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arxiv 2507.00899 v1 pith:7A4XXMBD submitted 2025-07-01 cs.LG

TABASCO: A Fast, Simplified Model for Molecular Generation with Improved Physical Quality

classification cs.LG
keywords tabascogenerationmodelarchitectureequivariancemodelsmolecularphysical
verification ladder T0 review T1 audit T2 compute T3 formal T4 reserved
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State-of-the-art models for 3D molecular generation are based on significant inductive biases, SE(3), permutation equivariance to respect symmetry and graph message-passing networks to capture local chemistry, yet the generated molecules still struggle with physical plausibility. We introduce TABASCO which relaxes these assumptions: The model has a standard non-equivariant transformer architecture, treats atoms in a molecule as sequences and reconstructs bonds deterministically after generation. The absence of equivariant layers and message passing allows us to significantly simplify the model architecture and scale data throughput. On the GEOM-Drugs benchmark TABASCO achieves state-of-the-art PoseBusters validity and delivers inference roughly 10x faster than the strongest baseline, while exhibiting emergent rotational equivariance despite symmetry not being hard-coded. Our work offers a blueprint for training minimalist, high-throughput generative models suited to specialised tasks such as structure- and pharmacophore-based drug design. We provide a link to our implementation at github.com/carlosinator/tabasco.

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Cited by 1 Pith paper

Reviewed papers in the Pith corpus that reference this work. Sorted by Pith novelty score.

  1. Generative Molecular Morphing for Flexible-Size Design via Unbalanced Optimal Transport

    cs.LG 2026-06 unverdicted novelty 6.0

    Morph is a flexible-size 3D molecular generative model using unbalanced optimal transport on geometric graphs that matches fixed-size SOTA performance while enabling out-of-distribution generation.