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作者： Mello, Rui R. de Araújo, Leandro S. Alves, Tiago A. O. Marzulo, Leandro A. J. Paillard, Gabriel A. L. França, Felipe M. G. Program Systems Engineering and Computer Science Federal University of Rio de Janeiro Rio de Janeiro Brazil Brazilian Navy Research Institute Rio de Janeiro Brazil State University of Rio de Janeiro Rio de Janeiro Brazil Google Mountain ViewCA United States Virtual UFC Institute Federal University of Ceará Ceará Brazil

With the increase of the search for computational models where the expression of parallelism occurs naturally, some paradigms arise as options for the current generation of computers. In this context, dynamic dataflow and Gamma—General Abstract Model for Multiset mAnipulation—emerge as interesting computational model choices. In dynamic dataflow model, operations are performed as soon as their associated operands are available, without rely on a program Counter to dictate the execution order of instructions. The Gamma paradigm is based on a parallel multiset rewriting scheme. It provides a nondeterministic execution model inspired by an abstract chemical machinemetaphor, where operations are formulated as reactions that occur freely among matching elements belonging to the multiset. In this work, equivalence relations between the dynamic dataflow and Gamma paradigms are exposed and explored, while methods to convert from dataflow to Gamma paradigm and vice versa are provided. It is shown that vertices and edges of a dynamic dataflow graph can correspond, respectively, to reactions and multiset elements in the Gamma paradigm. This work provides the scientific community with the possibility of taking profit of both parallel programming models, contributing with a versatility component to researchers and developers. © 2021 John Wiley & Sons, Ltd.

关键词： Parallel programming

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Structured Downsampling for Fast, Memory-efficient Curation of Online Data Streams

arXiv

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arXiv 2024年

作者： Moreno, Matthew Andres Zaman, Luis Dolson, Emily Department of Ecology and Evolutionary Biology Ann Arbor United States Center for the Study of Complex Systems Ann Arbor United States Michigan Institute for Data and AI in Society Ann Arbor United States University of Michigan Ann Arbor United States Department of Computer Science and Engineering East Lansing United States Program in Ecology Evolution and Behavior East Lansing United States Michigan State University East Lansing United States

Operations over data streams typically hinge on efficient mechanisms to aggregate or summarize history on a rolling basis. For high-volume data steams, it is critical to manage state in a manner that is fast and memory efficient - particularly in resource-constrained or real-time contexts. Here, we address the problem of extracting a fixed-capacity, rolling subsample from a data stream. Specifically, we explore "data stream curation" strategies to fulfill requirements on the composition of sample time points retained. Our "DStream" suite of algorithms targets three temporal coverage criteria: (1) steady coverage, where retained samples should spread evenly across elapsed data stream history;(2) stretched coverage, where early data items should be proportionally favored;and (3) tilted coverage, where recent data items should be proportionally favored. For each algorithm, we prove worst-case bounds on rolling coverage quality. In contrast to previous work by Moreno, Rodriguez Papa, and Dolson (2024), which dynamically scales memory use to guarantee a specified level of coverage quality, here we focus on the more practical, application-driven case of maximizing coverage quality given a fixed memory capacity. As a core simplifying assumption, we restrict algorithm design to a single update operation: writing from the data stream to a calculated buffer site - with data never being read back, no metadata stored (e.g., sample timestamps), and data eviction occurring only implicitly via overwrite. Drawing only on primitive, low-level operations and ensuring full, overhead-free use of available memory, this "DStream" framework ideally suits domains that are resource-constrained (e.g., embedded systems), performance-critical (e.g., real-time), and fine-grained (e.g., individual data items as small as single bits or bytes). In particular, proposed power-of-two-based buffer layout schemes support O(1) data ingestion via concise bit-level operations. To further practical applica

关键词： Data streams

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Pan-cancer analysis of CDC7 in human tumors: Integrative multi-omics insights and discovery of novel marine-based inhibitors through machine learning and computational approaches

