Marco Orsini Federici

Marloes Arts, Victor Garcia Satorras, Chin-Wei Huang et al.

Coarse-grained (CG) molecular dynamics enables the study of biological processes at temporal and spatial scales that would be intractable at an atomistic resolution. However, accurately learning a CG force field remains a challenge. In this work, we leverage connections between score-based generative models, force fields and molecular dynamics to learn a CG force field without requiring any force inputs during training. Specifically, we train a diffusion generative model on protein structures from molecular dynamics simulations, and we show that its score function approximates a force field that can directly be used to simulate CG molecular dynamics. While having a vastly simplified training setup compared to previous work, we demonstrate that our approach leads to improved performance across several small- to medium-sized protein simulations, reproducing the CG equilibrium distribution, and preserving dynamics of all-atom simulations such as protein folding events.

Stephan Alaniz, Marco Federici, Zeynep Akata

Learning a common representation space between vision and language allows deep networks to relate objects in the image to the corresponding semantic meaning. We present a model that learns a shared Gaussian mixture representation imposing the compositionality of the text onto the visual domain without having explicit location supervision. By combining the spatial transformer with a representation learning approach we learn to split images into separately encoded patches to associate visual and textual representations in an interpretable manner. On variations of MNIST and CIFAR10, our model is able to perform weakly supervised object detection and demonstrates its ability to extrapolate to unseen combination of objects.

Marco Federici, Patrick Forré, Ryota Tomioka et al.

Markov processes are widely used mathematical models for describing dynamic systems in various fields. However, accurately simulating large-scale systems at long time scales is computationally expensive due to the short time steps required for accurate integration. In this paper, we introduce an inference process that maps complex systems into a simplified representational space and models large jumps in time. To achieve this, we propose Time-lagged Information Bottleneck (T-IB), a principled objective rooted in information theory, which aims to capture relevant temporal features while discarding high-frequency information to simplify the simulation task and minimize the inference error. Our experiments demonstrate that T-IB learns information-optimal representations for accurately modeling the statistical properties and dynamics of the original process at a selected time lag, outperforming existing time-lagged dimensionality reduction methods.

Marco Federici, David Ruhe, Patrick Forré

Estimating the mutual information from samples from a joint distribution is a challenging problem in both science and engineering. In this work, we realize a variational bound that generalizes both discriminative and generative approaches. Using this bound, we propose a hybrid method to mitigate their respective shortcomings. Further, we propose Predictive Quantization (PQ): a simple generative method that can be easily combined with discriminative estimators for minimal computational overhead. Our propositions yield a tighter bound on the information thanks to the reduced variance of the estimator. We test our methods on a challenging task of correlated high-dimensional Gaussian distributions and a stochastic process involving a system of free particles subjected to a fixed energy landscape. Empirical results show that hybrid methods consistently improved mutual information estimates when compared to the corresponding discriminative counterpart.

Benjamin Kurt Miller, Marco Federici, Christoph Weniger et al.

In Simulation-based Inference, the goal is to solve the inverse problem when the likelihood is only known implicitly. Neural Posterior Estimation commonly fits a normalized density estimator as a surrogate model for the posterior. This formulation cannot easily fit unnormalized surrogates because it optimizes the Kullback-Leibler divergence. We propose to optimize a generalized Kullback-Leibler divergence that accounts for the normalization constant in unnormalized distributions. The objective recovers Neural Posterior Estimation when the model class is normalized and unifies it with Neural Ratio Estimation, combining both into a single objective. We investigate a hybrid model that offers the best of both worlds by learning a normalized base distribution and a learned ratio. We also present benchmark results.

Qi Wang, Marco Federici, Herke van Hoof · tsinghua

The neural process (NP) is a family of computationally efficient models for learning distributions over functions. However, it suffers from under-fitting and shows suboptimal performance in practice. Researchers have primarily focused on incorporating diverse structural inductive biases, \textit{e.g.} attention or convolution, in modeling. The topic of inference suboptimality and an analysis of the NP from the optimization objective perspective has hardly been studied in earlier work. To fix this issue, we propose a surrogate objective of the target log-likelihood of the meta dataset within the expectation maximization framework. The resulting model, referred to as the Self-normalized Importance weighted Neural Process (SI-NP), can learn a more accurate functional prior and has an improvement guarantee concerning the target log-likelihood. Experimental results show the competitive performance of SI-NP over other NPs objectives and illustrate that structural inductive biases, such as attention modules, can also augment our method to achieve SOTA performance. Our code is available at \url{https://github.com/hhq123gogogo/SI_NPs}.

Jan Zuiderveld, Marco Federici, Erik J. Bekkers

The high temporal resolution of audio and our perceptual sensitivity to small irregularities in waveforms make synthesizing at high sampling rates a complex and computationally intensive task, prohibiting real-time, controllable synthesis within many approaches. In this work we aim to shed light on the potential of Conditional Implicit Neural Representations (CINRs) as lightweight backbones in generative frameworks for audio synthesis. Our experiments show that small Periodic Conditional INRs (PCINRs) learn faster and generally produce quantitatively better audio reconstructions than Transposed Convolutional Neural Networks with equal parameter counts. However, their performance is very sensitive to activation scaling hyperparameters. When learning to represent more uniform sets, PCINRs tend to introduce artificial high-frequency components in reconstructions. We validate this noise can be minimized by applying standard weight regularization during training or decreasing the compositional depth of PCINRs, and suggest directions for future research.