Datasets:

Angelou0516
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UCSF-PDGM

patient_id stringlengths 14 14	sex stringclasses 2 values	age_at_mri stringclasses 70 values	who_cns_grade stringclasses 3 values	diagnosis_who2021 stringclasses 4 values	idh stringclasses 9 values	mgmt_status stringclasses 4 values	brats21_id stringlengths 0 15	os_days stringlengths 0 4	dead stringclasses 2 values	num_slices int32 155 155	tumor_slice_idx int32 36 143	tumor_voxels int64 971 321k
UCSF-PDGM-0004	M	66	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00097	1303	1	155	105	41,919
UCSF-PDGM-0005	F	80	4	Glioblastoma, IDH-wildtype	wildtype	indeterminate		274	1	155	87	28,419
UCSF-PDGM-0007	M	70	4	Glioblastoma, IDH-wildtype	wildtype	indeterminate	BraTS2021_00103	417	1	155	86	225,535
UCSF-PDGM-0008	M	70	4	Glioblastoma, IDH-wildtype	wildtype	negative		185	1	155	82	168,611
UCSF-PDGM-0009	F	68	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00049	389	1	155	118	119,424
UCSF-PDGM-0010	M	39	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00087	17	0	155	79	117,717
UCSF-PDGM-0011	F	68	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00068	133	0	155	73	110,080
UCSF-PDGM-0012	F	74	4	Glioblastoma, IDH-wildtype	wildtype	negative		15	0	155	111	181,143
UCSF-PDGM-0013	F	65	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00056	322	1	155	74	104,443
UCSF-PDGM-0014	F	64	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00002	313	1	155	90	190,594
UCSF-PDGM-0015	M	50	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00021	54	1	155	75	89,260
UCSF-PDGM-0016	F	57	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00054	14	0	155	107	100,486
UCSF-PDGM-0017	M	54	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00003	241	1	155	121	99,239
UCSF-PDGM-0018	M	51	4	Glioblastoma, IDH-wildtype	wildtype	positive		1449	0	155	97	18,821
UCSF-PDGM-0019	F	50	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00027	719	1	155	82	58,651
UCSF-PDGM-0020	M	49	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00032	551	0	155	96	88,373
UCSF-PDGM-0021	M	41	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive	BraTS2021_00085	1759	0	155	111	77,413
UCSF-PDGM-0022	F	61	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00013	533	1	155	87	122,737
UCSF-PDGM-0023	F	67	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00035	1161	1	155	111	38,022
UCSF-PDGM-0024	M	51	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00072	653	1	155	88	74,301
UCSF-PDGM-0025	M	34	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00094	465	1	155	90	162,400
UCSF-PDGM-0026	F	83	4	Glioblastoma, IDH-wildtype	wildtype	positive		236	0	155	105	66,552
UCSF-PDGM-0027	F	54	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00016	298	1	155	81	74,546
UCSF-PDGM-0029	M	66	4	Glioblastoma, IDH-wildtype	wildtype	indeterminate	BraTS2021_01027	75	1	155	109	66,111
UCSF-PDGM-0030	M	78	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00098	17	0	155	69	66,169
UCSF-PDGM-0031	F	40	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive		824	1	155	77	108,956
UCSF-PDGM-0032	F	66	4	Glioblastoma, IDH-wildtype	wildtype	indeterminate	BraTS2021_01028	105	0	155	75	73,145
UCSF-PDGM-0033	M	37	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00070	1489	1	155	109	156,721
UCSF-PDGM-0034	M	63	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00088	52	0	155	88	125,245
UCSF-PDGM-0035	M	69	4	Glioblastoma, IDH-wildtype	wildtype	positive		132	1	155	103	139,424
