Deep Learning in Medical Image Registration: A Survey
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Abstract (arXiv)
The establishment of image correspondence through robust image registration is critical to many clinical tasks such as image fusion, organ atlas creation, and tumor growth monitoring, and is a very challenging problem. Since the beginning of the recent deep learning renaissance, the medical imaging research community has developed deep learning based approaches and achieved the state-of-the-art in many applications, including image registration. The rapid adoption of deep learning for image registration applications over the past few years necessitates a comprehensive summary and outlook, which is the main scope of this survey. This requires placing a focus on the different research areas as well as highlighting challenges that practitioners face. This survey, therefore, outlines the evolution of deep learning based medical image registration in the context of both research challenges and relevant innovations in the past few years. Further, this survey highlights future research directions to show how this field may be possibly moved forward to the next level.
Key facts. Cited by 124 papers in the map (data through 7 Oct 2026). First posted on arXiv 5 Mar 2019.
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Citing papers per year: 2021: 21; 2022: 27; 2023: 28; 2024: 25; 2025: 12; 2026: 11.
124 papers.
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- 2022Transformers in Medical Imaging: A Surveycited by 245
- 2021Learn2Reg: comprehensive multi-task medical image registration challenge, dataset and evaluation in the era of deep learningcited by 125
- 2021Recent advances and clinical applications of deep learning in medical image analysiscited by 104
- 2023Advances in Medical Image Analysis with Vision Transformers: A Comprehensive Reviewcited by 62
- 2024Correlation-aware Coarse-to-fine MLPs for Deformable Medical Image Registrationcited by 37
- 2023Geometric Visual Similarity Learning in 3D Medical Image Self-supervised Pre-trainingcited by 36
- 2024Local Feature Matching Using Deep Learning: A Surveycited by 26
- 2022A Survey on Training Challenges in Generative Adversarial Networks for Biomedical Image Analysiscited by 24
- 2021The Impact of Machine Learning on 2D/3D Registration for Image-guided Interventions: A Systematic Review and Perspectivecited by 22
- 2022Generative Myocardial Motion Tracking via Latent Space Exploration with Biomechanics-informed Priorcited by 22
- 2021Cross-modal Attention for MRI and Ultrasound Volume Registrationcited by 21
- 2021Imbalanced Big Data Oversampling: Taxonomy, Algorithms, Software, Guidelines and Future Directionscited by 21
38 more
- 2023Non-iterative Coarse-to-fine Transformer Networks for Joint Affine and Deformable Image Registrationcited by 21
- 2022Non-iterative Coarse-to-fine Registration based on Single-pass Deep Cumulative Learningcited by 20
- 2024Deep Learning in Medical Image Registration: Magic or Mirage?cited by 20
- 2022A Review of Causality for Learning Algorithms in Medical Image Analysiscited by 18
- 2023Deep Learning for Retrospective Motion Correction in MRI: A Comprehensive Reviewcited by 18
- 2023Spatially Covariant Image Registration with Text Promptscited by 18
- 2021Test-Time Training for Deformable Multi-Scale Image Registrationcited by 17
- 2023Transformers in Healthcare: A Surveycited by 17
- 2023Robust deformable image registration using cycle-consistent implicit representationscited by 13
- 2021Enhancing Medical Image Registration via Appearance Adjustment Networkscited by 12
- 2021Comparison of Consecutive and Re-stained Sections for Image Registration in Histopathologycited by 12
- 2022Self-Supervised 2D/3D Registration for X-Ray to CT Image Fusioncited by 12
- 2023Is attention all you need in medical image analysis? A reviewcited by 12
- 2024General Purpose Image Encoder DINOv2 for Medical Image Registrationcited by 11
- 2022Brain Tumor Sequence Registration with Non-iterative Coarse-to-fine Networks and Dual Deep Supervisioncited by 10
- 2025From Screens to Scenes: A Survey of Embodied AI in Healthcarecited by 10
- 2021Is Image-to-Image Translation the Panacea for Multimodal Image Registration? A Comparative Studycited by 9
- 2021Unsupervised Landmark Detection Based Spatiotemporal Motion Estimation for 4D Dynamic Medical Imagescited by 9
- 2022Cross-Modality Multi-Atlas Segmentation via Deep Registration and Label Fusioncited by 8
- 2022Deep Learning for Medical Image Registration: A Comprehensive Reviewcited by 8
- 2023Non-rigid Medical Image Registration using Physics-informed Neural Networkscited by 8
- 2025Synthetic CT image generation from CBCT: A Systematic Reviewcited by 8
- 2022Prior Knowledge-Guided Attention in Self-Supervised Vision Transformerscited by 7
