# MDM-Prime-v2: Binary Encoding and Index Shuffling Enable Scaling of Diffusion Language Models

arXiv: https://arxiv.org/abs/2603.16077 · HTML: https://mlsanity.com/paper/2603.16077/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Placed in Discrete and text diffusion, one of 14 directions in Diffusion models.
- Builds on 36 of its 50 references that are in the map.
- First posted on arXiv 17 Mar 2026.

## Placed in

- Diffusion models / [Discrete and text diffusion](https://mlsanity.com/diffusion/discrete-and-text-diffusion/)

## Builds on (most cited first, 30 of 36)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [Exploring the Limits of Transfer Learning with a Unified Text-to-Text Transformer](https://mlsanity.com/paper/1910.10683/) (2019)
- [LLaMA: Open and Efficient Foundation Language Models](https://mlsanity.com/paper/2302.13971/) (2023)
- [Scaling Laws for Neural Language Models](https://mlsanity.com/paper/2001.08361/) (2020)
- [Think you have Solved Question Answering? Try ARC, the AI2 Reasoning Challenge](https://mlsanity.com/paper/1803.05457/) (2018)
- [RoFormer: Enhanced Transformer with Rotary Position Embedding](https://mlsanity.com/paper/2104.09864/) (2021)
- [FlashAttention: Fast and Memory-Efficient Exact Attention with IO-Awareness](https://mlsanity.com/paper/2205.14135/) (2022)
- [OPT: Open Pre-trained Transformer Language Models](https://mlsanity.com/paper/2205.01068/) (2022)
- [TruthfulQA: Measuring How Models Mimic Human Falsehoods](https://mlsanity.com/paper/2109.07958/) (2021)
- [PIQA: Reasoning about Physical Commonsense in Natural Language](https://mlsanity.com/paper/1911.11641/) (2019)
- [Efficient Streaming Language Models with Attention Sinks](https://mlsanity.com/paper/2309.17453/) (2023)
- [BoolQ: Exploring the Surprising Difficulty of Natural Yes/No Questions](https://mlsanity.com/paper/1905.10044/) (2019)
- [Can a Suit of Armor Conduct Electricity? A New Dataset for Open Book Question Answering](https://mlsanity.com/paper/1809.02789/) (2018)
- [Megatron-LM: Training Multi-Billion Parameter Language Models Using Model Parallelism](https://mlsanity.com/paper/1909.08053/) (2019)
- [GLU Variants Improve Transformer](https://mlsanity.com/paper/2002.05202/) (2020)
- [Structured Denoising Diffusion Models in Discrete State-Spaces](https://mlsanity.com/paper/2107.03006/) (2021)
- [Root Mean Square Layer Normalization](https://mlsanity.com/paper/1910.07467/) (2019)
- [GQA: Training Generalized Multi-Query Transformer Models from Multi-Head Checkpoints](https://mlsanity.com/paper/2305.13245/) (2023)
- [Variational Diffusion Models](https://mlsanity.com/paper/2107.00630/) (2021)
- [What Does BERT Look At? An Analysis of BERT's Attention](https://mlsanity.com/paper/1906.04341/) (2019)
- [Adversarial NLI: A New Benchmark for Natural Language Understanding](https://mlsanity.com/paper/1910.14599/) (2019)
- [Crowdsourcing Multiple Choice Science Questions](https://mlsanity.com/paper/1707.06209/) (2017)
- [Scaling Vision Transformers to 22 Billion Parameters](https://mlsanity.com/paper/2302.05442/) (2023)
- [Simplified and Generalized Masked Diffusion for Discrete Data](https://mlsanity.com/paper/2406.04329/) (2024)
- [TinyLlama: An Open-Source Small Language Model](https://mlsanity.com/paper/2401.02385/) (2024)
- [MAUVE: Measuring the Gap Between Neural Text and Human Text using Divergence Frontiers](https://mlsanity.com/paper/2102.01454/) (2021)
- [A Continuous Time Framework for Discrete Denoising Models](https://mlsanity.com/paper/2205.14987/) (2022)
- [Attention is Not All You Need: Pure Attention Loses Rank Doubly Exponentially with Depth](https://mlsanity.com/paper/2103.03404/) (2021)
- [Masked Diffusion Models are Secretly Time-Agnostic Masked Models and Exploit Inaccurate Categorical Sampling](https://mlsanity.com/paper/2409.02908/) (2024)
- [Scaling up Masked Diffusion Models on Text](https://mlsanity.com/paper/2410.18514/) (2024)

## Abstract (arXiv)

Masked diffusion models (MDM) exhibit superior generalization when learned using a Partial masking scheme (Prime). This approach converts tokens into sub-tokens and models the diffusion process at the sub-token level. We identify two limitations of the MDM-Prime framework. First, we find that the functional form of the subtokenizer significantly increases the cross-entropy loss in the objective when paired with commonly used Byte-Pair-Encoding (BPE) tokenizers. Second, we lack tools to guide the hyperparameter choice of the token granularity in the subtokenizer. To address these limitations, we analyze the optimal design of the subtokenizer that minimizes MDM-Prime training objective and develop MDM-Prime-v2, a masked diffusion language model which incorporates Binary Encoding and Index Shuffling. Our analysis characterizes how token granularity and sub-token entropy influence the training objective and downstream performance, providing principled criteria for subtokenizer design. When extending the model size to 1.1B parameters, MDM-Prime-v2 demonstrates superior average zero-shot accuracy across eight commonsense reasoning benchmarks, outperforming similar-sized baselines including GPT-Neo, OPT, Pythia, Bloom, SMDM, and TinyLLaMA.