UCSF-PDGM-0036	M	52	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00025	1673	0	155	73	30,557
UCSF-PDGM-0037	M	74	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00078	460	0	155	115	68,098
UCSF-PDGM-0038	M	78	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00082	152	1	155	105	213,370
UCSF-PDGM-0039	M	53	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00024	134	0	155	70	101,451
UCSF-PDGM-0040	M	65	4	Glioblastoma, IDH-wildtype	wildtype	positive		716	1	155	71	118,588
UCSF-PDGM-0041	M	69	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00015	128	0	155	91	219,981
UCSF-PDGM-0042	M	58	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00044	635	1	155	104	16,636
UCSF-PDGM-0043	F	58	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00058	1116	1	155	79	27,410
UCSF-PDGM-0044	M	38	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive	BraTS2021_00059	930	0	155	91	119,934
UCSF-PDGM-0045	M	32	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive	BraTS2021_00043	1718	0	155	57	98,719
UCSF-PDGM-0046	M	48	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00030	178	1	155	112	117,996
UCSF-PDGM-0047	M	55	4	Glioblastoma, IDH-wildtype	wildtype	positive		385	0	155	130	41,336
UCSF-PDGM-0048	M	74	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00026	54	1	155	92	71,556
UCSF-PDGM-0049	F	65	4	Glioblastoma, IDH-wildtype	wildtype	positive		721	0	155	76	94,802
UCSF-PDGM-0050	M	37	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00048	554	1	155	77	84,681
UCSF-PDGM-0053	F	64	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00018	575	0	155	103	160,203
UCSF-PDGM-0055	F	69	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00011	1328	0	155	103	70,184
UCSF-PDGM-0056	F	79	4	Glioblastoma, IDH-wildtype	wildtype	positive		207	1	155	89	28,414
UCSF-PDGM-0057	M	38	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00000	224	0	155	86	57,305
UCSF-PDGM-0058	F	51	4	Glioblastoma, IDH-wildtype	wildtype	positive		1540	0	155	94	107,546
UCSF-PDGM-0059	M	71	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00036	223	0	155	91	157,005
UCSF-PDGM-0061	F	46	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive	BraTS2021_00012	1907	0	155	105	263,809
UCSF-PDGM-0063	M	56	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00031	287	1	155	91	212,996
UCSF-PDGM-0064	M	49	4	Glioblastoma, IDH-wildtype	wildtype	positive		187	1	155	70	43,105
UCSF-PDGM-0065	M	64	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00095	167	1	155	90	236,428
UCSF-PDGM-0066	F	38	4	Glioblastoma, IDH-wildtype	wildtype	unknown	BraTS2021_01035	1913	0	155	36	3,745
UCSF-PDGM-0067	M	71	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00074	299	1	155	102	181,624
UCSF-PDGM-0068	M	54	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00047	336	1	155	118	74,256
UCSF-PDGM-0069	M	55	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00037	245	1	155	70	46,700
UCSF-PDGM-0070	M	66	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00052	678	1	155	90	164,216
UCSF-PDGM-0071	F	71	4	Glioblastoma, IDH-wildtype	wildtype	negative		315	1	155	75	81,968
UCSF-PDGM-0072	M	52	4	Glioblastoma, IDH-wildtype	wildtype	positive		184	0	155	99	63,623
UCSF-PDGM-0073	F	54	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive	BraTS2021_00079	1617	0	155	113	116,769
UCSF-PDGM-0074	M	61	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00084	583	0	155	100	67,070
UCSF-PDGM-0075	M	61	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00061	421	1	155	59	19,464
