Reliability of dissimilarity measures for multi-voxel pattern analysis

Comparative Brain Imaging Reveals Analogous and Divergent Patterns of Species and Face Sensitivity in Humans and Dogs

Conspecific-preference in social perception is evident for multiple sensory modalities and in many species. There is also a dedicated neural network for face processing in primates. However, the evolutionary origin and the relative role of neural species sensitivity and face sensitivity in visuo-social processing are largely unknown.

Conspecific-preference in social perception is evident for multiple sensory modalities and in many species. There is also a dedicated neural network for face processing in primates. However, the evolutionary origin and the relative role of neural species sensitivity and face sensitivity in visuo-social processing are largely unknown. In this comparative study, species sensitivity and face sensitivity to identical visual stimuli (videos of human and dog faces and occiputs) were examined using functional magnetic resonance imaging in dogs (n = 20; 45% female) and humans (n = 30; 50% female). In dogs, the bilateral mid suprasylvian gyrus showed conspecific-preference, no regions exhibited face-preference, and the majority of the visually-responsive cortex showed greater conspecific-preference than face-preference. In humans, conspecific-preferring regions (the right amygdala/hippocampus and the posterior superior temporal sulcus) also showed face-preference, and much of the visually-responsive cortex showed greater face-preference than conspecific-preference. Multivariate pattern analyses (MVPAs) identified species-sensitive regions in both species, but face-sensitive regions only in humans. Across-species representational similarity analyses (RSAs) revealed stronger correspondence between dog and human response patterns for distinguishing conspecific from heterospecific faces than other contrasts. Results unveil functional analogies in dog and human visuo-social processing of conspecificity but suggest that cortical specialization for face perception may not be ubiquitous across mammals.

SIGNIFICANCE STATEMENT To explore the evolutionary origins of human face-preference and its relationship to conspecific-preference, we conducted the first comparative and noninvasive visual neuroimaging study of a non-primate and a primate species, dogs and humans. Conspecific-preferring brain regions were observed in both species, but face-preferring brain regions were observed only in humans. In dogs, an overwhelming majority of visually-responsive cortex exhibited greater conspecific-preference than face-preference, whereas in humans, much of the visually-responsive cortex showed greater face-preference than conspecific-preference. Together, these findings unveil functional analogies and differences in the organizing principles of visuo-social processing across two phylogenetically distant mammal species.

Map Making: Constructing, Combining, and Inferring on Abstract Cognitive Maps

Cognitive maps enable efficient inferences from limited experience that can guide novel decisions. We tested whether the hippocampus (HC), entorhinal cortex (EC), and ventromedial prefrontal cortex (vmPFC)/medial orbitofrontal cortex (mOFC) organize abstract and discrete relational information into a cognitive map to guide novel inferences. Subjects learned the status of people in two unseen 2D social hierarchies, with each dimension learned on a separate day. Although one dimension was behaviorally relevant, multivariate activity patterns in HC, EC, and vmPFC/mOFC were linearly related to the Euclidean distance between people in the mentally reconstructed 2D space. Hubs created unique comparisons between the hierarchies, enabling inferences between novel pairs. We found that both behavior and neural activity in EC and vmPFC/mOFC reflected the Euclidean distance to the retrieved hub, which was reinstated in HC. These findings reveal how abstract and discrete relational structures are represented, are combined, and enable novel inferences in the human brain.

Peeling the Onion of Brain Representations

The brain's function is to enable adaptive behavior in the world. To this end, the brain processes information about the world. The concept of representation links the information processed by the brain back to the world and enables us to understand what the brain does at a functional level. The appeal of making the connection between brain activity and what it represents has been irresistible to neuroscience, despite the fact that representational interpretations pose several challenges: We must define which aspects of brain activity matter, how the code works, and how it supports computations that contribute to adaptive behavior. It has been suggested that we might drop representational language altogether and seek to understand the brain, more simply, as a dynamical system. In this review, we argue that the concept of representation provides a useful link between dynamics and computational function and ask which aspects of brain activity should be analyzed to achieve a representational understanding. We peel the onion of brain representations in search of the layers (the aspects of brain activity) that matter to computation. The article provides an introduction to the motivation and mathematics of representational models, a critical discussion of their assumptions and limitations, and a preview of future directions in this area.

A Whole-Brain and Cross-Diagnostic Perspective on Functional Brain Network Dysfunction

A wide variety of mental disorders have been associated with resting-state functional network alterations, which are thought to contribute to the cognitive changes underlying mental illness. These observations appear to support theories postulating large-scale disruptions of brain systems in mental illness. However, existing approaches isolate differences in network organization without putting those differences in a broad, whole-brain perspective. Using a graph distance approach-connectome-wide similarity-we found that whole-brain resting-state functional network organization is highly similar across groups of individuals with and without a variety of mental diseases. This similarity was observed across autism spectrum disorder, attention-deficit hyperactivity disorder, and schizophrenia. Nonetheless, subtle differences in network graph distance were predictive of diagnosis, suggesting that while functional connectomes differ little across health and disease, those differences are informative. These results suggest a need to reevaluate neurocognitive theories of mental illness, with a role for subtle functional brain network changes in the production of an array of mental diseases. Such small network alterations suggest the possibility that small, well-targeted alterations to brain network organization may provide meaningful improvements for a variety of mental disorders.

Primary motor cortical activity during unimanual movements with increasing demand on precision

In functional magnetic resonance imaging (fMRI) studies, performance of unilateral hand movements is associated with primary motor cortex activity ipsilateral to the moving hand (M1_ipsi), in addition to contralateral activity (M1_contra). The magnitude of M1_ipsi activity increases with the demand on precision of the task. However, it is unclear how demand-dependent increases in M1_ipsi recruitment relate to the control of hand movements. To address this question, we used fMRI to measure blood oxygenation level-dependent (BOLD) activity during performance of a task that varied in demand on precision. Participants (n = 23) manipulated an MRI-compatible joystick with their right or left hand to move a cursor into targets of different sizes (small, medium, large, extra large). Performance accuracy, movement time, and number of velocity peaks scaled with target size, whereas reaction time, maximum velocity, and initial direction error did not. In the univariate analysis, BOLD activation in M1_contra and M1_ipsi was higher for movements to smaller targets. Representational similarity analysis, corrected for mean activity differences, revealed multivoxel BOLD activity patterns during movements to small targets were most similar to those for medium targets and least similar to those for extra-large targets. Only models that varied with demand (target size, performance accuracy, and number of velocity peaks) correlated with the BOLD dissimilarity patterns, though differently for right and left hands. Across individuals, M1_contra and M1_ipsi similarity patterns correlated with each other. Together, these results suggest that increasing demand on precision in a unimanual motor task increases M1 activity and modulates M1 activity patterns.NEW & NOTEWORTHY Contralateral primary motor cortex (M1) predominantly controls unilateral hand movements, but the role of ipsilateral M1 is unclear. We used functional magnetic resonance imaging (fMRI) to investigate how M1 activity is modulated by unimanual movements at different levels of demand on precision. Our results show that task characteristics related to demand on precision influence bilateral M1 activity, suggesting that in addition to contralateral M1, ipsilateral M1 plays a key role in controlling hand movements to meet performance precision requirements.

