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Given the inner complexity of the human nervous system, insight into the dynamics of brain activity can be gained from understanding smaller and simpler organisms, such as the nematode C. Elegans. The behavioural and structural biology of…

Neurons and Cognition · Quantitative Biology 2021-07-15 Gonçalo Mestre , Ruxandra Barbulescu , Arlindo L. Oliveira , L. Miguel Silveira

The small (1 mm) nematode $\textit{Caenorhabditis elegans}$ (Corsi [1], wormbook.org) has become widely used as a model organism; in particular, the $\textit{C. elegans}$ connectome has been completely mapped, and $\textit{C. elegans}$…

Biological Physics · Physics 2021-10-22 Anshul Singhvi , Harold M. Hastings , Jenny Magnes , Susannah G. Zhang

Advances in optical neuroimaging techniques now allow neural activity to be recorded with cellular resolution in awake and behaving animals. Brain motion in these recordings pose a unique challenge. The location of individual neurons must…

Neurons and Cognition · Quantitative Biology 2017-05-22 Jeffrey P. Nguyen , Ashley N. Linder , George S. Plummer , Joshua W. Shaevitz , Andrew M. Leifer

Despite recent interest in reconstructing neuronal networks, complete wiring diagrams on the level of individual synapses remain scarce and the insights into function they can provide remain unclear. Even for Caenorhabditis elegans, whose…

Neurons and Cognition · Quantitative Biology 2011-02-07 Lav R. Varshney , Beth L. Chen , Eric Paniagua , David H. Hall , Dmitri B. Chklovskii

The emerging field of optogenetics allows for optical activation or inhibition of neurons and other tissue in the nervous system. In 2005 optogenetic proteins were expressed in the nematode C. elegans for the first time. Since then, C.…

Neurons and Cognition · Quantitative Biology 2013-05-13 Steven J. Husson , Alexander Gottschalk , Andrew M. Leifer

The nematode Caenorhabditis elegans responds to an impressive range of chemical, mechanical and thermal stimuli and is extensively used to investigate the molecular mechanisms that mediate chemosensation, mechanotransduction and…

Other Quantitative Biology · Quantitative Biology 2008-02-21 George D. Tsibidis , Nektarios Tavernarakis

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 propose an effective way to create interpretable control agents, by re-purposing the function of a biological neural circuit model, to govern simulated and real world reinforcement learning (RL) test-beds. We model the tap-withdrawal…

Neurons and Cognition · Quantitative Biology 2018-03-26 Mathias Lechner , Ramin M. Hasani , Radu Grosu

Advanced volumetric imaging methods and genetically encoded activity indicators have permitted a comprehensive characterization of whole brain activity at single neuron resolution in \textit{Caenorhabditis elegans}. The constant motion and…

Quantitative Methods · Quantitative Biology 2022-10-12 Yuxiang Wu , Shang Wu , Xin Wang , Chengtian Lang , Quanshi Zhang , Quan Wen , Tianqi Xu

We study external, electrical perturbations and their responses in the brain dynamic network of the \textit{Caenorhabditis elegans} soil worm, given by the connectome of its large somatic nervous system. Our analysis is inspired by a…

Neurons and Cognition · Quantitative Biology 2016-02-17 Chris G. Antonopoulos

The brain is one of the most studied and highly complex systems in the biological world. It is the information center behind all vertebrate and most invertebrate life, and thus has become a major focus in current research. While many of…

Neurons and Cognition · Quantitative Biology 2015-03-19 Daniel J. Kelleher , Tyler M. Reese , Dylan T. Yott , Antoni Brzoska

Nanoscale resistive memories are expected to fuel dense integration of electronic synapses for large-scale neuromorphic system. To realize such a brain-inspired computing chip, a compact CMOS spiking neuron that performs in-situ learning…

Neural and Evolutionary Computing · Computer Science 2015-11-25 Xinyu Wu , Vishal Saxena , Kehan Zhu , Sakkarapani Balagopal

This paper proposes a novel spiking artificial neuron design based on a combined spin valve/magnetic tunnel junction (SV/MTJ). Traditional hardware used in artificial intelligence and machine learning faces significant challenges related to…

Applied Physics · Physics 2025-06-10 Steven Louis , Hannah Bradley , Cody Trevillian , Andrei Slavin , Vasyl Tyberkevych

The nematode Caenorhabditis elegans (C. elegans) is used as a model organism to better understand developmental biology and neurobiology. C. elegans features an invariant cell lineage, which has been catalogued and observed using…

Computer Vision and Pattern Recognition · Computer Science 2022-08-03 Andrew Lauziere , Ryan Christensen , Hari Shroff

C. elegans is commonly used in neuroscience for behaviour analysis because of it's compact nervous system with well-described connectivity. Localizing the animal and distinguishing between its head and tail are important tasks to track the…

Computer Vision and Pattern Recognition · Computer Science 2020-01-14 Mansi Ranjit Mane , Aniket Anand Deshmukh , Adam J. Iliff

To establish the relationship between locomotory behavior and dynamics of neural circuits in the nematode C. elegans we combined molecular and theoretical approaches. In particular, we quantitatively analyzed the motion of C. elegans with…

Neurons and Cognition · Quantitative Biology 2008-06-10 Jan Karbowski , Gary Schindelman , Chris J. Cronin , Adeline Seah , Paul W. Sternberg

We introduce a new algorithm for finding robust circular coordinates on data that is expected to exhibit recurrence, such as that which appears in neuronal recordings of C. elegans. Techniques exist to create circular coordinates on a…

Machine Learning · Statistics 2024-12-25 Andrew J. Blumberg , Mathieu Carrière , Jun Hou Fung , Michael A. Mandell

Computational approaches which emulate in-vivo nervous system are needed to investigate mechanisms of the brain to orchestrate behavior. Such approaches must integrate a series of biophysical models encompassing the nervous system, muscles,…

Quantitative Methods · Quantitative Biology 2025-06-05 Jimin Kim , Jeremy T. Florman , Julia A. Santos , Mark J. Alkema , Eli Shlizerman

Network structure or topology is the basis for understanding complex systems. Recently, higher-order structures have been considered as a new research direction that can provide new perspectives and phenomena. However, most existing studies…

Neurons and Cognition · Quantitative Biology 2022-12-08 Bo Liu , Rongmei Yang , Hao Wang , Linyuan Lü

Initially, robots were developed with the aim of making our life easier, carrying out repetitive or dangerous tasks for humans. Although they were able to perform these tasks, the latest generation of robots are being designed to take a…