Literature DB >> 28725877

GLISTRboost: Combining Multimodal MRI Segmentation, Registration, and Biophysical Tumor Growth Modeling with Gradient Boosting Machines for Glioma Segmentation.

Spyridon Bakas1, Ke Zeng1, Aristeidis Sotiras1, Saima Rathore1, Hamed Akbari1, Bilwaj Gaonkar1, Martin Rozycki1, Sarthak Pati1, Christos Davatzikos1.   

Abstract

We present an approach for segmenting low- and high-grade gliomas in multimodal magnetic resonance imaging volumes. The proposed approach is based on a hybrid generative-discriminative model. Firstly, a generative approach based on an Expectation-Maximization framework that incorporates a glioma growth model is used to segment the brain scans into tumor, as well as healthy tissue labels. Secondly, a gradient boosting multi-class classification scheme is used to refine tumor labels based on information from multiple patients. Lastly, a probabilistic Bayesian strategy is employed to further refine and finalize the tumor segmentation based on patient-specific intensity statistics from the multiple modalities. We evaluated our approach in 186 cases during the training phase of the BRAin Tumor Segmentation (BRATS) 2015 challenge and report promising results. During the testing phase, the algorithm was additionally evaluated in 53 unseen cases, achieving the best performance among the competing methods.

Entities:  

Keywords:  BRATS challenge; Brain tumor; Brain tumor growth model; Expectation maximization; Glioma; Gradient boosting; Multimodal MRI; Probabilistic model; Segmentation

Year:  2016        PMID: 28725877      PMCID: PMC5513179          DOI: 10.1007/978-3-319-30858-6_1

Source DB:  PubMed          Journal:  Brainlesion


  15 in total

1.  Fast extraction of minimal paths in 3D images and applications to virtual endoscopy.

Authors:  T Deschamps; L D Cohen
Journal:  Med Image Anal       Date:  2001-12       Impact factor: 8.545

2.  A fast marching level set method for monotonically advancing fronts.

Authors:  J A Sethian
Journal:  Proc Natl Acad Sci U S A       Date:  1996-02-20       Impact factor: 11.205

Review 3.  Malignant gliomas in adults.

Authors:  Patrick Y Wen; Santosh Kesari
Journal:  N Engl J Med       Date:  2008-07-31       Impact factor: 91.245

4.  Combining generative models for multifocal glioma segmentation and registration.

Authors:  Dongjin Kwon; Russell T Shinohara; Hamed Akbari; Christos Davatzikos
Journal:  Med Image Comput Comput Assist Interv       Date:  2014

5.  Joint segmentation and deformable registration of brain scans guided by a tumor growth model.

Authors:  Ali Gooya; Kilian M Pohl; Michel Bilello; George Biros; Christos Davatzikos
Journal:  Med Image Comput Comput Assist Interv       Date:  2011

6.  GLISTR: glioma image segmentation and registration.

Authors:  Ali Gooya; Kilian M Pohl; Michel Bilello; Luigi Cirillo; George Biros; Elias R Melhem; Christos Davatzikos
Journal:  IEEE Trans Med Imaging       Date:  2012-08-13       Impact factor: 10.048

Review 7.  Molecular pathology of malignant gliomas.

Authors:  David N Louis
Journal:  Annu Rev Pathol       Date:  2006       Impact factor: 23.472

8.  Brain tumor target volume determination for radiation treatment planning through automated MRI segmentation.

Authors:  Gloria P Mazzara; Robert P Velthuizen; James L Pearlman; Harvey M Greenberg; Henry Wagner
Journal:  Int J Radiat Oncol Biol Phys       Date:  2004-05-01       Impact factor: 7.038

Review 9.  The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS).

Authors:  Bjoern H Menze; Andras Jakab; Stefan Bauer; Jayashree Kalpathy-Cramer; Keyvan Farahani; Justin Kirby; Yuliya Burren; Nicole Porz; Johannes Slotboom; Roland Wiest; Levente Lanczi; Elizabeth Gerstner; Marc-André Weber; Tal Arbel; Brian B Avants; Nicholas Ayache; Patricia Buendia; D Louis Collins; Nicolas Cordier; Jason J Corso; Antonio Criminisi; Tilak Das; Hervé Delingette; Çağatay Demiralp; Christopher R Durst; Michel Dojat; Senan Doyle; Joana Festa; Florence Forbes; Ezequiel Geremia; Ben Glocker; Polina Golland; Xiaotao Guo; Andac Hamamci; Khan M Iftekharuddin; Raj Jena; Nigel M John; Ender Konukoglu; Danial Lashkari; José Antonió Mariz; Raphael Meier; Sérgio Pereira; Doina Precup; Stephen J Price; Tammy Riklin Raviv; Syed M S Reza; Michael Ryan; Duygu Sarikaya; Lawrence Schwartz; Hoo-Chang Shin; Jamie Shotton; Carlos A Silva; Nuno Sousa; Nagesh K Subbanna; Gabor Szekely; Thomas J Taylor; Owen M Thomas; Nicholas J Tustison; Gozde Unal; Flor Vasseur; Max Wintermark; Dong Hye Ye; Liang Zhao; Binsheng Zhao; Darko Zikic; Marcel Prastawa; Mauricio Reyes; Koen Van Leemput
Journal:  IEEE Trans Med Imaging       Date:  2014-12-04       Impact factor: 10.048

