Research
A model can recognize thousands of object categories yet struggle to trace a contour, judge a relation, or imagine a scene from another viewpoint. We study these discrepancies to identify the computations that support biological vision.We combine behavioral and neural experiments with computational models of recurrent visual processing and learning from experience. We also develop methods to identify the visual features and representations that AI models use, and we apply computer vision where measurements would be impractical to collect by hand.
Human-AI Alignment in Vision
As recognition accuracy improves, agreement with human behavior and primate neural recordings can plateau or decline. Our paper on vision-model alignment reports that better performance does not necessarily produce a better model of vision. In our ClickMe game, people mark the parts of an image that help them recognize an object. We use them to train networks to rely on similar visual evidence, a procedure we call harmonization. This improves agreement with human vision without changing the network architecture. It gives us a way to investigate how visual experience and learning objectives shape a model's behavior.In work on joint energy-based models of vision, we compare models trained to classify images with models that also learn the distribution of images themselves. We find that combining these discriminative and generative objectives can produce better agreement with human vision than either objective alone.
Funded by NSF (IIS-2402875) and featured by NSF.
Cognitive Benchmarks for Visual Reasoning
We design tasks that isolate specific demands on vision. The Pathfinder task tests whether a model can follow a contour through clutter. Our recurrent models succeed on conditions that challenge the tested feedforward networks.The Compositional Visual Relations benchmark tests whether learned visual concepts can be combined in new ways. The 3D-PC benchmark asks models to reason about how a scene appears from another viewpoint. The 3D-PC project page, 3D-PC code, and 3D-PC dataset are available for that benchmark.
In same–different tasks, a model must judge whether two objects match, then apply that relation to objects it has not encountered during training. Comparing people and models on these tasks helps us distinguish successful recognition from the computations needed for grouping and relational reasoning.
Funded by ONR (N00014-24-1-2026).
Cortical Feedback and Recurrent Vision
The cortex has a limited number of processing stages. Feedback and horizontal connections add computation over time. We study how these interactions change a representation and what they contribute to perception.Our perceptual-grouping paper links recurrent network dynamics to the time course of grouping in natural scenes. Experiments on same–different judgments reveal neural dynamics associated with relational processing.
In collaboration with David Sheinberg, our mental-simulation paper asks how monkeys predict where a ball will land after falling through obstacles, before seeing it move. Their behavior and eye movements are consistent with mentally tracing the ball's path. We compare these observations with recurrent networks that learn to solve the same task.
We also investigate whether synchronized neural activity helps track objects and solve feature binding: keeping the color, shape, and other properties of each object associated with that object rather than mixing them with those of its neighbors. To make these mechanisms practical at larger scales, we develop stable recurrent models and convolutional state space models.
Funded by ONR (N00014-24-1-2026) and ANITI (France 2030, ANR-23-IACL-0002).
Development and Embodiment
Animals learn to see through experience that unfolds continuously as they move through the world. We study what models can learn from that temporal structure, and what additional information comes from acting. We collaborate with developmental cognitive scientists to identify the learning principles that support perceptual development, including how intrinsic rewards guide exploration.Ongoing work uses a newborn chick's first-person visual experience to test whether predictive learning can support grouping and object recognition without labels. Our visual perspective-taking experiments expose limitations of the tested models, motivating work on agents that learn through exploration. In collaboration with Fulvio Domini, we also study the computational mechanisms of depth perception.
Funded by the REPRISM MURI (ONR N00014-24-1-2603), ONR (N00014-24-1-2026), and the NSF AI Research Institute on Interaction for AI Assistants (ARIA; NSF Cooperative Agreement 2433429).
Explainable AI for Scientific Discovery
A model's predictions can be accurate for the wrong reasons. In our histopathology paper, models trained to predict tumor mutations from tissue images relied on correlations with tissue subtype and failed a more demanding test. Accurate predictions alone did not establish that the models measured the intended biology.With collaborators at the Artificial and Natural Intelligence Toulouse Institute (ANITI), we develop methods to examine the evidence behind such predictions. CRAFT identifies concepts used by a model, and MACO visualizes its features. These methods are available through Xplique and Horama libraries.
We test explanations with people, finding that more capable vision models are not necessarily more interpretable and comparing which representations people can understand. Applications include identifying plant families from leaf architecture. LeafLENS and ObjectLENS let visitors explore model explanations directly.