UCSF-PDGM-0076	M	76	4	Glioblastoma, IDH-wildtype	wildtype	positive		108	0	155	97	94,014
UCSF-PDGM-0077	M	84	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00077	142	1	155	104	197,218
UCSF-PDGM-0078	F	79	4	Glioblastoma, IDH-wildtype	wildtype	positive		354	1	155	95	51,843
UCSF-PDGM-0079	F	79	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00081	560	1	155	79	79,806
UCSF-PDGM-0080	F	77	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00066	253	1	155	99	38,714
UCSF-PDGM-0082	M	60	4	Glioblastoma, IDH-wildtype	wildtype	positive		6	0	155	98	129,102
UCSF-PDGM-0083	F	62	4	Glioblastoma, IDH-wildtype	wildtype	positive		260	1	155	132	15,139
UCSF-PDGM-0084	M	60	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00045	902	0	155	64	34,190
UCSF-PDGM-0085	M	77	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00017	232	0	155	73	99,385
UCSF-PDGM-0086	F	72	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00089	266	0	155	96	35,086
UCSF-PDGM-0087	M	63	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00071	406	1	155	67	92,002
UCSF-PDGM-0088	F	60	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00008	1797	0	155	83	18,462
UCSF-PDGM-0089	M	25	4	Astrocytoma, IDH-mutant	IDH1 p.R132H	positive		1785	0	155	96	321,345
UCSF-PDGM-0090	M	65	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00060	749	1	155	78	240,373
UCSF-PDGM-0091	M	79	4	Glioblastoma, IDH-wildtype	wildtype	positive		463	1	155	124	14,251
UCSF-PDGM-0092	F	52	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00009	567	1	155	102	27,453
UCSF-PDGM-0093	M	79	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00020	994	1	155	85	59,921
UCSF-PDGM-0094	M	61	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00091	161	0	155	105	189,033
UCSF-PDGM-0095	F	62	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00046	777	1	155	108	33,792
UCSF-PDGM-0096	M	46	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00001	591	1	155	81	122,378
UCSF-PDGM-0097	F	69	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00022	110	1	155	112	112,949
UCSF-PDGM-0099	M	48	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00028	472	1	155	88	21,245
UCSF-PDGM-0101	M	50	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00090	705	1	155	83	97,635
UCSF-PDGM-0102	M	45	4	Glioblastoma, IDH-wildtype	wildtype	positive		798	0	155	136	13,373
UCSF-PDGM-0103	M	55	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00096	1694	0	155	72	119,315
UCSF-PDGM-0104	M	52	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00053	70	1	155	99	131,650
UCSF-PDGM-0105	M	66	4	Glioblastoma, IDH-wildtype	wildtype	negative		667	1	155	83	77,476
UCSF-PDGM-0106	F	51	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00014	351	1	155	52	38,358
UCSF-PDGM-0107	F	62	4	Glioblastoma, IDH-wildtype	wildtype	positive		175	0	155	103	81,558
UCSF-PDGM-0108	M	29	4	Astrocytoma, IDH-mutant	mutated (NOS)	positive	BraTS2021_00033	1715	0	155	72	163,810
UCSF-PDGM-0109	M	51	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00063	611	1	155	135	24,738
UCSF-PDGM-0111	M	61	4	Glioblastoma, IDH-wildtype	wildtype	negative	BraTS2021_00019	39	1	155	91	142,997
UCSF-PDGM-0112	M	55	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00064	301	1	155	85	101,426
UCSF-PDGM-0113	F	54	4	Glioblastoma, IDH-wildtype	wildtype	positive		1351	1	155	99	88,735
UCSF-PDGM-0114	F	63	4	Glioblastoma, IDH-wildtype	wildtype	positive	BraTS2021_00062	92	1	155	99	124,308