- 2023Unsupervised 3D registration through optimization-guided cyclical self-trainingcited by 7
- 2024RegWSI: Whole Slide Image Registration using Combined Deep Feature- and Intensity-Based Methods: Winner of the ACROBAT 2023 Challengecited by 7
- 2024Epicardium Prompt-guided Real-time Cardiac Ultrasound Frame-to-volume Registrationcited by 7
- 2021Fast computation of mutual information in the frequency domain with applications to global multimodal image alignmentcited by 6
- 2022Weakly-supervised Biomechanically-constrained CT/MRI Registration of the Spinecited by 6
- 2023AutoFuse: Automatic Fusion Networks for Deformable Medical Image Registrationcited by 6
- 2023Full-resolution MLPs Empower Medical Dense Predictioncited by 6
- 2021Stochastic Planner-Actor-Critic for Unsupervised Deformable Image Registrationcited by 5
- 2022Adapting the Mean Teacher for keypoint-based lung registration under geometric domain shiftscited by 5
- 2022Medical image registration using unsupervised deep neural network: A scoping literature reviewcited by 5
- 2024Deep Implicit Optimization enables Robust Learnable Features for Deformable Image Registrationcited by 5
- 2021Cascaded Feature Warping Network for Unsupervised Medical Image Registrationcited by 4
- 2021MICS : Multi-steps, Inverse Consistency and Symmetric deep learning registration networkcited by 4
- 2022A Sub-pixel Accurate Quantification of Joint Space Narrowing Progression in Rheumatoid Arthritiscited by 4
- 2022Meta-Learning Initializations for Interactive Medical Image Registrationcited by 4
50 most cited of 124 All 124 (JSON)
- 2026Benchmarking Intra-Patient 3D Deformable Multimodal Image Registration14 Sep 2026
- 2026Architectural and Regularization Components in Deep Learning Medical Image Registration: Systematic Ablation Study23 Aug 2026
- 2026Acquisition Geometry-Assisted Whole-Group Localization of X-ray Fluorescence Maps in Optical Microscopy Images18 Aug 2026
- 2026Alignment of Similarity-Transformed Images Based on Fourier--Mellin Transform Using Auxiliary Function Method12 Aug 2026
- 2026DynoDINO: Harnessing Dynamic Latent Information from DINO Features for Multi-Phase Medical Image Segmentation31 Jul 2026
- 2026MatRes: Zero-Shot Test-Time Model Adaptation for Simultaneous Matching and Restoration11 Apr 2026
- 2026Causal Transfer in Medical Image Analysis25 Mar 2026
- 2026GLIDE-Reg: Global-to-Local Deformable Registration Using Co-Optimized Foundation and Handcrafted Features27 Feb 2026
- 2026Attention-Driven Framework for Non-Rigid Medical Image Registration6 Feb 2026
- 2026Interpretable Unsupervised Deformable Image Registration via Confidence-bound Multi-Hop Visual Reasoning30 Jan 2026
- 2026Bridging Modalities: Joint Synthesis and Registration Framework for Aligning Diffusion MRI with T1-Weighted Images16 Jan 2026
- 2025C3VDReg: A Benchmark for Local-to-Local Colonoscopic Registration toward Anatomical Localization31 Oct 2025
38 more
- 2025Scale and Rotation Estimation of Similarity-Transformed Images via Cross-Correlation Maximization Based on Auxiliary Function Method18 Sep 2025
- 2025Bridging Classical and Learning-based Iterative Registration through Deep Equilibrium Models1 Jul 2025
- 2025VoxelOpt: Voxel-Adaptive Message Passing for Discrete Optimization in Deformable Abdominal CT Registration24 Jun 2025
- 2025RealKeyMorph: Keypoints in Real-world Coordinates for Resolution-agnostic Image Registration12 Jun 2025
- 2025Deformable registration and generative modelling of aortic anatomies by auto-decoders and neural ODEs1 Jun 2025
- 2025Unsupervised Deep Learning-based Keypoint Localization Estimating Descriptor Matching Performance5 May 2025
- 2025A Novel Streamline-based diffusion MRI Tractography Registration Method with Probabilistic Keypoint Detection4 Mar 2025
- 2025From Traditional to Deep Learning Approaches in Whole Slide Image Registration: A Methodological Review26 Feb 2025
- 2025Homeomorphism Prior for False Positive and Negative Problem in Medical Image Dense Contrastive Representation Learning7 Feb 2025
- 2025Synthetic CT image generation from CBCT: A Systematic Review22 Jan 2025
- 2025From Screens to Scenes: A Survey of Embodied AI in Healthcare13 Jan 2025
- 2024Advancing Deformable Medical Image Registration with Multi-axis Cross-covariance Attention24 Dec 2024
- 2024Interpretable deformable image registration: A geometric deep learning perspective17 Dec 2024
- 2024A Symmetric Dynamic Learning Framework for Diffeomorphic Medical Image Registration5 Nov 2024
- 2024Stationary Velocity Fields on Matrix Groups for Deformable Image Registration14 Oct 2024
- 2024Dual-Attention Frequency Fusion at Multi-Scale for Joint Segmentation and Deformable Medical Image Registration29 Sep 2024
- 2024Deep Learning in Medical Image Registration: Magic or Mirage?11 Aug 2024
- 2024General Vision Encoder Features as Guidance in Medical Image Registration18 Jul 2024
