[31] Michael F Bolus, Adam A Willats, Clarissa J Whitmire, Christopher J Rozell, and Garrett B Stanley. Design strategies for dynamic closed-loop optogenetic neurocontrol in vivo. Journal of Neural Engineering, 15(2):026011, 2018.
[32] Nishal Shah, Sasidhar Madugula, Pawel Hottowy, Alexander Sher, Alan Litke, Liam Paninski, and EJ Chichilnisky. Efficient characterization of electrically evoked responses for neural interfaces. Advances in Neural Information Processing Systems, 32, 2019.
[33] Michael F Bolus, Adam A Willats, Christopher J Rozell, and Garrett B Stanley. State-space optimal feedback control of optogenetically driven neural activity. Journal of Neural Engineering, 18(3):036006, 2021.
[34] Yuxiao Yang, Shaoyu Qiao, Omid G Sani, J Isaac Sedillo, Breonna Ferrentino, Biban Pesaran, and Maryam M Shanechi. Modelling and prediction of the dynamic responses of large-scale brain networks during direct electrical stimulation. Nature Biomedical Engineering, 5(4):324-345, 2021.
[35] Yashar Ahmadian, Adam M Packer, Rafael Yuste, and Liam Paninski. Designing optimal stimuli to control neuronal spike timing. Journal of Neurophysiology, 106(2):1038-1053, 2011.
[36] Tao Hu and Dmitri Chklovskii. Reconstruction of sparse circuits using multi-neuronal excitation (rescume). Advances in Neural Information Processing Systems, 22:790-798, 2009.
[37] Alyson K Fletcher, Sundeep Rangan, Lav R Varshney, and Aniruddha Bhargava. Neural reconstruction with approximate message passing (neuramp). Advances in Neural Information Processing Systems, 2011.
[38] Ben Shababo, Brooks Paige, Ari Pakman, and Liam Paninski. Bayesian inference and online experimental design for mapping neural microcircuits. Advances in Neural Information Processing Systems, 26:1304-1312, 2013.
[39] Alyson K Fletcher and Sundeep Rangan. Scalable inference for neuronal connectivity from calcium imaging. Advances in Neural Information Processing Systems, 2014.
[40] Laurence Aitchison, Lloyd Russell, Adam Packer, Jinyao Yan, Philippe Castonguay, Michael Häusser, and Srinivas C Turaga. Model-based bayesian inference of neural activity and connectivity from all-optical interrogation of a neural circuit. Advances in Neural Information Processing Systems, 2017.
[41] Anne Draelos and John Pearson. Online neural connectivity estimation with noisy group testing. Advances in Neural Information Processing Systems, 33, 2020.
[42] Marcus A Triplett, Marta Gajowa, Benjamin Antin, Masato Sadahiro, Hillel Adesnik, and Liam Paninski. Rapid learning of neural circuitry from holographic ensemble stimulation enabled by model-based compressed sensing. *bioRxiv*, page 507926, 2022.
[43] Yoav Printz, Pritish Patil, Mathias Mahn, Asaf Benjamin, Anna Litvin, Rivka Levy, Max Bringmann, and Ofer Yizhar. Determinants of functional synaptic connectivity among amygdala-projecting prefrontal cortical neurons in male mice. Nature Communications, 14(1):1667, 2023.
[44] Savitha Sridharan, Marta A Gajowa, Mora B Ogando, Uday K Jagadisan, Lamiae Abdeladim, Masato Sadahiro, Hayley A Bounds, William D Hendricks, Toby S Turney, Ian Tayler, et al. High-performance microbial opsins for spatially and temporally precise perturbations of large neuronal networks. Neuron, 2022.
[45] Christopher KI Williams and Carl Edward Rasmussen. Gaussian Processes for Machine Learning, volume 2. MIT Press Cambridge, MA, 2006.
[46] Paolo Bonifazi, Miri Goldin, Michel A Picardo, Isabel Jorquera, A Cattani, Gregory Bianconi, Alfonso Represa, Yehezkel Ben-Ari, and Rosa Cossart. Gabaergic hub neurons orchestrate synchrony in developing hippocampal networks. Science, 326(5958):1419-1424, 2009.
[47] Marco Bocchio, Claire Gouny, David Angulo-Garcia, Tom Toulat, Thomas Tressard, Eleonora Quiroli, Agnès Baude, and Rosa Cossart. Hippocampal hub neurons maintain distinct connectivity throughout their lifetime. Nature Communications, 11(1):4559, 2020.