Hierarchical Representation of Multistep Tasks in Multiple-Demand and Default Mode Networks

Task episodes consist of sequences of steps that are performed to achieve a goal. We used fMRI to examine neural representation of task identity, component items, and sequential position, focusing on two major cortical systems—the multiple-demand (MD) and default mode networks (DMN). Human participants (20 males, 22 females) learned six tasks each consisting of four steps. Inside the scanner, participants were cued which task to perform and then sequentially identified the target item of each step in the correct order. Univariate time course analyses indicated that intra-episode progress was tracked by a tonically increasing global response, plus an increasing phasic step response specific to MD regions. Inter-episode boundaries evoked a widespread response at episode onset, plus a marked offset response specific to DMN regions. Representational similarity analysis (RSA) was used to examine representation of task identity and component steps. Both networks represented the content and position of individual steps, however the DMN preferentially represented task identity while the MD network preferentially represented step-level information. Thus, although both MD and DMN networks are sensitive to step-level and episode-level information in the context of hierarchical task performance, they exhibit dissociable profiles in terms of both temporal dynamics and representational content. The results suggest collaboration of multiple brain regions in control of multistep behavior, with MD regions particularly involved in processing the detail of individual steps, and DMN adding representation of broad task context.

SIGNIFICANCE STATEMENT Achieving one's goals requires knowing what to do and when. Tasks are typically hierarchical, with smaller steps nested within overarching goals. For effective, flexible behavior, the brain must represent both levels. We contrast response time courses and information content of two major cortical systems—the multiple-demand (MD) and default mode networks (DMN)—during multistep task episodes. Both networks are sensitive to step-level and episode-level information, but with dissociable profiles. Intra-episode progress is tracked by tonically increasing global responses, plus MD-specific increasing phasic step responses. Inter-episode boundaries evoke widespread responses at episode onset, plus DMN-specific offset responses. Both networks represent content and position of individual steps; however, the DMN and MD networks favor task identity and step-level information, respectively.

Multivoxel codes for representing and integrating acoustic features in human cortex

Using fMRI and multivariate pattern analysis, we determined whether spectral and temporal acoustic features are represented by independent or integrated multivoxel codes in human cortex. Listeners heard band-pass noise varying in frequency (spectral) and amplitude-modulation (AM) rate (temporal) features. In the superior temporal plane, changes in multivoxel activity due to frequency were largely invariant with respect to AM rate (and vice versa), consistent with an independent representation. In contrast, in posterior parietal cortex, multivoxel representation was exclusively integrated and tuned to specific conjunctions of frequency and AM features (albeit weakly). Direct between-region comparisons show that whereas independent coding of frequency weakened with increasing levels of the hierarchy, such a progression for AM and integrated coding was less fine-grained and only evident in the higher hierarchical levels from non-core to parietal cortex (with AM coding weakening and integrated coding strengthening). Our findings support the notion that primary auditory cortex can represent spectral and temporal acoustic features in an independent fashion and suggest a role for parietal cortex in feature integration and the structuring of sensory input.

Neural substrates of anticipatory motor adaptation for object lifting

Anticipatory force control is a fundamental means by which humans stave off slipping, spilling, and tilting disasters while manipulating objects. This control must often be adapted due to changes in an object’s dynamics (e.g. a lighter than expected mug of coffee) or its relation with involved effectors or digits (e.g. lift a mug with three vs. five digits). The neural processes guiding such anticipatory and adaptive control is understudied but presumably operates along multiple time scales, analogous to what has been identified with adaptation in other motor tasks, such as perturbations during reaching. Learning of anticipatory forces must be ultrafast to minimize tilting a visually symmetric object towards its concealed asymmetric center of mass (CoM), but slower when the CoM is explicitly and systematically switched from side to side. Studying the neural substrates of this latter slower learning process with rapid multiband brain imaging, in-scanner kinematics and Bayesian pattern component modelling, we show that CoM-specific pattern distances increase with repeated CoM switching exposures and improved learning. The cerebellum showed the most prominent effects, fitting with the idea that it forms a stored internal model that is used to build and update anticipatory control. CoM-specific pattern distances were present 24 h later, in line with the presence of consolidation effects.

Tools of the Trade Multivoxel pattern analysis in fMRI: a practical introduction for social and affective neuroscientists

The family of neuroimaging analytical techniques known as multivoxel pattern analysis (MVPA) has dramatically increased in popularity over the past decade, particularly in social and affective neuroscience research using functional magnetic resonance imaging (fMRI). MVPA examines patterns of neural responses, rather than analyzing single voxel- or region-based values, as is customary in conventional univariate analyses. Here, we provide a practical introduction to MVPA and its most popular variants (namely, representational similarity analysis (RSA) and decoding analyses, such as classification using machine learning) for social and affective neuroscientists of all levels, particularly those new to such methods. We discuss how MVPA differs from traditional mass-univariate analyses, the benefits MVPA offers to social neuroscientists, experimental design and analysis considerations, step-by-step instructions for how to implement specific analyses in one's own dataset and issues that are currently facing research using MVPA methods.

Inferring exemplar discriminability in brain representations

Representational distinctions within categories are important in all perceptual modalities and also in cognitive and motor representations. Recent pattern-information studies of brain activity have used condition-rich designs to sample the stimulus space more densely. To test whether brain response patterns discriminate among a set of stimuli (e.g. exemplars within a category) with good sensitivity, we can pool statistical evidence over all pairwise comparisons. Here we describe a wide range of statistical tests of exemplar discriminability and assess the validity (specificity) and power (sensitivity) of each test. The tests include previously used and novel, parametric and nonparametric tests, which treat subject as a random or fixed effect, and are based on different dissimilarity measures, different test statistics, and different inference procedures. We use simulated and real data to determine which tests are valid and which are most sensitive. A popular test statistic reflecting exemplar information is the exemplar discriminability index (EDI), which is defined as the average of the pattern dissimilarity estimates between different exemplars minus the average of the pattern dissimilarity estimates between repetitions of identical exemplars. The popular across-subject t test of the EDI (typically using correlation distance as the pattern dissimilarity measure) requires the assumption that the EDI is 0-mean normal under H0. Although this assumption is not strictly true, our simulations suggest that the test controls the false-positives rate at the nominal level, and is thus valid, in practice. However, test statistics based on average Mahalanobis distances or average linear-discriminant t values (both accounting for the multivariate error covariance among responses) are substantially more powerful for both random- and fixed-effects inference. Unlike average cross-validated distances, the EDI is sensitive to differences between the distributions associated with different exemplars (e.g. greater variability for some exemplars than for others), which complicates its interpretation. We suggest preferred procedures for safely and sensitively detecting subtle pattern differences between exemplars.

Is an artificial limb embodied as a hand? Brain decoding in prosthetic limb users

The potential ability of the human brain to represent an artificial limb as a body part (embodiment) has been inspiring engineers, clinicians, and scientists as a means to optimise human-machine interfaces. Using functional MRI (fMRI), we studied whether neural embodiment actually occurs in prosthesis users' occipitotemporal cortex (OTC). Compared with controls, different prostheses types were visually represented more similarly to each other, relative to hands and tools, indicating the emergence of a dissociated prosthesis categorisation. Greater daily life prosthesis usage correlated positively with greater prosthesis categorisation. Moreover, when comparing prosthesis users' representation of their own prosthesis to controls' representation of a similar looking prosthesis, prosthesis users represented their own prosthesis more dissimilarly to hands, challenging current views of visual prosthesis embodiment. Our results reveal a use-dependent neural correlate for wearable technology adoption, demonstrating adaptive use-related plasticity within the OTC. Because these neural correlates were independent of the prostheses' appearance and control, our findings offer new opportunities for prosthesis design by lifting restrictions imposed by the embodiment theory for artificial limbs.