End of preview. Expand in Data Studio

UCSF-PDGM — BraTS-format structural subset (T1/T1c/T2/FLAIR + tumor segmentation)

⚠️ This repository is the BraTS-format structural subset of UCSF-PDGM — NOT the full multi-sequence release. Per patient it provides the 4 structural MRI modalities (T1, T1c, T2, FLAIR) co-registered to the 240 × 240 × 155 BraTS grid (1 mm isotropic, skull-stripped) plus the expert-corrected tumor segmentation. The full UCSF-PDGM release additionally contains DWI, ADC, ASL, SWI, HARDI/DTI and derived diffusion maps, N4 bias-corrected (_bias) images, and whole-brain / parenchyma masks — all intentionally excluded here to keep a compact, BraTS-compatible glioma-segmentation dataset.

The University of California San Francisco Preoperative Diffuse Glioma MRI (UCSF-PDGM) dataset is a cohort of preoperative 3 T brain MRI from patients with histopathologically confirmed diffuse gliomas.

495 patients — one folder each, UCSF-PDGM-XXXX/, with 5 NIfTI volumes.
UCSF-PDGM-metadata_v5.csv — official clinical metadata (sex, age, WHO CNS grade, final WHO-2021 diagnosis, MGMT status/index, 1p/19q, IDH, overall survival, extent of resection, and the BraTS21 ID / cohort columns).
UCSF-PDGM-metadata_glossary.csv — glossary for the metadata columns.

Note: the metadata table has 501 rows (imaging studies) while there are 495 image folders (unique patients); 6 follow-up/duplicate studies are not included as images.

Per-patient series layout (do not infer — this is the authoritative mapping)

Every UCSF-PDGM-XXXX/ folder contains exactly these five files:

File	Series	Description	Role
`UCSF-PDGM-XXXX_T1.nii.gz`	T1	Pre-contrast T1-weighted	image
`UCSF-PDGM-XXXX_T1c.nii.gz`	T1c	Post-contrast (gadolinium) T1-w	image
`UCSF-PDGM-XXXX_T2.nii.gz`	T2	T2-weighted	image
`UCSF-PDGM-XXXX_FLAIR.nii.gz`	FLAIR	T2-FLAIR	image
`UCSF-PDGM-XXXX_tumor_segmentation.nii.gz`	seg	Tumor segmentation	ground truth mask

All five volumes share identical geometry — shape (240, 240, 155), 1 mm isotropic — and are voxel-aligned.

Tumor segmentation labels (BraTS convention)

Label	Region
0	Background
1	Non-enhancing tumor core / necrosis (NCR)
2	Peritumoral edema (ED)
4	Enhancing tumor (ET)

Masks were produced for the BraTS 2021 challenge: an automated ensemble of prior BraTS-winning algorithms, then manually corrected and approved by neuroradiologists.

⚠️ Benchmark-overlap warning (BraTS 2021 / 2023)

Roughly 298 of the 495 cases (~60 %) overlap with BraTS 2021, and therefore with BraTS 2023 (which inherits the BraTS 2021 glioma data). The BraTS21 ID, BraTS21 Segmentation Cohort, and BraTS21 MGMT Cohort columns in UCSF-PDGM-metadata_v5.csv identify exactly which cases. Do not treat UCSF-PDGM as an independent benchmark alongside BraTS2023 without first excluding the intersection — otherwise evaluation is contaminated by train/test leakage.

Joining metadata to images (ID padding differs)

Metadata IDs are 3-digit zero-padded (UCSF-PDGM-004); image folders/filenames are 4-digit (UCSF-PDGM-0004). Normalize by stripping the UCSF-PDGM- prefix and parsing the integer to join the two.

Preprocessing

Co-registered (nonlinear) to the T2-FLAIR reference space at 1 mm isotropic.
Skull-stripped with a deep-learning brain-extraction method.
Intensities are not N4 bias-corrected in this subset (the full release also offers _bias variants).

License

CC BY 4.0 (Creative Commons Attribution 4.0 International). You must give appropriate credit.

Citation

Calabrese E, Villanueva-Meyer JE, Rudie JD, et al. The University of California San Francisco Preoperative Diffuse Glioma MRI Dataset. Radiology: Artificial Intelligence. 2022;4(6):e220058. https://doi.org/10.1148/ryai.220058

Data (TCIA): Calabrese, E., et al. (2022). UCSF-PDGM (Version 5) [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/tcia.bdgf-8v37 — collection page: https://www.cancerimagingarchive.net/collection/ucsf-pdgm/

Provenance

Structural subset extracted from UCSF-PDGM Version 5 (TCIA), retaining only the T1/T1c/T2/FLAIR images and the tumor_segmentation mask from each patient's NIfTI package. Re-distributed here under the source CC BY 4.0 license.

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