Tabular ICL

Tabular foundation models (TFMs) have emerged as a powerful paradigm for in-context learning on structured data, enabling direct prediction on new tabular tasks without task-specific training. However, their effectiveness is constrained by context length limits, restricting application to medium-scale data and degrading performance when inference-time data exceed pretraining size distributions. Our work introduces VIP-COP, estimating the Value of Importance for Prediction of training examples and features for hard Context OPtimization for TFMs. Its explicit selection mechanism suppresses noise and isolates influential data, enabling the model to also benefit from data augmentation by prioritizing high-value augmented samples and features. VIP-COP is (i) fast, boosting performance often within minutes of optimization, based on an online KernelSHAP-based regression with iterative refinement, value-guided context sampling, and multi-fidelity pruning; (ii) budget-aware and any-time, improving with additional test-time compute unlike heuristics that produce fixed contexts; (iii) model-aware yet fully black-box, requiring no access to model internals, making it compatible with both proprietary and open-source TFMs; (iv) interpretable, identifying discrete ``Very Important Predictors'' (samples and features) that maximize signal-to-noise, which makes it (v) robust, isolating high-value data from noise. In contrast, soft-prompt optimization requires model gradients, produces abstract latent tokens, and lacks explicit signal discrimination. Extensive experiments show that VIP-COP consistently outperforms heuristic and optimized baselines across large-scale high-dimensional testbeds, including data augmentation and data-noise settings, establishing a new state of the art in test-time context refinement for TFMs.

Deep learning models in medical imaging typically operate as parametric memory, diagnosing patients by recalling fixed knowledge learned during training. This contrasts sharply with clinical practice, where physicians employ analogical reasoning to diagnose new cases by referencing similar records from past exemplars. While In-Context Learning (ICL) frameworks such as Tabular Prior-Fitted Networks (TabPFN) offer a promising diagnosis-by-reference paradigm, they are designed with tabular-specific inductive priors and rely on non-differentiable preprocessing pipelines, leading to manifold mismatch and gradient fracture when applied to heterogeneous multimodal data. To address these limitations, we propose PromptDx, a novel diagnosis-by-reference framework that leverages a pre-trained TabPFN as an ICL engine while enabling seamless integration with multimodal representations. Our core contribution is a Differentiable Prompt Tuning (DPT) mechanism that aligns a Masked Multimodal Modeling module with the pre-trained ICL engine. By training a lightweight adapter as a differentiable surrogate for the engine's non-differentiable preprocessors, we enable an end-to-end optimization of multimodal prompts within the ICL paradigm. We validate our method on the Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset using 3D MRI and tabular biomarkers. Experiments demonstrate that our approach outperforms traditional parametric baselines. Notably, our method achieves superior performance using only 1% context samples compared to 30% in standard ICL, demonstrating exceptional manifold condensation ability. We further validate the generalizability of our DPT framework across six tabular datasets with diverse scales. Overall, our method offers a more data-efficient and clinically aligned paradigm for Alzheimer's Disease diagnosis.

Training foundation models is computationally intensive and often slow to converge. We introduce PIQL,Privileged Information for Quick and Quality Learning, the first framework to systematically integrate privileged information (PI) to simultaneously accelerate learning and improve generalization in tabular foundation models (TFMs). We construct two complementary forms of PI: (i) aggregate dataset-level statistics that reduce the burden on in-context learning, and (ii) encodings of the underlying data-generating program, providing knowledge beyond observable data. We further design an architecture that effectively transfers the train-time-only PI by learning to reconstruct it from observed context at inference. We provide a theoretical analysis characterizing conditions under which PI reduces the population-level approximation gap and accelerates convergence in finite-data regimes. Empirical evidence shows that PIQL enables TFMs to achieve faster convergence, lower final loss, and better generalization, in effect, reducing data and compute requirements. Our work establishes PI-guided pretraining as a principled and practical paradigm for improving the efficiency and performance of foundation models.

Transformer-based tabular foundation models (TFMs) dominate small to medium tabular predictive benchmark tasks, yet their inference mechanisms remain largely unexplored. We present the first large-scale mechanistic study of layerwise dynamics in 6 state-of-the-art tabular in-context learning models. We explore how predictions emerge across depth, identify distinct stages of inference and reveal latent-space dynamics that differ from those of language models. Our findings indicate substantial depthwise redundancy across multiple models, suggesting iterative refinement with overlapping computations during inference stages. Guided by these insights, we design a proof-of-concept, looped single-layer model that uses only 20% of the original model's parameters while achieving comparable performance. The code is available at https://github.com/amirbalef/is_one_layer_enough.

Positive-unlabeled (PU) learning addresses binary classification when only a set of labeled positives is available alongside a pool of unlabeled samples drawn from a mixture of positives and negatives. Existing PU methods typically require dataset-specific training or iterative optimization, which limits their applicability when many tasks must be solved quickly or with little tuning. We introduce PUICL, a pretrained transformer that solves PU classification entirely through in-context learning. PUICL is pretrained on synthetic PU datasets generated from randomly instantiated structural causal models, exposing it to a wide range of feature-label relationships and class-prior configurations. At inference time, PUICL receives the labeled positives and the unlabeled samples as a single input and returns class probabilities for the unlabeled rows in one forward pass, with no gradient updates or per-task fitting. On 20 semi-synthetic PU benchmarks derived from the UCI Machine Learning Repository, OpenML, and scikit-learn, PUICL outperforms four standard PU learning baselines in average AUC and accuracy, and is competitive on F1-score. These results show that the in-context learning paradigm extends naturally beyond fully supervised tabular prediction to the semi-supervised PU setting.

