One-dimensional dynamics of attention and decision making in LIP

Applications of information geometry to spiking neural network activity

The space of possible behaviors that complex biological systems may exhibit is unimaginably vast, and these systems often appear to be stochastic, whether due to variable noisy environmental inputs or intrinsically generated chaos. The brain is a prominent example of a biological system with complex behaviors. The number of possible patterns of spikes emitted by a local brain circuit is combinatorially large, although the brain may not make use of all of them. Understanding which of these possible patterns are actually used by the brain, and how those sets of patterns change as properties of neural circuitry change is a major goal in neuroscience. Recently, tools from information geometry have been used to study embeddings of probabilistic models onto a hierarchy of model manifolds that encode how model outputs change as a function of their parameters, giving a quantitative notion of "distances" between outputs. We apply this method to a network model of excitatory and inhibitory neural populations to understand how the competition between membrane and synaptic response timescales shapes the network's information geometry. The hyperbolic embedding allows us to identify the statistical parameters to which the model behavior is most sensitive, and demonstrate how the ranking of these coordinates changes with the balance of excitation and inhibition in the network.

Goal-seeking compresses neural codes for space in the human hippocampus and orbitofrontal cortex

Humans can navigate flexibly to meet their goals. Here, we asked how the neural representation of allocentric space is distorted by goal-directed behavior. Participants navigated an agent to two successive goal locations in a grid world environment comprising four interlinked rooms, with a contextual cue indicating the conditional dependence of one goal location on another. Examining the neural geometry by which room and context were encoded in fMRI signals, we found that map-like representations of the environment emerged in both hippocampus and neocortex. Cognitive maps in hippocampus and orbitofrontal cortices were compressed so that locations cued as goals were coded together in neural state space, and these distortions predicted successful learning. This effect was captured by a computational model in which current and prospective locations are jointly encoded in a place code, providing a theory of how goals warp the neural representation of space in macroscopic neural signals.

Optimal information loading into working memory explains dynamic coding in the prefrontal cortex

Working memory involves the short-term maintenance of information and is critical in many tasks. The neural circuit dynamics underlying working memory remain poorly understood, with different aspects of prefrontal cortical (PFC) responses explained by different putative mechanisms. By mathematical analysis, numerical simulations, and using recordings from monkey PFC, we investigate a critical but hitherto ignored aspect of working memory dynamics: information loading. We find that, contrary to common assumptions, optimal loading of information into working memory involves inputs that are largely orthogonal, rather than similar, to the late delay activities observed during memory maintenance, naturally leading to the widely observed phenomenon of dynamic coding in PFC. Using a theoretically principled metric, we show that PFC exhibits the hallmarks of optimal information loading. We also find that optimal information loading emerges as a general dynamical strategy in task-optimized recurrent neural networks. Our theory unifies previous, seemingly conflicting theories of memory maintenance based on attractor or purely sequential dynamics and reveals a normative principle underlying dynamic coding.

Abstraction of Reward Context Facilitates Relative Reward Coding in Neural Populations of the Macaque Anterior Cingulate Cortex

The anterior cingulate cortex (ACC) is believed to be involved in many cognitive processes, including linking goals to actions and tracking decision-relevant contextual information. ACC neurons robustly encode expected outcomes, but how this relates to putative functions of ACC remains unknown. Here, we approach this question from the perspective of population codes by analyzing neural spiking data in the ventral and dorsal banks of the ACC in two male monkeys trained to perform a stimulus-motor mapping task to earn rewards or avoid losses. We found that neural populations favor a low dimensional representational geometry that emphasizes the valence of potential outcomes while also facilitating the independent, abstract representation of multiple task-relevant variables. Valence encoding persisted throughout the trial, and realized outcomes were primarily encoded in a relative sense, such that cue valence acted as a context for outcome encoding. This suggests that the population coding we observe could be a mechanism that allows feedback to be interpreted in a context-dependent manner. Together, our results point to a prominent role for ACC in context setting and relative interpretation of outcomes, facilitated by abstract, or untangled, representations of task variables.SIGNIFICANCE STATEMENT The ability to interpret events in light of the current context is a critical facet of higher-order cognition. The ACC is suggested to be important for tracking contextual information, whereas alternate views hold that its function is more related to the motor system and linking goals to appropriate actions. We evaluated these possibilities by analyzing geometric properties of neural population activity in monkey ACC when contexts were determined by the valence of potential outcomes and found that this information was represented as a dominant, abstract concept. Ensuing outcomes were then coded relative to these contexts, suggesting an important role for these representations in context-dependent evaluation. Such mechanisms may be critical for the abstract reasoning and generalization characteristic of biological intelligence.

Functional network properties of the auditory cortex

The auditory system transforms auditory stimuli from the external environment into perceptual auditory objects. Recent studies have focused on the contribution of the auditory cortex to this transformation. Other studies have yielded important insights into the contributions of neural activity in the auditory cortex to cognition and decision-making. However, despite this important work, the relationship between auditory-cortex activity and behavior/perception has not been fully elucidated. Two of the more important gaps in our understanding are (1) the specific and differential contributions of different fields of the auditory cortex to auditory perception and behavior and (2) the way networks of auditory neurons impact and facilitate auditory information processing. Here, we focus on recent work from non-human-primate models of hearing and review work related to these gaps and put forth challenges to further our understanding of how single-unit activity and network activity in different cortical fields contribution to behavior and perception.

Evolution of neural activity in circuits bridging sensory and abstract knowledge

The ability to associate sensory stimuli with abstract classes is critical for survival. How are these associations implemented in brain circuits? And what governs how neural activity evolves during abstract knowledge acquisition? To investigate these questions, we consider a circuit model that learns to map sensory input to abstract classes via gradient-descent synaptic plasticity. We focus on typical neuroscience tasks (simple, and context-dependent, categorization), and study how both synaptic connectivity and neural activity evolve during learning. To make contact with the current generation of experiments, we analyze activity via standard measures such as selectivity, correlations, and tuning symmetry. We find that the model is able to recapitulate experimental observations, including seemingly disparate ones. We determine how, in the model, the behaviour of these measures depends on details of the circuit and the task. These dependencies make experimentally testable predictions about the circuitry supporting abstract knowledge acquisition in the brain.

