# Exploiting Completeness Perception with Diffusion Transformer for Unified 3D MRI Synthesis

arXiv: https://arxiv.org/abs/2602.18400 · HTML: https://mlsanity.com/paper/2602.18400/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- Placed in Medical imaging and segmentation, one of 14 directions in Diffusion models.
- Builds on 53 of its 84 references that are in the map.
- First posted on arXiv 20 Feb 2026.

## Placed in

- Diffusion models / [Medical imaging and segmentation](https://mlsanity.com/diffusion/medical-imaging-and-segmentation/)

## Builds on (most cited first, 30 of 53)

- [Learning Transferable Visual Models From Natural Language Supervision](https://mlsanity.com/paper/2103.00020/) (2021)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [Denoising Diffusion Probabilistic Models](https://mlsanity.com/paper/2006.11239/) (2020)
- [U-Net: Convolutional Networks for Biomedical Image Segmentation](https://mlsanity.com/paper/1505.04597/) (2015)
- [High-Resolution Image Synthesis with Latent Diffusion Models](https://mlsanity.com/paper/2112.10752/) (2021)
- [Swin Transformer: Hierarchical Vision Transformer using Shifted Windows](https://mlsanity.com/paper/2103.14030/) (2021)
- [Denoising Diffusion Implicit Models](https://mlsanity.com/paper/2010.02502/) (2020)
- [Grad-CAM: Visual Explanations from Deep Networks via Gradient-based Localization](https://mlsanity.com/paper/1610.02391/) (2016)
- [Scalable Diffusion Models with Transformers](https://mlsanity.com/paper/2212.09748/) (2022)
- [Adding Conditional Control to Text-to-Image Diffusion Models](https://mlsanity.com/paper/2302.05543/) (2023)
- [Rethinking the Inception Architecture for Computer Vision](https://mlsanity.com/paper/1512.00567/) (2015)
- [Neural Discrete Representation Learning](https://mlsanity.com/paper/1711.00937/) (2017)
- [RoFormer: Enhanced Transformer with Rotary Position Embedding](https://mlsanity.com/paper/2104.09864/) (2021)
- [Taming Transformers for High-Resolution Image Synthesis](https://mlsanity.com/paper/2012.09841/) (2020)
- [CogVideoX: Text-to-Video Diffusion Models with An Expert Transformer](https://mlsanity.com/paper/2408.06072/) (2024)
- [Towards Accurate Generative Models of Video: A New Metric & Challenges](https://mlsanity.com/paper/1812.01717/) (2018)
- [Latte: Latent Diffusion Transformer for Video Generation](https://mlsanity.com/paper/2401.03048/) (2024)
- [The RSNA-ASNR-MICCAI BraTS 2021 Benchmark on Brain Tumor Segmentation and Radiogenomic Classification](https://mlsanity.com/paper/2107.02314/) (2021)
- [Reconstruction vs. Generation: Taming Optimization Dilemma in Latent Diffusion Models](https://mlsanity.com/paper/2501.01423/) (2025)
- [Multi-modal Learning with Missing Modality via Shared-Specific Feature Modelling](https://mlsanity.com/paper/2307.14126/) (2023)
- [Multimodal Prompting with Missing Modalities for Visual Recognition](https://mlsanity.com/paper/2303.03369/) (2023)
- [DiT-3D: Exploring Plain Diffusion Transformers for 3D Shape Generation](https://mlsanity.com/paper/2307.01831/) (2023)
- [VDT: General-purpose Video Diffusion Transformers via Mask Modeling](https://mlsanity.com/paper/2305.13311/) (2023)
- [Missing MRI Pulse Sequence Synthesis using Multi-Modal Generative Adversarial Network](https://mlsanity.com/paper/1904.12200/) (2019)
- [GenerateCT: Text-Conditional Generation of 3D Chest CT Volumes](https://mlsanity.com/paper/2305.16037/) (2023)
- [Adaptive Latent Diffusion Model for 3D Medical Image to Image Translation: Multi-modal Magnetic Resonance Imaging Study](https://mlsanity.com/paper/2311.00265/) (2023)
- [Cardiac Segmentation on Late Gadolinium Enhancement MRI: A Benchmark Study from Multi-Sequence Cardiac MR Segmentation Challenge](https://mlsanity.com/paper/2006.12434/) (2020)
- [Fast Diffusion-Based Counterfactuals for Shortcut Removal and Generation](https://mlsanity.com/paper/2312.14223/) (2023)
- [One Model to Synthesize Them All: Multi-contrast Multi-scale Transformer for Missing Data Imputation](https://mlsanity.com/paper/2204.13738/) (2022)
- [Learned representation-guided diffusion models for large-image generation](https://mlsanity.com/paper/2312.07330/) (2023)

## Built on by (most cited first, 1 of 1)

- [Focus, Align, and Diffuse: Time-Series-Aware Keyframe Diffusion for Cardiac Dynamic Synthesis from Sparse Observations](https://mlsanity.com/paper/2610.19050/) (2026)

## Abstract (arXiv)

Missing data problems, such as missing modalities in multi-modal brain MRI and missing slices in cardiac MRI, pose significant challenges in clinical practice. Existing methods rely on external guidance to supply detailed missing-state information for instructing generative models to synthesize missing MRIs. However, manual indicators are not always available or reliable in real-world scenarios due to the unpredictable nature of clinical environments. Moreover, these explicit masks are not informative enough to provide guidance for improving semantic consistency. In this work, we argue that generative models should infer and recognize missing states in a self-perceptive manner, enabling them to better capture subtle anatomical and pathological variations. Towards this goal, we propose CoPeDiT, a shared completeness-perception framework for 3D MRI synthesis, following a common conditioning strategy with task-specific instantiations for different missing-data scenarios. Specifically, we incorporate dedicated pretext tasks into our tokenizer, CoPeVAE, empowering it to learn completeness-aware discriminative prompt tokens, and design MDiT3D, a specialized diffusion transformer architecture for 3D MRI synthesis that effectively uses the completeness-aware prompt tokens as guidance to enhance semantic consistency in 3D space. Comprehensive evaluations on three large-scale MRI datasets demonstrate that CoPeDiT consistently improves upon state-of-the-art methods across diverse missing patterns, yielding high-fidelity and structurally consistent MRI synthesis. Our code is available at https://github.com/JK-Liu7/CoPeDiT.