A critical re-evaluation of fMRI signatures of motor sequence learning

Despite numerous studies, there is little agreement about what brain changes accompany motor sequence learning, partly because of a general publication bias that favors novel results. We therefore decided to systematically reinvestigate proposed functional magnetic resonance imaging correlates of motor learning in a preregistered longitudinal study with four scanning sessions over 5 weeks of training. Activation decreased more for trained than untrained sequences in premotor and parietal areas, without any evidence of learning-related activation increases. Premotor and parietal regions also exhibited changes in the fine-grained, sequence-specific activation patterns early in learning, which stabilized later. No changes were observed in the primary motor cortex (M1). Overall, our study provides evidence that human motor sequence learning occurs outside of M1. Furthermore, it shows that we cannot expect to find activity increases as an indicator for learning, making subtle changes in activity patterns across weeks the most promising fMRI correlate of training-induced plasticity.

Time-resolved correspondences between deep neural network layers and EEG measurements in object processing

The ventral visual stream is known to be organized hierarchically, where early visual areas processing simplistic features feed into higher visual areas processing more complex features. Hierarchical convolutional neural networks (CNNs) were largely inspired by this type of brain organization and have been successfully used to model neural responses in different areas of the visual system. In this work, we aim to understand how an instance of these models corresponds to temporal dynamics of human object processing. Using representational similarity analysis (RSA) and various similarity metrics, we compare the model representations with two electroencephalography (EEG) data sets containing responses to a shared set of 72 images. We find that there is a hierarchical relationship between the depth of a layer and the time at which peak correlation with the brain response occurs for certain similarity metrics in both data sets. However, when comparing across layers in the neural network, the correlation onset time did not appear in a strictly hierarchical fashion. We present two additional methods that improve upon the achieved correlations by optimally weighting features from the CNN and show that depending on the similarity metric, deeper layers of the CNN provide a better correspondence than shallow layers to later time points in the EEG responses. However, we do not find that shallow layers provide better correspondences than those of deeper layers to early time points, an observation that violates the hierarchy and is in agreement with the finding from the onset-time analysis. This work makes a first comparison of various response features-including multiple similarity metrics and data sets-with respect to a neural network.

Individual-specific and shared representations during episodic memory encoding and retrieval

Although human memories seem unique to each individual, they are shared to a great extent across individuals. Previous studies have examined, separately, subject-specific and cross-subject shared representations during memory encoding and retrieval, but how shared memories are formed from individually encoded representations is not clearly understood. Using a unique fMRI design involving memory encoding and retrieval, and representational similarity analysis to link representations from different individuals, brain regions, and processing stages, the current study revealed that distributed brain regions showed both subject-specific and shared neural representations during both memory encoding and retrieval. Furthermore, different brain regions showed stage-specific representational strength, with the visual cortex showing greater unique and shared representations during encoding, whereas the left angular gyrus showing greater unique and shared representations during retrieval. The neural representations during encoding were transformed during retrieval, as shown by smaller cross-subject encoding-retrieval similarity (ERS) than cross-subject similarity either during encoding or during retrieval. This cross-subject and cross-stage similarity was found both within and across regions, with strong pattern similarity between the encoded representation in VVC and the retrieved representation in the angular gyrus. Simulation analysis further suggested that these patterns could be achieved by incorporating stage-specific representational strength, and cross-region reinstatement from encoding to retrieval, but not by a common transformation from encoding to retrieval across subjects. Together, our results shed light on how memory representations are encoded and transformed to maintain individual characteristics and at the same time to create shared representations to facilitate interpersonal communication.

Previously Reward-Associated Stimuli Capture Spatial Attention in the Absence of Changes in the Corresponding Sensory Representations as Measured with MEG

Studies of selective attention typically consider the role of task goals or physical salience, but attention can also be captured by previously reward-associated stimuli, even if they are currently task irrelevant. One theory underlying this value-driven attentional capture (VDAC) is that reward-associated stimulus representations undergo plasticity in sensory cortex, thereby automatically capturing attention during early processing. To test this, we used magnetoencephalography to probe whether stimulus location and identity representations in sensory cortex are modulated by reward learning. We furthermore investigated the time course of these neural effects, and their relationship to behavioral VDAC. Male and female human participants first learned stimulus-reward associations. Next, we measured VDAC in a separate task by presenting these stimuli in the absence of reward contingency and probing their effects on the processing of separate target stimuli presented at different time lags. Using time-resolved multivariate pattern analysis, we found that learned value modulated the spatial selection of previously rewarded stimuli in posterior visual and parietal cortex from ∼260 ms after stimulus onset. This value modulation was related to the strength of participants' behavioral VDAC effect and persisted into subsequent target processing. Importantly, learned value did not influence cortical signatures of early processing (i.e., earlier than ∼200 ms); nor did it influence the decodability of stimulus identity. Our results suggest that VDAC is underpinned by learned value signals that modulate spatial selection throughout posterior visual and parietal cortex. We further suggest that VDAC can occur in the absence of changes in early visual processing in cortex.SIGNIFICANCE STATEMENT Attention is our ability to focus on relevant information at the expense of irrelevant information. It can be affected by previously learned but currently irrelevant stimulus-reward associations, a phenomenon termed "value-driven attentional capture" (VDAC). The neural mechanisms underlying VDAC remain unclear. It has been speculated that reward learning induces visual cortical plasticity, which modulates early visual processing to capture attention. Although we find that learned value modulates spatial signals in visual cortical areas, an effect that correlates with VDAC, we find no relevant signatures of changes in early visual processing in cortex.

Rapid event-related, BOLD fMRI, non-human primates (NHP): choose two out of three

Human functional magnetic resonance imaging (fMRI) typically employs the blood-oxygen-level-dependent (BOLD) contrast mechanism. In non-human primates (NHP), contrast enhancement is possible using monocrystalline iron-oxide nanoparticles (MION) contrast agent, which has a more temporally extended response function. However, using BOLD fMRI in NHP is desirable for interspecies comparison, and the BOLD signal’s faster response function promises to be beneficial for rapid event-related (rER) designs. Here, we used rER BOLD fMRI in macaque monkeys while viewing real-world images, and found visual responses and category selectivity consistent with previous studies. However, activity estimates were very noisy, suggesting that the lower contrast-to-noise ratio of BOLD, suboptimal behavioural performance, and motion artefacts, in combination, render rER BOLD fMRI challenging in NHP. Previous studies have shown that rER fMRI is possible in macaques with MION, despite MION’s prolonged response function. To understand this, we conducted simulations of the BOLD and MION response during rER, and found that no matter how fast the design, the greater amplitude of the MION response outweighs the contrast loss caused by greater temporal smoothing. We conclude that although any two of the three elements (rER, BOLD, NHP) have been shown to work well, the combination of all three is particularly challenging.

Prefrontal reinstatement of contextual task demand is predicted by separable hippocampal patterns

Goal-directed behavior requires the representation of a task-set that defines the task-relevance of stimuli and guides stimulus-action mappings. Past experience provides one source of knowledge about likely task demands in the present, with learning enabling future predictions about anticipated demands. We examine whether spatial contexts serve to cue retrieval of associated task demands (e.g., context A and B probabilistically cue retrieval of task demands X and Y, respectively), and the role of the hippocampus and dorsolateral prefrontal cortex (dlPFC) in mediating such retrieval. Using 3D virtual environments, we induce context-task demand probabilistic associations and find that learned associations affect goal-directed behavior. Concurrent fMRI data reveal that, upon entering a context, differences between hippocampal representations of contexts (i.e., neural pattern separability) predict proactive retrieval of the probabilistically dominant associated task demand, which is reinstated in dlPFC. These findings reveal how hippocampal-prefrontal interactions support memory-guided cognitive control and adaptive behavior.

