The hippocampus, spatial planning, generative models and memory consolidation
Much is known about the neural representations of current environmental location and direction within the hippocampal formation, but use of such a “cognitive map” requires the online representation of desired locations and how to get there, and the neural basis for this function has been more elusive. I will discuss how “theta sweeps” of place and grid cell firing encode the current location (at early phases of each theta cycle) while, at later phases, sampling around the forward direction during exploration and indicating the direction to desired locations during goal-directed navigation. I will show how a relatively simple attractor model captures these results, but requires inputs signalling movement-direction and goal-direction.I will discuss why it is useful to consider the hippocampus as a generative model (in which head-direction, rather than movement-direction, is required, to translate egocentric sensory inputs to allocentric latent representations and back again) in explaining its roles in both spatial cognition and memory consolidation. “Replay sequences” are thought to support offline consolidation, and likely resemble theta sweeps more than behavioural experience. I will finish (given time) by considering how human memory consolidation can be seen as extraction of latent variables from replay via self-supervised learning, and how this perspective explains aspects of human memory such as gist-based distortions, imagination and planning. Presented in the van Vreeswijk Theoretical Neuroscience Seminar series (formerly WWTNS) on 2026-02-25. Recording duration: 00:46:52.
Unpacking the role of the medial septum in spatial coding in the medial entorhinal cortex
Neural mechanisms of memory linking and replay: inhibition matters
My talk will consist of three subtopics. The brain remembers episodes not in isolation but with their contextual relationships, such as spatial or temporal proximity. This is an essential feature of the brain’s memory, but the underlying mechanism is yet to be explored. Cell assemblies, or engrams, may provide neural representations for such relationships. First, I will show a class of associative memory models that encode and retrieve multiple memory contents linked by an arbitrary graph structure through experience and demonstrate the crucial role of the balance between two inhibitory subnetwork types in the flexible retrieval of relational memories. Secondly, I propose a theoretical framework to generate a cognitive map, i.e., neural representations of relationships between memory items. This framework aims at the predictive function of the hippocampus and is based on successor representations proposed for reinforcement learning. Intriguingly, the model provides a unified account for grid cells in spatial navigation and concept cells in natural language processing. Finally, I will discuss another crucial role of the hippocampal memory system, memory replay, in a spiking neural network model. Unlike the conventional associative memory models that maintain attractor memory states, this model attempts to maximize the capacity of replayed activity patterns. Our model suggests the crucial role of inhibitory plasticity in optimizing spontaneous memory replay. Presented in the van Vreeswijk Theoretical Neuroscience Seminar series (formerly WWTNS) on 2025-05-14. Recording duration: 00:46:49.
A specialized role for entorhinal attractor dynamics in combining path integration and landmarks during navigation
During navigation, animals estimate their position using path integration and landmarks. In a series of two studies, we used virtual reality and electrophysiology to dissect how these inputs combine to generate the brain’s spatial representations. In the first study (Campbell et al., 2018), we focused on the medial entorhinal cortex (MEC) and its set of navigationally-relevant cell types, including grid cells, border cells, and speed cells. We discovered that attractor dynamics could explain an array of initially puzzling MEC responses to virtual reality manipulations. This theoretical framework successfully predicted both MEC grid cell responses to additional virtual reality manipulations, as well as mouse behavior in a virtual path integration task. In the second study (Campbell*, Attinger* et al., 2021), we asked whether these principles generalize to other navigationally-relevant brain regions. We used Neuropixels probes to record thousands of neurons from MEC, primary visual cortex (V1), and retrosplenial cortex (RSC). In contrast to the prevailing view that “everything is everywhere all at once,” we identified a unique population of MEC neurons, overlapping with grid cells, that became active with striking spatial periodicity while head-fixed mice ran on a treadmill in darkness. These neurons exhibited unique cue-integration properties compared to other MEC, V1, or RSC neurons: they remapped more readily in response to conflicts between path integration and landmarks; they coded position prospectively as opposed to retrospectively; they upweighted path integration relative to landmarks in conditions of low visual contrast; and as a population, they exhibited a lower-dimensional activity structure. Based on these results, our current view is that MEC attractor dynamics play a privileged role in resolving conflicts between path integration and landmarks during navigation. Future work should include carefully designed causal manipulations to rigorously test this idea, and expand the theoretical framework to incorporate notions of uncertainty and optimality.
