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1. Parametric models for predicting nonstationary spike-spike correlations with local field potentials

   https://doi.org/10.1101/2025.07.28.667206  

   Tajik-Mansouri, Zeinab; Dion, James P; Escabí, Monty A; Stevenson, Ian H (July 2025, bioRxiv)

   Correlations between the spiking of pairs of neurons are often used to study the brain’s representation of sensory or motor variables and neural circuit function and dysfunction. Previous statistical techniques have shown how time-averaged spike-spike correlations can be predicted by the time-averaged relationships between the individual neurons and the local field potential (LFP). However, spiking and LFP are both nonstationary, and spike-spike correlations have nonstationary structure that cannot be accounted for by time-averaged approaches. Here we develop parametric models that predict spike-spike correlations using a small number of LFP-based predictors, and we then apply these models to the problem of tracking changes in spike-spike correlations over time. Parametric models allow for flexibility in the choice of which LFP recording channels and frequency bands to use for prediction, and coefficients directly indicate which LFP features drive correlated spiking. Here we demonstrate our methods in simulation and test the models on experimental data from large-scale multi-electrode recordings in the mouse hippocampus and visual cortex. In single time windows, we find that our parametric models can be as accurate as previous nonparametric approaches, while also being flexible and interpretable. We then demonstrate how parametric models can be applied to describe nonstationary spike-spike correlations measured in sequential time windows. We find that although the patterns of both cortical and hippocampal spike-spike correlations vary over time, these changes are, at least partially, predicted by models that assume a fixed spike-field relationship. This approach may thus help to better understand how the dynamics of spike-spike correlations are related to functional brain states. Since spike-spike correlations are increasingly used as features for decoding external variables from neural activity, these models may also have the potential to improve the accuracy of adaptive decoders and brain machine interfaces. 

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2. Spike-Based Anytime Perception

   https://doi.org/10.1109/WACV56688.2023.00526  

   Dutson, Matthew; Li, Yin; Gupta, Mohit (January 2023, IEEE)
3. Scalable Spike-and-Slab

   Biswas, Niloy; Mackey, Lester; Meng, Xiao-Li (July 2022, PMLR)

   Chaudhuri, Kamalika and (Ed.)

   Spike-and-slab priors are commonly used for Bayesian variable selection, due to their interpretability and favorable statistical properties. However, existing samplers for spike-and-slab posteriors incur prohibitive computational costs when the number of variables is large. In this article, we propose Scalable Spike-and-Slab (S^3), a scalable Gibbs sampling implementation for high-dimensional Bayesian regression with the continuous spike-and-slab prior of George & McCulloch (1993). For a dataset with n observations and p covariates, S^3 has order max{n^2 p_t, np} computational cost at iteration t where p_t never exceeds the number of covariates switching spike-and-slab states between iterations t and t-1 of the Markov chain. This improves upon the order n^2 p per-iteration cost of state-of-the-art implementations as, typically, p_t is substantially smaller than p. We apply S^3 on synthetic and real-world datasets, demonstrating orders of magnitude speed-ups over existing exact samplers and significant gains in inferential quality over approximate samplers with comparable cost. 

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4. SARS-CoV-2 spike-protein D614G mutation increases virion spike density and infectivity

   https://doi.org/10.1038/s41467-020-19808-4  

   Zhang, Lizhou; Jackson, Cody B.; Mou, Huihui; Ojha, Amrita; Peng, Haiyong; Quinlan, Brian D.; Rangarajan, Erumbi S.; Pan, Andi; Vanderheiden, Abigail; Suthar, Mehul S.; et al (December 2020, Nature Communications)

   null (Ed.)

   Abstract SARS-CoV-2 variants with spike (S)-protein D614G mutations now predominate globally. We therefore compare the properties of the mutated S protein (S G614 ) with the original (S D614 ). We report here pseudoviruses carrying S G614 enter ACE2-expressing cells more efficiently than those with S D614 . This increased entry correlates with less S1-domain shedding and higher S-protein incorporation into the virion. Similar results are obtained with virus-like particles produced with SARS-CoV-2 M, N, E, and S proteins. However, D614G does not alter S-protein binding to ACE2 or neutralization sensitivity of pseudoviruses. Thus, D614G may increase infectivity by assembling more functional S protein into the virion. 

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5. Uncovering Neuronal Networks Defined by Consistent between-Neuron Spike Timing from Neuronal Spike Recordings

   https://doi.org/10.1523/ENEURO.0379-17.2018  

   van der Meij, Roemer; Voytek, Bradley (January 2018, eneuro)

   It is widely assumed that distributed neuronal networks are fundamental to the functioning of the brain. Consistent spike timing between neurons is thought to be one of the key principles for the formation of these networks. This can involve synchronous spiking or spiking with time delays, forming spike sequences when the order of spiking is consistent. Finding networks defined by their sequence of time-shifted spikes, denoted here as spike timing networks, is a tremendous challenge. As neurons can participate in multiple spike sequences at multiple between-spike time delays, the possible complexity of networks is prohibitively large. We present a novel approach that is capable of (1) extracting spike timing networks regardless of their sequence complexity, and (2) that describes their spiking sequences with high temporal precision. We achieve this by decomposing frequency-transformed neuronal spiking into separate networks, characterizing each network’s spike sequence by a time delay per neuron, forming a spike sequence timeline. These networks provide a detailed template for an investigation of the experimental relevance of their spike sequences. Using simulated spike timing networks, we show network extraction is robust to spiking noise, spike timing jitter, and partial occurrences of the involved spike sequences. Using rat multi-neuron recordings, we demonstrate the approach is capable of revealing real spike timing networks with sub-millisecond temporal precision. By uncovering spike timing networks, the prevalence, structure, and function of complex spike sequences can be investigated in greater detail, allowing us to gain a better understanding of their role in neuronal functioning. 

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