| | Models | Description |
| 1. |
A model of neuronal bursting using three coupled first order diff. eqs. (Hindmarsh & Rose 1984)
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R Brette's Brian 2 implementation of the classic Hindmarsh-Rose 1984 dynamical system representing neuronal bursting. |
| 2. |
Low Threshold Calcium Currents in TC cells (Destexhe et al 1998) (Brian)
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R Brette's implementation in Brian 2 of Destexhe et al 1998's model. The author's original code is also available from ModelDB with accession number 279 (yes, was one of the first models in ModelDB)! |
| 3. |
PyRhO: A multiscale optogenetics simulation platform (Evans et al 2016)
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"... we present an integrated suite of open-source, multi-scale
computational tools called PyRhO. The purpose of developing PyRhO is
three-fold: (i) to characterize new (and existing) opsins by
automatically fitting a minimal set of experimental data to three-,
four-, or six-state kinetic models, (ii) to simulate these models at
the channel, neuron and network levels, and (iii) provide functional
insights through model selection and virtual experiments in
silico. The module is written in Python with an additional
IPython/Jupyter notebook based GUI, allowing models to be fit,
simulations to be run and results to be shared through simply
interacting with a webpage. The seamless integration of model fitting
algorithms with simulation environments (including NEURON and Brian2)
for these virtual opsins will enable neuroscientists to gain a
comprehensive understanding of their behavior and rapidly identify the
most suitable variant for application in a particular biological
system. ..." |
| 4. |
Sharpness of spike initiation in neurons explained by compartmentalization (Brette 2013)
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"Spike initiation determines how the combined inputs to a neuron are converted to an output. Since the pioneering work of Hodgkin and Huxley, it is known that spikes are generated by the opening of sodium channels with depolarization. According to this standard theory, these channels should open gradually when the membrane potential increases, but spikes measured at the soma appear to suddenly rise from rest. This apparent contradiction has triggered a controversy about the origin of spike “sharpness.” This study shows with biophysical modelling that if sodium channels are placed in the axon rather than in the soma, they open all at once when the somatic membrane potential exceeds a critical value. This work explains the sharpness of spike initiation and provides another demonstration that morphology plays a critical role in neural function." |
| 5. |
Vibration-sensitive Honeybee interneurons (Ai et al 2017)
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"Female honeybees use the “waggle dance” to communicate the location of nectar sources to their hive mates. Distance information is encoded in the duration of the waggle phase (von Frisch, 1967). During the waggle phase, the dancer produces trains of vibration pulses, which are detected by the follower bees via Johnston's organ located on the antennae. To uncover the neural mechanisms underlying the encoding of distance information in the waggle dance follower, we investigated morphology, physiology, and immunohistochemistry of interneurons arborizing in the primary auditory center of the honeybee (Apis mellifera). We identified major interneuron types, named DL-Int-1, DL-Int-2, and bilateral DL-dSEG-LP, that responded with different spiking patterns to vibration pulses applied to the antennae. Experimental and computational analyses suggest that inhibitory connection plays a role in encoding and processing the duration of vibration pulse trains in the primary auditory center of the honeybee." |
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