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Time-Varying ℓ₀ Optimization for Spike Inference from Multi-Trial Calcium Recordings

Data Science in Science 2024年第1期3卷

作者： Shen, Tong Du, Mingyu Johnston, Kevin Grieco, Steven F. Crary, Rachel Guzowski, John F. Lur, Gyorgy Xu, Xiangmin Ombao, Hernando Guindani, Michele Yu, Zhaoxia Department of Statistics University of California Irvine 92697 CA United States Center for Complex Biological Systems University of California Irvine 92697 CA United States Department of Mathematics and The NSF-Simons Center for Multiscale Cell Fate Research University of California Irvine 92697 CA United States Department of Anatomy and Neurobiology School of Medicine University of California Irvine 92697 CA United States Department of Neurobiology and Behavior University of California Irvine 92697 CA United States The Center for the Neurobiology of Learning and Memory University of California Irvine 92697 CA United States Department of Biomedical Engineering University of California Irvine 92697 CA United States Department of Computer Science University of California Irvine 92697 CA United States The Center for Neural Circuit Mapping University of California Irvine 92697 CA United States Statistics Program KAUST Thuwal Saudi Arabia Department of Biostatistics University of California Los Angeles CA United States

Optical imaging of genetically encoded calcium indicators is a powerful tool to record the activity of a large number of neurons simultaneously over a long period of time from freely behaving animals. However, determining the exact time at which a neuron spikes and estimating the underlying firing rate from calcium fluorescence data remains challenging, especially for calcium imaging data obtained from a longitudinal study. We propose a multi-trial time-varying ℓ₀ penalized method to jointly detect spikes and estimate firing rates by robustly integrating evolving neural dynamics across trials. Our simulation study shows that the proposed method performs well in both spike detection and firing rate estimation. We demonstrate the usefulness of our method on calcium fluorescence trace data from two studies, with the first study showing differential firing rate functions between two behaviors and the second study showing evolving firing rate functions across trials due to learning. © 2024 The Author(s). Published with license by Taylor & Francis Group, LLC.

关键词： calcium imaging firing rate spike detection Time-varying penalty ℓ0 regularization

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Reconstruction of Fragmented Trajectories of Collective Motion using Hadamard Deep Autoencoders

arXiv

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arXiv 2021年

作者： Gajamannage, Kelum Park, Yonggi Paffenroth, Randy Jayasumana, Anura P. Department of Mathematics and Statistics Texas A&M University–Corpus Christi Corpus ChristiTX78412 United States Department of Mathematical Sciences Department of Computer Science Data Science Program Worcester Polytechnic Institute WorcesterMA01609 United States Department of Electrical and Computer Engineering Colorado State University Fort CollinsCO80525 United States

Learning dynamics of collectively moving agents such as fish or humans is an active field in research. Due to natural phenomena such as occlusion and change of illumination, the multi-object methods tracking such dynamics might lose track of the agents where that might result fragmentation in the constructed trajectories. Here, we present an extended deep autoencoder (DA) that we train only on fully observed segments of the trajectories by defining its loss function as the Hadamard product of a binary indicator matrix with the absolute difference between the outputs and the labels. The trajectories of the agents practicing collective motion is low-rank due to mutual interactions and dependencies between the agents that we utilize as the underlying pattern that our Hadamard deep autoencoder (HDA) codes during its training. The performance of our HDA is compared with that of a low-rank matrix completion scheme in the context of fragmented trajectory reconstruction. © 2021, CC BY.

关键词： Learning systems

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Theoretical background of innovation in services in small and medium-sized enterprises: literature mapping

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Journal of Innovation and Entrepreneurship 2020年第1期9卷 1-26页

作者： de Oliveira Sousa, Saymon Ricardo da Silva, Wesley Vieira da Veiga, Claudimar Pereira Zanini, Roselaine Ruviaro Statistics Department Federal University of Santa Maria – UFSM Building 13 Office 1205 C – CCNE Roraima Ave 1000 Santa Maria RS Brazil Department of General Applied Administration Federal University of Parana – UFPR Lathório Meissner Ave 632 Curitiba PR Brazil Post-Graduation Program of Production Engineering Federal University of Santa Maria UFSM Roraima Ave 1000 Santa Maria 97105-100 RS Brazil

The aim of this study was to map the innovation of services in small and medium-sized enterprises, as reported on the Web of Science and SCOPUS databases, using a structured review, involving 121 papers published between 1946 and 2019. There has been an increase in the number of studies in recent years, covering 23 countries on six continents, with the UK representing 48.78% of the studies. Patterns in the use of methods applied in research were identified, as well as a conceptual structure of the field. The main areas of science were finance, marketing, energy, and green engineering. The study makes an original contribution to the literature, highlighting the interest in the expansion of knowledge among the academic community, in addition to enabling a deeper analysis of the relation between the evaluated constructs. © 2020, The Author(s).

