Semantic Segmentation of Brain Tumors in MRI Data Without any Labels (Unknown language)

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Brain MR images are one of the most important instruments for diagnosing neurological disorders such as tumors, infections or trauma. In particular, grade I-IV brain tumors are a well-studied subject for supervised deep learning approaches. However, for a clinical use of these approaches, a very large annotated database that covers all of the occurring variance is necessary. As MR scanners are not quantitative, it is unclear how good supervised approaches, trained on a specific database, will actually perform on a new set of images that may stem from a yet other scanner. We propose a new method for brain tumor segmentation, that can not only identify abnormal regions, but can also delineate brain tumors into three characteristic radiological areas: The edema, the enhancing core, and the non-enhancing and necrotic tissue. Our concept is based on FLAIR and T1CE MRI sequences, where abnormalities are detected with a variational autoencoder trained on healthy examples. The detected areas are finally postprocessed via Gaussian Mixture Models and finally classified according to the three defined labels. We show results on the BraTS2018 dataset and compare these to previously published unsupervised segmentation results as well as to the results of the BraTS challenge 2018. Our developed unsupervised anomaly detection approach is on par with previously published methods. Meanwhile, the semantic segmentation - a new and unique model - shows encouraging results.

Table of contents conference proceedings

The tables of contents are generated automatically and are based on the data records of the individual contributions available in the index of the TIB portal. The display of the Tables of Contents may therefore be incomplete.