Funded by ANITI (France 2030, ANR-23-IACL-0002) and the NSF AI Research Institute on Interaction for AI Assistants (ARIA; NSF Cooperative Agreement 2433429).
Foundation Models and Multimodal Reasoning
Foundation models offer increasingly powerful predictions of behavior and brain activity. Establishing what those predictions explain requires understanding how the models learn and represent information. Our perspective on prediction and understanding develops that distinction.We ask how the training objective determines which information a model retains. Contrastive learning brings representations of matched inputs closer together while separating mismatched inputs. Predictive learning trains a model to infer one representation from another. Our spectral theory of multimodal losses studies the relationship between these objectives and the representations they produce. We also study shared multimodal workspaces, failures of feature binding in vision–language models, and language-model representations that track human judgments of event plausibility.
Funded by the NSF AI Research Institute on Interaction for AI Assistants (ARIA; NSF Cooperative Agreement 2433429) and ONR (N00014-24-1-2026).
AI for Behavioral and Clinical Science
Studying behavior often requires researchers to watch and label many hours of video. Our automated home-cage phenotyping paper describes a system that learns to recognize mouse behaviors such as eating, grooming, and resting, so researchers can measure when these behaviors occur and how they change over time. We have extended video-based behavioral analysis to worms, zebrafish, and children, and we have used these measurements to characterize mouse models of amyotrophic lateral sclerosis and frontotemporal dementia (ALS-FTD).ALS-FTD phenotyping was supported by NIH/NINDS (R21 NS112743, 2020–2022).
In a separate collaboration with Taylor Burke at Massachusetts General Hospital, we develop computer-vision methods to analyze photographs of self-inflicted injuries. The models measure visible signs of injury severity. We are testing whether these measurements, combined with clinical assessments, can improve prediction of future suicide attempts. This work, supported by NIH award R01 MH140004, investigates a potential source of information for clinicians assessing suicide risk.
Suicide-risk research is funded by NIH/NIMH (R01 MH140004 and R01 MH143695).
With David Borton's group, we develop machine learning methods to personalize electrical stimulation after spinal cord injury. Our models learn how stimulation settings relate to muscle activity, helping the team find settings that produce a desired response without testing every possible combination. This work contributes to a neuroprosthetic interface that restored muscle control and sensory feedback in three participants with spinal cord injuries.
Spinal-interface research was supported by DARPA (D19AC00015, 2019–2024; PI: David Borton).
Teaching
I teach computational courses at the interface between natural and artificial intelligence, bridging neuroscience, cognitive science, and AI.CPSY 1291: Computational Methods for Mind, Brain & Behavior
Advanced Undergraduate/Graduate • Fall Semester
A broad introduction to NeuroAI combining lectures with hands-on programming assignments. Students explore computational models of brain and cognition, classical machine learning algorithms, and modern deep learning architectures.
CPSY 1950: Deep Learning in Brains, Minds & Machines
Advanced Undergraduate/Graduate • Spring Semester
A seminar on how biological and artificial systems process information. Students read and discuss recent papers in NeuroAI and evaluate their methods and evidence.
Selected recent publications
- J. Chang et al. • Not too generative, not too discriminative: The human alignment sweet spot • NeurIPS • 2026
- Y. Cheng et al. • A unified spectral theory of multimodal losses • NeurIPS • 2026
- J.S. Calvert et al. • Perilesional neuromodulation replaces lost sensorimotor function in persons with spinal cord injury • Nature Biomedical Engineering • 2026
- D. Linsley, P. Feng & T. Serre • Better artificial intelligence does not mean better models of biology • Trends in Cognitive Sciences • 2026
- P. Roelfsema & T. Serre • Feature binding in biological and artificial vision • Trends in Cognitive Sciences • 2026
- M.A. Lepori et al. • Is this just fantasy? Language model representations reflect human judgments of event plausibility • ICLR • 2026
- T. Serre & E. Pavlick • From prediction to understanding: Will AI foundation models transform brain science? • Neuron • 2025
- D. Linsley et al. • The 3D-PC: A benchmark for visual perspective taking in humans and machines • ICLR • 2025
- S. Shahamatdar et al. • Deceptive learning in histopathology • Histopathology • 2024
- A. Ahuja et al. • Monkeys engage in visual simulation to solve complex problems • Current Biology • 2024
See the lab publications page for a complete list of publications.
