DP Resources

Digital pathology resources

Lunit
Author: Kang
Year: 2022
Institution: Lunit
Paper: Benchmarking self-supervised learning on diverse pathology datasets
RetCCL
Author: Wang
Year: 2023
Institution: Sichuan University
Paper: RetCCL: Clustering-guided contrastive learning for whole-slide image retrieval
Aben's FM
Author: Aben
Year: 2024
Institution: Kaiko
Paper: Towards Large-Scale Training of Pathology Foundation Models
CONCH
Author: Chen
Year: 2024
Institution: Mahmood Lab
Paper: A visual-language foundation model for computational pathology
UNI
Author: Chen
Year: 2024
Institution: Mahmood Lab
Paper: Towards a general-purpose foundation model for computational pathology
Hibou
Author: Nechaev
Year: 2024
Institution: HistAI
Paper: Hibou: a family of foundational vision transformers for pathology
H-optimus-0
Author: --
Year: 2024
Institution: Bioptimus
Paper: --
Phikon-v2
Author: Filiot
Year: 2024
Institution: Owkin
Paper: Phikon-v2: A large and public feature extractor for biomarker prediction
PathoDuet
Author: Hua
Year: 2024
Institution: Shanghai Jiao Tong University
Paper: PathoDuet: Foundation models for pathological slide analysis of H&E and IHC stains
TANGLE
Author: Jaume
Year: 2024
Institution: Mahmood Lab
Paper: Transcriptomics-guided slide representation learning in computational pathology
PRISM
Author: Shaikovski
Year: 2024
Institution: Paige
Paper: PRISM: A multi-modal generative foundation model for slide-level histopathology

Datasets

MIST
Number of cases: 64
Number of images: 4642 (train)
+ 1000 (test)
Task: -
Type of data: Tiles
Registered pairs: Yes (software)
4 markers
Scanner: KFBIO KF-PRO-005
Rresolution: 1024x1024 px
20X, 0.46 mpp

BCI
Number of cases: 51
Number of images: 3896 (train)
+ 977 (test)
Task: grade
Type of data: Tiles
Registered pairs: Yes (software)
Scanner: Hamamatsu NanoZomer S60
Rresolution: 1024x1024 px
0.46 mpp

IHC4BC
Number of cases: 52
Number of images: 254
Task: status
Type of data: Tiles
Registered pairs: Yes (software)
4 markers
Scanner: Aperio GT 450
Rresolution: 3000x3000 px
40X, 0.26 mpp

WSI-MIL
Number of cases: 504
Number of images: 2,051,877
from 426 WSI
Task: neg/low/high
Type of data: Tiles
Registered pairs: only H&E
Scanner: Leica Aperio AT2
Rresolution: 256x356 px
20X, 0.5 mpp

HER2 Contest (Warwick)
Number of cases: -
Number of images: 52 (train)
+ 34 (test)
Task: status and grade
Type of data: Slides
Registered pairs: No
Scanner: Hamamatsu NanoZoomer C9600
Rresolution: 40X, 0.23 mpp

HEROHE
Number of cases: -
Number of images: 359 (train)
+ 150 (test)
Task: status and grade
Type of data: Slides
Registered pairs: only H&E
Scanner: 3D Histech Panoramic 1000
Rresolution: 20X, 0.25 mpp

AIDPATH
Number of cases: 50
Number of images: -
Task: grade
Type of data: Slides
Registered pairs: No
Scanner: Aperio
Rresolution: 40X, 0.25 mpp

ACROBAT
Number of cases: -
Number of images: 478 (train)
+ 56 (test ’22)
+ 200 (test ’23)
Task: -
Type of data: Slides
Registered pairs: No
Scanner: Hamamatsu NanoZoomer XRs
or S360
Rresolution: 10X, 0.92 mpp

ANHIR
Number of cases: -
Number of images: 5 (train)
+ 20 (test)
Task: -
Type of data: Slides
Registered pairs: No
Scanner: Aperio
Rresolution: 40X, 0.25 mpp

HER2 tumor ROIs
Number of cases: -
Number of images: 276 (only H&E)
Task: status
Type of data: Slides
Registered pairs: No
Scanner: Unknown
Rresolution: Unknown

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