Spatial contexts are often predictive of the tasks to be performed in them (e.g., a kitchen predicts cooking). Here the authors show that the retrieval of task demand when encountering a spatial context depends on hippocampal-prefrontal interactions.

An investigation of the effect of temporal contiguity training on size-tolerant representations in object-selective cortex

The human visual system has a remarkable ability to reliably identify objects across variations in appearance, such as variations in viewpoint, lighting and size. Here we used fMRI in humans to test whether temporal contiguity training with natural and altered image dynamics can respectively build and break neural size tolerance for objects. Participants (N ​= ​23) were presented with sequences of images of "growing" and "shrinking" objects. In half of the trials, the object also changed identity when the size change happened. According to the temporal contiguity hypothesis, and studies with a similar paradigm in monkeys, this training process should alter size tolerance. After the training phase, BOLD responses to each of the object images were measured in the scanner. Neural patterns in LOC and V1 contained information on size, similarity and identity. In LOC, the representation of object identity was partially invariant to changes in size. However, temporal contiguity training did not affect size tolerance in LOC. Size tolerance in human object-selective cortex is more robust to variations in input statistics than expected based on prior work in monkeys supporting the temporal contiguity hypothesis.

Improved motion correction of submillimetre 7T fMRI time series with Boundary-Based Registration (BBR)

Ultra-high field functional magnetic resonance imaging (fMRI) has allowed us to acquire images with submillimetre voxels. However, in order to interpret the data clearly, we need to accurately correct head motion and the resultant distortions. Here, we present a novel application of Boundary Based Registration (BBR) to realign functional Magnetic Resonance Imaging (fMRI) data and evaluate its effectiveness on a set of 7T submillimetre data, as well as millimetre 3T data for comparison. BBR utilizes the boundary information from high contrast present in structural data to drive registration of functional data to the structural data. In our application, we realign each functional volume individually to the structural data, effectively realigning them to each other. In addition, this realignment method removes the need for a secondary aligning of functional data to structural data for purposes such as laminar segmentation or registration to data from other scanners. We demonstrate that BBR realignment outperforms standard realignment methods across a variety of data analysis methods. For instance, the method results in a 15% increase in linear discriminant contrast, a cross-validated estimate of multivariate discriminability. Further analysis shows that this benefit is an inherent property of the BBR cost function and not due to the difference in target volume. Our results show that BBR realignment is able to accurately correct head motion in 7T data and can be utilized in preprocessing pipelines to improve the quality of 7T data.

Spatially and Temporally Distinct Encoding of Muscle and Kinematic Information in Rostral and Caudal Primary Motor Cortex

The organizing principle of human motor cortex does not follow an anatomical body map, but rather a distributed representational structure in which motor primitives are combined to produce motor outputs. Electrophysiological recordings in primates and human imaging data suggest that M1 encodes kinematic features of movements, such as joint position and velocity. However, M1 exhibits well-documented sensory responses to cutaneous and proprioceptive stimuli, raising questions regarding the origins of kinematic motor representations: are they relevant in top-down motor control, or are they an epiphenomenon of bottom-up sensory feedback during movement? Here we provide evidence for spatially and temporally distinct encoding of kinematic and muscle information in human M1 during the production of a wide variety of naturalistic hand movements. Using a powerful combination of high-field functional magnetic resonance imaging and magnetoencephalography, a spatial and temporal multivariate representational similarity analysis revealed encoding of kinematic information in more caudal regions of M1, over 200 ms before movement onset. In contrast, patterns of muscle activity were encoded in more rostral motor regions much later after movements began. We provide compelling evidence that top-down control of dexterous movement engages kinematic representations in caudal regions of M1 prior to movement production.

Cerebellar-hippocampal processing in passive perception of visuospatial change: An ego- and allocentric axis?

In addition to its role in visuospatial navigation and the generation of spatial representations, in recent years, the hippocampus has been proposed to support perceptual processes. This is especially the case where high‐resolution details, in the form of fine‐grained relationships between features such as angles between components of a visual scene, are involved. An unresolved question is how, in the visual domain, perspective‐changes are differentiated from allocentric changes to these perceived feature relationships, both of which may be argued to involve the hippocampus. We conducted functional magnetic resonance imaging of the brain response (corroborated through separate event‐related potential source‐localization) in a passive visuospatial oddball‐paradigm to examine to what extent the hippocampus and other brain regions process changes in perspective, or configuration of abstract, three‐dimensional structures. We observed activation of the left superior parietal cortex during perspective shifts, and right anterior hippocampus in configuration‐changes. Strikingly, we also found the cerebellum to differentiate between the two, in a way that appeared tightly coupled to hippocampal processing. These results point toward a relationship between the cerebellum and the hippocampus that occurs during perception of changes in visuospatial information that has previously only been reported with regard to visuospatial navigation.

Model-based whole-brain effective connectivity to study distributed cognition in health and disease

Neuroimaging techniques are now widely used to study human cognition. The functional associations between brain areas have become a standard proxy to describe how cognitive processes are distributed across the brain network. Among the many analysis tools available, dynamic models of brain activity have been developed to overcome the limitations of original connectivity measures such as functional connectivity. This goes in line with the many efforts devoted to the assessment of directional interactions between brain areas from the observed neuroimaging activity. This opinion article provides an overview of our model-based whole-brain effective connectivity to analyze fMRI data, while discussing the pros and cons of our approach with respect to other established approaches. Our framework relies on the multivariate Ornstein-Uhlenbeck (MOU) process and is thus referred to as MOU-EC. Once tuned, the model provides a directed connectivity estimate that reflects the dynamical state of BOLD activity, which can be used to explore cognition. We illustrate this approach using two applications on task-evoked fMRI data. First, as a connectivity measure, MOU-EC can be used to extract biomarkers for task-specific brain coordination, understood as the patterns of areas exchanging information. The multivariate nature of connectivity measures raises several challenges for whole-brain analysis, for which machine-learning tools present some advantages over statistical testing. Second, we show how to interpret changes in MOU-EC connections in a collective and model-based manner, bridging with network analysis. Our framework provides a comprehensive set of tools that open exciting perspectives to study distributed cognition, as well as neuropathologies.

Emergence of Visual Center-Periphery Spatial Organization in Deep Convolutional Neural Networks

Research at the intersection of computer vision and neuroscience has revealed hierarchical correspondence between layers of deep convolutional neural networks (DCNNs) and cascade of regions along human ventral visual cortex. Recently, studies have uncovered emergence of human interpretable concepts within DCNNs layers trained to identify visual objects and scenes. Here, we asked whether an artificial neural network (with convolutional structure) trained for visual categorization would demonstrate spatial correspondences with human brain regions showing central/peripheral biases. Using representational similarity analysis, we compared activations of convolutional layers of a DCNN trained for object and scene categorization with neural representations in human brain visual regions. Results reveal a brain-like topographical organization in the layers of the DCNN, such that activations of layer-units with central-bias were associated with brain regions with foveal tendencies (e.g. fusiform gyrus), and activations of layer-units with selectivity for image backgrounds were associated with cortical regions showing peripheral preference (e.g. parahippocampal cortex). The emergence of a categorical topographical correspondence between DCNNs and brain regions suggests these models are a good approximation of the perceptual representation generated by biological neural networks.

