Predicting the biophysical and functional properties of proteins is essential for in silico protein design. Machine learning has emerged as a promising technique for such prediction tasks. However, the relative scarcity of in vitro annotations means that these models often have little, or no, specific data on the desired fitness prediction task. As a result of limited data, protein language models (PLMs) are typically trained on general protein sequence modeling tasks, and then fine-tuned, or applied zero-shot, to protein fitness prediction. When no task data is available, the models make strong assumptions about the correlation between the protein sequence likelihood and fitness scores. In contrast, we propose meta-learning over a distribution of standard fitness prediction tasks, and demonstrate positive transfer to unseen fitness prediction tasks. Our method, called Metalic (Meta-Learning In-Context), uses in-context learning and fine-tuning, when data is available, to adapt to new tasks. Crucially, fine-tuning enables considerable generalization, even though it is not accounted for during meta-training. Our fine-tuned models achieve strong results with 18 times fewer parameters than state-of-the-art models. Moreover, our method sets a new state-of-the-art in low-data settings on ProteinGym, an established fitness-prediction benchmark. Due to data scarcity, we believe meta-learning will play a pivotal role in advancing protein engineering.

Physics-informed neural networks (PINNs) are emerging as popular mesh-free solvers for partial differential equations (PDEs). Recent extensions decompose the domain, apply different PINNs to solve the problem in each subdomain, and stitch the subdomains at the interface. Thereby, they can further alleviate the problem complexity, reduce the computational cost, and allow parallelization. However, the performance of multi-domain PINNs is sensitive to the choice of the interface conditions. While quite a few conditions have been proposed, there is no suggestion about how to select the conditions according to specific problems. To address this gap, we propose META Learning of Interface Conditions (METALIC), a simple, efficient yet powerful approach to dynamically determine appropriate interface conditions for solving a family of parametric PDEs. Specifically, we develop two contextual multi-arm bandit (MAB) models. The first one applies to the entire training course, and online updates a Gaussian process (GP) reward that given the PDE parameters and interface conditions predicts the performance. We prove a sub-linear regret bound for both UCB and Thompson sampling, which in theory guarantees the effectiveness of our MAB. The second one partitions the training into two stages, one is the stochastic phase and the other deterministic phase; we update a GP reward for each phase to enable different condition selections at the two stages to further bolster the flexibility and performance. We have shown the advantage of METALIC on four bench-mark PDE families.