toba, Yoshiki Sawicki, Marcin Gwyn, Stephen Pflugradt, Janek Astronomical Institute Tohoku University Aoba-ku Aramaki Miyagi Sendai980-8578 Japan Graduate School of Science and Engineering Saitama University 255 Shimo-Okubo Sakura-ku Saitama Saitama City338-8570 Japan Department of Astronomy Kyoto University Kitashirakawa-Oiwake-cho Sakyo-ku Kyoto606-8502 Japan Research Center for Space and Cosmic Evolution Ehime University 2-5 Bunkyo-cho Ehime Matsuyama790-8577 Japan National Astronomical Observatory of Japan 2-21-1 Osawa Tokyo Mitaka181-8588 Japan Institute for Computational Astrophysics Department of Astronomy and Physics Saint Mary's University HalifaxNSB3H 3C3 Canada Canadian Astronomy Data Centre NRC-Herzberg 5071 West Saanich Road VictoriaBCV9E 2E7 Canada

Statistical studies of X-ray selected Active Galactic Nuclei (AGN) indicate that the fraction of obscured AGN increases with increasing redshift, and the results suggest that a significant part of the accretion growth occurs behind obscuring material in the early universe. We investigate the obscured fraction of highly accreting X-ray AGN at around the peak epoch of supermassive black hole growth utilizing the wide and deep X-ray and optical/IR imaging datasets. A unique sample of luminous X-ray selected AGNs above z > 2 was constructed by matching the XMM-SERVS X-ray point-source catalog with a PSF-convolved photometric catalog covering from u∗to 4.5μm bands. Photometric redshift, hydrogen column density, and 2-10 keV AGN luminosity of the X-ray selected AGN candidates were estimated. Using the sample of 306 2-10 keV detected AGN at above redshift 2, we estimate the fraction of AGN with log NH(cm-2) > 22, assuming parametric X-ray luminosity and absorption functions. The results suggest that 76-3+4% of luminous quasars (log LX(erg s-1) > 44.5) above redshift 2 are obscured. The fraction indicates an increased contribution of obscured accretion at high redshift than that in the local universe. We discuss the implications of the increasing obscured fraction with increasing redshift based on the AGN obscuration scenarios, which describe obscuration properties in the local universe. Both the obscured and unobscured z > 2 AGN show a broad range of SEDs and morphology, which may reflect the broad variety of host galaxy properties and physical processes associated with the obscuration. © 2022, CC BY.

关键词： Active Galactic Nuclei

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Why is the Winner the Best?

Why is the Winner the Best?

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Conference on Computer Vision and Pattern Recognition (CVPR)