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computers in Biology and Medicine 2025年 190卷 110044-110044页

作者： Saif, Ahmed Islam, Md. Tarikul Raihan, Md. Obayed Yousefi, Niloofar Rahman, Md. Ajijur Faridi, Hafeez Hasan, Al Riyad Hossain, Mirza Mahfuj Saleem, Rasha Mohammed Albadrani, Ghadeer M. Al-Ghadi, Muath Q. Ahasan Setu, Md. Ali Kamel, Mohamed Abdel-Daim, Mohamed M. Aktaruzzaman, Md. Department of Pharmacy Faculty of Science University of Rajshahi Rajshahi6205 Bangladesh Department of Genetic Engineering and Biotechnology Faculty of Biological Science and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Jashore7408 Bangladesh Department of Pharmaceutical Sciences College of Health Sciences and Pharmacy Chicago State University ChicagoIL United States Department of Industrial Engineering and Management Systems University of Central Florida USA OrlandoFL United States Department of Pharmacy Faculty of Biological Science and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Department of Computer Science and Engineering Faculty of Engineering and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Department of Laboratory Medicine Faculty of Applied Medical Sciences Al-Baha University Al-Baha65431 Saudi Arabia Department of Biology College of Science Princess Nourah bint Abdulrahman University 84428 Riyadh11671 Saudi Arabia Department of Zoology College of Science King Saud University P.O. Box 2455 Riyadh11451 Saudi Arabia Department of Microbiology Faculty of Biological Science and Technology Jashore University of Science and Technology Jashore7408 Bangladesh Department of Medicine and Infectious Diseases Faculty of Veterinary Medicine Cairo University Giza12211 Egypt Department of Pharmaceutical Sciences Pharmacy Program Batterjee Medical College P.O. Box 6231 Jeddah21442 Saudi Arabia Pharmacology Department Faculty of Veterinary Medicine Suez Canal University Ismailia41522 Egypt

Cancer remains a significant global health challenge, with the Cell Division Cycle 7 (CDC7) protein emerging as a potential therapeutic target due to its critical role in tumor proliferation, survival, and resistance. However, a comprehensive analysis of CDC7 across multiple cancers is lacking, and existing therapeutic options have come with limited clinical success. The aim of this is to integrate a comprehensive pan-cancer analysis of CDC7 with the identification of novel marine-derived inhibitors, bridging the understanding of CDC7's role as a prognostic biomarker and therapeutic target across diverse cancer types. In this study, we conducted a pan-cancer analysis of CDC7 across 33 tumor types using publicly available datasets to evaluate its expression, genetic alterations, immune interactions, survival, and prognostic significance. Additionally, a marine-derived compound library of 31,492 molecules was screened to identify potential CDC7 inhibitors using chemoinformatics and machine learning. The top candidates underwent rigorous evaluations, including molecular docking, pharmacokinetics, toxicity, Density Functional Theory (DFT) calculations, and Molecular Dynamics (MD) simulations. The findings revealed that CDC7 is overexpressed in several cancers and is associated with poor survival outcomes and unfavorable prognosis. Enrichment analysis linked CDC7 to critical DNA replication pathways, while its role in modulating tumor-immune interactions highlighted its potential as a target for immunotherapy. Among all tested compounds, Tetrahydroaltersolanol D (CMNPD21999) exhibited the strongest binding affinity and stability, along with better drug-likeness and zero toxicity. These attributes highlight its potential as a promising drug candidate for CDC7 inhibition and future cancer treatment development. Furthermore, additional in vitro and in vivo studies are required to confirm the effectiveness of this drug candidate against the CDC7 protein. © 2025

关键词： Gene expression

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Learner Action Patterns in the Problem-Solving Process Related to program Code Composition Based on Tracking System Activities

Learner Action Patterns in the Problem-Solving Process Relat...

