Publications — Josué Ortega Caro

2026

NeurIPS

FLUX: Longitudinal Flow Matching with Mixture of Experts

Ortega Caro, J., Zhang, Y., Batchelor, H. M., He, S., Cardin, J. A., & Saxena, S.

Advances in Neural Information Processing Systems (NeurIPS), 2026

arXiv Project page

NeurIPS

Learning Interpretable Switching Dynamics in Shared Neural-Behavioral Latent Space

Zhang, Y., Ortega Caro, J., Oren, R., Cardin, J. A., Higley, M. J., & Saxena, S.

Advances in Neural Information Processing Systems (NeurIPS), 2026

OpenReview

TMLR

FIMP: Foundation Model-Informed Message Passing for Graph Neural Networks

Rizvi, S. A., … Ortega Caro, J., … Brbic, M., Dhodapkar, R. M., & van Dijk, D.

Transactions on Machine Learning Research (TMLR), August 2026

arXiv

2025

bioRxiv

Selective changes in cortical cholinergic signaling during learning

Ortega Caro, J., Batchelor, H. M., Lohani, S., van Dijk, D., & Cardin, J. A.

bioRxiv preprint, 2025

Paper Project page Code

2024

Nat. Mach. Intell.

Learning integral operators via neural integral equations

Zappala, E., Fonseca, A. H. O., Ortega Caro, J., Moberly, A. H., Higley, M. J., Cardin, J. A., & van Dijk, D.

Nature Machine Intelligence, 6(9), 1046–1062, 2024

Paper arXiv

ICML

Cell2Sentence: Teaching large language models the language of biology

Levine, D., Lévy, S., Rizvi, S. A., Pallikkavaliyaveetil, N., Chen, X., Zhang, D., … Ortega Caro, J., Karbasi, A., Dhodapkar, R., & van Dijk, D.

International Conference on Machine Learning (ICML), 2024

Paper

ICLR

BrainLM: A foundation model for brain activity recordings

Ortega Caro, J., Fonseca, A. H. O., Rizvi, S. A., Rosati, M., Averill, C., Cross, J. L., Mittal, P., Zappala, E., Dhodapkar, R. M., Abdallah, C., & van Dijk, D.

International Conference on Learning Representations (ICLR), 2024

Paper Project page Code Model weights

Frontiers

Translational symmetry in convolutions with localized kernels causes an implicit bias toward high frequency adversarial examples

Ortega Caro, J., Ju, Y., Pyle, R., Dey, S., Brendel, W., Anselmi, F., & Patel, A. B.

Frontiers in Computational Neuroscience, 18, 1387077, 2024

Paper

WACV

Linking convolutional kernel size to generalization bias in face analysis CNNs

Liang, H., Ortega Caro, J., Maheshri, V., Patel, A. B., & Balakrishnan, G.

IEEE/CVF Winter Conference on Applications of Computer Vision (WACV), 2024

Paper

2023

ICML

Continuous Spatiotemporal Transformers

Fonseca, A. H. O., Zappala, E., Ortega Caro, J., & van Dijk, D.

International Conference on Machine Learning (ICML), 2023

Paper

PLOS Comp. Biol.

Robust deep learning object recognition models rely on low frequency information in natural images

Li, Z.*, Ortega Caro, J.*, Rusak, E., Brendel, W., Bethge, M., Anselmi, F., Patel, A. B., Tolias, A. S., & Pitkow, X.

PLOS Computational Biology, 19(3), e1010932, 2023 · *equal contribution

Paper

2022

Frontiers

Understanding robustness and generalization of artificial neural networks through Fourier masks

Karantzas, N., Besier, E., Ortega Caro, J., Pitkow, X., Tolias, A. S., Patel, A. B., & Anselmi, F.

Frontiers in Artificial Intelligence, 5, 890016, 2022

Paper

Frontiers

Shallow univariate ReLU networks as splines: Initialization, loss surface, Hessian, and gradient flow dynamics

Sahs, J., Pyle, R., Damaraju, A., Ortega Caro, J., Tavaslioglu, O., Lu, A., Anselmi, F., & Patel, A. B.

Frontiers in Artificial Intelligence, 5, 889981, 2022

Paper

2018

PNAS

Recurrent computations for visual pattern completion

Tang, H., Schrimpf, M., Lotter, W., Moerman, C., Paredes, A., Ortega Caro, J., Hardesty, W., Cox, D., & Kreiman, G.

Proceedings of the National Academy of Sciences, 115(35), 8835–8840, 2018

Paper