作者： M. Eisenmann A. Reinke V. Weru M. D. Tizabi F. Isensee T. J. Adler S. Ali V. Andrearczyk M. Aubreville U. Baid S. Bakas N. Balu S. Bano J. Bernal S. Bodenstedt A. Casella V. Cheplygina M. Daum M. De Bruijne A. Depeursinge R. Dorent J. Egger D. G. Ellis S. Engelhardt M. Ganz N. Ghatwary G. Girard P. Godau A. Gupta L. Hansen K. Harada M. Heinrich N. Heller A. Hering A. Huaulmé P. Jannin A. E. Kavur O. Kodym M. Kozubek J. Li H. Li J. Ma C. Martín-Isla B. Menze A. Noble V. Oreiller N. Padoy S. Pati K. Payette T. Rädsch J. Rafael-Patiño V. Singh Bawa S. Speidel C. H. Sudre K. Van Wijnen M. Wagner D. Wei A. Yamlahi M. H. Yap C. Yuan M. Zenk A. Zia D. Zimmerer D. Aydogan B. Bhattarai L. Bloch R. Brüngel J. Cho C. Choi Q. Dou I. Ezhov C. M. Friedrich C. Fuller R. R. Gaire A. Galdran Á. García Faura M. Grammatikopoulou S. Hong M. Jahanifar I. Jang A. Kadkhodamohammadi I. Kang F. Kofler S. Kondo H. Kuijf M. Li M. Luu T. Martinčič P. Morais M. A. Naser B. Oliveira D. Owen S. Pang J. Park S. Park S. Płotka E. Puybareau N. Rajpoot K. Ryu N. Saeed A. Shephard P. Shi D. Štepec R. Subedi G. Tochon H. R. Torres H. Urien J. L. Vilaça K. A. Wahid H. Wang J. Wang L. Wang X. Wang B. Wiestler M. Wodzinski F. Xia J. Xie Z. Xiong S. Yang Y. Yang Z. Zhao K. Maier-Hein P. F. Jäger A. Kopp-Schneider L. Maier-Hein Division of Intelligent Medical Systems German Cancer Research Center (DKFZ) Heidelberg Germany Helmholtz Imaging German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Mathematics and Computer Science Heidelberg University Heidelberg Germany Division of Biostatistics German Cancer Research Center (DKFZ) Heidelberg Germany Division of Medical Image Computing German Cancer Research Center (DKFZ) Heidelberg Germany Faculty of Engineering and Physical Sciences School of Computing University of Leeds Leeds UK Institute of Informatics School of Management HES-SO Valais-Wallis University of Applied Sciences and Arts Western Switzerland Sierre Switzerland Department of Nuclear Medicine and Molecular Imaging Lausanne University Hospital Lausanne Switzerland Technische Hochschule Ingolstadt Ingolstadt Germany Center for Artificial Intelligence and Data Science for Integrated Diagnostics (AI2D) and Center for Biomedical Image Computing and Analytics (CBICA) University of Pennsylvania Philadelphia PA USA Department of Pathology and Laboratory Medicine Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Department of Radiology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA Department of Radiology University of Washington Seattle WA USA Department of Computer Science Wellcome/EPSRC Centre for Interventional and Surgical Sciences (WEISS) University College London London UK Universitat Autònoma de Barcelona & Computer Vision Center Barcelona Spain Division of Translational Surgical Oncology National Center for Tumor Diseases (NCT/UCC) Dresden Dresden Germany Department of Advanced Robotics Istituto Italiano di Tecnologia Italy Department of Electronics Information and Bioengineering Politecnico di Milano Milan Italy IT University of Copenhagen Copenhagen Denmark Department of General Visceral and Transplantation Surgery Heidelberg University Hospital Heidelberg Germany Department of Radiology and Nuc

International benchmarking competitions have become fundamental for the comparative performance assessment of image analysis methods. However, little attention has been given to investigating what can be learnt from these competitions. Do they really generate scientific progress? What are common and successful participation strategies? What makes a solution superior to a competing method? To address this gap in the literature, we performed a multicenter study with all 80 competitions that were conducted in the scope of IEEE ISBI 2021 and MICCAI 2021. Statistical analyses performed based on comprehensive descriptions of the submitted algorithms linked to their rank as well as the underlying participation strategies revealed common characteristics of winning solutions. These typically include the use of multi-task learning (63%) and/or multi-stage pipelines (61%), and a focus on augmentation (100%), image preprocessing (97%), data curation (79%), and post-processing (66%). The “typical” lead of a winning team is a computer scientist with a doctoral degree, five years of experience in biomedical image analysis, and four years of experience in deep learning. Two core general development strategies stood out for highly-ranked teams: the reflection of the metrics in the method design and the focus on analyzing and handling failure cases. According to the organizers, 43% of the winning algorithms exceeded the state of the art but only 11% completely solved the respective domain problem. The insights of our study could help researchers (1) improve algorithm development strategies when approaching new problems, and (2) focus on open research questions revealed by this work.

