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Reasoning about hypotheses and updating knowledge through empirical observations are central to scientific discovery. In this work, we applied logic-based machine learning methods to drive biological discovery by guiding experimentation.…

Molecular Networks · Quantitative Biology 2025-06-09 Lun Ai , Stephen H. Muggleton , Shi-Shun Liang , Geoff S. Baldwin

This paper proposes the use of Eukaryotic cells, namely astrocytes, to develop logic gates. The logic gates are achieved by manipulating the threshold of Ca$^{2+}$ ion flows between the cells, based on the input signals. Through wet-lab…

Large language models (LLMs) have demonstrated impressive performance across various language tasks. However, existing LLM reasoning strategies mainly rely on the LLM itself with fast or slow mode (like o1 thinking) and thus struggle to…

Artificial Intelligence · Computer Science 2026-01-21 Jinwu Hu , Dongjin Yang , Langyu Bian , Zhiquan Wen , Yufeng Wang , Yaofo Chen , Bin Xiao , Yuanqing Li , Mingkui Tan

Datalog$^\neg$ is a central formalism used in a variety of domains ranging from deductive databases and abstract argumentation frameworks to answer set programming. Its model theory is the finite counterpart of the logical semantics…

Logic in Computer Science · Computer Science 2025-05-21 Van-Giang Trinh , Belaid Benhamou , Sylvain Soliman , François Fages

Stochastic neural networks are a prototypical computational device able to build a probabilistic representation of an ensemble of external stimuli. Building on the relationship between inference and learning, we derive a synaptic plasticity…

Disordered Systems and Neural Networks · Physics 2018-10-23 Luca Saglietti , Federica Gerace , Alessandro Ingrosso , Carlo Baldassi , Riccardo Zecchina

The current reinforcement learning framework focuses exclusively on performance, often at the expense of efficiency. In contrast, biological control achieves remarkable performance while also optimizing computational energy expenditure and…

Artificial Intelligence · Computer Science 2024-11-01 Devdhar Patel , Terrence Sejnowski , Hava Siegelmann

Spiking neural networks (SNNs) are investigated as biologically inspired models of neural computation, distinguished by their computational capability and energy efficiency due to precise spiking times and sparse spikes with event-driven…

Neural and Evolutionary Computing · Computer Science 2024-05-28 Mingqing Xiao , Yixin Zhu , Di He , Zhouchen Lin

The brain may be thought of as a many-body architecture with a spatio-temporal dynamics described by neuronal structures. The oscillatory nature of brain activity allows these structures (nodes) to be described as a set of coupled…

Neurons and Cognition · Quantitative Biology 2021-02-03 J. Mendoza-Ruiz , C. E. Alonso-Malaver , M. Valderrama , O. A. Rosso , J. H. Martínez

This paper studies learning logic rules for reasoning on knowledge graphs. Logic rules provide interpretable explanations when used for prediction as well as being able to generalize to other tasks, and hence are critical to learn. Existing…

Artificial Intelligence · Computer Science 2021-07-19 Meng Qu , Junkun Chen , Louis-Pascal Xhonneux , Yoshua Bengio , Jian Tang

Biological brains are inherently limited in their capacity to process and store information, but are nevertheless capable of solving complex tasks with apparent ease. Intelligent behavior is related to these limitations, since resource…

Neurons and Cognition · Quantitative Biology 2020-11-16 Nisheet Patel , Luigi Acerbi , Alexandre Pouget

In this book we promote logical computational linguistics as opposed to statistical computational linguistics. In particular, we provide a logical semantic interface. This book assembles more than twenty years of research work on type…

Computation and Language · Computer Science 2026-04-21 Glyn V. Morrill , Oriol Valentín

Resolving the dichotomy between the human-like yet constrained reasoning processes of Cognitive Architectures and the broad but often noisy inference behavior of Large Language Models (LLMs) remains a challenging but exciting pursuit, for…

Artificial Intelligence · Computer Science 2024-08-20 Siyu Wu , Alessandro Oltramari , Jonathan Francis , C. Lee Giles , Frank E. Ritter

The purpose of this paper is to develop further the main concepts of Phenomena Dynamic Logic (P-DL) and Cognitive Dynamic Logic (C-DL), presented in the previous paper. The specific character of these logics is in matching vagueness or…

Logic in Computer Science · Computer Science 2016-11-17 Evgenii Vityaev , Boris Kovalerchuk , Leonid Perlovsky , Stanislav Smerdov

Measuring GUI task difficulty is crucial for user behavior analysis and agent capability evaluation. Yet, existing benchmarks typically quantify difficulty based on motor actions (e.g., step counts), overlooking the cognitive demands…

Human-Computer Interaction · Computer Science 2025-11-13 Yiwen Yin , Zhian Hu , Xiaoxi Xu , Chun Yu , Xintong Wu , Wenyu Fan , Yuanchun Shi

This article exhibits a particular encoding of logic circuits into a sheaf formalism. The central result of this article is that there exists strictly more information available to a circuit designer in this setting than exists in static…

Hardware Architecture · Computer Science 2010-08-17 Michael Robinson

Large Audio Language Models (LALMs), powered by the chain-of-thought (CoT) paradigm, have shown remarkable reasoning capabilities. Intuitively, different problems often require varying depths of reasoning. While some methods can determine…

Machine Learning · Computer Science 2025-11-20 Zhichao Sheng , Shilin Zhou , Chen Gong , Zhenghua Li

Neural spikes in the brain form stochastic sequences, i.e., belong to the class of pulse noises. This stochasticity is a counterintuitive feature because extracting information - such as the commonly supposed neural information of mean…

Neural and Evolutionary Computing · Computer Science 2015-03-31 Laszlo B. Kish , Claes-Goran Granqvist , Sergey M. Bezrukov , Tamas Horvath

Quantum Hamiltonian Computing is a recent approach that uses quantum systems, in particular a single molecule, to perform computational tasks. Within this approach, we present explicit methods to construct logic gates using two different…

Quantum Physics · Physics 2019-06-18 Omid Faizy Namarvar , Olivier Giraud , Bertrand Georgeot , Christian Joachim

The paper introduces a biologically and evolutionarily plausible neural architecture that allows a single group of neurons, or an entire cortical pathway, to be dynamically reconfigured to perform multiple, potentially very different…

Neural and Evolutionary Computing · Computer Science 2015-08-13 Thomas M. Breuel

Biocomputing technologies exploit biological communication mechanisms involving cell-cell signal propagation to perform computations. Researchers recently worked toward realising logic gates made by neurons to develop novel devices such as…

Emerging Technologies · Computer Science 2022-09-07 Giulio Basso , Michael Taynnan Barros
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