Abstract:Tabular Language Models (TLMs) have been claimed to achieve emergent generalization for tabular prediction. We conduct a systematic re-evaluation of Tabula-8B as a representative TLM, utilizing 165 datasets from the UniPredict benchmark. Our investigation reveals three findings. First, binary and categorical classification achieve near-zero median lift over majority-class baselines and strong aggregate performance is driven entirely by quartile classification tasks. Second, top-performing datasets exhibit pervasive contamination, including complete train-test overlap and task-level leakage that evades standard deduplication. Third, instruction-tuning without tabular exposure recovers 92.2% of standard classification performance and on quartile classification, format familiarity closes 71.3% of the gap with the residual attributable to contaminated datasets. These findings suggest claimed generalization likely reflects evaluation artifacts rather than learned tabular reasoning. We conclude with recommendations for strengthening TLM evaluation.
Abstract:We present GROOVE, a semi-supervised multi-modal representation learning approach for high-content perturbation data where samples across modalities are weakly paired through shared perturbation labels but lack direct correspondence. Our primary contribution is GroupCLIP, a novel group-level contrastive loss that bridges the gap between CLIP for paired cross-modal data and SupCon for uni-modal supervised contrastive learning, addressing a fundamental gap in contrastive learning for weakly-paired settings. We integrate GroupCLIP with an on-the-fly backtranslating autoencoder framework to encourage cross-modally entangled representations while maintaining group-level coherence within a shared latent space. Critically, we introduce a comprehensive combinatorial evaluation framework that systematically assesses representation learners across multiple optimal transport aligners, addressing key limitations in existing evaluation strategies. This framework includes novel simulations that systematically vary shared versus modality-specific perturbation effects enabling principled assessment of method robustness. Our combinatorial benchmarking reveals that there is not yet an aligner that uniformly dominates across settings or modality pairs. Across simulations and two real single-cell genetic perturbation datasets, GROOVE performs on par with or outperforms existing approaches for downstream cross-modal matching and imputation tasks. Our ablation studies demonstrate that GroupCLIP is the key component driving performance gains. These results highlight the importance of leveraging group-level constraints for effective multi-modal representation learning in scenarios where only weak pairing is available.