Bayesian brain theory suggests that the brain employs generative models to understand the external world.

Over time, the two branches interact recurrently to build a scene representation from moving fixations.

Encoding models have been used to assess how the human brain represents concepts in language and vision.

Partially inspired by features of computation in visual cortex, deep neural networks compute hierarchical representations of their inputs. While these networks have been highly successful in machine learning, it is still unclear to what extent they can aid our understanding of cortical function. Several groups have developed metrics that provide a quantitative comparison between representations computed by networks and representations measured in cortex. At the same time, neuroscience is well into an unprecedented phase of large-scale data collection, as evidenced by projects such as the Allen Brain Observatory. Despite the magnitude of these efforts, in a given experiment only a fraction of units are recorded, limiting the information available about the cortical representation.

Aligning neural dynamics with movements is a fundamental goal in neuroscience and brain-machine interfaces. However, there is still a lack of dimensionality reduction methods that can effectively align low-dimensional latent dynamics with movements. To address this gap, we propose Neural Embeddings Rank (NER), a technique that embeds neural dynamics into a 3D latent space and contrasts the embeddings based on movement ranks. NER learns to regress continuous representations of neural dynamics (i.e., embeddings) on continuous movements. We apply NER and six other dimensionality reduction techniques to neurons in the primary motor cortex (M1), dorsal premotor cortex (PMd), and primary somatosensory cortex (S1) as monkeys perform reaching tasks.

Models trained with self-supervised learning objectives have recently matched or surpassed models trained with traditional supervised object recognition in their ability to predict neural responses of object-selective neurons in the primate visual system. A self-supervised learning objective is arguably a more biologically plausible organizing principle, as the optimization does not require a large number of labeled examples. However, typical self-supervised objectives may result in network representations that are overly invariant to changes in the input. Here, we show that a representation with structured variability to the input transformations is better aligned with known features of visual perception and neural computation. We introduce a novel framework for converting standard invariant SSL losses into contrastive-equivariant versions that encourage preserving aspects of the input transformation without supervised access to the transformation parameters. We further demonstrate that our proposed method systematically increases models' ability to predict responses in macaque inferior temporal cortex. Our results demonstrate the promise of incorporating known features of neural computation into task-optimization for building better models of visual cortex.

We characterized the generalization capabilities of deep neural network encoding models when predicting neuronal responses from the visual cortex to flashed images. We collected MacaqueITBench, a large-scale dataset of neuronal population responses from the macaque inferior temporal (IT) cortex to over $300,000$ images, comprising $8,233$ unique natural images presented to seven monkeys over $109$ sessions. Using MacaqueITBench, we investigated the impact of distribution shifts on models predicting neuronal activity by dividing the images into Out-Of-Distribution (OOD) train and test splits. The OOD splits included variations in image contrast, hue, intensity, temperature, and saturation. Compared to the performance on in-distribution test images---the conventional way in which these models have been evaluated---models performed worse at predicting neuronal responses to out-of-distribution images, retaining as little as $20\\%$ of the performance on in-distribution test images. Additionally, the relative ranking of different models in terms of their ability to predict neuronal responses changed drastically across OOD shifts. The generalization performance under OOD shifts can be well accounted by a simple image similarity metric---the cosine distance between image representations extracted from a pre-trained object recognition model is a strong predictor of neuronal predictivity under different distribution shifts.

Predictive coding (PC) has emerged as an influential normative model of neural computation with numerous extensions and applications. As such, much effort has been put into mapping PC faithfully onto the cortex, but there are issues that remain unresolved or controversial. In particular, current implementations often involve separate value and error neurons and require symmetric forward and backward weights across different brain regions. These features have not been experimentally confirmed. In this work, we show that the PC framework in the linear regime can be modified to map faithfully onto the cortical hierarchy in a manner compatible with empirical observations.