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      Predicting Survival Duration With MRI Radiomics of Brain Metastases From Non-small Cell Lung Cancer

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          Abstract

          Background: Brain metastases are associated with poor survival. Molecular genetic testing informs on targeted therapy and survival. The purpose of this study was to perform a MR imaging-based radiomic analysis of brain metastases from non-small cell lung cancer (NSCLC) to identify radiomic features that were important for predicting survival duration.

          Methods: We retrospectively identified our study cohort via an institutional database search for patients with brain metastases from EGFR, ALK, and/or KRAS mutation-positive NSCLC. We segmented the brain metastatic tumors on the brain MR images, extracted radiomic features, constructed radiomic scores from significant radiomic features based on multivariate Cox regression analysis ( p < 0.05), and built predictive models for survival duration.

          Result: Of the 110 patients in the cohort (mean age 57.51 ± 12.32 years; range: 22–85 years, M:F = 37:73), 75, 26, and 15 had NSCLC with EGFR, ALK, and KRAS mutations, respectively. Predictive modeling of survival duration using both clinical and radiomic features yielded areas under the receiver operative characteristic curve of 0.977, 0.905, and 0.947 for the EGFR, ALK, and KRAS mutation-positive groups, respectively. Radiomic scores enabled the separation of each mutation-positive group into two subgroups with significantly different survival durations, i.e., shorter vs. longer duration when comparing to the median survival duration of the group.

          Conclusion: Our data supports the use of radiomic scores, based on MR imaging of brain metastases from NSCLC, as non-invasive biomarkers for survival duration. Future research with a larger sample size and external cohorts is needed to validate our results.

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          Most cited references38

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          SMOTE: Synthetic Minority Over-sampling Technique

          An approach to the construction of classifiers from imbalanced datasets is described. A dataset is imbalanced if the classification categories are not approximately equally represented. Often real-world data sets are predominately composed of ``normal'' examples with only a small percentage of ``abnormal'' or ``interesting'' examples. It is also the case that the cost of misclassifying an abnormal (interesting) example as a normal example is often much higher than the cost of the reverse error. Under-sampling of the majority (normal) class has been proposed as a good means of increasing the sensitivity of a classifier to the minority class. This paper shows that a combination of our method of over-sampling the minority (abnormal) class and under-sampling the majority (normal) class can achieve better classifier performance (in ROC space) than only under-sampling the majority class. This paper also shows that a combination of our method of over-sampling the minority class and under-sampling the majority class can achieve better classifier performance (in ROC space) than varying the loss ratios in Ripper or class priors in Naive Bayes. Our method of over-sampling the minority class involves creating synthetic minority class examples. Experiments are performed using C4.5, Ripper and a Naive Bayes classifier. The method is evaluated using the area under the Receiver Operating Characteristic curve (AUC) and the ROC convex hull strategy.
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            Computational Radiomics System to Decode the Radiographic Phenotype

            Radiomics aims to quantify phenotypic characteristics on medical imaging through the use of automated algorithms. Radiomic artificial intelligence (AI) technology, either based on engineered hard-coded algorithms or deep learning methods, can be used to develop non-invasive imaging-based biomarkers. However, lack of standardized algorithm definitions and image processing severely hampers reproducibility and comparability of results. To address this issue, we developed PyRadiomics , a flexible open-source platform capable of extracting a large panel of engineered features from medical images. PyRadiomics is implemented in Python and can be used standalone or using 3D-Slicer. Here, we discuss the workflow and architecture of PyRadiomics and demonstrate its application in characterizing lung-lesions. Source code, documentation, and examples are publicly available at www.radiomics.io . With this platform, we aim to establish a reference standard for radiomic analyses, provide a tested and maintained resource, and to grow the community of radiomic developers addressing critical needs in cancer research.
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              User-guided 3D active contour segmentation of anatomical structures: significantly improved efficiency and reliability.

              Active contour segmentation and its robust implementation using level set methods are well-established theoretical approaches that have been studied thoroughly in the image analysis literature. Despite the existence of these powerful segmentation methods, the needs of clinical research continue to be fulfilled, to a large extent, using slice-by-slice manual tracing. To bridge the gap between methodological advances and clinical routine, we developed an open source application called ITK-SNAP, which is intended to make level set segmentation easily accessible to a wide range of users, including those with little or no mathematical expertise. This paper describes the methods and software engineering philosophy behind this new tool and provides the results of validation experiments performed in the context of an ongoing child autism neuroimaging study. The validation establishes SNAP intrarater and interrater reliability and overlap error statistics for the caudate nucleus and finds that SNAP is a highly reliable and efficient alternative to manual tracing. Analogous results for lateral ventricle segmentation are provided.
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                Author and article information

                Contributors
                Journal
                Front Oncol
                Front Oncol
                Front. Oncol.
                Frontiers in Oncology
                Frontiers Media S.A.
                2234-943X
                05 March 2021
                2021
                : 11
                : 621088
                Affiliations
                [1] 1Department of Diagnostic Radiology, City of Hope National Medical Center , Duarte, CA, United States
                [2] 2Department of Medical Oncology and Therapeutics Research, City of Hope Comprehensive Cancer Center and Beckman Research Institute , Duarte, CA, United States
                [3] 3Departments of Interventional Radiology, Nanjing First Hospital, Nanjing Medical University , Nanjing, China
                [4] 4Applied AI and Data Science, City of Hope National Medical Center , Duarte, CA, United States
                [5] 5Division of Mathematical Oncology, City of Hope National Medical Center , Duarte, CA, United States
                [6] 6Department of Radiology, Hillman Cancer Center, University of Pittsburgh Medical Center , Pittsburgh, PA, United States
                [7] 7Department of Radiology, Memorial Sloan-Kettering Cancer Center , New York, NY, United States
                [8] 8Department of Radiation Oncology, City of Hope National Medical Center , Duarte, CA, United States
                Author notes

                Edited by: Xuejun Li, Central South University, China

                Reviewed by: Bo Gao, Affiliated Hospital of Guizhou Medical University, China; Minghao Dong, Xidian University, China

                *Correspondence: Bihong T. Chen Bechen@ 123456coh.org ; orcid.org/0000-0002-3127-0711

                This article was submitted to Neuro-Oncology and Neurosurgical Oncology, a section of the journal Frontiers in Oncology

                Article
                10.3389/fonc.2021.621088
                7973105
                33747933
                0c8e1560-ea30-49df-a09d-670c34760f74
                Copyright © 2021 Chen, Jin, Ye, Mambetsariev, Wang, Wong, Chen, Rockne, Colen, Holodny, Sampath and Salgia.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 25 October 2020
                : 08 February 2021
                Page count
                Figures: 5, Tables: 4, Equations: 0, References: 39, Pages: 12, Words: 7961
                Funding
                Funded by: National Institutes of Health 10.13039/100000002
                Award ID: P30CA03357
                Categories
                Oncology
                Original Research

                Oncology & Radiotherapy
                radiomics,machine learning,survival,lung cancer,brain metastases,brain mri,artificial intelligence

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