Tabular data synthesis aims to generate high-quality data while preserving privacy. However, we find that existing tabular generative models exhibit a clear tradeoff in the small-data regime: improving data quality typically comes at the cost of increased memorization of training samples, thereby weakening privacy protection. This tradeoff arises because small training sets make it difficult for dataset-specific generative models to distinguish generalizable structure from sample-specific patterns. To address this, we propose DiffICL, which formulates tabular data generation as an in-context learning problem. Instead of fitting each dataset from scratch,DiffICL leverages pretrained structural priors learned from a large collection of datasets, enabling it to infer data distributions from limited context rather than memorizing individual samples. We evaluate DiffICL on 14 real-world datasets. Results show that DiffICL improves both data quality and privacy, and generate synthetic data that provides effective data augmentation. Our findings suggest that the quality-privacy tradeoff can be improved through better training paradigms.

TabPFN has recently gained attention as a foundation model for tabular datasets, achieving strong performance by leveraging in-context learning on synthetic data. However, we find that TabPFN is vulnerable to label shift, often overfitting to the majority class in the training dataset. To address this limitation, we propose DistPFN, the first test-time posterior adjustment method designed for tabular foundation models. DistPFN rescales predicted class probabilities by downweighting the influence of the training prior (i.e., the class distribution of the context) and emphasizing the contribution of the model's predicted posterior, without architectural modification or additional training. We further introduce DistPFN-T, which incorporates temperature scaling to adaptively control the adjustment strength based on the discrepancy between prior and posterior. We evaluate our methods on over 250 OpenML datasets, demonstrating substantial improvements for various TabPFN-based models in classification tasks under label shift, while maintaining strong performance in standard settings without label shift. Code is available at this repository: https://github.com/seunghan96/DistPFN.

Accurate molecular property prediction is central to drug discovery, catalysis, and process design, yet real-world applications are often limited by small datasets. Molecular foundation models provide a promising direction by learning transferable molecular representations; however, they typically involve task-specific fine-tuning, require machine learning expertise, and often fail to outperform classical baselines. Tabular foundation models (TFMs) offer a fundamentally different paradigm: they perform predictions through in-context learning, enabling inference without task-specific training. Here, we evaluate TFMs in the low- to medium-data regime across both standardized pharmaceutical benchmarks and chemical engineering datasets. We evaluate both frozen molecular foundation model representations, as well as classical descriptors and fingerprints. Across the benchmarks, the approach shows excellent predictive performance while reducing computational cost, compared to fine-tuning, with these advantages also transferring to practical engineering data settings. In particular, combining TFMs with CheMeleon embeddings yields up to 100% win rates on 30 MoleculeACE tasks, while compact RDKit2d and Mordred descriptors provide strong descriptor-based alternatives. Molecular representation emerges as a key determinant in TFM performance, with molecular foundation model embeddings and 2D descriptor sets both providing substantial gains over classic molecular fingerprints on many tasks. These results suggest that in-context learning with TFMs provides a highly accurate and cost-efficient alternative for property prediction in practical applications.

Tabular prediction can benefit from in-table rows as few-shot evidence, yet existing tabular models typically perform instance-wise inference and LLM-based prompting is often brittle. Models do not consistently leverage relevant rows, and noisy context can degrade performance. To address this challenge, we propose TabSieve, a select-then-predict framework that makes evidence usage explicit and auditable. Given a table and a query row, TabSieve first selects a small set of informative rows as evidence and then predicts the missing target conditioned on the selected evidence. To enable this capability, we construct TabSieve-SFT-40K by synthesizing high-quality reasoning trajectories from 331 real tables using a strong teacher model with strict filtering. Furthermore, we introduce TAB-GRPO, a reinforcement learning recipe that jointly optimizes evidence selection and prediction correctness with separate rewards, and stabilizes mixed regression and classification training via dynamic task-advantage balancing. Experiments on a held-out benchmark of 75 classification and 52 regression tables show that TabSieve consistently improves performance across shot budgets, with average gains of 2.92% on classification and 4.45% on regression over the second-best baseline. Further analysis indicates that TabSieve concentrates more attention on the selected evidence, which improves robustness to noisy context.

Tabular foundation models, such as TabPFNv2 and TabICL, have recently dethroned gradient-boosted trees at the top of predictive benchmarks, demonstrating the value of in-context learning for tabular data. We introduce TabICLv2, a new state-of-the-art foundation model for regression and classification built on three pillars: (1) a novel synthetic data generation engine designed for high pretraining diversity; (2) various architectural innovations, including a new scalable softmax in attention improving generalization to larger datasets without prohibitive long-sequence pretraining; and (3) optimized pretraining protocols, notably replacing AdamW with the Muon optimizer. On the TabArena and TALENT benchmarks, TabICLv2 without any tuning surpasses the performance of the current state of the art, RealTabPFN-2.5 (hyperparameter-tuned, ensembled, and fine-tuned on real data). With only moderate pretraining compute, TabICLv2 generalizes effectively to million-scale datasets under 50 GB GPU memory while being markedly faster than RealTabPFN-2.5. We provide extensive ablation studies to quantify these contributions and foster open research by releasing code for inference, pretraining, and synthetic data generation at https://github.com/soda-inria/tabicl.