Categorical representation from sound and sight in the ventral occipito-temporal cortex of sighted and blind

Is vision necessary for the development of the categorical organization of the Ventral Occipito-Temporal Cortex (VOTC)? We used fMRI to characterize VOTC responses to eight categories presented acoustically in sighted and early blind individuals, and visually in a separate sighted group. We observed that VOTC reliably encodes sound categories in sighted and blind people using a representational structure and connectivity partially similar to the one found in vision. Sound categories were, however, more reliably encoded in the blind than the sighted group, using a representational format closer to the one found in vision. Crucially, VOTC in blind represents the categorical membership of sounds rather than their acoustic features. Our results suggest that sounds trigger categorical responses in the VOTC of congenitally blind and sighted people that partially match the topography and functional profile of the visual response, despite qualitative nuances in the categorical organization of VOTC between modalities and groups.

The world is full of rich and dynamic visual information. To avoid information overload, the human brain groups inputs into categories such as faces, houses, or tools. A part of the brain called the ventral occipito-temporal cortex (VOTC) helps categorize visual information. Specific parts of the VOTC prefer different types of visual input; for example, one part may tend to respond more to faces, whilst another may prefer houses. However, it is not clear how the VOTC characterizes information.

One idea is that similarities between certain types of visual information may drive how information is organized in the VOTC. For example, looking at faces requires using central vision, while looking at houses requires using peripheral vision. Furthermore, all faces have a roundish shape while houses tend to have a more rectangular shape. Another possibility, however, is that the categorization of different inputs cannot be explained just by vision, and is also be driven by higher-level aspects of each category. For instance, how humans use or interact with something may also influence how an input is categorized. If categories are established depending (at least partially) on these higher-level aspects, rather than purely through visual likeness, it is likely that the VOTC would respond similarly to both sounds and images representing these categories.

Now, Mattioni et al. have tested how individuals with and without sight respond to eight different categories of information to find out whether or not categorization is driven purely by visual likeness. Each category was presented to participants using sounds while measuring their brain activity. In addition, a group of participants who could see were also presented with the categories visually. Mattioni et al. then compared what happened in the VOTC of the three groups – sighted people presented with sounds, blind people presented with sounds, and sighted people presented with images – in response to each category.

The experiment revealed that the VOTC organizes both auditory and visual information in a similar way. However, there were more similarities between the way blind people categorized auditory information and how sighted people categorized visual information than between how sighted people categorized each type of input. Mattioni et al. also found that the region of the VOTC that responds to inanimate objects massively overlapped across the three groups, whereas the part of the VOTC that responds to living things was more variable.

These findings suggest that the way that the VOTC organizes information is, at least partly, independent from vision. The experiments also provide some information about how the brain reorganizes in people who are born blind. Further studies may reveal how differences in the VOTC of people with and without sight affect regions typically associated with auditory categorization, and potentially explain how the brain reorganizes in people who become blind later in life.

Assessing the information content of ERP signals in schizophrenia using multivariate decoding methods

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This study took multivariate decoding methods that are widely used to assess the nature of neural representations in neurotypical people and applied them to a comparison of people with schizophrenia and matched control subjects.

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Participants performed a visual working memory task that required remembering 1–5 items from one side of the display and ignoring an equal number of items on the other side of the display.

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We attempted to decode which side was being held in working memory from the scalp distribution of the ERP activity during the delay period of the working memory task, and we found greater decoding accuracy in people with schizophrenia than in control subjects when a single item was being held in memory.

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These results support the hyperfocusing hypothesis of cognitive dysfunction in schizophrenia, and they provide an important proof of concept for applying multivariate decoding methods to comparisons of neural representations in psychiatric and non-psychiatric populations.

Multivariate pattern classification (decoding) methods are commonly employed to study mechanisms of neurocognitive processing in typical individuals, where they can be used to quantify the information that is present in single-participant neural signals. These decoding methods are also potentially valuable in determining how the representation of information differs between psychiatric and non-psychiatric populations. Here, we examined ERPs from people with schizophrenia (PSZ) and healthy control subjects (HCS) in a working memory task that involved remembering 1, 3, or 5 items from one side of the display and ignoring the other side. We used the spatial pattern of ERPs to decode which side of the display was being held in working memory. One might expect that decoding accuracy would be inevitably lower in PSZ as a result of increased noise (i.e., greater trial-to-trial variability). However, we found that decoding accuracy was greater in PSZ than in HCS at memory load 1, consistent with previous research in which memory-related ERP signals were larger in PSZ than in HCS at memory load 1. We also observed that decoding accuracy was strongly related to the ratio of the memory-related ERP activity and the noise level. In addition, we found similar noise levels in PSZ and HCS, counter to the expectation that PSZ would exhibit greater trial-to-trial variability. Together, these results demonstrate that multivariate decoding methods can be validly applied at the individual-participant level to understand the nature of impaired cognitive function in a psychiatric population.

The Importance of Considering Model Choices When Interpreting Results in Computational Neuroimaging

Model-based analyses open exciting opportunities for understanding neural information processing. In a commentary published in eNeuro, Gardner and Liu (2019) discuss the role of model specification in interpreting results derived from complex models of neural data. As a case study, they suggest that one such analysis, the inverted encoding model (IEM), should not be used to assay properties of "stimulus representations" because the ability to apply linear transformations at various stages of the analysis procedure renders results "arbitrary." Here, we argue that the specification of all models is arbitrary to the extent that an experimenter makes choices based on current knowledge of the model system. However, the results derived from any given model, such as the reconstructed channel response profiles obtained from an IEM analysis, are uniquely defined and are arbitrary only in the sense that changes in the model can predictably change results. IEM-based channel response profiles should therefore not be considered arbitrary when the model is clearly specified and guided by our best understanding of neural population representations in the brain regions being analyzed. Intuitions derived from this case study are important to consider when interpreting results from all model-based analyses, which are similarly contingent upon the specification of the models used.

Rhythmic Temporal Expectation Boosts Neural Activity by Increasing Neural Gain

Temporal orienting improves sensory processing, akin to other top-down biases. However, it is unknown whether these improvements reflect increased neural gain to any stimuli presented at expected time points, or specific tuning to task-relevant stimulus aspects. Furthermore, while other top-down biases are selective, the extent of trade-offs across time is less well characterized. Here, we tested whether gain and/or tuning of auditory frequency processing in humans is modulated by rhythmic temporal expectations, and whether these modulations are specific to time points relevant for task performance. Healthy participants (N = 23) of either sex performed an auditory discrimination task while their brain activity was measured using magnetoencephalography/electroencephalography (M/EEG). Acoustic stimulation consisted of sequences of brief distractors interspersed with targets, presented in a rhythmic or jittered way. Target rhythmicity not only improved behavioral discrimination accuracy and M/EEG-based decoding of targets, but also of irrelevant distractors preceding these targets. To explain this finding in terms of increased sensitivity and/or sharpened tuning to auditory frequency, we estimated tuning curves based on M/EEG decoding results, with separate parameters describing gain and sharpness. The effect of rhythmic expectation on distractor decoding was linked to gain increase only, suggesting increased neural sensitivity to any stimuli presented at relevant time points.SIGNIFICANCE STATEMENT Being able to predict when an event may happen can improve perception and action related to this event, likely due to the alignment of neural activity to the temporal structure of stimulus streams. However, it is unclear whether rhythmic increases in neural sensitivity are specific to task-relevant targets, and whether they competitively impair stimulus processing at unexpected time points. By combining magnetoencephalography and encephalographic recordings, neural decoding of auditory stimulus features, and modeling, we found that rhythmic expectation improved neural decoding of both relevant targets and irrelevant distractors presented and expected time points, but did not competitively impair stimulus processing at unexpected time points. Using a quantitative model, these results were linked to nonspecific neural gain increases due to rhythmic expectation.

