Neural Information Processing Systems http://nips.cc/

Background and Objective: Advances in electron microscopy (EM) now allow three-dimensional (3D) imaging of hundreds of micrometers of tissue with nanometer-scale resolution, providing new opportunities to study the ultra-structure of the brain. In this work, we introduce a freely available Matlab-based gACSON software for visualization, segmentation, assessment, and morphology analysis of myelinated axons in 3D-EM volumes of brain tissue samples. Methods: The software is equipped with a graphical user interface (GUI). It automatically segments the intra-axonal space of myelinated axons and their corresponding myelin sheaths and allows manual segmentation, proofreading, and interactive correction of the segmented components. Results: We illustrate the use of the software by segmenting and analyzing myelinated axons in six 3D-EM volumes of rat somatosensory cortex after sham surgery or traumatic brain injury (TBI). Our results suggest that the equivalent diameter of myelinated axons in somatosensory cortex was decreased in TBI animals five months after the injury. Conclusions: Our results indicate that gACSON is a valuable tool for visualization, segmentation, assessment, and morphology analysis of myelinated axons in 3D-EM volumes. Introduction Assessing the structure of the brain is critical to better understanding its normal and abnormal functioning. Advances in electron microscopy (EM) now allow three-dimensional (3D) imaging of hundreds of micrometers of tissue with nanometer-scale resolution, providing new opportunities to study the ultrastructure of the brain [1, 2]. Quantitative analysis of 3D-EM data, such as morphological assessment of ultrastructure, spatial distribution or connectivity of cells, requires the instance segmentation of individual ultrastructural components [3, 4, 5]. Performing this segmentation manually is tedious, if not impossible, due to the large size and enormous number of components in typical 3D-EM data.

Tactile sensing remains far less understood in neuroscience and less effective in artificial systems compared to more mature modalities such as vision and language. We bridge these gaps by introducing a novel Encoder-Attender-Decoder (EAD) framework to systematically explore the space of task-optimized temporal neural networks trained on realistic tactile input sequences from a customized rodent whisker-array simulator. We identify convolutional recurrent neural networks (ConvRNNs) as superior encoders to purely feedforward and state-space architectures for tactile categorization. Crucially, these ConvRNN-encoder-based EAD models achieve neural representations closely matching rodent somatosensory cortex, saturating the explainable neural variability and revealing a clear linear relationship between supervised categorization performance and neural alignment. Furthermore, contrastive self-supervised ConvRNN-encoder-based EADs, trained with tactile-specific augmentations, match supervised neural fits, serving as an ethologically-relevant, label-free proxy. For neuroscience, our findings highlight nonlinear recurrent processing as important for general-purpose tactile representations in somatosensory cortex, providing the first quantitative characterization of the underlying inductive biases in this system. For embodied AI, our results emphasize the importance of recurrent EAD architectures to handle realistic tactile inputs, along with tailored self-supervised learning methods for achieving robust tactile perception with the same type of sensors animals use to sense in unstructured environments.

Simultaneous recordings of the activity of large neural populations are extremely valuable as they can be used to infer the dynamics and interactions of neurons in a local circuit, shedding light on the computations performed. It is now possible to measure the activity of hundreds of neurons using 2-photon calcium imaging. However, many computations are thought to involve circuits consisting of thousands of neurons, such as cortical barrels in rodent somatosensory cortex. Here we contribute a statistical method for "stitching" together sequentially imaged sets of neurons into one model by phrasing the problem as fitting a latent dynamical system with missing observations. This method allows us to substantially expand the population-sizes for which population dynamics can be characterized--beyond the number of simultaneously imaged neurons. In particular, we demonstrate using recordings in mouse somatosensory cortex that this method makes it possible to predict noise correlations between non-simultaneously recorded neuron pairs.

How much information does a neural population convey about a stimulus? Answers to this question are known to strongly depend on the correlation of response variability in neural populations. These noise correlations, however, are essentially immeasurable as the number of parameters in a noise correlation matrix grows quadratically with population size. Here, we suggest to bypass this problem by imposing a parametric model on a noise correlation matrix. Our basic assumption is that noise correlations arise due to common inputs between neurons.

Microvascular anatomy is known to be involved in various neurological disorders. However, understanding these disorders is hindered by the lack of imaging modalities capable of capturing the comprehensive three-dimensional vascular network structure at microscopic resolution. With a lateral resolution of $<=$20 {\textmu}m and ability to reconstruct large tissue blocks up to tens of cubic centimeters, serial-section optical coherence tomography (sOCT) is well suited for this task. This method uses intrinsic optical properties to visualize the vessels and therefore does not possess a specific contrast, which complicates the extraction of accurate vascular models. The performance of traditional vessel segmentation methods is heavily degraded in the presence of substantial noise and imaging artifacts and is sensitive to domain shifts, while convolutional neural networks (CNNs) require extensive labeled data and are also sensitive the precise intensity characteristics of the data that they are trained on. Building on the emerging field of synthesis-based training, this study demonstrates a synthesis engine for neurovascular segmentation in sOCT images. Characterized by minimal priors and high variance sampling, our highly generalizable method tested on five distinct sOCT acquisitions eliminates the need for manual annotations while attaining human-level precision. Our approach comprises two phases: label synthesis and label-to-image transformation. We demonstrate the efficacy of the former by comparing it to several more realistic sets of training labels, and the latter by an ablation study of synthetic noise and artifact models.

How much information does a neural population convey about a stimulus? Answers to this question are known to strongly depend on the correlation of response variability in neural populations. These noise correlations, however, are essentially immeasurable as the number of parameters in a noise correlation matrix grows quadratically with population size. Here, we suggest to bypass this problem by imposing a parametric model on a noise correlation matrix. Our basic assumption is that noise correlations arise due to common inputs between neurons.

The efficient coding hypothesis holds that neural receptive fields are adapted to the statistics of the environment, but is agnostic to the timescale of this adaptation, which occurs on both evolutionary and developmental timescales. In this work we focus on that component of adaptation which occurs during an organism's lifetime, and show that a number of unsupervised feature learning algorithms can account for features of normal receptive field properties across multiple primary sensory cortices. Furthermore, we show that the same algorithms account for altered receptive field properties in response to experimentally altered environmental statistics. Based on these modeling results we propose these models as phenomenological models of receptive field plasticity during an organism's lifetime. Finally, due to the success of the same models in multiple sensory areas, we suggest that these algorithms may provide a constructive realization of the theory, first proposed by Mountcastle [1], that a qualitatively similar learning algorithm acts throughout primary sensory cortices.

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A new study published in Frontiers in Neurorobotics demonstrates how a brain-computer interface enabled a quadriplegic man to feed himself for the first time in three decades by operating two robotic arms using his thoughts. Brain-computer interfaces (BCIs), also known as brain-machine interfaces (BMIs) are neurotechnology powered by artificial intelligence (AI) that enables those with speech or motor challenges to live more independently. "This demonstration of bimanual robotic system control via a BMI in collaboration with intelligent robot behavior has major implications for restoring complex movement behaviors for those living with sensorimotor deficits," wrote the authors of the study. This study was led by principal investigator Pablo A. Celnik, M.D., of Johns Hopkins Medicine, as part of a clinical trial with an approved Food and Drug Administration Investigational Device Exemption. A partially paralyzed quadriplegic 49-year-old man living with a spinal cord injury for around 30 years prior to the study was implanted with six Blackrock Neurotech NeuroPort electrode arrays in the motor and somatosensory cortices in both the left and right brain to record his neural activity.