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International Conference on Informatics and Computing (ICIC)

作者： Aulia Akhrian Syahidi Ahmad Afif Supianto Tsukasa Hirashima Yutaka Watanobe Smart City Information System Applied Undergraduate Program Politeknik Negeri Banjarmasin Banjarmasin City Indonesia Research Center for Data and Information Sciences National Research and Innovation Agency (BRIN) Bandung City Indonesia Learning Engineering Laboratory Graduate School of Advanced Science and Engineering Hiroshima University Kagamiyama Higashihiroshima Japan Department of Computer Science and Engineering Division of Information Systems University of Aizu Aizu-Wakamatsu City Fukushima Japan

ISBN: (纸本)9798350345728

Learning activities are an indicator of the learner's desire to learn during the learning process. The pattern of learner action is related to learning activities. In this case, in extracting the learning process, it is necessary to collect a lot of data through analysis of the learning process. The purpose of this study is to recommend and report the performance of an activity tracking system equipped with visual artifacts as an educational data mining approach to analyze action patterns when learners complete the arrangement of program code lines in each programming problem. In this study, data were taken from activity recordings when learners used interactive learning media for a basic programming subject called TOLSYASUPI-EduMed which had problem-solving learning models embedded in their interactions. Learning Analytics is used as a method of this research and data relationships from learner actions during the learning process using the “if-then” rule. Log data is used for recording and detecting activities carried out by learners. We confirm that the results of the study are based on the findings of the data relationship that if the lines of program code are too long (more than five lines) then almost all learners experience a bottleneck condition. The completion time of each question and the number of iterations in completing the program code lines for each question have also been recorded and have a pattern of connection between the data. The information that has been obtained is then forwarded to teachers or stakeholders as key information to make appropriate feedback to learners based on the results as a means of analyzing and evaluating the programming learning process.

关键词： Visualization Codes Media Data models Recording Data mining Problem-solving

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Accelerating adoption of species-agnostic plant sensors for precision farming

Nature Reviews Electrical Engineering

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Nature Reviews Electrical engineering 2025年 58-70页

作者： Abdullah Bukhamsin Khaled Nabil Salama Jürgen Kosel Ikram Blilou Bioengineering Program Biological and Environmental Science and Engineering (BESE) Division King Abdullah University of Science and Technology (KAUST) Thuwal Saudi Arabia Center of Excellence — Sustainable Food Security (SFS) King Abdullah University of Science and Technology (KAUST) Thuwal Saudi Arabia Electrical and Computer Engineering Program Computer Electrical and Mathematical Sciences and Engineering (CEMSE) Division King Abdullah University of Science and Technology (KAUST) Thuwal Saudi Arabia Sensor Systems Division Silicon Austria Labs Villach Austria Plant Science Program Biological and Environmental Science and Engineering (BESE) Division King Abdullah University of Science and Technology (KAUST) Thuwal Saudi Arabia

Precision farming is an optimized management farming scheme that seeks to link the real-time needs of crops with the nutrients to be administered. Sensing platforms that can monitor the physiological status of crops in situ are key to enabling timely and localized interventions. However, the underdevelopment of plant sensing strategies limits the potential of precision farming. In this Review, we discuss the challenges and advancements in phyto-monitoring, focusing on strategies that are applicable to a wide range of plant species and suitable for field deployment. We explore species-agnostic sensors, including optical and electrochemical sensors, whose operation is based on principles that are widely applicable to all plant species. These platforms enable real-time monitoring of the physiological state of crops by assessing key biomarkers, such as plant hormones, and metabolites such as salicylic acid and reactive oxygen species. Evaluating these systems, we conclude that an integrative sensing approach is necessary to compensate for the limitations of the individual methods and can provide a holistic view of crop health. Cost-effective species-agnostic sensors are thus needed to provide information that can be used to minimize the resource footprint of farming and meet the growing global demand.