No Free Lunch from Deep Learning in Neuroscience: A Case Study through Models of the Entorhinal-Hippocampal Circuit
Research in Neuroscience, as in many scientific disciplines, is undergoing a renaissance based on deep learning. Unique to Neuroscience, deep learning models can be used not only as a tool but interpreted as models of the brain. The central claims of recent deep learning-based models of brain circuits are that they shed light on fundamental functions being optimized or make novel predictions about neural phenomena. We show, through the case-study of grid cells in the entorhinal-hippocampal circuit, that one may get neither. We rigorously examine the claims of deep learning models of grid cells using large-scale hyperparameter sweeps and theory-driven experimentation, and demonstrate that the results of such models are more strongly driven by particular, non-fundamental, and post-hoc implementation choices than fundamental truths about neural circuits or the loss function(s) they might optimize. We discuss why these models cannot be expected to produce accurate models of the brain without the addition of substantial amounts of inductive bias, an informal No Free Lunch result for Neuroscience.
Efficient Random Codes in a Shallow Neural Network
Efficient coding has served as a guiding principle in understanding the neural code. To date, however, it has been explored mainly in the context of peripheral sensory cells with simple tuning curves. By contrast, ‘deeper’ neurons such as grid cells come with more complex tuning properties which imply a different, yet highly efficient, strategy for representing information. I will show that a highly efficient code is not specific to a population of neurons with finely tuned response properties: it emerges robustly in a shallow network with random synapses. Here, the geometry of population responses implies that optimality obtains from a tradeoff between two qualitatively different types of error: ‘local’ errors (common to classical neural population codes) and ‘global’ (or ‘catastrophic’) errors. This tradeoff leads to efficient compression of information from a high-dimensional representation to a low-dimensional one. After describing the theoretical framework, I will use it to re-interpret recordings of motor cortex in behaving monkey. Our framework addresses the encoding of (sensory) information; if time allows, I will comment on ongoing work that focuses on decoding from the perspective of efficient coding.
Neural Codes for Natural Behaviors in Flying Bats
This talk will focus on the importance of using natural behaviors in neuroscience research – the “Natural Neuroscience” approach. I will illustrate this point by describing studies of neural codes for spatial behaviors and social behaviors, in flying bats – using wireless neurophysiology methods that we developed – and will highlight new neuronal representations that we discovered in animals navigating through 3D spaces, or in very large-scale environments, or engaged in social interactions. In particular, I will discuss: (1) A multi-scale neural code for very large environments, which we discovered in bats flying in a 200-meter long tunnel. This new type of neural code is fundamentally different from spatial codes reported in small environments – and we show theoretically that it is superior for representing very large spaces. (2) Rapid modulation of position × distance coding in the hippocampus during collision-avoidance behavior between two flying bats. This result provides a dramatic illustration of the extreme dynamism of the neural code. (3) Local-but-not-global order in 3D grid cells – a surprising experimental finding, which can be explained by a simple physics-inspired model, which successfully describes both 3D and 2D grids. These results strongly argue against many of the classical, geometrically-based models of grid cells. (4) I will also briefly describe new results on the social representation of other individuals in the hippocampus, in a highly social multi-animal setting. The lecture will propose that neuroscience experiments – in bats, rodents, monkeys or humans – should be conducted under evermore naturalistic conditions.
Distance-tuned neurons drive specialized path integration calculations in medial entorhinal cortex
During navigation, animals estimate their position using path integration and landmarks, engaging many brain areas. Whether these areas follow specialized or universal cue integration principles remains incompletely understood. We combine electrophysiology with virtual reality to quantify cue integration across thousands of neurons in three navigation-relevant areas: primary visual cortex (V1), retrosplenial cortex (RSC), and medial entorhinal cortex (MEC). Compared with V1 and RSC, path integration influences position estimates more in MEC, and conflicts between path integration and landmarks trigger remapping more readily. Whereas MEC codes position prospectively, V1 codes position retrospectively, and RSC is intermediate between the two. Lowered visual contrast increases the influence of path integration on position estimates only in MEC. These properties are most pronounced in a population of MEC neurons, overlapping with grid cells, tuned to distance run in darkness. These results demonstrate the specialized role that path integration plays in MEC compared with other navigation-relevant cortical areas.
