| --- |
| title: MR-RATE-coreg Dataset |
| license: cc-by-nc-sa-4.0 |
| task_categories: |
| - image-to-text |
| - text-to-image |
| - image-classification |
| - question-answering |
| - visual-question-answering |
| - zero-shot-classification |
| language: |
| - en |
| tags: |
| - brain-mri |
| - radiology |
| - science |
| - huggingscience |
| - 3d-medical-imaging |
| - medical |
| - mr-rate |
| - multimodal |
| - vision-language |
| - healthcare |
| - diagnostic-imaging |
| - computer-vision |
| - foundation-model |
| size_categories: |
| - 10K<n<100K |
| pretty_name: "MR-RATE-coreg: Co-Registered MRI Volumes" |
| extra_gated_prompt: > |
| ## Terms and Conditions for Using the MR-RATE Dataset |
| |
| **1. Acceptance of Terms** |
| Accessing and using the MR-RATE dataset implies your agreement to these terms |
| and conditions. If you disagree with any part, please refrain from using the |
| dataset. |
|
|
| **2. Permitted Use** |
|
|
| - The dataset is intended solely for academic, research, and educational |
| purposes. |
|
|
| - Any commercial exploitation of the dataset without prior permission is |
| strictly forbidden. |
|
|
| - You must adhere to all relevant laws, regulations, and research ethics, |
| including data privacy and protection standards. |
|
|
|
|
| **3. Data Protection and Privacy** |
|
|
| - Acknowledge the presence of sensitive information within the dataset and |
| commit to maintaining data confidentiality. |
|
|
| - Direct attempts to re-identify individuals from the dataset are prohibited. |
|
|
| - Ensure compliance with data protection laws such as GDPR and HIPAA. |
|
|
|
|
| **4. Attribution** |
|
|
| - Cite the dataset and acknowledge the providers in any publications resulting |
| from its use. |
|
|
| - Claims of ownership or exclusive rights over the dataset or derivatives are |
| not permitted. |
|
|
|
|
| **5. Redistribution** |
|
|
| - Redistribution of the dataset or any portion thereof is not allowed. |
|
|
| - Sharing derived data must respect the privacy and confidentiality terms set |
| forth. |
|
|
|
|
| **6. Disclaimer** |
|
|
| The dataset is provided "as is" without warranty of any kind, either expressed |
| or implied, including but not limited to the accuracy or completeness of the |
| data. |
|
|
|
|
| **7. Limitation of Liability** |
|
|
| Under no circumstances will the dataset providers be liable for any claims or |
| damages resulting from your use of the dataset. |
|
|
|
|
| **8. Access Revocation** |
|
|
| Violation of these terms may result in the termination of your access to the |
| dataset. |
|
|
|
|
| **9. Amendments** |
|
|
| The terms and conditions may be updated at any time; continued use of the |
| dataset signifies acceptance of the new terms. |
|
|
|
|
| **10. Governing Law** |
|
|
| These terms are governed by the laws of the location of the dataset providers, |
| excluding conflict of law rules. |
|
|
|
|
| **Consent:** |
|
|
| Accessing and using the MR-RATE dataset signifies your acknowledgment and |
| agreement to these terms and conditions. |
| extra_gated_fields: |
| First Name: text |
| Last Name: text |
| Institution: text |
| Role: text |
| Email: text |
| I have read and agree with Terms and Conditions for using the MR-RATE dataset: checkbox |
| --- |
| <p align="center"> |
| <span style="font-size: 24px; font-weight: 700;"> |
| MR-RATE: A Vision-Language Foundation Model and Dataset for Magnetic Resonance Imaging |
| </span> |
| </p> |
| <p align="center"> |
| <a href="https://github.com/forithmus/MR-RATE"> |
| <img alt="Code" src="https://img.shields.io/badge/Code-GitHub-181717?logo=github&logoColor=white"> |
| </a> |
| <a href="https://huggingface.co/datasets/Forithmus/MR-RATE#dataset-organization--getting-started"> |
| <img alt="Dataset Access" src="https://img.shields.io/badge/Dataset%20Getting%20Started-Hugging%20Face-FFD21E?logo=huggingface&logoColor=black"> |
| </a> |
| <a href="https://mrrate.forithmus.com/"> |
| <img alt="Dataset Explorer" src="https://img.shields.io/badge/Dataset%20Explorer-Streamlit-FF4B4B?logo=streamlit&logoColor=white"> |