An approximate line attractor in the hypothalamus encodes an aggressive state

The hypothalamus regulates innate social behaviors, including mating and aggression. These behaviors can be evoked by optogenetic stimulation of specific neuronal subpopulations within MPOA and VMHvl, respectively. Here, we perform dynamical systems modeling of population neuronal activity in these nuclei during social behaviors. In VMHvl, unsupervised analysis identified a dominant dimension of neural activity with a large time constant (>50 s), generating an approximate line attractor in neural state space. Progression of the neural trajectory along this attractor was correlated with an escalation of agonistic behavior, suggesting that it may encode a scalable state of aggressiveness. Consistent with this, individual differences in the magnitude of the integration dimension time constant were strongly correlated with differences in aggressiveness. In contrast, approximate line attractors were not observed in MPOA during mating; instead, neurons with fast dynamics were tuned to specific actions. Thus, different hypothalamic nuclei employ distinct neural population codes to represent similar social behaviors.

Streaming Variational Monte Carlo

Nonlinear state-space models are powerful tools to describe dynamical structures in complex time series. In a streaming setting where data are processed one sample at a time, simultaneous inference of the state and its nonlinear dynamics has posed significant challenges in practice. We develop a novel online learning framework, leveraging variational inference and sequential Monte Carlo, which enables flexible and accurate Bayesian joint filtering. Our method provides an approximation of the filtering posterior which can be made arbitrarily close to the true filtering distribution for a wide class of dynamics models and observation models. Specifically, the proposed framework can efficiently approximate a posterior over the dynamics using sparse Gaussian processes, allowing for an interpretable model of the latent dynamics. Constant time complexity per sample makes our approach amenable to online learning scenarios and suitable for real-time applications.

Performance-gated deliberation: A context-adapted strategy in which urgency is opportunity cost

Finding the right amount of deliberation, between insufficient and excessive, is a hard decision making problem that depends on the value we place on our time. Average-reward, putatively encoded by tonic dopamine, serves in existing reinforcement learning theory as the opportunity cost of time, including deliberation time. Importantly, this cost can itself vary with the environmental context and is not trivial to estimate. Here, we propose how the opportunity cost of deliberation can be estimated adaptively on multiple timescales to account for non-stationary contextual factors. We use it in a simple decision-making heuristic based on average-reward reinforcement learning (AR-RL) that we call Performance-Gated Deliberation (PGD). We propose PGD as a strategy used by animals wherein deliberation cost is implemented directly as urgency, a previously characterized neural signal effectively controlling the speed of the decision-making process. We show PGD outperforms AR-RL solutions in explaining behaviour and urgency of non-human primates in a context-varying random walk prediction task and is consistent with relative performance and urgency in a context-varying random dot motion task. We make readily testable predictions for both neural activity and behaviour.

Orthogonal representations for robust context-dependent task performance in brains and neural networks

How do neural populations code for multiple, potentially conflicting tasks? Here we used computational simulations involving neural networks to define "lazy" and "rich" coding solutions to this context-dependent decision-making problem, which trade off learning speed for robustness. During lazy learning the input dimensionality is expanded by random projections to the network hidden layer, whereas in rich learning hidden units acquire structured representations that privilege relevant over irrelevant features. For context-dependent decision-making, one rich solution is to project task representations onto low-dimensional and orthogonal manifolds. Using behavioral testing and neuroimaging in humans and analysis of neural signals from macaque prefrontal cortex, we report evidence for neural coding patterns in biological brains whose dimensionality and neural geometry are consistent with the rich learning regime.

Adaptive erasure of spurious sequences in sensory cortical circuits

Sequential activity reflecting previously experienced temporal sequences is considered a hallmark of learning across cortical areas. However, it is unknown how cortical circuits avoid the converse problem: producing spurious sequences that are not reflecting sequences in their inputs. We develop methods to quantify and study sequentiality in neural responses. We show that recurrent circuit responses generally include spurious sequences, which are specifically prevented in circuits that obey two widely known features of cortical microcircuit organization: Dale’s law and Hebbian connectivity. In particular, spike-timing-dependent plasticity in excitation-inhibition networks leads to an adaptive erasure of spurious sequences. We tested our theory in multielectrode recordings from the visual cortex of awake ferrets. Although responses to natural stimuli were largely non-sequential, responses to artificial stimuli initially included spurious sequences, which diminished over extended exposure. These results reveal an unexpected role for Hebbian experience-dependent plasticity and Dale’s law in sensory cortical circuits.

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Recurrent circuits generate spurious sequences without sequential inputs

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A principled measure of total sequentiality in population responses is developed

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Theory predicts that Hebbian plasticity should abolish spurious sequences

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Spurious sequences in the visual cortex diminish with experience

From Parametric Representation to Dynamical System: Shifting Views of the Motor Cortex in Motor Control

In contrast to traditional representational perspectives in which the motor cortex is involved in motor control via neuronal preference for kinetics and kinematics, a dynamical system perspective emerging in the last decade views the motor cortex as a dynamical machine that generates motor commands by autonomous temporal evolution. In this review, we first look back at the history of the representational and dynamical perspectives and discuss their explanatory power and controversy from both empirical and computational points of view. Here, we aim to reconcile the above perspectives, and evaluate their theoretical impact, future direction, and potential applications in brain-machine interfaces.