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An Early Stage Researcher's Primer on Systems Medicine Terminology

Network and Systems Medicine

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Network and Systems Medicine 2021年第1期4卷 2-50页

作者： Zanin, Massimiliano Aitya, Nadim A.A. Basilio, José Baumbach, Jan Benis, Arriel Behera, Chandan K. Bucholc, Magda Castiglione, Filippo Chouvarda, Ioanna Comte, Blandine Dao, Tien-Tuan Ding, Xuemei Pujos-Guillot, Estelle Filipovic, Nenad Finn, David P. Glass, David H. Harel, Nissim Iesmantas, Tomas Ivanoska, Ilinka Joshi, Alok Boudjeltia, Karim Zouaoui Kaoui, Badr Kaur, Daman Maguire, Liam P. McClean, Paula L. McCombe, Niamh De Miranda, João Luís Moisescu, Mihnea Alexandru Pappalardo, Francesco Polster, Annikka Prasad, Girijesh Rozman, Damjana Sacala, Ioan Sanchez-Bornot, Jose M. Schmid, Johannes A. Sharp, Trevor Solé-Casals, Jordi Spiwok, Vojtěch Spyrou, George M. Stalidzans, Egils Stres, Blaa Sustersic, Tijana Symeonidis, Ioannis Tieri, Paolo Todd, Stephen Van Steen, Kristel Veneva, Milena Wang, Da-Hui Wang, Haiying Wang, Hui Watterson, Steven Wong-Lin, Kongfatt Yang, Su Zou, Xin Schmidt, Harald H.H.W. Centro de Tecnología Biomédica Universidad Politécnica de Madrid Madrid Spain Intelligent Systems Research Centre School of Computing Engineering and Intelligent Systems Ulster University Ulster United Kingdom Center for Physiology and Pharmacology Institute of Vascular Biology and Thrombosis Research Medical University of Vienna Vienna Austria TUM School of Life Sciences Weihenstephan Technical University of Munich Freising Germany Holon Israel CNR National Research Council IAC Institute for Applied Computing Rome Italy Lab of Computing Medical Informatics and Biomedical Imaging Technologies School of Medicine Aristotle University of Thessaloniki Thessaloniki Greece Université Clermont Auvergne INRAE UNH Plateforme d'Exploration du Métabolisme MetaboHUB Clermont Clermont-Ferrand France Université de Technologie de Compiègne Compiègne France Labex MS2T Control of Technological Systems-of-Systems CNRS and Université de Technologie de Compiègne Compiègne France Faculty of Engineering University of Kragujevac Kragujevac Serbia Kragujevac Serbia Steinbeis Advanced Risk Technologies Institute Doo Kragujevac Kragujevac Serbia Pharmacology and Therapeutics School of Medicine Galway Neuroscience Centre National University of Ireland Galway Ireland School of Computing Ulster University Ulster United Kingdom Holon Israel Department of Mathematics and Natural Sciences Kaunas University of Technology Kaunas Lithuania Faculty of Computer Science and Engineering Ss. Cyril and Methodius University Skopje Macedonia Medicine Faculty Université Libre de Bruxelles CHU de Charleroi Charleroi Belgium Northern Ireland Centre for Stratified Medicine Biomedical Sciences Research Institute Ulster University Ulster United Kingdom Escola Superior de Tecnologia e Gestão Instituto Politécnico de Portalegre Portalegre Portugal Instituto Superior Técnico Universidade de Lisboa Lisboa Portugal Faculty of Automatic Control and Computers University Politehnica of B

Background: Systems Medicine is a novel approach to medicine, that is, an interdisciplinary field that considers the human body as a system, composed of multiple parts and of complex relationships at multiple levels, and further integrated into an environment. Exploring Systems Medicine implies understanding and combining concepts coming from diametral different fields, including medicine, biology, statistics, modeling and simulation, and data science. Such heterogeneity leads to semantic issues, which may slow down implementation and fruitful interaction between these highly diverse fields. Methods: In this review, we collect and explain more than100 terms related to Systems Medicine. These include both modeling and data science terms and basic systems medicine terms, along with some synthetic definitions, examples of applications, and lists of relevant references. Results: This glossary aims at being a first aid kit for the Systems Medicine researcher facing an unfamiliar term, where he/she can get a first understanding of them, and, more importantly, examples and references for digging into the topic. © Massimiliano Zanin et al., 2021;Published by Mary Ann Liebert, Inc. 2021.

关键词： Semantics

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