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Clarifying Assumptions about Artificial Intelligence before Revolutionising Patent Law

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GRUR International 2022年第4期71卷 295-321页

作者： Kim, Daria Alber, Maximilian Kwok, Man Wai Mitrovic, Jelena Ramirez-Atencia, Cristian Perez, Jesus Alberto Rodriguez Zille, Heiner Max Planck Institute for Innovation and Competition Munich Germany Charite Institute of Pathology Berlin Germany Chinese University of Hong Kong Department of Physics (Formerly) Hong Kong BMBF Program for Women in AI Faculty of Computer Science and Mathematics Chair of Data Science University of Passau Germany Department of Computer Systems Universidad Politecnica de Madrid Spain School of Computing Science College of Science and Engineering University of Glasgow United Kingdom Faculty of Computer Science Otto von Guericke University Magdeburg Germany

This paper examines several widespread assumptions about artificial intelligence, particularly machine learning, that are often taken as factual premises in discussions on the future of patent law in the wake of 'artificial ingenuity'. The objective is to draw a more realistic and nuanced picture of the human-computer interaction in solving technical problems than where 'intelligent' systems autonomously yield inventions. A detailed technical perspective is presented for each assumption, followed by a discussion of pertinent uncertainties for patent law. Overall, it is argued that implications of machine learning for the patent system in its core tenets appear far less revolutionary than is often posited. © 2022 Published by OUP and CH Beck on behalf of GRUR e.V.

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Instruction Multi-Constraint Molecular Generation Using a Teacher-Student Large Language Model

arXiv

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arXiv 2024年

作者： Zhou, Peng Wang, Jianmin Li, Chunyan Wang, Zixu Liu, Yiping Sun, Siqi Lin, Jianxin Wei, Leyi Cai, Xibao Lai, Houtim Liu, Wei Wang, Longyue Liu, Yuansheng Zeng, Xiangxiang College of Information Science and Engineering Hunan University Changsha China The Interdisciplinary Graduate Program in Integrative Biotechnology Yonsei University Incheon21983 Korea Republic of School of Informatics Yunnan Normal University Kunming650500 China Department of Computer Science University of Tsukuba Tsukuba3058577 Japan Research Institute of Intelligent Complex Systems Fudan University Shanghai200433 China Shanghai AI Laboratory Shanghai200232 China Centre for Artificial Intelligence driven Drug Discovery Faculty of Applied Science Macao Polytechnic University China School of Informatics Xiamen University Xiamen China Tencent AI Lab China

While various models and computational tools have been proposed for structure and property analysis of molecules, generating molecules that conform to all desired structures and properties remains a challenge. Here, we introduce a multi-constraint molecular generation large language model, TSMMG, which, akin to a student, incorporates knowledge from various small models and tools, namely, the 'teachers'. To train TSMMG, we construct a large set of text-molecule pairs by extracting molecular knowledge from these 'teachers', enabling it to generate novel molecules that conform to the descriptions through various text prompts. We experimentally show that TSMMG remarkably performs in generating molecules meeting complex, natural language-described property requirements across two-, three-, and four-constraint tasks, with an average molecular validity of over 99% and success ratio of 82.58%, 68.03%, and 67.48%, respectively. The model also exhibits adaptability through zero-shot testing, creating molecules that satisfy combinations of properties that have not been encountered. It can comprehend text inputs with various language styles, extending beyond the confines of outlined prompts, as confirmed through empirical validation. Additionally, the knowledge distillation feature of TSMMG contributes to the continuous enhancement of small models, while the innovative approach to dataset construction effectively addresses the issues of data scarcity and quality, which positions TSMMG as a promising tool in the domains of drug discovery and materials science. Copyright © 2024, The Authors. All rights reserved.

关键词： Students

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Theory-guided randomized neural networks for decoding medication-taking behavior

Theory-guided randomized neural networks for decoding medica...