Measures of Neural Similarity

One fundamental question is what makes two brain states similar. For example, what makes the activity in visual cortex elicited from viewing a robin similar to a sparrow? One common assumption in fMRI analysis is that neural similarity is described by Pearson correlation. However, there are a host of other possibilities, including Minkowski and Mahalanobis measures, with each differing in its mathematical, theoretical, and neural computational assumptions. Moreover, the operable measures may vary across brain regions and tasks. Here, we evaluated which of several competing similarity measures best captured neural similarity. Our technique uses a decoding approach to assess the information present in a brain region, and the similarity measures that best correspond to the classifier’s confusion matrix are preferred. Across two published fMRI datasets, we found the preferred neural similarity measures were common across brain regions but differed across tasks. Moreover, Pearson correlation was consistently surpassed by alternatives.

Alpha/beta power decreases track the fidelity of stimulus-specific information

Massed synchronised neuronal firing is detrimental to information processing. When networks of task-irrelevant neurons fire in unison, they mask the signal generated by task-critical neurons. On a macroscopic level, such synchronisation can contribute to alpha/beta (8-30 Hz) oscillations. Reducing the amplitude of these oscillations, therefore, may enhance information processing. Here, we test this hypothesis. Twenty-one participants completed an associative memory task while undergoing simultaneous EEG-fMRI recordings. Using representational similarity analysis, we quantified the amount of stimulus-specific information represented within the BOLD signal on every trial. When correlating this metric with concurrently-recorded alpha/beta power, we found a significant negative correlation which indicated that as post-stimulus alpha/beta power decreased, stimulus-specific information increased. Critically, we found this effect in three unique tasks: visual perception, auditory perception, and visual memory retrieval, indicating that this phenomenon transcends both stimulus modality and cognitive task. These results indicate that alpha/beta power decreases parametrically track the fidelity of both externally-presented and internally-generated stimulus-specific information represented within the cortex.

Sign and Speech Share Partially Overlapping Conceptual Representations

Conceptual knowledge is fundamental to human cognition. Yet, the extent to which it is influenced by language is unclear. Studies of semantic processing show that similar neural patterns are evoked by the same concepts presented in different modalities (e.g., spoken words and pictures or text) [1, 2, 3]. This suggests that conceptual representations are “modality independent.” However, an alternative possibility is that the similarity reflects retrieval of common spoken language representations. Indeed, in hearing spoken language users, text and spoken language are co-dependent [4, 5], and pictures are encoded via visual and verbal routes [6]. A parallel approach investigating semantic cognition shows that bilinguals activate similar patterns for the same words in their different languages [7, 8]. This suggests that conceptual representations are “language independent.” However, this has only been tested in spoken language bilinguals. If different languages evoke different conceptual representations, this should be most apparent comparing languages that differ greatly in structure. Hearing people with signing deaf parents are bilingual in sign and speech: languages conveyed in different modalities. Here, we test the influence of modality and bilingualism on conceptual representation by comparing semantic representations elicited by spoken British English and British Sign Language in hearing early, sign-speech bilinguals. We show that representations of semantic categories are shared for sign and speech, but not for individual spoken words and signs. This provides evidence for partially shared representations for sign and speech and shows that language acts as a subtle filter through which we understand and interact with the world.

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RSA analyses show that semantic categories are shared for sign and speech

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Neural patterns for individual spoken words and signs differ

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Spoken word and sign form representations are found in auditory and visual cortices

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Language acts as a subtle filter through which we interact with the world

A Guide to Representational Similarity Analysis for Social Neuroscience

Representational similarity analysis (RSA) is a computational technique that uses pairwise comparisons of stimuli to reveal their representation in higher-order space. In the context of neuroimaging, mass-univariate analyses and other multivariate analyses can provide information on what and where information is represented but have limitations in their ability to address how information is represented. Social neuroscience is a field that can particularly benefit from incorporating RSA techniques to explore hypotheses regarding the representation of multidimensional data, how representations can predict behavior, how representations differ between groups and how multimodal data can be compared to inform theories. The goal of this paper is to provide a practical as well as theoretical guide to implementing RSA in social neuroscience studies.

Representational Organization of Novel Task Sets during Proactive Encoding

Recent multivariate analyses of brain data have boosted our understanding of the organizational principles that shape neural coding. However, most of this progress has focused on perceptual visual regions (Connolly et al., 2012), whereas far less is known about the organization of more abstract, action-oriented representations. In this study, we focused on humans' remarkable ability to turn novel instructions into actions. While previous research shows that instruction encoding is tightly linked to proactive activations in frontoparietal brain regions, little is known about the structure that orchestrates such anticipatory representation. We collected fMRI data while participants (both males and females) followed novel complex verbal rules that varied across control-related variables (integrating within/across stimuli dimensions, response complexity, target category) and reward expectations. Using representational similarity analysis (Kriegeskorte et al., 2008), we explored where in the brain these variables explained the organization of novel task encoding, and whether motivation modulated these representational spaces. Instruction representations in the lateral PFC were structured by the three control-related variables, whereas intraparietal sulcus encoded response complexity and the fusiform gyrus and precuneus organized its activity according to the relevant stimulus category. Reward exerted a general effect, increasing the representational similarity among different instructions, which was robustly correlated with behavioral improvements. Overall, our results highlight the flexibility of proactive task encoding, governed by distinct representational organizations in specific brain regions. They also stress the variability of motivation-control interactions, which appear to be highly dependent on task attributes, such as complexity or novelty.SIGNIFICANCE STATEMENT In comparison with other primates, humans display a remarkable success in novel task contexts thanks to our ability to transform instructions into effective actions. This skill is associated with proactive task-set reconfigurations in frontoparietal cortices. It remains yet unknown, however, how the brain encodes in anticipation the flexible, rich repertoire of novel tasks that we can achieve. Here we explored cognitive control and motivation-related variables that might orchestrate the representational space for novel instructions. Our results showed that different dimensions become relevant for task prospective encoding, depending on the brain region, and that the lateral PFC simultaneously organized task representations following different control-related variables. Motivation exerted a general modulation upon this process, diminishing rather than increasing distances among instruction representations.

Analysing linear multivariate pattern transformations in neuroimaging data

Most connectivity metrics in neuroimaging research reduce multivariate activity patterns in regions-of-interests (ROIs) to one dimension, which leads to a loss of information. Importantly, it prevents us from investigating the transformations between patterns in different ROIs. Here, we applied linear estimation theory in order to robustly estimate the linear transformations between multivariate fMRI patterns with a cross-validated ridge regression approach. We used three functional connectivity metrics that describe different features of these voxel-by-voxel mappings: goodness-of-fit, sparsity and pattern deformation. The goodness-of-fit describes the degree to which the patterns in an input region can be described as a linear transformation of patterns in an output region. The sparsity metric, which relies on a Monte Carlo procedure, was introduced in order to test whether the transformation mostly consists of one-to-one mappings between voxels in different regions. Furthermore, we defined a metric for pattern deformation, i.e. the degree to which the transformation rotates or rescales the input patterns. As a proof of concept, we applied these metrics to an event-related fMRI data set consisting of four subjects that has been used in previous studies. We focused on the transformations from early visual cortex (EVC) to inferior temporal cortex (ITC), fusiform face area (FFA) and parahippocampal place area (PPA). Our results suggest that the estimated linear mappings explain a significant amount of response variance in the three output ROIs. The transformation from EVC to ITC shows the highest goodness-of-fit, and those from EVC to FFA and PPA show the expected preference for faces and places as well as animate and inanimate objects, respectively. The pattern transformations are sparse, but sparsity is lower than would have been expected for one-to-one mappings, thus suggesting the presence of one-to-few voxel mappings. The mappings are also characterised by different levels of pattern deformations, thus indicating that the transformations differentially amplify or dampen certain dimensions of the input patterns. While our results are only based on a small number of subjects, they show that our pattern transformation metrics can describe novel aspects of multivariate functional connectivity in neuroimaging data.

