Journal Article

DKFZ-2023-01828

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Identifying core MRI sequences for reliable automatic brain metastasis segmentation.

Buchner, J. A. ; Peeken, J. C.DKFZ* ; Etzel, L.DKFZ* ; Ezhov, I. ; Mayinger, M. ; Christ, S. M. ; Brunner, T. B. ; Wittig, A. ; Menze, B. ; Zimmer, C. ; Meyer, B. ; Guckenberger, M. ; Andratschke, N. ; El Shafie, R. A. ; Debus, J. ; Rogers, S. ; Riesterer, O. ; Schulze, K. ; Feldmann, H. J. ; Blanck, O. ; Zamboglou, C.DKFZ* ; Ferentinos, K. ; Bilger, A.DKFZ* ; Grosu, A. L.DKFZ* ; Wolff, R. ; Kirschke, J. S. ; Eitz, K. A.DKFZ* ; Combs, S. E.DKFZ* ; Bernhardt, D.DKFZ* ; Rueckert, D. ; Piraud, M. ; Wiestler, B. ; Kofler, F.

2023
Elsevier Science Amsterdam [u.a.]

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Please use a persistent id in citations: doi:10.1016/j.radonc.2023.109901

Abstract: Many automatic approaches to brain tumor segmentation employ multiple magnetic resonance imaging (MRI) sequences. The goal of this project was to compare different combinations of input sequences to determine which MRI sequences are needed for effective automated brain metastasis (BM) segmentation.We analyzed preoperative imaging (T1-weighted sequence ± contrast-enhancement (T1/T1-CE), T2-weighted sequence (T2), and T2 fluid-attenuated inversion recovery (T2-FLAIR) sequence) from 339 patients with BMs from seven centers. A baseline 3D U-Net with all four sequences and six U-Nets with plausible sequence combinations (T1-CE, T1, T2-FLAIR, T1-CE+T2-FLAIR, T1-CE+T1+T2-FLAIR, T1-CE+T1) were trained on 239 patients from two centers and subsequently tested on an external cohort of 100 patients from five centers.The model based on T1-CE alone achieved the best segmentation performance for BM segmentation with a median Dice similarity coefficient (DSC) of 0.96. Models trained without T1-CE performed worse (T1-only: DSC = 0.70 and T2-FLAIR-only: DSC = 0.73). For edema segmentation, models that included both T1-CE and T2-FLAIR performed best (DSC = 0.93), while the remaining four models without simultaneous inclusion of these both sequences reached a median DSC of 0.81-0.89.A T1-CE-only protocol suffices for the segmentation of BMs. The combination of T1-CE and T2-FLAIR is important for edema segmentation. Missing either T1-CE or T2-FLAIR decreases performance. These findings may improve imaging routines by omitting unnecessary sequences, thus allowing for faster procedures in daily clinical practice while enabling optimal neural network-based target definitions.

Keyword(s): CNN ; FLAIR ; MRI sequences ; T1 ; U-net ; brain metastases ; deep learning ; segmentation

Note: Volume 188, November 2023, 109901

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Contributing Institute(s):

1. DKTK Koordinierungsstelle München (MU01)
2. DKTK Koordinierungsstelle Freiburg (FR01)

Research Program(s):

1. 899 - ohne Topic (POF4-899) (POF4-899)

Appears in the scientific report 2023

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Database coverage:
; BIOSIS Previews ; Biological Abstracts ; Clarivate Analytics Master Journal List ; Current Contents - Clinical Medicine ; Ebsco Academic Search ; Essential Science Indicators ; IF >= 5 ; JCR ; Nationallizenz ; SCOPUS ; Science Citation Index Expanded ; Web of Science Core Collection

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