1
SpectraMosaic: An Exploratory Tool for the Interactive Visual Analysis of Magnetic Resonance Spectroscopy Data
Garrison, Laura / Vašíček, Jakub / Grüner, Renate / Smit, Noeska N. / Bruckner, Stefan | 2019
11
Multiparametric Magnetic Resonance Image Synthesis using Generative Adversarial Networks
Haarburger, Christoph / Horst, Nicolas / Truhn, Daniel / Broeckmann, Mirjam / Schrading, Simone / Kuhl, Christiane / Merhof, Dorit | 2019
17
Colonic Content Assessment from MRI Imaging Using a Semi-automatic Approach
Ceballos, Victor / Monclús, Eva / Vázquez, Pere-Pau / Bendezú, Álvaro / Mego, Marianela / Merino, Xavier / Azpiroz, Fernando / Navazo, Isabel | 2019
27
A Web-based Application for the Visual Exploration of Colon Morphology Data
Males, Jan / Monclús, Eva / Díaz, Jose / Vázquez, Pere-Pau | 2019
33
Interactive Formation of Statistical Hypotheses in Diffusion Tensor Imaging
Abbasloo, Amin / Wiens, Vitalis / Schmidt-Wilcke, Tobias / Sundgren, Pia / Klein, Reinhard / Schultz, Thomas | 2019
45
Semantic Segmentation of Brain Tumors in MRI Data Without any Labels
Weninger, Leon / Krauhausen, Imke / Merhof, Dorit | 2019
51
Feasibility Study For Automatic Bird Tracking and Visualization from Time-Dependent Marine Radar Imagery
Ganglberger, Florian / Bühler, Katja | 2019
57
A Visual Environment for Hypothesis Formation and Reasoning in Studies with fMRI and Multivariate Clinical Data
Jönsson, Daniel / Bergström, Albin / Forsell, Camilla / Simon, Rozalyn / Engström, Maria / Ynnerman, Anders / Hotz, Ingrid | 2019
69
Pelvis Runner: Visualizing Pelvic Organ Variability in a Cohort of Radiotherapy Patients
Grossmann, Nicolas / Casares-Magaz, Oscar / Muren, Ludvig Paul / Moiseenko, Vitali / Einck, John P. / Gröller, Eduard / Raidou, Renata Georgia | 2019
79
preha: Establishing Precision Rehabilitation with Visual Analytics
Bernold, Georg / Matkovic, Kresimir / Gröller, Eduard / Raidou, Renata Georgia | 2019
91
A Visual Analytics Approach for Patient Stratification and Biomarker Discovery
Alemzadeh, Shiva / Kromp, Florian / Preim, Bernhard / Taschner-Mandl, Sabine / Bühler, Katja | 2019
97
MedUse: A Visual Analysis Tool for Medication Use Data in the ABCD Study
Bartsch, Hauke / Garrison, Laura / Bruckner, Stefan / Wang, Ariel / Tapert, Susan F. / Grüner, Renate | 2019
103
Interactive Exploded Views for Molecular Structures
Sbardellati, Maximilian / Miao, Haichao / Wu, Hsiang-Yun / Gröller, Eduard / Barisic, Ivan / Viola, Ivan | 2019
113
DockVis: Visual Analysis of Molecular Docking Data
Furmanová, Katarína / Kozlíková, Barbora / Vonásek, Vojtěch / Byška, Jan | 2019
123
Layer-Aware iOCT Volume Rendering for Retinal Surgery
Weiss, Jakob / Eck, Ulrich / Nasseri, Muhamad Ali / Maier, Mathias / Eslami, Abouzar / Navab, Nassir | 2019
129
Visual Analytics in Digital Pathology: Challenges and Opportunities
Corvò, Alberto / Westenberg, Michel A. / Wimberger-Friedl, Reinhold / Fromme, Stephan / Peeters, Michel M. R. / Driel, Marc A. van / Wijk, Jarke J. van | 2019
145
Medical Animations: A Survey and a Research Agenda
Preim, Bernhard / Meuschke, Monique | 2019
165
Using Position-Based Dynamics for Simulating the Mitral Valve in a Decision Support System
Walczak, Lars / Georgii, Joachim / Tautz, Lennart / Neugebauer, Mathias / Wamala, Isaac / Sündermann, Simon / Falk, Volkmar / Hennemuth, Anja | 2019
177
InkVis: A High-Particle-Count Approach for Visualization of Phase-Contrast Magnetic Resonance Imaging Data
Hoon, Niels H. L. C. de / Lawonn, Kai / Jalba, Andrei C. / Eisemann, Elmar / Vilanova, Anna | 2019
189
Robustness Evaluation of CFD Simulations to Mesh Deformation
Scheid-Rehder, Alexander / Lawonn, Kai / Meuschke, Monique | 2019
201
The Vitruvian Baby: Interactive Reformation of Fetal Ultrasound Data to a T-Position
Mörth, Eric / Raidou, Renata Georgia / Viola, Ivan / Smit, Noeska N. | 2019
207
HIFUpm: a Visual Environment to Plan and Monitor High Intensity Focused Ultrasound Treatments
Modena, Daniela / Bassano, Davide / Elevelt, Aaldert / Baragona, Marco / Hilbers, Peter A. J. / Westenberg, Michel A. | 2019
213
Hybrid Visualization of Protein-Lipid and Protein-Protein Interaction
Alharbi, Naif / Krone, Michael / Chavent, Matthieu / Laramee, Robert S. | 2019
225
Molecular Sombreros: Abstract Visualization of Binding Sites within Proteins
Schatz, Karsten / Krone, Michael / Bauer, Tabea L. / Ferrario, Valerio / Pleiss, Jürgen / Ertl, Thomas | 2019
239
Interactive CPU-based Ray Tracing of Solvent Excluded Surfaces
Rau, Tobias / Zahn, Sebastian / Krone, Michael / Reina, Guido / Ertl, Thomas | 2019
253
Evolutionary Pathlines for Blood Flow Exploration in Cerebral Aneurysms
Behrendt, Benjamin / Engelke, Wito / Berg, Philipp / Beuing, Oliver / Preim, Bernhard / Hotz, Ingrid / Saalfeld, Sylvia | 2019
265
Distance Field Visualization and 2D Abstraction of Vessel Tree Structures with on-the-fly Parameterization
Lichtenberg, Nils / Krayer, Bastian / Hansen, Christian / Müller, Stefan / Lawonn, Kai | 2019
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