Self-organized formation of discrete grid cell modules from smooth gradients
Modular structures in myriad forms — genetic, structural, functional — are ubiquitous in the brain. While modularization may be shaped by genetic instruction or extensive learning, the mechanisms of module emergence are poorly understood. Here, we explore complementary mechanisms in the form of bottom-up dynamics that push systems spontaneously toward modularization. As a paradigmatic example of modularity in the brain, we focus on the grid cell system. Grid cells of the mammalian medial entorhinal cortex (mEC) exhibit periodic lattice-like tuning curves in their encoding of space as animals navigate the world. Nearby grid cells have identical lattice periods, but at larger separations along the long axis of mEC the period jumps in discrete steps so that the full set of periods cluster into 5-7 discrete modules. These modules endow the grid code with many striking properties such as an exponential capacity to represent space and unprecedented robustness to noise. However, the formation of discrete modules is puzzling given that biophysical properties of mEC stellate cells (including inhibitory inputs from PV interneurons, time constants of EPSPs, intrinsic resonance frequency and differences in gene expression) vary smoothly in continuous topographic gradients along the mEC. How does discreteness in grid modules arise from continuous gradients? We propose a novel mechanism involving two simple types of lateral interaction that leads a continuous network to robustly decompose into discrete functional modules. We show analytically that this mechanism is a generic multi-scale linear instability that converts smooth gradients into discrete modules via a topological “peak selection” process. Further, this model generates detailed predictions about the sequence of adjacent period ratios, and explains existing grid cell data better than existing models. Thus, we contribute a robust new principle for bottom-up module formation in biology, and show that it might be leveraged by grid cells in the brain.
Dynamic maps of a dynamic world
Extensive research has revealed that the hippocampus and entorhinal cortex maintain a rich representation of space through the coordinated activity of place cells, grid cells, and other spatial cell types. Frequently described as a ‘cognitive map’ or a ‘hippocampal map’, these maps are thought to support episodic memory through their instantiation and retrieval. Though often a useful and intuitive metaphor, a map typically evokes a static representation of the external world. However, the world itself, and our experience of it, are intrinsically dynamic. In order to make the most of their maps, a navigator must be able to adapt to, incorporate, and overcome these dynamics. Here I describe three projects where we address how hippocampal and entorhinal representations do just that. In the first project, I describe how boundaries dynamically anchor entorhinal grid cells and human spatial memory alike when the shape of a familiar environment is changed. In the second project, I describe how the hippocampus maintains a representation of the recent past even in the absence of disambiguating sensory and explicit task demands, a representation which causally depends on intrinsic hippocampal circuitry. In the third project, I describe how the hippocampus preserves a stable representation of context despite ongoing representational changes across a timescale of weeks. Together, these projects highlight the dynamic and adaptive nature of our hippocampal and entorhinal representations, and set the stage for future work building on these techniques and paradigms.
Using extra-hippocampal cognitive maps for goal-directed spatial navigation
Goal-directed navigation requires precise estimates of spatial relationships between current position and future goal, as well as planning of an associated route or action. While neurons in the hippocampal formation can represent the animal’s position and nearby trajectories, their role in determining the animal’s destination or action has been questioned. We thus hypothesize that brain regions outside the hippocampal formation may play complementary roles in navigation, particularly for guiding goal-directed behaviours based on the brain’s internal cognitive map. In this seminar, I will first describe a subpopulation of neurons in the retrosplenial cortex (RSC) that increase their firing when the animal approaches environmental boundaries, such as walls or edges. This boundary coding is independent of direct visual or tactile sensation but instead depends on inputs from the medial entorhinal cortex (MEC) that contains spatial tuning cells, such as grid cells or border cells. However, unlike MEC border cells, we found that RSC border cells encode environmental boundaries in a self-centred egocentric coordinate frame, which may allow an animal for efficient avoidance from approaching walls or edges during navigation. I will then discuss whether the brain can possess a precise estimate of remote target location during active environmental exploration. Such a spatial code has not been described in the hippocampal formation. However, we found that neurons in the rat orbitofrontal cortex (OFC) form spatial representations that persistently point to the animal’s subsequent goal destination throughout navigation. This destination coding emerges before navigation onset without direct sensory access to a distal goal, and are maintained via destination-specific neural ensemble dynamics. These findings together suggest key roles for extra-hippocampal regions in spatial navigation, enabling animals to choose appropriate actions toward a desired destination by avoiding possible dangers.
Locally-ordered representation of 3D space in the entorhinal cortex
When animals navigate on a two-dimensional (2D) surface, many neurons in the medial entorhinal cortex (MEC) are activated as the animal passes through multiple locations (‘firing fields’) arranged in a hexagonal lattice that tiles the locomotion-surface; these neurons are known as grid cells. However, although our world is three-dimensional (3D), the 3D volumetric representation in MEC remains unknown. Here we recorded MEC cells in freely-flying bats and found several classes of spatial neurons, including 3D border cells, 3D head-direction cells, and neurons with multiple 3D firing-fields. Many of these multifield neurons were 3D grid cells, whose neighboring fields were separated by a characteristic distance – forming a local order – but these cells lacked any global lattice arrangement of their fields. Thus, while 2D grid cells form a global lattice – characterized by both local and global order – 3D grid cells exhibited only local order, thus creating a locally ordered metric for space. We modeled grid cells as emerging from pairwise interactions between fields, which yielded a hexagonal lattice in 2D and local order in 3D – thus describing both 2D and 3D grid cells using one unifying model. Together, these data and model illuminate the fundamental differences and similarities between neural codes for 3D and 2D space in the mammalian brain.