关键词： Innovation in services Literature mapping Small and medium-sized enterprises Systematic literature review

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Development of Water Quality Prediction Model Using LTSF-Linear and Complete Ensemble Empirical Mode Decomposition

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Desalination and Water Treatment 2025年

作者： JaeHo Shin Sukmin Yoon No-Suk Park Youngsoon Kim Department of Information and Statistics Gyeongsang National University 501 Jinju-Daero Jinju 52828 Republic of Korea Gyeongsang National University Office of Academy and Industry Collaboration and Engineering Research Institute 501 Jinju-Daero Jinju 52828 Republic of Korea Department of Civil Engineering and Engineering Research Institute Gyeongsang National University 501 Jinju-Daero Jinju 52828 Republic of Korea Department of Bio & Medical Bigdata (BK21 Four Program) Gyeongsang National University 501 Jinju-Daero Jinju 52828 Republic of Korea

South Korea's water supply system has a high coverage rate, still, it faces significant challenges in effective water quality (WQ) management due to seasonal variations in source water turbidity, frequent algal blooms, and aging water treatment facilities and pipelines. In particular, climate change and shifting rainfall patterns are increasing the variability of raw water quality, which is a major factor challenging the water treatment process. These issues not only reduce water treatment efficiency but also increase the risk of WQ contamination incidents, which can adversely affect public health. Therefore, rapid and accurate prediction of key WQ indicators such as pH, EC is essential for proactive WQ management and WQ contamination response. This study proposes a more effective WQ management approach by utilizing real-time WQ. To achieve this, we applied the Long-Term Series Forecasting-Linear (LTSF-Linear) model, which demonstrates excellent performance in time-series forecasting. Additionally, we integrated feature engineering based on Complete Ensemble Empirical Mode Decomposition (CEEMD) to enhance prediction accuracy. Through this approach, we developed a model capable of delivering high performance in short-, mid-, and long-term forecasting.

关键词： Water Quality Prediction Model LTSF-Linear Complete Ensemble Empirical Mode Decomposition Water Treatment System

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Periodicity Scoring of Time Series Encodes Dynamical Behavior of the Tumor Suppressor p53 ⁎ ⁎

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IFAC-PapersOnLine 2021年第9期54卷 488-495页

作者： Caroline Moosmüller Christopher J. Tralie Mahdi Kooshkbaghi Zehor Belkhatir Maryam Pouryahya José Reyes Joseph O. Deasy Allen R. Tannenbaum Ioannis G. Kevrekidis C. Moosmüller and C. Tralie contributed equally to this work Department of Mathematics University of California San Diego La Jolla CA 92093 USA Department of Medical Physics Memorial Sloan-Kettering Cancer Center NY USA Department of Chemical and Biomolecular Engineering Johns Hopkins University Baltimore MD 21218 USA Department of Mathematics and Computer Science Ursinus College Collegeville PA USA Program in Applied and Computational Mathematics Princeton University NJ USA School of Engineering and Sustainable Development De Montfort University Leicester UK Cancer Biology and Genetics Program and Computational and Systems Biology Program Memorial Sloan-Kettering Cancer Center New York NY 10065 USA and Department of Systems Biology Harvard Medical School Boston MA 02115 USA Departments of Computer Science and Applied Mathematics & Statistics Stony Brook University NY USA

In this paper we analyze the dynamical behavior of the tumor suppressor protein p53, an essential player in the cellular stress response, which prevents a cell from dividing if severe DNA damage is present. When this response system is malfunctioning, e.g. due to mutations in p53, uncontrolled cell proliferation may lead to the development of cancer. Understanding the behavior of p53 is thus crucial to prevent its failing. It has been shown in various experiments that periodicity of the p53 signal is one of the main descriptors of its dynamics, and that its pulsing behavior (regular vs. spontaneous) indicates the level and type of cellular stress. In the present work, we introduce an algorithm to score the local periodicity of a given time series (such as the p53 signal), which we call Detrended Autocorrelation Periodicity Scoring (DAPS). It applies pitch detection (via autocorrelation) on sliding windows of the entire time series to describe the overall periodicity by a distribution of localized pitch scores. We apply DAPS to the p53 time series obtained from single cell experiments and establish a correlation between the periodicity scoring of a cell’s p53 signal and the number of cell division events. In particular, we show that high periodicity scoring of p53 is correlated to a low number of cell divisions and vice versa. We show similar results with a more computationally intensive state-of-the-art periodicity scoring algorithm based on topology known as Sw1PerS. This correlation has two major implications: It demonstrates that periodicity scoring of the p53 signal is a good descriptor for cellular stress, and it connects the high variability of p53 periodicity observed in cell populations to the variability in the number of cell division events.

