Cited by 57Radiomics and Machine Learning in Medical ImagingBrain Tumor Detection and ClassificationGlioma Diagnosis and Treatment

Brain Cancer Imaging Phenomics Toolkit (brain-CaPTk): An Interactive Platform for Quantitative Analysis of Glioblastoma

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Rathore, Saima, Bakas, Spyridon, Pati, Sarthak, Akbari, Hamed, Kalarot, Ratheesh, Sridharan, Patmaa, Rozycki, Martin, Bergman, Mark +4 more·2018·Lecture Notes in Computer Science

Abstract

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.”

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  1. [19]Bakas S Zeng K Sotiras A Rathore S Akbari H Gaonkar B Rozycki M Pati S Davatzikos C Segmentation of gliomas in multimodal magnetic resonance imaging volumes based on a hybrid generative-discriminative framework Menze B Reyes M Farahani K Kalpathy-Cramer J Kwon D Proceedings of the Multimodal Brain Tumor Image Segmentation Challenge Held in Conjunction with MICCAI 2015 (MICCAI-BRATS 2015) 5–9 October 2015 5 12 Technische Universität München (T.U.M.) Munich, Germany 2015

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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
Venue
Lecture Notes in Computer Science
Published
2018
Volume
10670
Pages
133-145
ISSN
  • 0302-9743 (ISSN-L)
  • 1611-3349
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
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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