Slow global population dynamics propagating through the medial entorhinal cortex
The medial entorhinal cortex (MEC) supports the brain’s representation of space with distinct cell types whose firing is tuned to features of the environment (grid, border, and object-vector cells) or navigation (head-direction and speed cells). While the firing properties of these functionally-distinct cell types are well characterized, how they interact with one another remains unknown. To determine how activity self-organizes in the MEC network, we tested mice in a spontaneous locomotion task under sensory-deprived conditions. Using 2-photon calcium imaging, we monitored the activity of large populations of MEC neurons in head-fixed mice running on a wheel in darkness, in the absence of external sensory feedback tuned to navigation. We unveiled the presence of motifs that involve the sequential activation of cells in layer II of MEC (MEC-L2). We call these motifs waves. Waves lasted tens of seconds to minutes, were robust, swept through the entire network of active cells and did not exhibit any anatomical organization. Furthermore, waves did not map the position of the mouse on the wheel and were not restricted to running epochs. The majority of MEC-L2 neurons participate in this global sequential dynamics, that ties all functional cell types together. We found the waves in the most lateral region of MEC, but not in adjacent areas such as PaS or in a sensory cortex such as V1.
Linking neural representations of space by multiple attractor networks in the entorhinal cortex and the hippocampus
In the past decade evidence has accumulated in favor of the hypothesis that multiple sub-networks in the medial entorhinal cortex (MEC) are characterized by low-dimensional, continuous attractor dynamics. Much has been learned about the joint activity of grid cells within a module (a module consists of grid cells that share a common grid spacing), but little is known about the interactions between them. Under typical conditions of spatial exploration in which sensory cues are abundant, all grid-cells in the MEC represent the animal’s position in space and their joint activity lies on a two-dimensional manifold. However, if the grid cells in a single module mechanistically constitute independent attractor networks, then under conditions in which salient sensory cues are absent, errors could accumulate in the different modules in an uncoordinated manner. Such uncoordinated errors would give rise to catastrophic readout errors when attempting to decode position from the joint grid-cell activity. I will discuss recent theoretical works from our group, in which we explored different mechanisms that could impose coordination in the different modules. One of these mechanisms involves coordination with the hippocampus and must be set up such that it operates across multiple spatial maps that represent different environments. The other mechanism is internal to the entorhinal cortex and independent of the hippocampus.
Perturbing the spatio-temporal organization of the grid cell network
The Role of Hippocampal Replay in Memory Consolidation
The hippocampus lies at the centre of a network of brain regions thought to support spatial and episodic memory. Place cells - the principal cell of the hippocampus, represent information about an animal’s spatial location. Yet, during rest and awake quiescence place cells spontaneously recapitulate past trajectories (‘replay’). Replay has been hypothesised to support systems consolidation – the stabilisation of new memories via maturation of complementary cortical memory traces. Indeed, in recent work we found place and grid cells, from the deep medial entorhinal cortex (dMEC, the principal cortical output region of the hippocampus), replayed coherently during rest periods. Importantly, dMEC grid cells lagged place cells by ~11ms; suggesting the coordination may reflect consolidation. Moreover, preliminary data shows that the dMEC-hippocampal coordination strengthens as an animal becomes familiar with a task and that it may be led by directionally modulated cells. Finally, on-going work, in my recently established lab, shows replay may represent the mechanism underlying the maturation of episodic/spatial memory in pre-weanling pups. Together, these results indicate replay may play a central role in ensuring the permanency of memories.
Revealing the neural basis of human memory with direct recordings of place and grid cells and traveling waves
The ability to remember spatial environments is critical for everyday life. In this talk, I will discuss my lab’s findings on how the human brain supports spatial memory and navigation based on our experiments with direct brain recordings from neurosurgical patients performing virtual-reality spatial memory tasks. I will show that humans have a network of neurons that represent where we are located and trying to go. This network includes some cell types that are similar to those seen in animals, such as place and grid cells, as well as others that have not been seen before in animals, such as anchor and spatial-target cells. I also will explore the role of network oscillations in human memory, where humans again show several distinctive patterns compared to animals. Whereas rodents generally show a hippocampal oscillation at ~8Hz, humans have two separate hippocampal oscillations, at low and high frequencies, which support memory and navigation, respectively. Finally, I will show that neural oscillations in humans are traveling waves, propagating across the cortex, to coordinate the timing of neuronal activity across regions, which is another property not seen in animals. A theme from this work is that in terms of navigation and memory the human brain has novel characteristics compared with animals, which helps explain our rich behavioural abilities and has implications for treating disease and neurological disorders.