| </a> |
| <br> |
| <a href=""> |
| <img alt="Paper (Coming Soon)" src="https://img.shields.io/badge/Paper-(Coming%20Soon)-B31B1B?logo=arxiv&logoColor=white"> |
| </a> |
| <a href=""> |
| <img alt="Model Weights (Coming Soon)" src="https://img.shields.io/badge/Model%20Weights-(Coming%20Soon)-FFD21E?logo=huggingface&logoColor=black"> |
| </a> |
| </p> |
| |
| This is the **MR-RATE-coreg** repository, part of the **MR-RATE** dataset release. It contains co-registered MRI volumes in which all imaging sequences within each study have been spatially aligned to a common T1-weighted reference frame. For full dataset details, native-space MRI volumes, radiology reports, metadata, and data splits, please refer to the [MR-RATE](https://huggingface.co/datasets/Forithmus/MR-RATE) repository. To explore, download, and work with the dataset see **[Dataset Organization & Getting Started](https://huggingface.co/datasets/Forithmus/MR-RATE#dataset-organization--getting-started)**. |
| |
| # Co-registered MRI Volumes |
| |
| Within each study, a T1-weighted MRI volume is selected as the *center modality*. All other MRI sequences acquired in the same study, referred to as *moving modalities*, are rigidly registered to the center modality using [ANTs](https://github.com/antsx/ants), bringing all sequences into a common anatomical coordinate frame per study. |
| |
| This repository provides: |
| - **Center modalities** (in NIfTI format) — All center modality MRI volumes along with their corresponding brain masks and defacing masks, copied from the native-space dataset in the [MR-RATE](https://huggingface.co/datasets/Forithmus/MR-RATE) repository for convenience |
| - **Co-registered moving modalities** (in NIfTI format) — All moving modality MRI volumes registered to the T1-weighted center modality |
| - **Registration transforms** (in .mat format) — The ANTs transform files for each registration, enabling users to apply or invert them in their own workflows |
| |
| Study folders are zipped to comply with Hugging Face's per-repository file count limits. |
|
|
| --- |
|
|
| # Citing Us |
| When using this dataset, please consider citing the following related papers: |
|
|
| ``` |
| Coming soon |
| ``` |
|
|
| # Ethical Approval |
| This study was approved by the Clinical Research Ethics Committee at Istanbul Medipol University (E-10840098-772.02-6841, 27/10/2023). All MRI volumes, metadata, and radiology reports were fully anonymized prior to analysis to protect patient privacy. |
|
|
| # License |
| We are committed to fostering innovation and collaboration in the research community. To this end, all elements of the MR-RATE dataset are released under a **[Creative Commons Attribution–NonCommercial–ShareAlike (CC BY-NC-SA)](https://creativecommons.org/licenses/by-nc-sa/4.0/)** license. |
|
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| This licensing framework ensures that our contributions can be freely used for non-commercial research purposes, while also encouraging contributions and modifications, provided that the original work is properly cited and any derivative works are shared under similar terms. |
|
|
| For commercial inquiries related to MR-RATE, please contact: contact@forithmus.com. |
|
|
| # Acknowledgements |
| This project is conducted by Forithmus and the University of Zurich, in collaboration with NVIDIA and Istanbul Medipol University. |
|
|
| We are grateful to NVIDIA for their support, which made this work possible. We also sincerely thank Istanbul Medipol University Mega Hospital for their support and for providing the data used in this project. High-performance computing resources were provided by NVIDIA and the University of Zurich ScienceCluster. |
|
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| We would also like to thank the following individuals from NVIDIA for their contributions to the development of MR-RATE: Marc Edgar, Daguang Xu, Dong Yang, Yucheng Tang, Can Zhao, Andriy Myronenko, and Pengfei Guo. |
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