Cortex and subcortex play distinct roles over learning when cortical memory is limited

How the wiring and functional organization of cortex shape recurrent computation remains a central question in both neuroscience and machine learning. Here, we leverage data released through the Machine Intelligence from Cortical Networks (MICrONS) program--a functional connectomics resource spanning multiple areas of mouse visual cortex, in which dense calcium imaging is co-registered with high-resolution electron microscopy reconstruction from the same animal--to build biologically grounded recurrent neural networks. Using neuronal spatial coordinates, anatomical connectivity, and function-derived relationships from nearly 12,000 coregistered excitatory neurons, we initialize recurrent weights and impose communication-aware spatial constraints during learning. Across three cognitive decision-making tasks, networks constrained by cortical structure and function consistently outperform baseline and partially constrained models. Functional weight initialization provides the largest gain, while real spatial embedding yields robust additional improvements across conditions. These biologically grounded networks also develop low-entropy, modular, and small-world organization, and retain strong performance even when recurrence is restricted to positive weights. Together, our results show that the machinery of cortex--its geometry, wiring, and functional structure--can be harnessed as a powerful inductive basis for building recurrent networks that learn more effectively while converging toward key organizational principles of biological computation.

Random, untrained neural networks consistently match or exceed trained networks in representational similarity to early visual cortex. This puzzling finding challenges the assumption that learning improves brain alignment. We investigate it by tracking representational similarity analysis (RSA) alignment to human fMRI data across training for four learning rules: backpropagation (BP), feedback alignment (FA), predictive coding (PC), and spike-timing-dependent plasticity (STDP). Using 720 object images from the THINGS database and fMRI data from three subjects across six visual ROIs, we measure Spearman correlations between model and brain representational dissimilarity matrices at eight training checkpoints (epochs 0-40). We find that (1) a single epoch of training reduces V1 alignment by 25-90%, depending on the learning rule; (2) backpropagation reduces V1 alignment most severely (delta r = -0.080), while predictive coding and STDP preserve substantially more (delta r ~ -0.04); and (3) a weaker, opposite tendency appears in object-selective cortex (LOC), where BP shows the largest increase in alignment during training, although the absolute change is small. These results suggest that untrained architectures capture low-level visual statistics through inductive biases alone, and that global error signals (BP) reshape early representations more aggressively than local learning rules (PC, STDP), which better preserve brain-like structure.

In partially observable reinforcement learning, agents face a dual bottleneck: they must explore to encounter rewarding states and retain that experience in memory to optimize their policies. Exploration bonuses and memory architectures are traditionally evaluated in isolation, leaving their interaction unmeasured, and standard notions of sparse reward conflate temporal signal density with what the reward actually supervises. We present a controlled study crossing episodic exploration bonuses with diverse neural memory architectures across three environments that vary how the content of memory is acquired. An identical bonus signal yields three distinct interaction patterns: it amplifies architectural capacity differences where memory content must be actively discovered and retained unsupervised; equalizes architectures to a shared ceiling where the content, once sought out, is a single reward-supervised cue; and is null where the observation stream is purely scheduled. Controlled reward manipulations verify that these patterns track reward structure rather than density: a dense reward neutralizes a bonus only if it directly supervises the required latent memory, and a small avoidable penalty on exploratory actions (leaving the optimum unchanged) induces policy convergence to suboptimal stationary states, which either bonus resolves. We then formalize reward sparsity with observation-anchored reward machines, separating structural sparsity (an automaton reproduces the return without the task-required history) from potential sparsity (the one-step reward misprices local exploratory actions); the resulting vocabulary organizes the three regimes by the retention burden each task exposes. Together, these results show exploration and memory are complements, not substitutes: a bonus induces exposure, and only memory converts exposure into return.