Evans BD, Jarvis S, Schultz SR, Nikolic K. (2016). PyRhO: A Multiscale Optogenetics Simulation Platform. Frontiers in neuroinformatics. 10 [PubMed]

• PyRhO: A multiscale optogenetics simulation platform (Evans et al 2016) [Model]

Grossman N et al. (2013). The spatial pattern of light determines the kinetics and modulates backpropagation of optogenetic action potentials. Journal of computational neuroscience. 34 [PubMed]

Gutierrez GJ, O'Leary T, Marder E. (2013). Multiple mechanisms switch an electrically coupled, synaptically inhibited neuron between competing rhythmic oscillators. Neuron. 77 [PubMed]

• Competing oscillator 5-cell circuit and Parameterscape plotting (Gutierrez et al. 2013) [Model]

Quax S, Jensen O, Tiesinga P. (2017). Top-down control of cortical gamma-band communication via pulvinar induced phase shifts in the alpha rhythm. PLoS computational biology. 13 [PubMed]

Sadeh S, Clopath C. (2020). Theory of neuronal perturbome in cortical networks Proceedings of the National Academy of Sciences of the United States of America. 117 [PubMed]

• A computational model of single-neuron perturbations (Sadeh and Clopath 2020) [Model]

Williams JC et al. (2013). Computational optogenetics: empirically-derived voltage- and light-sensitive channelrhodopsin-2 model. PLoS computational biology. 9 [PubMed]

• Voltage and light-sensitive Channelrhodopsin-2 model (ChR2) (Williams et al. 2013) [Model]
• Voltage and light-sensitive Channelrhodopsin-2 model (ChR2-H134R) (Williams et al. 2013) (NEURON) [Model]