10.  The virtual skeleton database: an open access repository for biomedical research and collaboration.

Authors:  Michael Kistler; Serena Bonaretti; Marcel Pfahrer; Roman Niklaus; Philippe Büchler
Journal:  J Med Internet Res       Date:  2013-11-12       Impact factor: 5.428

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  37 in total

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

Authors:  Saima Rathore; Spyridon Bakas; Sarthak Pati; Hamed Akbari; Ratheesh Kalarot; Patmaa Sridharan; Martin Rozycki; Mark Bergman; Birkan Tunc; Ragini Verma; Michel Bilello; Christos Davatzikos
Journal:  Brainlesion       Date:  2018-02-17

2.  Analyzing magnetic resonance imaging data from glioma patients using deep learning.

Authors:  Bjoern Menze; Fabian Isensee; Roland Wiest; Bene Wiestler; Klaus Maier-Hein; Mauricio Reyes; Spyridon Bakas
Journal:  Comput Med Imaging Graph       Date:  2020-12-02       Impact factor: 4.790

3.  Epidermal Growth Factor Receptor Extracellular Domain Mutations in Glioblastoma Present Opportunities for Clinical Imaging and Therapeutic Development.

Authors:  Zev A Binder; Amy Haseley Thorne; Spyridon Bakas; E Paul Wileyto; Michel Bilello; Hamed Akbari; Saima Rathore; Sung Min Ha; Logan Zhang; Cole J Ferguson; Sonika Dahiya; Wenya Linda Bi; David A Reardon; Ahmed Idbaih; Joerg Felsberg; Bettina Hentschel; Michael Weller; Stephen J Bagley; Jennifer J D Morrissette; MacLean P Nasrallah; Jianhui Ma; Ciro Zanca; Andrew M Scott; Laura Orellana; Christos Davatzikos; Frank B Furnari; Donald M O'Rourke
Journal:  Cancer Cell       Date:  2018-07-09       Impact factor: 31.743

4.  Multi-stage Association Analysis of Glioblastoma Gene Expressions with Texture and Spatial Patterns.

Authors:  Samar S M Elsheikh; Spyridon Bakas; Nicola J Mulder; Emile R Chimusa; Christos Davatzikos; Alessandro Crimi
Journal:  Brainlesion       Date:  2019-01-26

5.  Integrated Biophysical Modeling and Image Analysis: Application to Neuro-Oncology.

Authors:  Andreas Mang; Spyridon Bakas; Shashank Subramanian; Christos Davatzikos; George Biros
Journal:  Annu Rev Biomed Eng       Date:  2020-06-04       Impact factor: 9.590

6.  Radiogenomic-Based Survival Risk Stratification of Tumor Habitat on Gd-T1w MRI Is Associated with Biological Processes in Glioblastoma.

Authors:  Niha Beig; Kaustav Bera; Prateek Prasanna; Jacob Antunes; Ramon Correa; Salendra Singh; Anas Saeed Bamashmos; Marwa Ismail; Nathaniel Braman; Ruchika Verma; Virginia B Hill; Volodymyr Statsevych; Manmeet S Ahluwalia; Vinay Varadan; Anant Madabhushi; Pallavi Tiwari
Journal:  Clin Cancer Res       Date:  2020-02-20       Impact factor: 12.531

7.  Coupling brain-tumor biophysical models and diffeomorphic image registration.

Authors:  Klaudius Scheufele; Andreas Mang; Amir Gholami; Christos Davatzikos; George Biros; Miriam Mehl
Journal:  Comput Methods Appl Mech Eng       Date:  2019-01-07       Impact factor: 6.756

8.  Segmentation of Gliomas in Pre-operative and Post-operative Multimodal Magnetic Resonance Imaging Volumes Based on a Hybrid Generative-Discriminative Framework.

Authors:  Ke Zeng; Spyridon Bakas; Aristeidis Sotiras; Hamed Akbari; Martin Rozycki; Saima Rathore; Sarthak Pati; Christos Davatzikos
Journal:  Brainlesion       Date:  2017-04-12

9.  Radiomic profiles in diffuse glioma reveal distinct subtypes with prognostic value.

Authors:  Peng Lin; Yu-Ting Peng; Rui-Zhi Gao; Yan Wei; Xiao-Jiao Li; Su-Ning Huang; Ye-Ying Fang; Zhu-Xin Wei; Zhi-Guang Huang; Hong Yang; Gang Chen
Journal:  J Cancer Res Clin Oncol       Date:  2020-02-17       Impact factor: 4.553

10.  The Cancer Imaging Phenomics Toolkit (CaPTk): Technical Overview.

Authors:  Sarthak Pati; Ashish Singh; Saima Rathore; Aimilia Gastounioti; Mark Bergman; Phuc Ngo; Sung Min Ha; Dimitrios Bounias; James Minock; Grayson Murphy; Hongming Li; Amit Bhattarai; Adam Wolf; Patmaa Sridaran; Ratheesh Kalarot; Hamed Akbari; Aristeidis Sotiras; Siddhesh P Thakur; Ragini Verma; Russell T Shinohara; Paul Yushkevich; Yong Fan; Despina Kontos; Christos Davatzikos; Spyridon Bakas
Journal:  Brainlesion       Date:  2020-05-19
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