关键词： Systems biology cellular systems time series modeling bioinformatics computational biology

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Machine learning based non-Newtonian fluid model with molecular fidelity

arXiv

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arXiv 2020年

作者： Lei, Huan Wu, Lei Weinan, E. Department of Computational Mathematics Science & Engineering Department of Statistics & Probability Michigan State University MI48824 United States Department of Mathematics and Program in Applied and Computational Mathematics Princeton University NJ08544 United States

We introduce a machine-learning-based framework for constructing continuum non-Newtonian fluid dynamics model directly from a micro-scale description. Polymer solution is used as an example to demonstrate the essential ideas. To faithfully retain molecular fidelity, we establish a micro-macro correspondence via a set of encoders for the micro-scale polymer configurations and their macro-scale counterparts, a set of nonlinear conformation tensors. The dynamics of these conformation tensors can be derived from the micro-scale model and the relevant terms can be parametrized using machine learning. The final model, named the deep non-Newtonian model (DeePN2), takes the form of conventional non-Newtonian fluid dynamics models, with a new form of the objective tensor derivative. Numerical results demonstrate the accuracy of DeePN2. Copyright © 2020, The Authors. All rights reserved.

关键词： Viscous flow

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Integrated data envelopment analysis, multi-criteria decision making, and cluster analysis methods: Trends and perspectives

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Decision Analytics Journal 2023年 8卷

作者： de Oliveira, Maiquiel Schmidt Steffen, Vilmar de Francisco, Antonio Carlos Trojan, Flavio Academic Department of Physics Statistics and Mathematics (DAFEM) Federal University of Technology - Parana (UTFPR) Rua Gelindo João Folador 2000 Francisco Beltrão Paraná 85602-863 Brazil Academic Departments of Engineering (DAENG) Federal University of Technology - Parana (UTFPR) Rua Gelindo João Folador 2000 Francisco Beltrão 85602-863 Paraná Brazil Academic Department of Electronics (DAELE) Federal University of Technology - Parana (UTFPR) Rua Doutor Washington Subtil Chueire 330 Ponta Grossa 84017-220 Paraná Brazil Post-Graduate Program in Production Engineering (PPGEP) Federal University of Technology - Parana (UTFPR) Rua Doutor Washington Subtil Chueire 330 Ponta Grossa 84017-220 Paraná Brazil

Data Envelopment Analysis (DEA), Multi-criteria Decision Analysis (MCDA), and Cluster Analysis (CA) are techniques widely used to help decision-makers determine the solution to problems with multiple and often conflicting criteria. This study presents a comprehensive review of the literature on the DEA, MCDA, and CA models to identify existing and potential applications and future development trends. To this end, the Methodi Ordinatio was applied to determine which publications have the greatest impact, considering articles in three databases: Scopus, ScienceDirect, and Web of Science. We pair the techniques two by two since no results were found to integrate the three techniques. The results point to a portfolio with 490 articles, in which approximately 43.87% of the articles combine DEA and MCDA techniques for solving efficiency and productivity analysis problems. © 2023 The Author(s)

关键词： Cluster analysis Combined decision techniques Data envelopment analysis Literature review Methodi ordinatio Multi-criteria decision making

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Technology integration in mechanical engineering vocational education: engineering mathematics and engineering physics

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AIP Conference Proceedings 2023年第1期2720卷

作者： Rochmad Novian Inderanata Thomas Sukardi Putu Sudira Tuti Purwaningsih Slamet Priyanto Doctoral Program Student in Technology and Vocational Education Yogyakarta State University Yogyakarta Indonesia Mechanical Engineering Education Department Yogyakarta State University Yogyakarta Indonesia Technology and Vocational Education Graduate Schools Yogyakarta State University Yogyakarta Indonesia Statistics Department Universitas Islam Indonesia Yogyakarta Indonesia Mechanical Engineering Vocational Education Department Universitas Sarjanawiyata Tamansiswa Yogyakarta Indonesia

