Search bioRxiv⌕ Search

bioRxiv · 10.1101/2024.05.22.595429

Quantifying Population-level Neural Tuning Functions Using Ricker Wavelets and the Bayesian Bootstrap

Abstract

Experience changes the tuning of sensory neurons, including neurons in retinotopic visual cortex, as evident from work in humans and non-human animals. In human observers, visuo-cortical re-tuning has been studied during aversive generalization learning paradigms, in which the similarity of generalization stimuli (GSs) with a conditioned threat cue (CS+) is used to quantify tuning functions. This work utilized pre-defined tuning shapes reflecting prototypical generalization (Gaussian) and sharpening (Difference-of-Gaussians) patterns. This approach may constrain the ways in which re-tuning can be characterized, for example if tuning patterns do not match the prototypical functions or represent a mixture of functions. The present study proposes a flexible and data-driven method for precisely quantifying changes in neural tuning based on the Ricker wavelet function and the Bayesian bootstrap. The method is illustrated using data from a study in which university students (n = 31) performed an aversive generalization learning task. Oriented gray-scale gratings served as CS+ and GSs and a white noise served as the unconditioned stimulus (US). Acquisition and extinction of the aversive contingencies were examined, while steady-state visual event potentials (ssVEP) and alpha-band (8-13 Hz) power were measured from scalp EEG. Results showed that the Ricker wavelet model fitted the ssVEP and alpha-band data well. The pattern of re-tuning in ssVEP amplitude across the stimulus gradient resembled a generalization (Gaussian) shape in acquisition and a sharpening (Difference-of-Gaussian) shape in an extinction phase. As expected, the pattern of re-tuning in alpha-power took the form of a generalization shape in both phases. The Ricker-based approach led to greater Bayes factors and more interpretable results compared to prototypical tuning models. The results highlight the promise of the current method for capturing the precise nature of visuo-cortical tuning functions, unconstrained by the exact implementation of prototypical a-priori models. HighlightsO_LITuning functions are a common way for describing sensory responses, primarily in the visual cortex. C_LIO_LIThe quantification and interpretation of tuning functions has faced computational and conceptual problems. C_LIO_LIWe demonstrated how the Ricker function can be used as a simple and interpretable way for measuring tuning functions. C_LIO_LIWe applied a Ricker function together with a Bayesian Bootstrap approach across a gradient of stimulus features in a generalization conditioning task to characterize visual tuning in the human EEG data. C_LI

Source connections

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Ahumada, L., Panitz, C., Gilbert, F., Traiser, C., Ding, M., Keil, A.. 2024-05-23. Quantifying Population-level Neural Tuning Functions Using Ricker Wavelets and the Bayesian Bootstrap. https://doi.org/10.1101/2024.05.22.595429

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related preprints

The Unreasonable Effectiveness of Cell Types in Describing Neuronal Physiological Features

Single-cell RNA sequencing (scRNA-seq) captures detailed gene expression profiles at scale, while patch-clamp recordings measure intrinsic neuronal electrophysiological properties. Modeling the relations between these two modalities remains a challenge. Here, we compare how well electrophysiological features can be predicted by traditional transcriptomic cell type classification, representations derived from a foundational model (scGPT) pretrained on large-scale scRNA-seq datasets, ion channel-coding genes, and highly variable genes. Using paired transcriptomic and electrophysiological patch-sequencing data from 495 human neurons from neurosurgical tissue, we find that cluster-level cell type representations consistently outperform highly variable gene selection, ion channel gene selection, and context-enriched scGPT embeddings. Notably, performance varies across model architectures and initializations, and the best results are obtained by combining the outputs of separate cell type and scGPT-based models. Together, these findings suggest that traditional discrete cellular classification is highly effective in predicting physiological features. For maximum performance it can be complemented by pretrained transformer models.

neuroscience↗

A nonlinear inhibition pathway underlying cortical responses to tuned holographic optogenetic perturbations

Optogenetics enables causal manipulation of cortical activity. Perturbation responses can be counterintuitive due to network interactions, making theory essential for predicting them. Existing approaches often rely on linear approximations, which fail for many biologically relevant perturbations. Here we develop a nonlinear theory of responses to holographic perturbations in cell-type-specific recurrent networks with structured connectivity. We fit a nonlinear model to mouse V1 data, which shows cotuned-ensemble suppression: perturbing spatially clustered neurons with similar preferred orientations yields markedly stronger short-range suppression than perturbing untuned ensembles. We show that cotuned-ensemble suppression arises from a feature-tuned, nonlinear inhibition pathway implicating somatostatin-positive (SST) interneurons. The theory predicts that cotuned ensembles suppress parvalbumin-positive (PV) neurons but facilitate SST neurons, and links the degree of cotuned-ensemble suppression or facilitation to the variance of the SST response. This framework identifies mechanisms by which nonlinear inhibition sculpts cortical dynamics and establishes a predictive basis for targeted optogenetic interventions.

neuroscience↗

Proteomic signatures of APOE ε4 across human tissues and cell types in Alzheimers disease

The apolipoprotein E {varepsilon}4 (APOE {varepsilon}4) allele is the strongest genetic risk factor for late-onset Alzheimers disease (AD). However, the underlying molecular mechanisms remain unclear. This study included 1691 participants from the Religious Orders Study and Rush Memory and Aging Project (ROSMAP), 1226 participants from the Accelerating Medicines Partnership - Alzheimers Disease (AMP-AD) Diverse Cohorts Study, and 735 participants from the Alzheimers Disease Neuroimaging Initiative (ADNI). To characterise APOE {varepsilon}4 molecular effects, we analysed proteomic data from plasma, cerebrospinal fluid (CSF), and induced pluripotent stem cell (iPSC)-derived astrocytes and neurons, as well as transcriptomic and proteomic data from multiple brain regions. The association of APOE {varepsilon}4 with AD neuropathology was also examined. APOE {varepsilon}4 carriers shared a plasma proteomic signature enriched for immune processes, irrespective of AD diagnosis. A machine learning classifier trained on this signature discriminated APOE {varepsilon}4 carriers from non-carriers in an independent cohort using CSF proteomics. APOE {varepsilon}4 carriage was associated with higher Braak stages and Consortium to Establish a Registry for Alzheimers Disease (CERAD) score. However, only limited APOE {varepsilon}4-associated transcriptomic and proteomic changes were observed in bulk brain tissue, with poor cross-layer concordance. Proteomic analyses of iPSC-derived astrocytes and neurons further revealed cell-type-specific APOE {varepsilon}4-associated changes. APOE {varepsilon}4 is associated with a consistent proteomic signature across plasma and CSF. Its molecular effects in the brain differ across cell types, brain regions and molecular layers. These findings support the need for cell-type-resolved multi-omic studies to elucidate how APOE {varepsilon}4 confers AD risk.

neuroscience↗