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Steering Masked Discrete Diffusion Models via Discrete Denoising Posterior Prediction
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Proposes Discrete Denoising Posterior Prediction (DDPP), a simulation-free framework that steers pretrained masked diffusion models toward reward-induced Bayesian posteriors via three objectives (IS, LB, KL), validated on grids, MNIST, CelebA, protein language models, and text.
Problem
Steering pretrained masked discrete diffusion models toward non-differentiable or differentiable rewards without ground-truth posterior samples, in a scalable way; existing RLHF-style fine-tuning of diffusion models optimizes loose bounds and discrete guidance lacks principled definitions.
Approach
Cast MDM steering as sampling from a reward-tilted posterior proportional to the pretrained MDM times a reward, and fine-tune a second MDM to match the denoising reward-induced posterior using a simulation-free log-ratio regression; three variants estimate the log partition function by importance sampling (DDPP-IS), a learned lower bound (DDPP-LB), or a Reinmax reverse-KL gradient that avoids it (
Key results
- On even-digit MNIST, DDPP-KL reaches FLD 31.75 vs base 33.89 and RTB 45.97, with log R -3.13 vs RTB -18.66.
- On protein beta-sheet task, DDPP-LB reaches beta-sheet 0.436 and pLDDT 0.897, outperforming RTB (0.319) and Best-of-10 (0.280).
- On Tinystories, DDPP-LB reaches log reward 205.76 versus 107.83 for RTB and 146.95 for SVDD, with Gen PPL 19.60.
Measured effects reported in the paper
| What was changed | Where | Measured | Effect |
|---|---|---|---|
| Fine-tune with DDPP-KL rather than the base model | Masked diffusion model on binarized MNIST · Binarized MNIST | FLD: 33.89 ± --- -> 31.75 ± 0.51 | Helped |
| Fine-tune with DDPP-KL rather than the base model | Masked diffusion model on binarized MNIST · Binarized MNIST | log R: -26.90 ± --- -> -3.13 ± 0.06 | Helped |
| Fine-tune with DDPP-LB rather than the DPLM base model | DPLM · High β-sheet-content protein generation | β-sheet %: 0.111 ± 0.121 -> 0.436 ± 0.037 | Helped |
| Fine-tune with DDPP-LB rather than the DPLM base model | DPLM · High β-sheet-content protein generation | pLDDT: 0.724 ± 0.144 -> 0.897 ± 0.027 | Helped |
| Fine-tune with DDPP-LB rather than the DPLM base model | DPLM · Protein shrinking | TM-Score: 0.245 ± 0.058 -> 0.361 ± 0.047 | Helped |
| Fine-tune with DDPP-LB rather than SVDD | Masked diffusion model for Tinystories · Tinystories | log R: 146.95 ± 1.08 -> 205.76 ± 3.88 | Helped |
| Fine-tune with DDPP-LB rather than RTB | Masked diffusion model for Tinystories · Tinystories | Gen PPL: 18.53 ± 0.55 -> 19.60 ± 0.69 | Hurt |
| Fine-tune with DDPP-LB rather than SVDD | Masked diffusion model for Amazon reviews · Amazon reviews | log R: -27.48 ± 10.91 -> 152.08 ± 34.01 | Helped |
| Use DDPP-LB rather than DDPP-IS (ablation) | Masked diffusion model for Amazon reviews · Amazon reviews | Gen PPL: 152.85 ± 1.64 -> 167.25 ± 27.33 | Hurt |
Surprising findings
- On MNIST, SVDD achieves higher average log R than DDPP but is worse on sample-based FLD and class-conditional BPD.
- On CelebA, DDPP-LB obtains BPD within the base model range but worse than RTB, despite the large reward gain.
Limitations
- DDPP-KL requires a differentiable reward, limiting applicability.
- DDPP-LB requires a learned partition-function head and warm-up to stabilize training.
- Wet-lab expression yields were lower than positive controls and many designs were insoluble.
Experimental setup
Datasets: CelebA binarized MNIST Tinystories Amazon reviews
Benchmarks: binarized MNIST even-digit steering CelebA 64x64 blond-hair steering protein beta-sheet and shrinking in-silico tasks Tinystories toxic story generation Amazon review generation
Metrics: log reward FLD BPD pLDDT pTM beta-sheet % TM-Score SS-KL Gen PPL SDS-PAGE expression
Baselines: Best-of-N RTB SVDD base model
Builds on: masked diffusion models relative trajectory balance Reinmax DPLM
Closest papers by meaning
- Fine-Tuning Discrete Diffusion Models via Reward Optimization with Applications to DNA and Protein Design (ICLR 2025 · similarity 0.91)
- Derivative-Free Guidance in Continuous and Discrete Diffusion Models with Soft Value-based Decoding (NeurIPS 2025 · similarity 0.91)
- Diffusion on Language Model Encodings for Protein Sequence Generation (ICML 2025 · similarity 0.89)
- Reward-Guided Iterative Refinement in Diffusion Models at Test-Time with Applications to Protein and DNA Design (ICML 2025 · similarity 0.89)
- Diffusion Language Models Are Versatile Protein Learners (ICML 2024 · similarity 0.89)
- D-DOIT: Training-free Adaptation of Discrete Diffusion via Doob's h-Transform (NeurIPS 2026 · similarity 0.89)
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