Technology integration has been applied in the industrial world for the production process, distribution, employment to worker training. The training in Vocational Education is expected to facilitate every learning with various technological transformations that develop. engineering Mathematics and engineering Physics are lessons that must be given to vocational students as a vocational basis. This study aims to explore the impact of using technology in vocational learning. This study uses qualitative research methods, with an emic approach. The theories used are: (1) Critical Theory from Max Horkheimer and Theodor W. Adorno regarding assumptions; (2) Technology Acceptance Model (TAM) theory regarding perceived usefulness and perceived ease of use; and (3) the concept of Ki Hadjar Dewantara’s teachings about “ngerti”, “ngroso” and “nglakoni". The results of this study are: (1) the integration of technology provides benefits to student learning activities seen from the critical theory that learning theory is not boring so that students become more active to take part in learning engineering mathematics and engineering physics; (2) the integration of technology in learning provides positive emotions for students in terms of the perceived benefits and perceived ease of use both from the software and hardware devices they have to solve problems in engineering mathematics and engineering physics; (3) technology integration benefits students’ curiosity about "ngerti", "ngroso" and "nglakoni" according to the concept of Ki Hadjar Dewantara’s teachings seen from seeing the lecturer in explaining the material, demonstrating software and hardware devices, viewing, remember and mark, and imitate implementation in everyday life.

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A systematic review of the literature on video assistant referees in soccer: Challenges and opportunities in sports analytics

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Decision Analytics Journal 2023年 7卷

作者： de Oliveira, Maiquiel Schmidt Steffen, Vilmar Trojan, Flavio Academic Department of Physics Statistics and Mathematics (DAFEM) Federal University of Technology - Parana (UTFPR) Rua Gelindo João Folador 2000 Francisco Beltrão Paraná 85602-863 Brazil Academic Department of Engineering (DAENG) Federal University of Technology - Parana (UTFPR) Rua Gelindo João Folador 2000 Francisco Beltrão Paraná 85602-863 Brazil Academic Department of Electronics (DAELE) Federal University of Technology - Parana (UTFPR) Rua Doutor Washington Subtil Chueire 330 Ponta Grossa Paraná 84017-220 Brazil Post-graduate Program in Production Engineering (PPGEP) Federal University of Technology - Parana (UTFPR) Rua Doutor Washington Subtil Chueire 330 Ponta Grossa Paraná 84017-220 Brazil

Refereeing in sports is about fairness. The referee's job is to balance what the player with the ball thinks is fair with what the player trying to take the ball thinks is fair. Referees are judges on those two opposite opinions. Football (soccer) has massive global appeal and fan interest. Some football championships now use Video Assistant Referees (VAR) to help the referees make correct decisions. This study reviews the literature on VAR in football using the Methodi Ordinatio. Methodi Ordinatio is a methodology used to select and rank relevant scientific papers combining the impact factor, number of citations, and year of publication. We present a case study about the distance the VAR officials cover in the main Brazilian football championship (Brazilian Serie A). This study adopts the p-medians method to analyse the impact of opening VAR operation rooms in the distance covered by the professionals travelling to officiate matches. The locations of VAR operation rooms were obtained, and applying these locations in the first ten rounds of the Brazilian Serie A season 2021 would possibly reduce about 70% of the distance covered by the VAR officials travelling compared to the total distance performed. © 2023 The Author(s)

关键词： Decision-aid technology Distance minimization Methodi ordinatio p-medians Soccer Sports analytics Video assistant referee

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VLSI Design of Tree-Based Inference for Low-Power Learning Applications

VLSI Design of Tree-Based Inference for Low-Power Learning A...

引用

IEEE International Symposium on Circuits and Systems (ISCAS)

作者： Brunno A. Abreu Mateus Grellert Sergio Bampi Graduate Program in Microelectronics (PGMICRO) INF-UFRGS Federal University of Rio Grande do Sul Porto Alegre Brazil Department of Informatics and Statistics − INE Federal University of Santa Catarina (UFSC) Florianópolis Brazil Graduate Program on Electronic Engineering and Computing Catholic University of Pelotas (UCPel) Pelotas Brazil

ISBN: (数字)9781728133201

ISBN: (纸本)9781728133218

The use of Machine Learning techniques in battery-powered devices has increased in recent years. Therefore, evaluating power-accuracy trade-offs of inference models has become important. This work explores decision trees architectures, analyzing the effects of model complexity and approximation in power and accuracy. By quantizing the inputs to limited widths, we increased the accuracy of the models in up to 8.7% compared to precise cases. In terms of power, the variation in model complexity was more significant than in input width, as we obtained reductions of up to 97% by decreasing the tree depth, compared to 88% when decreasing the width.

关键词： Complexity theory Hardware Integrated circuit modeling Training Analytical models Decision trees Quantization (signal)

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