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OpenWorm: overview and recent advances in integrative biological simulation of Caenorhabditis elegans
- G. Sarma, Chee Wai Lee, S. Larson
- BiologyPhilosophical Transactions of the Royal Society B
- 10 September 2018
An overview of the history and philosophy of OpenWorm is given, descriptions of the constituent sub-projects and corresponding open-science management practices are described, and current achievements of the project and future directions are discussed.
c302: a multiscale framework for modelling the nervous system of Caenorhabditis elegans
- P. Gleeson, David Lung, R. Grosu, Ramin M. Hasani, S. Larson
- BiologyPhilosophical Transactions of the Royal Society B…
- 10 September 2018
A framework is developed that allows different instances of neuronal networks to be generated incorporating varying levels of anatomical and physiological detail, which can be investigated and refined independently or linked to other tools developed in the OpenWorm modelling toolchain.
SIM-CE: An Advanced Simulink Platform for Studying the Brain of Caenorhabditis elegans
- Ramin M. Hasani, Victoria Beneder, Magdalena Fuchs, David Lung, R. Grosu
- Biology, Computer ScienceArXiv
- 18 March 2017
Simulink model is able to capture both complex dynamics of ion channels and additional biophysical detail such as intracellular calcium concentration, which enables the user to capture unknown properties of the neural circuits, test hypotheses and determine the origin of many behavioral plasticities exhibited by the worm.
A Simplified Cell Network for the Simulation of C . elegans ’ Forward Crawling
Simulation of C. elegans’ forward crawling with a cell network composed of the AVB interneuron pair, 18 B-type and 19 D-type motorneurons and 95 body muscles, considering three key hypotheses; a proprioceptive feedback function is assumed amongst B- type motorneuronons that establishes synchronized traveling waves in the muscles.