Functional Implications of Dale's Law in Balanced Neuronal Network Dynamics and Decision Making

The notion that a neuron transmits the same set of neurotransmitters at all of its post-synaptic connections, typically known as Dale's law, is well supported throughout the majority of the brain and is assumed in almost all theoretical studies investigating the mechanisms for computation in neuronal networks. Dale's law has numerous functional implications in fundamental sensory processing and decision-making tasks, and it plays a key role in the current understanding of the structure-function relationship in the brain. However, since exceptions to Dale's law have been discovered for certain neurons and because other biological systems with complex network structure incorporate individual units that send both positive and negative feedback signals, we investigate the functional implications of network model dynamics that violate Dale's law by allowing each neuron to send out both excitatory and inhibitory signals to its neighbors. We show how balanced network dynamics, in which large excitatory and inhibitory inputs are dynamically adjusted such that input fluctuations produce irregular firing events, are theoretically preserved for a single population of neurons violating Dale's law. We further leverage this single-population network model in the context of two competing pools of neurons to demonstrate that effective decision-making dynamics are also produced, agreeing with experimental observations from honeybee dynamics in selecting a food source and artificial neural networks trained in optimal selection. Through direct comparison with the classical two-population balanced neuronal network, we argue that the one-population network demonstrates more robust balanced activity for systems with less computational units, such as honeybee colonies, whereas the two-population network exhibits a more rapid response to temporal variations in network inputs, as required by the brain. We expect this study will shed light on the role of neurons violating Dale's law found in experiment as well as shared design principles across biological systems that perform complex computations.

Quantifying the impact of network structure on speed and accuracy in collective decision-making

Found in varied contexts from neurons to ants to fish, binary decision-making is one of the simplest forms of collective computation. In this process, information collected by individuals about an uncertain environment is accumulated to guide behavior at the aggregate scale. We study binary decision-making dynamics in networks responding to inputs with small signal-to-noise ratios, looking for quantitative measures of collectivity that control performance in this task. We find that decision accuracy is directly correlated with the speed of collective dynamics, which is in turn controlled by three factors: the leading eigenvalue of the network adjacency matrix, the corresponding eigenvector's participation ratio, and distance from the corresponding symmetry-breaking bifurcation. A novel approximation of the maximal attainable timescale near such a bifurcation allows us to predict how decision-making performance scales in large networks based solely on their spectral properties. Specifically, we explore the effects of localization caused by the hierarchical assortative structure of a "rich club" topology. This gives insight into the trade-offs involved in the higher-order structure found in living networks performing collective computations.

Neural state space alignment for magnitude generalization in humans and recurrent networks

A prerequisite for intelligent behavior is to understand how stimuli are related and to generalize this knowledge across contexts. Generalization can be challenging when relational patterns are shared across contexts but exist on different physical scales. Here, we studied neural representations in humans and recurrent neural networks performing a magnitude comparison task, for which it was advantageous to generalize concepts of "more" or "less" between contexts. Using multivariate analysis of human brain signals and of neural network hidden unit activity, we observed that both systems developed parallel neural "number lines" for each context. In both model systems, these number state spaces were aligned in a way that explicitly facilitated generalization of relational concepts (more and less). These findings suggest a previously overlooked role for neural normalization in supporting transfer of a simple form of abstract relational knowledge (magnitude) in humans and machine learning systems.

Estimating Fisher discriminant error in a linear integrator model of neural population activity

Decoding approaches provide a useful means of estimating the information contained in neuronal circuits. In this work, we analyze the expected classification error of a decoder based on Fisher linear discriminant analysis. We provide expressions that relate decoding error to the specific parameters of a population model that performs linear integration of sensory input. Results show conditions that lead to beneficial and detrimental effects of noise correlation on decoding. Further, the proposed framework sheds light on the contribution of neuronal noise, highlighting cases where, counter-intuitively, increased noise may lead to improved decoding performance. Finally, we examined the impact of dynamical parameters, including neuronal leak and integration time constant, on decoding. Overall, this work presents a fruitful approach to the study of decoding using a comprehensive theoretical framework that merges dynamical parameters with estimates of readout error.

Interaction between neuronal encoding and population dynamics during categorization task switching in parietal cortex

Primates excel at categorization, a cognitive process for assigning stimuli into behaviorally relevant groups. Categories are encoded in multiple brain areas and tasks, yet it remains unclear how neural encoding and dynamics support cognitive tasks with different demands. We recorded from parietal cortex during flexible switching between categorization tasks with distinct cognitive and motor demands and also studied recurrent neural networks (RNNs) trained on the same tasks. In the one-interval categorization task (OIC), monkeys rapidly reported their decisions with a saccade. In the delayed match-to-category (DMC) task, monkeys decided whether sequentially presented stimuli were categorical matches. Neuronal category encoding generalized across tasks, but categorical encoding was more binary-like in the DMC task and more graded in the OIC task. Furthermore, analysis of trained RNNs supports the hypothesis that binary-like encoding in DMC arises through compression of graded feature encoding by attractor dynamics underlying stimulus maintenance and/or comparison in working memory.

Biased Neural Representation of Feature-Based Attention in the Human Frontoparietal Network

Selective attention is a core cognitive function for efficient processing of information. Although it is well known that attention can modulate neural responses in many brain areas, the computational principles underlying attentional modulation remain unclear. Contrary to the prevailing view of a high-dimensional, distributed neural representation, here we show a surprisingly simple, biased neural representation for feature-based attention in a large dataset including five human fMRI studies. We found that when human participants (both sexes) selected one feature from a compound stimulus, voxels in many cortical areas responded consistently higher to one attended feature over the other. This univariate bias was consistent across brain areas within individual subjects. Importantly, this univariate bias showed a progressively stronger magnitude along the cortical hierarchy. In frontoparietal areas, the bias was strongest and contributed largely to pattern-based decoding, whereas early visual areas lacked such a bias. These findings suggest a gradual transition from a more analog to a more abstract representation of attentional priority along the cortical hierarchy. Biased neural responses in high-level areas likely reflect a low-dimensional neural code that can facilitate a robust representation and simple readout of cognitive variables.SIGNIFICANCE STATEMENT It is typically assumed that cognitive variables are represented by distributed population activities. Although this view is rooted in decades of work in the sensory system, it has not been rigorously tested at different levels of cortical hierarchy. Here we show a novel, low-dimensional coding scheme that dominated the representation of feature-based attention in frontoparietal areas. The simplicity of such a biased code may confer a robust representation of cognitive variables, such as attentional selection, working memory, and decision-making.

