| --- |
| license: cc0-1.0 |
| task_categories: |
| - image-segmentation |
| tags: |
| - medical-imaging |
| - brain-mri |
| - parcellation |
| - quality-control |
| - neurips-2026 |
| pretty_name: OpenBrain v1.0 |
| configs: |
| - config_name: sample_manifest |
| data_files: |
| - split: sample |
| path: sample/sample_manifest.csv |
| default: true |
| --- |
| |
| # OpenBrain v1.0 |
|
|
| **OpenBrain: An Auditable Generated-Label Release for Whole-Brain MRI Parcellation** |
| Accepted to NeurIPS 2026, Evaluations & Datasets Track. [Paper on OpenReview](https://openreview.net/forum?id=dR9OMtUEEC) |
|
|
| Qizhen Lan, Yu-Chun Hsu, Yuxiang Wei, Lijing Zhu, Zenan Sun, Liang He, Lishan Yu, Xiaoqian Jiang. |
|
|
| Maintained by **Qizhen Lan** ([lanqz7766](https://huggingface.co/lanqz7766)). |
|
|
|
|
| OpenBrain v1.0 is a public release of brain-extracted T1-weighted MRI |
| images, SynthStrip-derived brain masks, and automated whole-brain segmentation |
| labels. |
|
|
| The dataset viewer displays the 64-case sample manifest. The full release contains **35,838 cases** under `cases/`. |
|
|
| ## Release Contents |
|
|
| - Cases: 35,838 |
| - Source OpenNeuro datasets: 607 |
| - License: CC0 |
| - Artifacts per case: |
| - `image.nii.gz`: revised brain-extracted T1w image |
| - `brain_mask.nii.gz`: SynthStrip-derived brain mask |
| - `whole_brain_segmentation.nii.gz`: automated whole-brain segmentation label |
|
|
| All released cases are derived from raw T1w images that were exactly matched to |
| verified public OpenNeuro snapshots with CC0/public-domain-compatible license |
| metadata. The segmentation labels are algorithmic labels, not manual ground |
| truth. |
|
|
| ## Layout |
|
|
| ```text |
| cases/<case_id>/image.nii.gz |
| cases/<case_id>/brain_mask.nii.gz |
| cases/<case_id>/whole_brain_segmentation.nii.gz |
| metadata/openbrain_v1_0_metadata.csv |
| metadata/sha256_manifest.csv |
| sample/cases/<case_id>/... |
| sample/sample_manifest.csv |
| sample/README.md |
| ``` |
|
|
| ## QC Manifest Fields |
|
|
| The QC manifest uses `Q1`--`Q7` for the raw OpenBrain QC-7 values and |
| `r1`--`r7` for the corresponding source-local percentile risk fields. Larger |
| `r_k` values indicate higher risk relative to cases from the same OpenNeuro |
| source dataset; they are not calibrated probabilities of segmentation |
| correctness. `R` is the aggregate QC-7 risk score, and `tier` is the confidence |
| tier derived from the fixed release operating points. |
|
|
| The public sample manifest under `sample/sample_manifest.csv` follows the same |
| QC field convention for the 64-case sample subset. |
|
|
| ## Sample |
|
|
| The `sample/` directory is a 64-case preview subset. Every sample case |
| is drawn from the HighConf tier and includes the same three case artifacts as |
| the full release: `image.nii.gz`, `brain_mask.nii.gz`, and |
| `whole_brain_segmentation.nii.gz`. The sample is source-diverse (one case per |
| source dataset) and selected by low combined risk `R`, with Q1/Q3/Q4 |
| visual-cleanliness tie-breaks. |
|
|
| Use it for visual inspection, download testing, and pipeline smoke tests. The |
| labels remain algorithmic pseudo-labels, not manual ground truth. |
|
|
| ## Exclusions |
|
|
| This release excludes cases with non-CC0 licenses, missing OpenNeuro provenance, |
| manual-review license status, ambiguous raw BIDS matches, or missing raw T1w |
| matches. OpenMind-derived quality scores and masks are not included. |
|
|
| ## Citation |
|
|
| ```bibtex |
| @inproceedings{lan2026openbrain, |
| title = {OpenBrain: An Auditable Generated-Label Release for Whole-Brain MRI Parcellation}, |
| author = {Lan, Qizhen and Hsu, Yu-Chun and Wei, Yuxiang and Zhu, Lijing and Sun, Zenan and He, Liang and Yu, Lishan and Jiang, Xiaoqian}, |
| booktitle = {Advances in Neural Information Processing Systems, Evaluations \& Datasets Track}, |
| year = {2026} |
| } |
| ``` |
|
|
| ## Contact |
|
|
| For questions about the release, contact Qizhen Lan at [Qizhen.Lan@uth.tmc.edu](mailto:Qizhen.Lan@uth.tmc.edu). |
|
|
