GBM-struct-27

GBM-struct-27: a 10-case subset of UPENN GBM structural MRI dataset with multi-rater segmentations of 27 brain structures in the presence of glioblastoma
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Overview
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The GBM-struct-27 dataset contains a subset of 10 glioblastoma (GBM) cases from
the UPENN-GBM collection hosted on The Cancer Imaging Archive (TCIA):
https://doi.org/10.7937/TCIA.709X-DN49

The dataset includes MRI NIfTI volumes and manual segmentations of
27 brain structures produced by four independent raters. Segmentations were
performed on selected axial slices of the T1-weighted volumes rather than across
the full 3D volume. Glioblastoma tumour segmentations are not included.

The MRI NIfTI volumes in this release were already pre-registered to the SRI24 atlas
space, resampled to a common 155-slice grid, defaced, and not skull-stripped. No
additional spatial registration was performed by the authors.

Dataset structure
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The primary data are organised under the derivatives/ directory:

GBM-struct-27/
├── derivatives/
│   ├── upenn-gbm-sri24/
│   │   ├── sub-UPENNGBM00035/
│   │   │   └── anat/
│   │   │       ├── sub-UPENNGBM00035_ce-gad_space-SRI24_desc-unstripped_T1w.nii.gz
│   │   │       ├── sub-UPENNGBM00035_space-SRI24_desc-unstripped_FLAIR.nii.gz
│   │   │       ├── sub-UPENNGBM00035_space-SRI24_desc-unstripped_T1w.nii.gz
│   │   │       └── sub-UPENNGBM00035_space-SRI24_desc-unstripped_T2w.nii.gz
│   │   ├── sub-UPENNGBM00041/
│   │   │   └── anat/ …
│   │   └── dataset_description.json
│   └── upenn-gbm-sri24-seg/
│       ├── sub-UPENNGBM00035/
│       │   └── anat/
│       │       ├── sub-UPENNGBM00035_space-SRI24_label-structures_desc-raterA_T1w.nii.gz
│       │       ├── sub-UPENNGBM00035_space-SRI24_label-structures_desc-raterB_T1w.nii.gz
│       │       ├── sub-UPENNGBM00035_space-SRI24_label-structures_desc-raterC_T1w.nii.gz
│       │       └── sub-UPENNGBM00035_space-SRI24_label-structures_desc-raterD_T1w.nii.gz
│       ├── sub-UPENNGBM00041/
│       │   └── anat/ …
│       └── dataset_description.json
├── annotation_protocol_version_1.pdf
├── annotation_protocol_version_2_revised.pdf
├── dataset_description.json
├── itksnap_label_map.label
└── labels.json

Subjects included in this release:

– sub-UPENNGBM00035
– sub-UPENNGBM00041
– sub-UPENNGBM00054
– sub-UPENNGBM00101
– sub-UPENNGBM00108
– sub-UPENN