Variational Online Learning of Neural Dynamics

New technologies for recording the activity of large neural populations during complex behavior provide exciting opportunities for investigating the neural computations that underlie perception, cognition, and decision-making. Non-linear state space models provide an interpretable signal processing framework by combining an intuitive dynamical system with a probabilistic observation model, which can provide insights into neural dynamics, neural computation, and development of neural prosthetics and treatment through feedback control. This brings with it the challenge of learning both latent neural state and the underlying dynamical system because neither are known for neural systems a priori. We developed a flexible online learning framework for latent non-linear state dynamics and filtered latent states. Using the stochastic gradient variational Bayes approach, our method jointly optimizes the parameters of the non-linear dynamical system, the observation model, and the black-box recognition model. Unlike previous approaches, our framework can incorporate non-trivial distributions of observation noise and has constant time and space complexity. These features make our approach amenable to real-time applications and the potential to automate analysis and experimental design in ways that testably track and modify behavior using stimuli designed to influence learning.

Development and evaluation of an artificial intelligence system for COVID-19 diagnosis

Early detection of COVID-19 based on chest CT enables timely treatment of patients and helps control the spread of the disease. We proposed an artificial intelligence (AI) system for rapid COVID-19 detection and performed extensive statistical analysis of CTs of COVID-19 based on the AI system. We developed and evaluated our system on a large dataset with more than 10 thousand CT volumes from COVID-19, influenza-A/B, non-viral community acquired pneumonia (CAP) and non-pneumonia subjects. In such a difficult multi-class diagnosis task, our deep convolutional neural network-based system is able to achieve an area under the receiver operating characteristic curve (AUC) of 97.81% for multi-way classification on test cohort of 3,199 scans, AUC of 92.99% and 93.25% on two publicly available datasets, CC-CCII and MosMedData respectively. In a reader study involving five radiologists, the AI system outperforms all of radiologists in more challenging tasks at a speed of two orders of magnitude above them. Diagnosis performance of chest x-ray (CXR) is compared to that of CT. Detailed interpretation of deep network is also performed to relate system outputs with CT presentations. The code is available at https://github.com/ChenWWWeixiang/diagnosis_covid19 .

Knowledge Across Reference Frames: Cognitive Maps and Image Spaces

In human and non-human animals, conceptual knowledge is partially organized according to low-dimensional geometries that rely on brain structures and computations involved in spatial representations. Recently, two separate lines of research have investigated cognitive maps, that are associated with the hippocampal formation and are similar to world-centered representations of the environment, and image spaces, that are associated with the parietal cortex and are similar to self-centered spatial relationships. We review evidence supporting cognitive maps and image spaces, and we propose a hippocampal-parietal network that can account for the organization and retrieval of knowledge across multiple reference frames. We also suggest that cognitive maps and image spaces may be two manifestations of a more general propensity of the mind to create low-dimensional internal models.

Flexible motor sequence generation during stereotyped escape responses

Complex animal behaviors arise from a flexible combination of stereotyped motor primitives. Here we use the escape responses of the nematode Caenorhabditis elegans to study how a nervous system dynamically explores the action space. The initiation of the escape responses is predictable: the animal moves away from a potential threat, a mechanical or thermal stimulus. But the motor sequence and the timing that follow are variable. We report that a feedforward excitation between neurons encoding distinct motor states underlies robust motor sequence generation, while mutual inhibition between these neurons controls the flexibility of timing in a motor sequence. Electrical synapses contribute to feedforward coupling whereas glutamatergic synapses contribute to inhibition. We conclude that C. elegans generates robust and flexible motor sequences by combining an excitatory coupling and a winner-take-all operation via mutual inhibition between motor modules.

Dimensionality, information and learning in prefrontal cortex

Learning leads to changes in population patterns of neural activity. In this study we wanted to examine how these changes in patterns of activity affect the dimensionality of neural responses and information about choices. We addressed these questions by carrying out high channel count recordings in dorsal-lateral prefrontal cortex (dlPFC; 768 electrodes) while monkeys performed a two-armed bandit reinforcement learning task. The high channel count recordings allowed us to study population coding while monkeys learned choices between actions or objects. We found that the dimensionality of neural population activity was higher across blocks in which animals learned the values of novel pairs of objects, than across blocks in which they learned the values of actions. The increase in dimensionality with learning in object blocks was related to less shared information across blocks, and therefore patterns of neural activity that were less similar, when compared to learning in action blocks. Furthermore, these differences emerged with learning, and were not a simple function of the choice of a visual image or action. Therefore, learning the values of novel objects increases the dimensionality of neural representations in dlPFC.

In this study we found that learning to choose rewarding objects increased the diversity of patterns of activity, measured as the dimensionality of the response, observed in dorsal-lateral prefrontal cortex. The dimensionality increase for learning to choose rewarding objects was larger than the dimensionality increase for learning to choose rewarding actions. The dimensionality increase was not a simple function of the diverse set of images used, as the patterns of activity only appeared after learning.

Decoding Task-Specific Cognitive States with Slow, Directed Functional Networks in the Human Brain

Flexible functional interactions among brain regions mediate critical cognitive functions. Such interactions can be measured using functional magnetic resonance imaging (fMRI) data either with instantaneous (zero-lag) or lag-based (time-lagged) functional connectivity. Because the fMRI hemodynamic response is slow, and is sampled at a timescale (seconds) several orders of magnitude slower than the underlying neural dynamics (milliseconds), simulation studies have shown that lag-based fMRI functional connectivity, measured with approaches like Granger–Geweke causality (GC), provides spurious and unreliable estimates of underlying neural interactions. Experimental verification of this claim is challenging because neural ground truth connectivity is often unavailable concurrently with fMRI recordings. Here we demonstrate that, despite these widely held caveats, GC networks estimated from fMRI recordings contain useful information for classifying task-specific cognitive states. We estimated instantaneous and lag-based GC functional connectivity networks using fMRI data from 1000 participants (Human Connectome Project database). A linear classifier, trained on either instantaneous or lag-based GC, reliably discriminated among seven different task and resting brain states, with >80% cross-validation accuracy. With network simulations, we demonstrate that instantaneous and lag-based GC exploited interactions at fast and slow timescales, respectively, to achieve robust classification. With human fMRI data, instantaneous and lag-based GC identified complementary, task–core networks. Finally, variations in GC connectivity explained inter-individual variations in a variety of cognitive scores. Our findings show that instantaneous and lag-based methods reveal complementary aspects of functional connectivity in the brain, and suggest that slow, directed functional interactions, estimated with fMRI, may provide useful markers of behaviorally relevant cognitive states.

