Life sciences · Preprint
arXiv · September 16, 2026
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Diffusion and flow-matching models are typically trained by corrupting data through independently sampled Gaussian noise. While simple and scalable, this forward process induces arbitrary data-noise couplings, forcing the network to learn high-curvature transports between unrelated endpoints. Existing optimal-transport methods reduce this burden by reassigning fixed noise samples to data, but the source noise distribution itself remains passive. To address this, we introduce Contrastive Noise Alignment (CNA), a training-time method that creates dynamic, contrastive couplings by optimizing the noise representations directly. By modeling the noise batch as an interacting particle system, CNA employs a cross-modal InfoNCE objective to align noise particles with their paired data targets. To prevent spatial collapse, this alignment is regularized using an angular entropy term and a radial norm penalty. We show theoretically that this equilibrium asymptotically preserves Gaussian structures, maintaining tractability during inference. Empirically, CNA improves the alignment between noise and data, reduces flow curvature, and provides better generation quality with fewer required sampling steps. For few-step, pixel-space generation (2-4 NFEs), CNA reduces FID by over 50\% compared to standard rectified flow, and by at least 24\% against Optimal Transport baselines.