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Ballbe, J.

Publications and source records attributed to Ballbe, J..

2 recordsLinked to original sources

Heterogeneity of functional cellular properties for neurons in mouse cerebral cortex

1Biological systems are known to exhibit a high degree of heterogeneity in their constituent components and their organization, and neuronal systems are no exceptions. To understand the functional impact of this heterogeneity in the brain, network models need to consider how this is manifested at the level of cellular properties, and thus how to consider variability in reported experimental data. Many studies have pointed out the variability in neuronal density, structural organization or synaptic connectivity across different neuronal networks and populations. Similarly, neuronal physiological properties are known to greatly vary across neuronal populations. Yet, the characterization of electrophysiological diversity has mainly relied on descriptions of firing properties (e.g. bursting, spike frequency adaptation) with various quantitative definitions of the boundaries between neuronal classes (e.g. fast spiking, regular spiking). Furthermore, lab specific implementations of experimental design and data analysis are an obstacle for comparisons between studies. In this context, the quantitative consideration of neuronal variability across commonly accepted neuronal classes provides an objective approach to describe neuronal physiological heterogeneity. We analyzed several publicly available databases to characterize the variability of linear and input/output properties of cortical neurons, according to multiple factors covering the entire cortical neuronal population. We assessed the variability of the main cortical neuron types (Excitatory, PValb, Sst, Htr3a, Vip), revealing their heterogeneity as function of cortical area (primary visual, motor and somato-sensory areas), including between layers within a given area. Our comparative database study revealed that different experimental conditions (e.g., in-vitro vs. in-vivo, recording temperature) can influence the properties of any given cell type, while preserving overall differences between types. We find that considering the input to a given neuron in terms of the effective voltage response of a linear model can account for some of the heterogeneity of I/O properties, and suggest that these properties are directly linked to cell input resistance, thus cell size. This works constitute a strong foundation for the consideration of detailed neuronal electrophysiological heterogeneity in future large-scale modeling works.

neuroscience↗

A trace-based analysis pipeline for coherent and optimized electrophysiological data analysis

1The development of large-scale neuronal networks notably relies on the use of point-neuron models to reduce the computational cost of simulations while focusing on integrative neuronal properties. However, the precise tuning of these neuron models remains a major aspect of modeling work to accurately reproduce neuronal properties and understand their implications in network activity. To this end, the precise characterization of neuronal electrophysiological properties, from linear properties to the input-output (I/O) relationship and spike frequency adaptation, from intracellular recordings is a crucial step. Furthermore, the increasing availability of publicly accessible databases opens the possibility of deriving I/O properties for point-neuron models from multiple datasets studying different neuronal populations. However, despite recent advancements in establishing universal data formats for electrophysiological studies, challenges persist due to the absence of standardized protocols (notably for current-clamp experiments) and unified data analysis methods, hindering cross-database comparisons of electrophysiological features. To address these limitations, we developed the TACO pipeline, a free, Python-based pipeline for analyzing databases of current-clamp recordings. The TACO pipeline is designed to be user-friendly, minimizing the need for manual implementation of database-specific data extraction methods and enabling the application of user-defined quality control criteria. The pipeline incorporates robust methods for characterizing neuronal I/O relationships, spike-related feature adaptation, and estimating common experimental artifacts such as bridge errors. These methods have been designed to accommodate variability in database-specific experimental design, the sampling of the input space being of particular importancee. We validated the utility of this approach by demonstrating performance comparable to or exceeding that of machine learning models reported in the literature for neuronal type classification, using protocol-agnostic features extracted by the pipeline. This work highlights the potential of database-independent data analysis tools to enhance cross-database comparability and interoperability, advancing research sustainability and promoting the principles of Open Science.

neuroscience↗