Information-Limiting Correlations in Large Neural Populations

Understanding the neural code requires understanding how populations of neurons code information. Theoretical models predict that information may be limited by correlated noise in large neural populations. Nevertheless, analyses based on tens of neurons have failed to find evidence of saturation. Moreover, some studies have shown that noise correlations can be very small, and therefore may not affect information coding. To determine whether information-limiting correlations exist, we implanted eight Utah arrays in prefrontal cortex (PFC; area 46) of two male macaque monkeys, recording >500 neurons simultaneously. We estimated information in PFC about saccades as a function of ensemble size. Noise correlations were, on average, small (∼10^-3). However, information scaled strongly sublinearly with ensemble size. After shuffling trials, destroying noise correlations, information was a linear function of ensemble size. Thus, we provide evidence for the existence of information-limiting noise correlations in large populations of PFC neurons.SIGNIFICANCE STATEMENT Recent theoretical work has shown that even small correlations can limit information if they are "differential correlations," which are difficult to measure directly. However, they can be detected through decoding analyses on recordings from a large number of neurons over a large number of trials. We have achieved both by collecting neural activity in dorsal-lateral prefrontal cortex of macaques using eight microelectrode arrays (768 electrodes), from which we were able to compute accurate information estimates. We show, for the first time, strong evidence for information-limiting correlations. Despite pairwise correlations being small (on the order of 10^-3), they affect information coding in populations on the order of 100 s of neurons.

Random Recurrent Networks Near Criticality Capture the Broadband Power Distribution of Human ECoG Dynamics

Brain electric field potentials are dominated by an arrhythmic broadband signal, but the underlying mechanism is poorly understood. Here we propose that broadband power spectra characterize recurrent neural networks of nodes (neurons or clusters of neurons), endowed with an effective balance between excitation and inhibition tuned to keep the network on the edge of dynamical instability. These networks show a fast mode reflecting local dynamics and a slow mode emerging from distributed recurrent connections. Together, the 2 modes produce power spectra similar to those observed in human intracranial EEG (i.e., electrocorticography, ECoG) recordings. Moreover, such networks convert spatial input correlations across nodes into temporal autocorrelation of network activity. Consequently, increased independence between nodes reduces low-frequency power, which may explain changes observed during behavioral tasks. Lastly, varying network coupling causes activity changes that resemble those observed in human ECoG across different arousal states. The model links macroscopic features of empirical ECoG power to a parsimonious underlying network structure, and suggests mechanisms for changes observed across behavioral and arousal states. This work provides a computational framework to generate and test hypotheses about cellular and network mechanisms underlying whole brain electrical dynamics, their variations across states, and potential alterations in brain diseases.

Structure learning and the posterior parietal cortex

We propose a theory of structure learning in the primate brain. We argue that the parietal cortex is critical for learning about relations among the objects and categories that populate a visual scene. We suggest that current deep learning models exhibit poor global scene understanding because they fail to perform the relational inferences that occur in the primate dorsal stream. We review studies of neural coding in primate posterior parietal cortex (PPC), drawing the conclusion that neurons in this brain area represent potentially high-dimensional inputs on a low-dimensional manifold that encodes the relative position of objects or features in physical space, and relations among entities in abstract conceptual space. We argue that this low-dimensional code supports generalisation of relational information, even in nonspatial domains. Finally, we propose that structure learning is grounded in the actions that primates take when they reach for objects or fixate them with their eyes. We sketch a model of how this might occur in neural circuits.

Mapping distinct timescales of functional interactions among brain networks

Brain processes occur at various timescales, ranging from milliseconds (neurons) to minutes and hours (behavior). Characterizing functional coupling among brain regions at these diverse timescales is key to understanding how the brain produces behavior. Here, we apply instantaneous and lag-based measures of conditional linear dependence, based on Granger-Geweke causality (GC), to infer network connections at distinct timescales from functional magnetic resonance imaging (fMRI) data. Due to the slow sampling rate of fMRI, it is widely held that GC produces spurious and unreliable estimates of functional connectivity when applied to fMRI data. We challenge this claim with simulations and a novel machine learning approach. First, we show, with simulated fMRI data, that instantaneous and lag-based GC identify distinct timescales and complementary patterns of functional connectivity. Next, we analyze fMRI scans from 500 subjects and show that a linear classifier trained on either instantaneous or lag-based GC connectivity reliably distinguishes task versus rest brain states, with ~80-85% cross-validation accuracy. Importantly, instantaneous and lag-based GC exploit markedly different spatial and temporal patterns of connectivity to achieve robust classification. Our approach enables identifying functionally connected networks that operate at distinct timescales in the brain.