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2021 IEEE EMBS International Conference on Biomedical and Health Informatics, BHI 2021

作者： Kaur, Navreet Gonzales, Manuel Alcaraz, Cristian Garcia Barnes, Laura E. Wells, Kristen J. Gong, Jiaqi Department of Engineering Systems and Environment University of Virginia VA22904 United States SDSU UC San Diego Joint Doctoral Program in Clinical Psychology San DiegoCA92120 United States Department of Psychology San Diego State University San DiegoCA92182 United States Department of Computer Science The University of Alabama TuscaloosaAL35487 United States

ISBN: (纸本)9781665403580

Long-term endocrine therapy (e.g. Tamoxifen, aromatase inhibitors) is crucial to prevent breast cancer recurrence, yet rates of adherence to these medications are low. To develop, evaluate, and sustain future interventions, individual-level modeling can be used to understand breast cancer survivors' behavioral mechanisms of medication-taking. This paper presents interdisciplinary research, wherein a model employing randomized neural networks was developed to predict breast cancer survivors' daily medication-taking behavior based on their survey data over three time periods (baseline, 4 months, 8 months). The neural network structure was guided by random utility theory developed in psychology and behavioral economics. Comparative analysis indicates that the proposed model outperforms existing computational models in terms of prediction accuracy under conditions of randomness. © 2021 IEEE

关键词： Diseases

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Quantum transient heat transport in the hyperparametric oscillator

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Physical Review A 2021年第5期104卷 052220-052220页

作者： JungYun Han Daniel Leykam Dimitris G. Angelakis Juzar Thingna Center for Theoretical Physics of Complex Systems Institute for Basic Science (IBS) Daejeon 34126 Republic of Korea Basic Science Program University of Science and Technology (UST) Daejeon 34113 Republic of Korea Centre for Quantum Technologies National University of Singapore 3 Science Drive 2 Singapore 117543 School of Electrical and Computer Engineering Technical University of Crete Chania Crete 73100 Greece

We explore nonequilibrium quantum heat transport in nonlinear bosonic systems in the presence of a non-Kerr-type interaction governed by hyperparametric oscillation due to two-photon hopping between the two cavities. We estimate the thermodynamic response analytically by constructing the su(2) algebra of the nonlinear Hamiltonian and predict that the system exhibits a negative excitation mode. Consequently, this specific form of interaction enables the cooling of the system by inducing a ground-state transition when the number of particles increases, even though the interaction strength is small. We demonstrate a transition of the heat current numerically in the presence of symmetric coupling between the system and the bath and show long relaxation times in the cooling phase. We compare with the Kerr-type Bose-Hubbard form of interaction induced via cross-phase modulation, which does not exhibit any such transition. We further compute the nonequilibrium heat current in the presence of two baths at different temperatures and observe that the cooling effect for the non-Kerr-type interaction persists. Our findings may help in the manipulation of quantum states using the system's interactions to induce cooling.

关键词： Quantum optics Quantum thermodynamics Quantum transport

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Mine-to-client planning with Markov Decision Process 18

Mine-to-client planning with Markov Decision Process

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18th European Control Conference, ECC 2020

作者： Leal Gomes Leite, Joao Marcelo Arruda, Edilson F. Bahiense, Laura Marujo, Lino G. Federal University of Rio de Janeiro Industrial Engineering Program Alberto Luiz Coimbra Institute Graduate School and Research in Engineering Rio de Janeiro Brazil Federal University of Rio de Janeiro Systems Engineer and Computer Science Program Alberto Luiz Coimbra Institute Graduate School and Research in Engineering Rio de Janeiro Brazil

ISBN: (纸本)9783907144015

This works presents an innovative application of Markov Decision Process (MDP) to a medium-term mining logistics planning problem considering the mine-to-client supply chain. We implemented three distinct algorithms based on state-of-the-art approaches to solve large-scale problems, and compared their results. Furthermore, we combined all three variants in a single novel algorithm that attained fast convergence and may be an alternative to circumvent the curse of dimensionality underlying large scale problems. © 2020 EUCA.

关键词： Supply chains

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