- 2024Toward Universal Medical Image Registration via Sharpness-Aware Meta-Continual Learning25 Jun 2024
- 2024Epicardium Prompt-guided Real-time Cardiac Ultrasound Frame-to-volume Registration20 Jun 2024
- 2024Recurrent Inference Machine for Medical Image Registration19 Jun 2024
- 2024Deep Implicit Optimization enables Robust Learnable Features for Deformable Image Registration11 Jun 2024
- 2024Correlation-aware Coarse-to-fine MLPs for Deformable Medical Image Registration31 May 2024
- 2024Assessment of Left Atrium Motion Deformation Through Full Cardiac Cycle27 May 2024
- 2024Artificial intelligence for context-aware visual change detection in software test automation1 May 2024
- 2024Continuous sPatial-Temporal Deformable Image Registration (CPT-DIR) for motion modelling in radiotherapy: beyond classic voxel-based methods1 May 2024
- 2024ConKeD++ -- Improving descriptor learning for retinal image registration: A comprehensive study of contrastive losses25 Apr 2024
- 2024RegWSI: Whole Slide Image Registration using Combined Deep Feature- and Intensity-Based Methods: Winner of the ACROBAT 2023 Challenge19 Apr 2024
- 2024ModeTv2: GPU-accelerated Motion Decomposition Transformer for Pairwise Optimization in Medical Image Registration25 Mar 2024
- 2024Medical Image Registration and Its Application in Retinal Images: A Review25 Mar 2024
- 2024General Purpose Image Encoder DINOv2 for Medical Image Registration24 Feb 2024
- 2024Semi-weakly-supervised neural network training for medical image registration16 Feb 2024
- 2024Local Feature Matching Using Deep Learning: A Survey31 Jan 2024
- 2024Domain adaptation strategies for 3D reconstruction of the lumbar spine using real fluoroscopy data29 Jan 2024
- 2024BreastRegNet: A Deep Learning Framework for Registration of Breast Faxitron and Histopathology Images18 Jan 2024
- 2024ConKeD: Multiview contrastive descriptor learning for keypoint-based retinal image registration11 Jan 2024
- 2023High-Resolution Maps of Left Atrial Displacements and Strains Estimated with 3D Cine MRI using Online Learning Neural Networks14 Dec 2023
- 2023PatchMorph: A Stochastic Deep Learning Approach for Unsupervised 3D Brain Image Registration with Small Patches12 Dec 2023
50 newest of 124 All 124 (JSON)
- 2022Transformers in Medical Imaging: A Surveycited by 245
- 2021Learn2Reg: comprehensive multi-task medical image registration challenge, dataset and evaluation in the era of deep learningcited by 125
- 2021Recent advances and clinical applications of deep learning in medical image analysiscited by 104
- 2023Advances in Medical Image Analysis with Vision Transformers: A Comprehensive Reviewcited by 62
- 2024Correlation-aware Coarse-to-fine MLPs for Deformable Medical Image Registrationcited by 37
- 2023Geometric Visual Similarity Learning in 3D Medical Image Self-supervised Pre-trainingcited by 36
- 2024Local Feature Matching Using Deep Learning: A Surveycited by 26
- 2022A Survey on Training Challenges in Generative Adversarial Networks for Biomedical Image Analysiscited by 24
- 2021The Impact of Machine Learning on 2D/3D Registration for Image-guided Interventions: A Systematic Review and Perspectivecited by 22
- 2022Generative Myocardial Motion Tracking via Latent Space Exploration with Biomechanics-informed Priorcited by 22
- 2021Cross-modal Attention for MRI and Ultrasound Volume Registrationcited by 21
- 2021Imbalanced Big Data Oversampling: Taxonomy, Algorithms, Software, Guidelines and Future Directionscited by 21
12 most cited of 124 All 124 (JSON)
- 2026Benchmarking Intra-Patient 3D Deformable Multimodal Image Registration14 Sep 2026
- 2026Architectural and Regularization Components in Deep Learning Medical Image Registration: Systematic Ablation Study23 Aug 2026
- 2026Acquisition Geometry-Assisted Whole-Group Localization of X-ray Fluorescence Maps in Optical Microscopy Images18 Aug 2026
- 2026Alignment of Similarity-Transformed Images Based on Fourier--Mellin Transform Using Auxiliary Function Method12 Aug 2026
- 2026DynoDINO: Harnessing Dynamic Latent Information from DINO Features for Multi-Phase Medical Image Segmentation31 Jul 2026
- 2026MatRes: Zero-Shot Test-Time Model Adaptation for Simultaneous Matching and Restoration11 Apr 2026
- 2026Causal Transfer in Medical Image Analysis25 Mar 2026
- 2026GLIDE-Reg: Global-to-Local Deformable Registration Using Co-Optimized Foundation and Handcrafted Features27 Feb 2026
- 2026Attention-Driven Framework for Non-Rigid Medical Image Registration6 Feb 2026
- 2026Interpretable Unsupervised Deformable Image Registration via Confidence-bound Multi-Hop Visual Reasoning30 Jan 2026
- 2026Bridging Modalities: Joint Synthesis and Registration Framework for Aligning Diffusion MRI with T1-Weighted Images16 Jan 2026
- 2025C3VDReg: A Benchmark for Local-to-Local Colonoscopic Registration toward Anatomical Localization31 Oct 2025
12 newest of 124 All 124 (JSON)