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arXiv · 2609.33342

CalibHyper: Chance-Corrected Relational Hypergraphs for Few-Shot Molecular Property Prediction

Linyu Li·Zhi Jin·Yuanpeng He·Dongming Jin·Huanyu Liu·Huanyao Zhang·Haoran Duan·Heng Tian·Gadeng Luosang·Nyima Tashi
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Abstract

Molecular property prediction is central to drug development and materials discovery, but experiments are costly and labeled data are scarce. Context-aware methods use auxiliary assay labels to support few-shot prediction, and recent work supervises property relations with label agreement. However, label agreement is sensitive to class marginals and does not directly capture dependence between properties. We propose CalibHyper, a chance-corrected relational hypergraph method based on the joint label distribution. CalibHyper subtracts an independence baseline from the ordered four-state label distribution and shrinks the residual according to the number of joint observations. A swap-equivariant relation head estimates these residuals, which choose the auxiliary properties for each molecule and set the sign and weight of their hyperedge messages. On thirteen datasets from five benchmarks, in both 1-shot and 10-shot settings, CalibHyper and its ablation settings achieve ROC-AUC competitive with the strongest reported results.

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Linyu Li, Zhi Jin, Yuanpeng He, Dongming Jin, Huanyu Liu, Huanyao Zhang, Haoran Duan, Heng Tian, Gadeng Luosang, Nyima Tashi. 2026-09-27. CalibHyper: Chance-Corrected Relational Hypergraphs for Few-Shot Molecular Property Prediction. https://arxiv.org/abs/2609.33342

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