Brain Cancer Imaging Phenomics Toolkit (brain-CaPTk): An Interactive Platform for Quantitative Analysis of Glioblastoma
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Quantitative research, especially in the field of radio(geno)mics, has helped us understand fundamental mechanisms of neurologic diseases. Such research is integrally based on advanced algorithms to derive extensive radiomic features and integrate them into diagnostic and predictive models. To exploit the benefit of such complex algorithms, their swift translation into clinical practice is required, currently hindered by their complicated nature. brain-CaPTk is a modular platform, with components spanning across image processing, segmentation, feature extraction, and machine learning, that facilitates such translation, enabling quantitative analyses without requiring substantial computational background. Thus, brain-CaPTk can be seamlessly integrated into the typical quantification, analysis and reporting workflow of a radiologist, underscoring its clinical potential. This paper describes currently available components of brain-CaPTk and example results from their application in glioblastoma.
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The BraTS challenge provides the largest publicly available and manually-curated mpMRI dataset of diffuse glioma patients and a harmonized preprocessing pipeline to handle inter-site acquisition protocol differences.
“The BraTS challenge35–38, seeking methodological advancements in the domain of neuro-oncology, has been providing the community with (i) the largest publicly available and manually-curated mpMRI dataset of diffuse glioma patients (an example of which is illustrated in Fig. 1b), and (ii) a harmonized preprocessing pipeline51,70,71 to handle differences in inter-site acquisition protocols.”
From Federated learning enables big data for rare cancer boundary detection (2022) · cites this paper as [70]
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Automatic Classification and Segmentation of Low-Grade Gliomas in Magnetic Resonance Imaging
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Negligible Effect of Brain MRI Data Preprocessing for Tumor SegmentationPreprint
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Leveraging Unlabeled Data for Glioma Molecular Subtype and Survival Prediction
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Enhancing brain tumor diagnosis with Synthetic MRI
Sáez, E. M. (2024) · doi:10.35376/10324/68939
Enhancing brain tumor diagnosis with Synthetic MRI
Sáez, E. M. (2024) · doi:10.35376/10324/69491
- Authors
- Rathore, S., Bakas, S., Pati, S., Akbari, H., Kalarot, R., Sridharan, P., Rozycki, M., Bergman, M., Tunc, B., Verma, R., Bilello, M., & Davatzikos, C.
- Affiliations
- University of Pennsylvania (US)
- Corresponding author
- Rathore, Saima
- ORCID
- Venue
- Lecture Notes in Computer Science
- Publisher
- Springer International Publishing
- Published
- 2018
- Volume
- 10670
- Pages
- 133-145
- ISSN
- 0302-9743 (ISSN-L)
- 1611-3349
- PMC
- PMC5934754
- OpenAlex
- W2788833028
- Cited by
- 57
- References
- 41
- Citations by year
- 2026: 1 · 2025: 5 · 2024: 10 · 2023: 9 · 2022: 11 · 2021: 6 · 2020: 7 · 2019: 7 · 2018: 1
- FWCI
- 10.01
- Type
- conference paper
- Language
- en
- Open access
- green
- europepmc.org
- Locations
- Lecture notes in computer science (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Cancer Institute (U24CA189523)
- National Institute of Neurological Disorders and Stroke (R01NS042645)
- Topics
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Radiomics and Machine Learning in Medical Imaging
- Life Sciences › Neuroscience › Neurology › Brain Tumor Detection and Classification
- Health Sciences › Medicine › Genetics › Glioma Diagnosis and Treatment
- Keywords
- glioblastoma, radiomics, quantitative image analysis, image segmentation, radiomic feature extraction, machine learning
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