GLI-AL: A Multi-Modal Glioma MRI Label Resource with Unified Anatomy-Lesion Labels
Abstract
Existing BraTS-GLI datasets provide a widely used benchmark for adult glioma MRI segmentation, but their task definition focuses on tumor subregions and does not systematically represent coexisting white matter hyperintensities (WMH). In joint segmentation settings, such unlabeled abnormalities introduce task-specific label noise by treating pathological regions as normal tissue. To address this limitation, we introduce BraTS-GLI Anatomy-Lesion, a controlled-access, labels-only derived resource built from the BraTS 2023-GLI training cohort. The resource provides 1,251 unified eight-class anatomy-lesion label sets aligned with the original four-modal MRI cases, including image-repair labels for 116 cases requiring repaired imaging inputs. The cohort is organized into a 394-case purified subset and an 857-case extended subset, with case-level metadata covering label source, image-repair requirements, quality-control status, access conditions, checksums, and release boundaries. Compared with the original BraTS-GLI annotations, the resource substantially expands foreground supervision by incorporating healthy brain tissues and previously unlabeled coexisting abnormalities within a unified label space. A validation study using MedNeXt and T1/FLAIR inputs suggests that WMH-aware supervision preserves healthy-tissue segmentation performance across both in-domain GLI and external WMH datasets, while improving sensitivity to coexisting lesions relative to noisy-control training. The resource is intended for scientific research and supports joint anatomy-lesion supervision, label-noise analysis, and reproducible evaluation. Data are available at https://www.synapse.org/Synapse:syn75210889/wiki/, and code is available at https://github.com/xyx200/brats-gli-anatomy-lesion-code. The data resource DOI is https://doi.org/10.7303/SYN75210889.
Community
We are excited to share GLI-AL, a WMH-aware label resource for joint anatomy-lesion segmentation in BraTS-GLI.
Why it matters
In existing BraTS-GLI annotations, coexisting white matter hyperintensities (WMH) are not systematically represented. In joint segmentation, these unlabeled abnormalities can become false healthy-tissue supervision. GLI-AL addresses this label noise at the data level rather than asking models to learn around it.
What GLI-AL provides
- 1,251 unified 8-class labels, covering six healthy tissues, lesion, and background
- A 394-case purified subset and an 857-case extended subset
- 116 image-repair labels
- Case-level provenance, QC status, and access boundaries
The original BraTS tumor foreground is retained while healthy structures and coexisting-lesion constraints are incorporated into one supervision target.
Validation
On an external 170-case WMH dataset, MedNeXt trained with the purified subset preserved healthy-tissue performance and showed substantially better lesion sensitivity than a larger noisy-control model: lesion DSC increased from 4.3 to 31.1, while HD95 decreased from 297.46 to 140.40.
GLI-AL is a controlled-access, labels-only resource designed for joint segmentation, label-noise studies, source-stratified experiments, and reproducible evaluation.
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