Scene Representations Conveyed by Cortical Feedback to Early Visual Cortex Can Be Described by Line Drawings

Human behavior is dependent on the ability of neuronal circuits to predict the outside world. Neuronal circuits in early visual areas make these predictions based on internal models that are delivered via non-feedforward connections. Despite our extensive knowledge of the feedforward sensory features that drive cortical neurons, we have a limited grasp on the structure of the brain's internal models. Progress in neuroscience therefore depends on our ability to replicate the models that the brain creates internally. Here we record human fMRI data while presenting partially occluded visual scenes. Visual occlusion allows us to experimentally control sensory input to subregions of visual cortex while internal models continue to influence activity in these regions. Because the observed activity is dependent on internal models, but not on sensory input, we have the opportunity to map visual features conveyed by the brain's internal models. Our results show that activity related to internal models in early visual cortex are more related to scene-specific features than to categorical or depth features. We further demonstrate that behavioral line drawings provide a good description of internal model structure representing scene-specific features. These findings extend our understanding of internal models, showing that line drawings provide a window into our brains' internal models of vision.

SIGNIFICANCE STATEMENT We find that fMRI activity patterns corresponding to occluded visual information in early visual cortex fill in scene-specific features. Line drawings of the missing scene information correlate with our recorded activity patterns, and thus to internal models. Despite our extensive knowledge of the sensory features that drive cortical neurons, we have a limited grasp on the structure of our brains' internal models. These results therefore constitute an advance to the field of neuroscience by extending our knowledge about the models that our brains construct to efficiently represent and predict the world. Moreover, they link a behavioral measure to these internal models, which play an active role in many components of human behavior, including visual predictions, action planning, and decision making.

Reward Boosts Neural Coding of Task Rules to Optimize Cognitive Flexibility

Cognitive flexibility is critical for intelligent behavior. However, its execution is effortful and often suboptimal. Recent work indicates that flexible behavior can be improved by the prospect of reward, which suggests that rewards optimize flexible control processes. Here we investigated how different reward prospects influence neural encoding of task rule information to optimize cognitive flexibility. We applied representational similarity analysis to human electroencephalograms, recorded while female and male participants performed a rule-guided decision-making task. During the task, the prospect of reward varied from trial to trial. Participants made faster, more accurate judgements on high-reward trials. Critically, high reward boosted neural coding of the active task rule, and the extent of this increase was associated with improvements in task performance. Additionally, the effect of high reward on task rule coding was most pronounced on switch trials, where rules were updated relative to the previous trial. These results suggest that reward prospect can promote cognitive performance by strengthening neural coding of task rule information, helping to improve cognitive flexibility during complex behavior.

SIGNIFICANCE STATEMENT The importance of motivation is evident in the ubiquity with which reward prospect guides adaptive behavior and the striking number of neurological conditions associated with motivational impairments. In this study, we investigated how dynamic changes in motivation, as manipulated through reward, shape neural coding for task rules during a flexible decision-making task. The results of this work suggest that motivation to obtain reward modulates the encoding of task rules needed for flexible behavior. The extent to which reward increased task rule coding also tracked improvements in behavioral performance under high-reward conditions. These findings help to inform how motivation shapes neural processing in the healthy human brain.

Using neural distance to predict reaction time for categorizing the animacy, shape, and abstract properties of objects

A large number of neuroimaging studies have shown that information about object category can be decoded from regions of the ventral visual pathway. One question is how this information might be functionally exploited in the brain. In an attempt to help answer this question, some studies have adopted a neural distance-to-bound approach, and shown that distance to a classifier decision boundary through neural activation space can be used to predict reaction times (RT) on animacy categorization tasks. However, these experiments have not controlled for possible visual confounds, such as shape, in their stimulus design. In the present study we sought to determine whether, when animacy and shape properties are orthogonal, neural distance in low- and high-level visual cortex would predict categorization RTs, and whether a combination of animacy and shape distance might predict RTs when categories crisscrossed the two stimulus dimensions, and so were not linearly separable. In line with previous results, we found that RTs correlated with neural distance, but only for animate stimuli, with similar, though weaker, asymmetric effects for the shape and crisscrossing tasks. Taken together, these results suggest there is potential to expand the neural distance-to-bound approach to other divisions beyond animacy and object category.

Neural Organization of Hierarchical Motor Sequence Representations in the Human Neocortex

Although it is widely accepted that the brain represents movement sequences hierarchically, the neural implementation of this organization is still poorly understood. To address this issue, we experimentally manipulated how participants represented sequences of finger presses at the levels of individual movements, chunks, and entire sequences. Using representational fMRI analyses, we then examined how this hierarchical structure was reflected in the fine-grained brain activity patterns of the participants while they performed the 8 trained sequences. We found clear evidence of each level of the movement hierarchy at the representational level. However, anatomically, chunk and sequence representations substantially overlapped in the premotor and parietal cortices, whereas individual movements were uniquely represented in the primary motor cortex. The findings challenge the common hypothesis of an orderly anatomical separation of different levels of an action hierarchy and argue for a special status of the distinction between individual movements and sequential context.

Binding During Sequence Learning Does Not Alter Cortical Representations of Individual Actions

As a sequence of movements is learned, serially ordered actions get bound together into sets to reduce computational complexity during planning and execution. Here, we investigated how actions become naturally bound over the course of learning and how this learning affects cortical representations of individual actions. Across 5 weeks of practice, neurologically healthy human subjects learned either a complex 32-item sequence of finger movements (trained group, n = 9; 3 female) or randomly ordered actions (control group, n = 9; 3 female). Over the course of practice, responses during sequence production in the trained group became temporally correlated, consistent with responses being bound together under a common command. These behavioral changes, however, did not coincide with plasticity in the multivariate representations of individual finger movements, assessed using fMRI, at any level of the cortical motor hierarchy. This suggests that the representations of individual actions remain stable, even as the execution of those same actions become bound together in the context of producing a well learned sequence.SIGNIFICANCE STATEMENT Extended practice on motor sequences results in highly stereotyped movement patterns that bind successive movements together. This binding is critical for skilled motor performance, yet it is not currently understood how it is achieved in the brain. We examined how binding altered the patterns of activity associated with individual movements that make up the sequence. We found that fine finger control during sequence production involved correlated activity throughout multiple motor regions; however, we found no evidence for plasticity of the representations of elementary movements. This suggests that binding is associated with plasticity at a more abstract level of the motor hierarchy.

