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Complex networks can often be decomposed into less complex sub-networks whose structures can give hints about the functional organization of the network as a whole. However, these structural motifs can only tell one part of the functional…

Molecular Networks · Quantitative Biology 2015-05-20 Jifeng Qian , Arend Hintze , Christoph Adami

The neural mechanism of memory has a very close relation with the problem of representation in artificial intelligence. In this paper a computational model was proposed to simulate the network of neurons in brain and how they process…

Neurons and Cognition · Quantitative Biology 2020-12-02 Hui Wei

The 1mm roundworm C. elegans is a model organism used in many sub-areas of biology to investigate different types of biological processes. In order to complement the n-vivo analysis with computer-based investigations, several methods have…

Quantitative Methods · Quantitative Biology 2025-10-02 Nemanja Antonic , Monika Scholz , Aymeric Vellinger , Euphrasie Ramahefarivo , Elio Tuci

We develop an artificial neural circuit for contour tracking and navigation inspired by the chemotaxis of the nematode Caenorhabditis elegans. In order to harness the computational advantages spiking neural networks promise over their…

Neural and Evolutionary Computing · Computer Science 2014-10-30 Shibani Santurkar , Bipin Rajendran

In large neuronal networks, it is believed that functions emerge through the collective behavior of many interconnected neurons. Recently, the development of experimental techniques that allow simultaneous recording of calcium concentration…

Biological Physics · Physics 2019-06-05 Xiaowen Chen , Francesco Randi , Andrew M. Leifer , William Bialek

Systems biology is an emerging interdisciplinary area of research that focuses on study of complex interactions in a biological system, such as gene regulatory networks. The discovery of gene regulatory networks leads to a wide range of…

Neural and Evolutionary Computing · Computer Science 2016-10-13 Khalid Raza , Mansaf Alam

Understanding the internal dynamics of Recurrent Neural Networks (RNNs) is crucial for advancing their interpretability and improving their design. This study introduces an innovative information-theoretic method to identify and analyze…

Machine Learning · Computer Science 2025-10-03 Arend Hintze , Asadullah Najam , Jory Schossau

Probing the developing neural circuitry in Caenorhabditis elegans has enhanced our understanding of nervous systems. The C. elegans connectome, like those of other species, is characterized by a rich club of densely connected neurons…

Neurons and Cognition · Quantitative Biology 2021-08-26 Alec Helm , Ann S. Blevins , Danielle S. Bassett

Contemporary neural networks have achieved a series of developments and successes in many aspects; however, when exposed to data outside the training distribution, they may fail to predict correct answers. In this work, we were concerned…

Computation and Language · Computer Science 2022-03-22 Wanshui Li , Pasquale Minervini

We investigate time-dependent data analysis from the perspective of recurrent kernel machines, from which models with hidden units and gated memory cells arise naturally. By considering dynamic gating of the memory cell, a model closely…

Machine Learning · Statistics 2019-10-11 Kevin J Liang , Guoyin Wang , Yitong Li , Ricardo Henao , Lawrence Carin

One of the biggest challenges in biology is to understand how activity at the cellular level of neurons, as a result of their mutual interactions, leads to the observed behavior of an organism responding to a variety of environmental…

Neurons and Cognition · Quantitative Biology 2010-03-09 Raj Kumar Pan , Nivedita Chatterjee , Sitabhra Sinha

We introduce a biologically inspired, multilayer neural architecture composed of Rectified Spectral Units (ReSUs). Each ReSU projects a recent window of its input history onto a canonical direction obtained via canonical correlation…

We propose a general framework to extract microscopic interactions from raw configurations with deep neural networks. The approach replaces the modeling Hamiltonian by the neural networks, in which the interaction is encoded. It can be…

Computational Physics · Physics 2020-08-19 Lingxiao Wang , Yin Jiang , Kai Zhou

We describe a class of systems theory based neural networks called "Network Of Recurrent neural networks" (NOR), which introduces a new structure level to RNN related models. In NOR, RNNs are viewed as the high-level neurons and are used to…

Neural and Evolutionary Computing · Computer Science 2017-10-11 Chao-Ming Wang

Network performance modeling presents important challenges in modern computer networks due to increasing complexity, scale, and diverse traffic patterns. While traditional approaches like queuing theory and packet-level simulation have…

Networking and Internet Architecture · Computer Science 2024-12-10 Shourya Verma , Simran Kadadi , Swathi Jayaprakash , Arpan Kumar Mahapatra , Ishaan Jain

Sophisticated gated recurrent neural network architectures like LSTMs and GRUs have been shown to be highly effective in a myriad of applications. We develop an un-gated unit, the statistical recurrent unit (SRU), that is able to learn long…

Machine Learning · Computer Science 2017-03-02 Junier B. Oliva , Barnabas Poczos , Jeff Schneider

Recently, there is great interest to investigate the application of deep learning models for the prediction of clinical events using electronic health records (EHR) data. In EHR data, a patient's history is often represented as a sequence…

Machine Learning · Computer Science 2021-10-05 Laila Rasmy , Jie Zhu , Zhiheng Li , Xin Hao , Hong Thoai Tran , Yujia Zhou , Firat Tiryaki , Yang Xiang , Hua Xu , Degui Zhi

Rapid advances in genetics, genomics, and imaging have given insight into the molecular and cellular basis of behaviour in a variety of model organisms with unprecedented detail and scope. It is increasingly routine to isolate behavioural…

Quantitative Methods · Quantitative Biology 2013-01-08 André E. X. Brown , William R. Schafer

Biological neurons exhibit remarkable intelligence: they maintain internal states, communicate selectively with other neurons, and self-organize into complex graphs rather than rigid hierarchical layers. What if artificial intelligence…

Machine Learning · Computer Science 2025-12-01 Antoine Salomon