Spatiotemporal discrimination in attractor networks with short-term synaptic plasticity

We demonstrate that a randomly connected attractor network with dynamic synapses can discriminate between similar sequences containing multiple stimuli suggesting such networks provide a general basis for neural computations in the brain. The network contains units representing assemblies of pools of neurons, with preferentially strong recurrent excitatory connections rendering each unit bi-stable. Weak interactions between units leads to a multiplicity of attractor states, within which information can persist beyond stimulus offset. When a new stimulus arrives, the prior state of the network impacts the encoding of the incoming information, with short-term synaptic depression ensuring an itinerancy between sets of active units. We assess the ability of such a network to encode the identity of sequences of stimuli, so as to provide a template for sequence recall, or decisions based on accumulation of evidence. Across a range of parameters, such networks produce the primacy (better final encoding of the earliest stimuli) and recency (better final encoding of the latest stimuli) observed in human recall data and can retain the information needed to make a binary choice based on total number of presentations of a specific stimulus. Similarities and differences in the final states of the network produced by different sequences lead to predictions of specific errors that could arise when an animal or human subject generalizes from training data, when the training data comprises a subset of the entire stimulus repertoire. We suggest that such networks can provide the general purpose computational engines needed for us to solve many cognitive tasks.

Effective learning is accompanied by high-dimensional and efficient representations of neural activity

A fundamental cognitive process is to map value and identity onto the objects we learn about. However, what space best embeds this mapping is not completely understood. Here we develop tools to quantify the space and organization of such a mapping in neural responses as reflected in functional MRI, to show that quick learners have a higher dimensional representation than slow learners, and hence more easily distinguishable whole-brain responses to objects of different value. Furthermore, we find that quick learners display more compact embedding of their neural responses, and hence have higher ratios of their stimuli dimension to their embedding dimension, which is consistent with greater efficiency of cognitive coding. Lastly, we investigate the neurophysiological drivers at smaller scales and study the complementary distinguishability of whole-brain responses. Our results demonstrate a spatial organization of neural responses characteristic of learning and offer geometric measures applicable to identifying efficient coding in higher-order cognitive processes.

Perturbing low dimensional activity manifolds in spiking neuronal networks

Several recent studies have shown that neural activity in vivo tends to be constrained to a low-dimensional manifold. Such activity does not arise in simulated neural networks with homogeneous connectivity and it has been suggested that it is indicative of some other connectivity pattern in neuronal networks. In particular, this connectivity pattern appears to be constraining learning so that only neural activity patterns falling within the intrinsic manifold can be learned and elicited. Here, we use three different models of spiking neural networks (echo-state networks, the Neural Engineering Framework and Efficient Coding) to demonstrate how the intrinsic manifold can be made a direct consequence of the circuit connectivity. Using this relationship between the circuit connectivity and the intrinsic manifold, we show that learning of patterns outside the intrinsic manifold corresponds to much larger changes in synaptic weights than learning of patterns within the intrinsic manifold. Assuming larger changes to synaptic weights requires extensive learning, this observation provides an explanation of why learning is easier when it does not require the neural activity to leave its intrinsic manifold.

Causal Inference in the Multisensory Brain

When combining information across different senses, humans need to flexibly select cues of a common origin while avoiding distraction from irrelevant inputs. The brain could solve this challenge using a hierarchical principle by deriving rapidly a fused sensory estimate for computational expediency and, later and if required, filtering out irrelevant signals based on the inferred sensory cause(s). Analyzing time- and source-resolved human magnetoencephalographic data, we unveil a systematic spatiotemporal cascade of the relevant computations, starting with early segregated unisensory representations, continuing with sensory fusion in parietal-temporal regions, and culminating as causal inference in the frontal lobe. Our results reconcile previous computational accounts of multisensory perception by showing that prefrontal cortex guides flexible integrative behavior based on candidate representations established in sensory and association cortices, thereby framing multisensory integration in the generalized context of adaptive behavior.

Neural structure mapping in human probabilistic reward learning

Humans can learn abstract concepts that describe invariances over relational patterns in data. One such concept, known as magnitude, allows stimuli to be compactly represented on a single dimension (i.e. on a mental line). Here, we measured representations of magnitude in humans by recording neural signals whilst they viewed symbolic numbers. During a subsequent reward-guided learning task, the neural patterns elicited by novel complex visual images reflected their payout probability in a way that suggested they were encoded onto the same mental number line, with 'bad' bandits sharing neural representation with 'small' numbers and 'good' bandits with 'large' numbers. Using neural network simulations, we provide a mechanistic model that explains our findings and shows how structural alignment can promote transfer learning. Our findings suggest that in humans, learning about reward probability is accompanied by structural alignment of value representations with neural codes for the abstract concept of magnitude.

Perceptual Decision-Making: Biases in Post-Error Reaction Times Explained by Attractor Network Dynamics

Perceptual decision-making is the subject of many experimental and theoretical studies. Most modeling analyses are based on statistical processes of accumulation of evidence. In contrast, very few works confront attractor network models' predictions with empirical data from continuous sequences of trials. Recently however, numerical simulations of a biophysical competitive attractor network model have shown that such a network can describe sequences of decision trials and reproduce repetition biases observed in perceptual decision experiments. Here we get more insights into such effects by considering an extension of the reduced attractor network model of Wong and Wang (2006), taking into account an inhibitory current delivered to the network once a decision has been made. We make explicit the conditions on this inhibitory input for which the network can perform a succession of trials, without being either trapped in the first reached attractor, or losing all memory of the past dynamics. We study in detail how, during a sequence of decision trials, reaction times and performance depend on nonlinear dynamics of the network, and we confront the model behavior with empirical findings on sequential effects. Here we show that, quite remarkably, the network exhibits, qualitatively and with the correct order of magnitude, post-error slowing and post-error improvement in accuracy, two subtle effects reported in behavioral experiments in the absence of any feedback about the correctness of the decision. Our work thus provides evidence that such effects result from intrinsic properties of the nonlinear neural dynamics.SIGNIFICANCE STATEMENT Much experimental and theoretical work is being devoted to the understanding of the neural correlates of perceptual decision-making. In a typical behavioral experiment, animals or humans perform a continuous series of binary discrimination tasks. To model such experiments, we consider a biophysical decision-making attractor neural network, taking into account an inhibitory current delivered to the network once a decision is made. Here we provide evidence that the same intrinsic properties of the nonlinear network dynamics underpins various sequential effects reported in experiments. Quite remarkably, in the absence of feedback on the correctness of the decisions, the network exhibits post-error slowing (longer reaction times after error trials) and post-error improvement in accuracy (smaller error rates after error trials).