Selected talks
A selection of recorded talks. For the full list of invited talks, see my CV (PDF).
Keynote, IEEE CVPR 2026, Denver, CO • June 2026
Modern computer vision has advanced by scaling models, data and compute, and deep networks now match or exceed human accuracy on benchmarks such as ImageNet. Yet their alignment with human vision is fragile: on simple probes from the cognitive sciences, even the largest models fall to near chance, and models that reach human accuracy do so with very different visual strategies. This keynote argues that more natural artificial vision will come from the neural laws of biological vision: the developmental principles that shape how brains learn to see, and the recurrent architecture of cortex.
DIC-ISC-CRIA Seminar, Montreal • February 2026
How does cortical feedback contribute to visual reasoning? This talk examines perceptual grouping and same–different judgments, using computational models to test how recurrent processing helps solve these tasks.
Active grants
- High-performance compute cluster for brain science
NIH S10OD036341 • 2025 – 2030 • PI
Supporting acquisition of a high-performance computing cluster for large-scale computational neuroscience modeling and deep learning experiments. The Center for Computation and Visualization runs this instrument as the Carney Condo (RRID:SCR_029056). - One vision: Computational alignment of deep neural networks with humans
NSF IIS-2402875 • 2024 – 2028 • co-PI (Serre/Linsley)
Developing methods to quantify and improve alignment between deep neural networks and human visual processing using developmental psychology approaches. - Brain-inspired deep learning models of visual reasoning
ONR N00014-24-1-2026 • 2023 – 2028 • PI
Investigating computational principles underlying visual reasoning to develop more capable AI through cognitive benchmarks and brain-inspired architectures. - ANITI AI Cluster: C3-PO Synergy Chair (Cobots with Conversation, Cognition and Perception)
France 2030, ANR-23-IACL-0002
Leading the vision and perception track of a Toulouse chair on collaborative robots that combine conversation, cognition and perception. - NSF AI Research Institute on Interaction for AI Assistants (ARIA)
NSF 2433429 (Cooperative Agreement) • 2025 – 2030 • Senior Personnel (Institute PI: Pavlick)
A national AI research institute developing trustworthy, context-aware AI assistants grounded in human and machine cognition, with mental and behavioral health as a central use case. - REPRISM: Flexible embodied problem-solving by manipulating the representational prism
ONR MURI N00014-24-1-2603 • 2024 – 2027 • co-I (PI: Konidaris)
Developing vision systems that adaptively change representations based on task demands for flexible and generalizable problem-solving. - SEA-CROGS: Scalable, efficient and accelerated causal reasoning operators, graphs and spikes for earth and embedded systems
DOE DE-SC0023191 • 2022 – 2027 • co-I (PI: Maxey)
Creating scalable causal reasoning methods combining graph-based representations, spiking neural networks, and causal inference for Earth system science. - The next generation of operator regression networks: Theory, algorithms, applications
ONR N00014-22-1-2795 • 2022 – 2027 • co-I (PI: Karniadakis)
Advancing theoretical foundations and practical applications of operator regression networks for solving partial differential equations and modeling physical systems. - Enhancing suicide risk detection through computer vision
NIH/NIMH R01 MH140004 • 2026 – 2030 • co-I (PI: Burke)
Developing computer-vision measures of visible injury severity in photographs of self-inflicted injuries, and testing whether those measures add to clinical assessments when predicting future suicide attempts. - A mechanistic analysis of the transition from nonsuicidal to suicidal self-injury in adolescents
NIH/NIMH R01 MH143695 • 2026 – 2031 • co-I (MPIs: Ammerman/Burke)
Investigating the mechanistic transition from nonsuicidal to suicidal self-injury in adolescents through combined computational and clinical analysis. - Brown Postdoctoral Training Program in Computational Psychiatry
NIH/NIMH T32 MH126388 • 2021 – 2031 • Contact PI (2026–); MPI (Frank/Jones/Philip/Serre); co-PI (2021–2026)
Training postdoctoral fellows at the intersection of computational neuroscience, machine learning, and psychiatry to develop computational methods for understanding psychiatric disorders.