Functional boundaries in the human cerebellum revealed by a multi-domain task battery

There is compelling evidence that the human cerebellum is engaged in a wide array of motor and cognitive tasks. A fundamental question centers on whether the cerebellum is organized into distinct functional subregions. To address this question, we employed a rich task battery designed to tap into a broad range of cognitive processes. During four functional MRI sessions, participants performed a battery of 26 diverse tasks comprising 47 unique conditions. Using the data from this multi-domain task battery, we derived a comprehensive functional parcellation of the cerebellar cortex and evaluated it by predicting functional boundaries in a novel set of tasks. The new parcellation successfully identified distinct functional subregions, providing significant improvements over existing parcellations derived from task-free data. Lobular boundaries, commonly used to summarize functional data, did not coincide with functional subdivisions. The new parcellation provides a functional atlas to guide future neuroimaging studies.

Feasibility of topological data analysis for event-related fMRI

Recent fMRI research shows that perceptual and cognitive representations are instantiated in high-dimensional multivoxel patterns in the brain. However, the methods for detecting these representations are limited. Topological data analysis (TDA) is a new approach, based on the mathematical field of topology, that can detect unique types of geometric features in patterns of data. Several recent studies have successfully applied TDA to study various forms of neural data; however, to our knowledge, TDA has not been successfully applied to data from event-related fMRI designs. Event-related fMRI is very common but limited in terms of the number of events that can be run within a practical time frame and the effect size that can be expected. Here, we investigate whether persistent homology-a popular TDA tool that identifies topological features in data and quantifies their robustness-can identify known signals given these constraints. We use fmrisim, a Python-based simulator of realistic fMRI data, to assess the plausibility of recovering a simple topological representation under a variety of conditions. Our results suggest that persistent homology can be used under certain circumstances to recover topological structure embedded in realistic fMRI data simulations.

The spatiotemporal neural dynamics underlying perceived similarity for real-world objects

The degree to which we perceive real-world objects as similar or dissimilar structures our perception and guides categorization behavior. Here, we investigated the neural representations enabling perceived similarity using behavioral judgments, fMRI and MEG. As different object dimensions co-occur and partly correlate, to understand the relationship between perceived similarity and brain activity it is necessary to assess the unique role of multiple object dimensions. We thus behaviorally assessed perceived object similarity in relation to shape, function, color and background. We then used representational similarity analyses to relate these behavioral judgments to brain activity. We observed a link between each object dimension and representations in visual cortex. These representations emerged rapidly within 200 ms of stimulus onset. Assessing the unique role of each object dimension revealed partly overlapping and distributed representations: while color-related representations distinctly preceded shape-related representations both in the processing hierarchy of the ventral visual pathway and in time, several dimensions were linked to high-level ventral visual cortex. Further analysis singled out the shape dimension as neither fully accounted for by supra-category membership, nor a deep neural network trained on object categorization. Together our results comprehensively characterize the relationship between perceived similarity of key object dimensions and neural activity.

Variational representational similarity analysis

This technical note describes a variational or Bayesian implementation of representational similarity analysis (RSA) and pattern component modelling (PCM). It considers RSA and PCM as Bayesian model comparison procedures that assess the evidence for stimulus or condition-specific patterns of responses distributed over voxels or channels. On this view, one can use standard variational inference procedures to quantify the contributions of particular patterns to the data, by evaluating second-order parameters or hyperparameters. Crucially, this allows one to use parametric empirical Bayes (PEB) to infer which patterns are consistent among subjects. At the between-subject level, one can then assess the evidence for different (combinations of) hypotheses about condition-specific effects using Bayesian model comparison. Alternatively, one can select a single hypothesis that best explains the pattern of responses using Bayesian model selection. This note rehearses the technical aspects of within and between-subject RSA using a worked example, as implemented in the Statistical Parametric Mapping (SPM) software. En route, we highlight the connection between univariate and multivariate analyses of neuroimaging data and the sorts of analyses that are possible using component modelling and representational similarity analysis.

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We introduce variational RSA, a method for multivariate analysis in neuroimaging.

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This treats RSA a standard covariance component estimation problem.

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An efficient estimation scheme, variational Laplace, is used to estimate parameters.

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Bayesian model comparison is used to optimally test for mixtures of effects.

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We illustrate the approach using simulated and empirical fMRI data.

Evidence for a subcortical origin of mirror movements after stroke: a longitudinal study

Following a stroke, mirror movements are unintended movements that appear in the non-paretic hand when the paretic hand voluntarily moves. Mirror movements have previously been linked to overactivation of sensorimotor areas in the non-lesioned hemisphere. In this study, we hypothesized that mirror movements might instead have a subcortical origin, and are the by-product of subcortical motor pathways upregulating their contributions to the paretic hand. To test this idea, we first characterized the time course of mirroring in 53 first-time stroke patients, and compared it to the time course of activities in sensorimotor areas of the lesioned and non-lesioned hemispheres (measured using functional MRI). Mirroring in the non-paretic hand was exaggerated early after stroke (Week 2), but progressively diminished over the year with a time course that parallelled individuation deficits in the paretic hand. We found no evidence of cortical overactivation that could explain the time course changes in behaviour, contrary to the cortical model of mirroring. Consistent with a subcortical origin of mirroring, we predicted that subcortical contributions should broadly recruit fingers in the non-paretic hand, reflecting the limited capacity of subcortical pathways in providing individuated finger control. We therefore characterized finger recruitment patterns in the non-paretic hand during mirroring. During mirroring, non-paretic fingers were broadly recruited, with mirrored forces in homologous fingers being only slightly larger (1.76 times) than those in non-homologous fingers. Throughout recovery, the pattern of finger recruitment during mirroring for patients looked like a scaled version of the corresponding control mirroring pattern, suggesting that the system that is responsible for mirroring in controls is upregulated after stroke. Together, our results suggest that post-stroke mirror movements in the non-paretic hand, like enslaved movements in the paretic hand, are caused by the upregulation of a bilaterally organized subcortical system.

The Ventral Visual Pathway Represents Animal Appearance over Animacy, Unlike Human Behavior and Deep Neural Networks

Recent studies showed agreement between how the human brain and neural networks represent objects, suggesting that we might start to understand the underlying computations. However, we know that the human brain is prone to biases at many perceptual and cognitive levels, often shaped by learning history and evolutionary constraints. Here, we explore one such perceptual phenomenon, perceiving animacy, and use the performance of neural networks as a benchmark. We performed an fMRI study that dissociated object appearance (what an object looks like) from object category (animate or inanimate) by constructing a stimulus set that includes animate objects (e.g., a cow), typical inanimate objects (e.g., a mug), and, crucially, inanimate objects that look like the animate objects (e.g., a cow mug). Behavioral judgments and deep neural networks categorized images mainly by animacy, setting all objects (lookalike and inanimate) apart from the animate ones. In contrast, activity patterns in ventral occipitotemporal cortex (VTC) were better explained by object appearance: animals and lookalikes were similarly represented and separated from the inanimate objects. Furthermore, the appearance of an object interfered with proper object identification, such as failing to signal that a cow mug is a mug. The preference in VTC to represent a lookalike as animate was even present when participants performed a task requiring them to report the lookalikes as inanimate. In conclusion, VTC representations, in contrast to neural networks, fail to represent objects when visual appearance is dissociated from animacy, probably due to a preferred processing of visual features typical of animate objects.SIGNIFICANCE STATEMENT How does the brain represent objects that we perceive around us? Recent advances in artificial intelligence have suggested that object categorization and its neural correlates have now been approximated by neural networks. Here, we show that neural networks can predict animacy according to human behavior but do not explain visual cortex representations. In ventral occipitotemporal cortex, neural activity patterns were strongly biased toward object appearance, to the extent that objects with visual features resembling animals were represented closely to real animals and separated from other objects from the same category. This organization that privileges animals and their features over objects might be the result of learning history and evolutionary constraints.