Ziqiang Wei
Statistical minds of neuroscience
[postdoc, computational and statistical neuroscientist]
Research portfolio
Geometry of brain dynamics
State-space models
Optimal control of adaptive behavior
Circuit computation in spiking networks
News
- [2026/04/14] [Preprint] 4-minute read of our preprint on predictive oxygen regulation
- [2026/03/15] [Cosyne 2026] Xueying Yang reveals that infection-induced sickness isn't just feeling tired—it’s a global brain reconfiguration.
- [2023/05/02] Faces of Cell (Cell Press)
Internal and metabolic states
- • Zhang, R.*, Wei, Z.*, How, J. J., Nardin, M., Narayan, S., et al.. A neuron-glia circuit anticipates hypoxia to regulate organismal oxygen use (under revision).
- • Lim, J. X.*, Wei, Z.*, Narayan, S., Zhang, Y., Hasseman, J. P., et al. (2026). Astrocyte-induced internal state transitions reshape brainwide sensory, integrative, and motor computations. bioRxiv.
Statistical neuroscience
- • Koh, T. H., Bishop, W. E., Kawashima, T., Jeon, B. B., Srinivasan, R., Mu, Y., Wei, Z., et al. (2023). Dimensionality reduction of calcium-imaged neuronal population activity. Nature Computational Science.
- • Hernandez, D., Moretti, A. K., Saxena, S., Wei, Z., Cunningham, J., & Paninski, L. (2020). Nonlinear evolution via spatially-dependent linear dynamics for electrophysiology and calcium data. NBDT 1(7).
- • Wan, Y., Wei, Z., Looger, L. L., Koyama, M., et al. (2019). Single-cell reconstruction of emerging population activity in an entire developing circuit. Cell 179(2). [Git] [Preview] [Nature news & views] [News]
- • Wei, Z., Inagaki, H., Li, N., Svoboda, K., & Druckmann, S. (2019). An orderly single-trial organization of population dynamics in premotor cortex predicts behavioral variability. Nature Communications 10(216). [Git] [Early version]
- • Hernandez, D., Moretti, A. K., Wei, Z., Saxena, S., Cunningham, J., & Paninski, L. (2018). A novel variational family for hidden nonlinear Markov models. arXiv:1811.02459.
Computational neuroscience
- • Kawashima, T.*#, Wei, Z.*#, Haruvi, R., Shainer, I., Narayan, S., Baier, H., & Ahrens, M. B.# (2025). Voltage imaging reveals circuit computations in the raphe underlying serotonin-mediated motor vigor learning. Neuron 113(16), 2692-2707.e8. [Git#1] [Git#2]
- • Yang, E., Zwart, M. F., James, B., Rubinov, M., Wei, Z., et al. (2022). A brainstem integrator for self-location memory and positional homeostasis in zebrafish. Cell, 185(26), 5011-5027. [Talk] [Early version]
- • Arkhipov, A., Gouwens, N. W., Billeh, Y. N., Gratiy, S., Iyer, R., Wei, Z., et al. (2018). Visual physiology of the layer 4 cortical circuit in silico. PLOS Computational Biology, 14(11), e1006535. [Git#1] [Git#2]
- • Wei, Z. & Wang, X. J. (2015). Confidence estimation as a stochastic process in a neurodynamical system of decision making. Journal of Neurophysiology, 114(1), 99-113. [Git]
- • Wei, Z., Wang, X. J., & Wang, D. H. (2012). From distributed resources to limited slots in multiple-item working memory: a spiking network model with normalization. Journal of Neuroscience, 32(33), 11228-11240. [Git] [Journal club]
Methods and technologies
- • Chen, W., James, B., Ruetten, V. M. S., Banala, S., Wei, Z., et al. (2025). Whole-brain, all-optical interrogation of neuronal dynamics underlying gut interoception in zebrafish. bioRxiv.
- • Zhang, Y., Rózsa, M., Liang, Y., Bushey, D., Wei, Z., et al. (2023). Fast and sensitive GCaMP calcium indicators for imaging neural populations. Nature. [Early version] [News & Views Forum] [Git]
- • Wei, Z., Lin, B. J., Chen, T. W., Daie, K., Svoboda, K., & Druckmann, S. (2020). A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology. PLOS Computational Biology, 16(9), e1008198. [Early version] [Website] [Git#1] [Git#2] [Git-API] [Git-Website]
Books and reviews
Multi-agents and statistical physics
- • Wei, Z., Hong, Y., & Wang, D. (2009). The phase diagram and the pathway of phase transitions for traffic flow in a circular one-lane roadway. Physica A: Statistical Mechanics and its Applications, 388(8), 1665-1672.
- • Dahui, W., Ziqiang, W., & Ying, F. (2007). Hysteresis phenomena of the intelligent driver model for traffic flow. Physical Review E, 76(1), 016105.
Statistical neuroscience
Computational neuroscience
- • 2018: Summer Graduate School on Mathematical Analysis of Behavior (Janelia Research Campus) git repo
Community-based resources
Git Repos
Data sharing
- • Kawashima, T., Wei, Z., Haruvi, R., Shainer, I., Narayan, S., Baier, H., & Ahrens, M. B. (2025). Voltage imaging reveals circuit computations in the raphe underlying serotonin-mediated motor vigor learning. Mendeley Data. [The detailed information is on the website]
- • Wei, Z., Lin, BJ., Chen, TW., Daie, K., Svoboda, K., Druckmann, S. (2020): Raw data for "A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology". figshare. Dataset. [https://doi.org/10.6084/m9.figshare.12792587]
- • Wei, Z., Lin, BJ., Chen, TW., Daie, K., Svoboda, K., Druckmann, S. (2020): Precompiled data for "A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology". figshare. Dataset. [https://doi.org/10.6084/m9.figshare.12786296.v1]
- • http://im-phys.org/data
- • Wei, Z., Inagaki, H., Li, N., Svoboda, K., & Druckmann, S. (2018). Simultaneous extracellular electrophysiology data. [DOI: 10.6084/m9.figshare.7372898]