Network structure and input integration in competing firing rate models for decision-making

Making a decision among numerous alternatives is a pervasive and central undertaking encountered by mammals in natural settings. While decision making for two-option tasks has been studied extensively both experimentally and theoretically, characterizing decision making in the face of a large set of alternatives remains challenging. We explore this issue by formulating a scalable mechanistic network model for decision making and analyzing the dynamics evoked given various potential network structures. In the case of a fully-connected network, we provide an analytical characterization of the model fixed points and their stability with respect to winner-take-all behavior for fair tasks. We compare several means of input integration, demonstrating a more gradual sigmoidal transfer function is likely evolutionarily advantageous relative to binary gain commonly utilized in engineered systems. We show via asymptotic analysis and numerical simulation that sigmoidal transfer functions with smaller steepness yield faster response times but depreciation in accuracy. However, in the presence of noise or degradation of connections, a sigmoidal transfer function garners significantly more robust and accurate decision-making dynamics. For fair tasks and sigmoidal gain, our model network also exhibits a stable parameter regime that produces high accuracy and persists across tasks with diverse numbers of alternatives and difficulties, satisfying physiological energetic constraints. In the case of more sparse and structured network topologies, including random, regular, and small-world connectivity, we show the high-accuracy parameter regime persists for biologically realistic connection densities. Our work shows how neural system architecture is potentially optimal in making economic, reliable, and advantageous decisions across tasks.

Optimal Readout of Correlated Neural Activity in a Decision-Making Circuit

The neural correlates of decision making have been extensively studied with tasks involving a choice between two alternatives that is guided by visual cues. While a large body of work argues for a role of the lateral intraparietal (LIP) region of cortex in these tasks, this role may be confounded by the interaction between LIP and other regions, including medial temporal (MT) cortex. Here, we describe a simplified linear model of decision making that is adapted to two tasks: a motion discrimination and a categorization task. We show that the distinct contribution of MT and LIP may indeed be confounded in these tasks. In particular, we argue that the motion discrimination task relies on a straightforward visuomotor mapping, which leads to redundant information between MT and LIP. The categorization task requires a more complex mapping between visual information and decision behavior, and therefore does not lead to redundancy between MT and LIP. Going further, the model predicts that noise correlations within LIP should be greater in the categorization compared to the motion discrimination task due to the presence of shared inputs from MT. The impact of these correlations on task performance is examined by analytically deriving error estimates of an optimal linear readout for shared and unique inputs. Taken together, results clarify the contribution of MT and LIP to decision making and help characterize the role of noise correlations in these regions.

Value-based decision making via sequential sampling with hierarchical competition and attentional modulation

In principle, formal dynamical models of decision making hold the potential to represent fundamental computations underpinning value-based (i.e., preferential) decisions in addition to perceptual decisions. Sequential-sampling models such as the race model and the drift-diffusion model that are grounded in simplicity, analytical tractability, and optimality remain popular, but some of their more recent counterparts have instead been designed with an aim for more feasibility as architectures to be implemented by actual neural systems. Connectionist models are proposed herein at an intermediate level of analysis that bridges mental phenomena and underlying neurophysiological mechanisms. Several such models drawing elements from the established race, drift-diffusion, feedforward-inhibition, divisive-normalization, and competing-accumulator models were tested with respect to fitting empirical data from human participants making choices between foods on the basis of hedonic value rather than a traditional perceptual attribute. Even when considering performance at emulating behavior alone, more neurally plausible models were set apart from more normative race or drift-diffusion models both quantitatively and qualitatively despite remaining parsimonious. To best capture the paradigm, a novel six-parameter computational model was formulated with features including hierarchical levels of competition via mutual inhibition as well as a static approximation of attentional modulation, which promotes "winner-take-all" processing. Moreover, a meta-analysis encompassing several related experiments validated the robustness of model-predicted trends in humans' value-based choices and concomitant reaction times. These findings have yet further implications for analysis of neurophysiological data in accordance with computational modeling, which is also discussed in this new light.

Mechanisms of Persistent Activity in Cortical Circuits: Possible Neural Substrates for Working Memory

A commonly observed neural correlate of working memory is firing that persists after the triggering stimulus disappears. Substantial effort has been devoted to understanding the many potential mechanisms that may underlie memory-associated persistent activity. These rely either on the intrinsic properties of individual neurons or on the connectivity within neural circuits to maintain the persistent activity. Nevertheless, it remains unclear which mechanisms are at play in the many brain areas involved in working memory. Herein, we first summarize the palette of different mechanisms that can generate persistent activity. We then discuss recent work that asks which mechanisms underlie persistent activity in different brain areas. Finally, we discuss future studies that might tackle this question further. Our goal is to bridge between the communities of researchers who study either single-neuron biophysical, or neural circuit, mechanisms that can generate the persistent activity that underlies working memory.

Thalamic control of functional cortical connectivity

The thalamus is an evolutionarily conserved structure with extensive reciprocal connections to cortical regions. While its role in transmitting sensory signals is well-studied, its broader engagement in cognition is unclear. In this review, we discuss evidence that the thalamus regulates functional connectivity within and between cortical regions, determining how a cognitive process is implemented across distributed cortical microcircuits. Within this framework, thalamic circuits do not necessarily determine the categorical content of a cognitive process (e.g., sensory details in feature-based attention), but rather provide a route by which task-relevant cortical representations are sustained and coordinated. Additionally, thalamic control of cortical connectivity bridges general arousal to the specific processing of categorical content, providing an intermediate level of cognitive and circuit description that will facilitate mapping neural computations onto thought and behavior.

Coupling between One-Dimensional Networks Reconciles Conflicting Dynamics in LIP and Reveals Its Recurrent Circuitry

Little is known about the internal circuitry of the primate lateral intraparietal area (LIP). During two versions of a delayed-saccade task, we found radically different network dynamics beneath similar population average firing patterns. When neurons are not influenced by stimuli outside their receptive fields (RFs), dynamics of the high-dimensional LIP network during slowly varying activity lie predominantly in one multi-neuronal dimension, as described previously. However, when activity is suppressed by stimuli outside the RF, slow LIP dynamics markedly deviate from a single dimension. The conflicting results can be reconciled if two LIP local networks, each underlying an RF location and dominated by a single multi-neuronal activity pattern, are suppressively coupled to each other. These results demonstrate the low dimensionality of slow LIP local dynamics, and suggest that LIP local networks encoding the attentional and movement priority of competing visual locations actively suppress one another.

Neuronal pattern separation of motion-relevant input in LIP activity

In various regions of the brain, neurons discriminate sensory stimuli by decreasing the similarity between ambiguous input patterns. Here, we examine whether this process of pattern separation may drive the rapid discrimination of visual motion stimuli in the lateral intraparietal area (LIP). Starting with a simple mean-rate population model that captures neuronal activity in LIP, we show that overlapping input patterns can be reformatted dynamically to give rise to separated patterns of neuronal activity. The population model predicts that a key ingredient of pattern separation is the presence of heterogeneity in the response of individual units. Furthermore, the model proposes that pattern separation relies on heterogeneity in the temporal dynamics of neural activity and not merely in the mean firing rates of individual neurons over time. We confirm these predictions in recordings of macaque LIP neurons and show that the accuracy of pattern separation is a strong predictor of behavioral performance. Overall, results propose that LIP relies on neuronal pattern separation to facilitate decision-relevant discrimination of sensory stimuli.NEW & NOTEWORTHY A new hypothesis is proposed on the role of the lateral intraparietal (LIP) region of cortex during rapid decision making. This hypothesis suggests that LIP alters the representation of ambiguous inputs to reduce their overlap, thus improving sensory discrimination. A combination of computational modeling, theoretical analysis, and electrophysiological data shows that the pattern separation hypothesis links neural activity to behavior and offers novel predictions on the role of LIP during sensory discrimination.

Stimuli Reduce the Dimensionality of Cortical Activity

The activity of ensembles of simultaneously recorded neurons can be represented as a set of points in the space of firing rates. Even though the dimension of this space is equal to the ensemble size, neural activity can be effectively localized on smaller subspaces. The dimensionality of the neural space is an important determinant of the computational tasks supported by the neural activity. Here, we investigate the dimensionality of neural ensembles from the sensory cortex of alert rats during periods of ongoing (inter-trial) and stimulus-evoked activity. We find that dimensionality grows linearly with ensemble size, and grows significantly faster during ongoing activity compared to evoked activity. We explain these results using a spiking network model based on a clustered architecture. The model captures the difference in growth rate between ongoing and evoked activity and predicts a characteristic scaling with ensemble size that could be tested in high-density multi-electrode recordings. Moreover, we present a simple theory that predicts the existence of an upper bound on dimensionality. This upper bound is inversely proportional to the amount of pair-wise correlations and, compared to a homogeneous network without clusters, it is larger by a factor equal to the number of clusters. The empirical estimation of such bounds depends on the number and duration of trials and is well predicted by the theory. Together, these results provide a framework to analyze neural dimensionality in alert animals, its behavior under stimulus presentation, and its theoretical dependence on ensemble size, number of clusters, and correlations in spiking network models.

Canonical computations of cerebral cortex

The idea that there is a fundamental cortical circuit that performs canonical computations remains compelling though far from proven. Here we review evidence for two canonical operations within sensory cortical areas: a feedforward computation of selectivity; and a recurrent computation of gain in which, given sufficiently strong external input, perhaps from multiple sources, intracortical input largely, but not completely, cancels this external input. This operation leads to many characteristic cortical nonlinearities in integrating multiple stimuli. The cortical computation must combine such local processing with hierarchical processing across areas. We point to important changes in moving from sensory cortex to motor and frontal cortex and the possibility of substantial differences between cortex in rodents vs. species with columnar organization of selectivity.

Dopamine neurons share common response function for reward prediction error

Dopamine neurons are thought to signal reward prediction error, or the difference between actual and predicted reward. How dopamine neurons jointly encode this information, however, remains unclear. One possibility is that different neurons specialize in different aspects of prediction error; another is that each neuron calculates prediction error in the same way. We recorded from optogenetically-identified dopamine neurons in the lateral ventral tegmental area (VTA) while mice performed classical conditioning tasks. Our tasks allowed us to determine the full prediction error functions of dopamine neurons and compare them to each other. We found striking homogeneity among individual dopamine neurons: their responses to both unexpected and expected rewards followed the same function, just scaled up or down. As a result, we could describe both individual and population responses using just two parameters. Such uniformity ensures robust information coding, allowing each dopamine neuron to contribute fully to the prediction error signal.

Coding of attention across the human intraparietal sulcus

There has been concentrated debate over four decades as to whether or not the nonhuman primate parietal cortex codes for intention or attention. In nonhuman primates, certain studies report results consistent with an intentional role, whereas others provide support for coding of visual-spatial attention. Until now, no one has yet directly contrasted an established motor “intention” paradigm with a verified “attention” paradigm within the same protocol. This debate has continued in both the nonhuman primate and healthy human brain and is subsequently timely. We incorporated both paradigms across two distinct temporal epochs within a whole-parietal slow event-related human functional magnetic resonance imaging experiment. This enabled us to examine whether or not one paradigm proves more effective at driving the neural response across three intraparietal areas. As participants performed saccadic eye and/or pointing tasks, discrete event-related components with dissociable responses were elicited in distinct sub-regions of human parietal cortex. Critically, the posterior intraparietal area showed robust activity consistent with attention (no intention planning). The most contentious area in the literature, the middle intraparietal area produced activation patterns that further reinforce attention coding in human parietal cortex. Finally, the anterior intraparietal area showed the same pattern. Therefore, distributed coding of attention is relatively more pronounced across the two computations within human parietal cortex.