Deep learning-based brain segmentation model performance validation with clinical radiotherapy CT

• URL: http://arxiv.org/abs/2406.17423v1
• Date: Tue, 25 Jun 2024 09:56:30 GMT
• Title: Deep learning-based brain segmentation model performance validation with clinical radiotherapy CT
• Authors: Selena Huisman, Matteo Maspero, Marielle Philippens, Joost Verhoeff, Szabolcs David,
• Abstract summary: This study validates the SynthSeg robust brain segmentation model on computed tomography (CT) Brain segmentations from CT and MRI were obtained with SynthSeg model, a component of the Freesurfer imaging suite. CT performance is lower than MRI based on the integrated QC scores, but low-quality segmentations can be excluded with QC-based thresholding.
• Score: 0.0
• License: http://creativecommons.org/licenses/by/4.0/
• Abstract: Manual segmentation of medical images is labor intensive and especially challenging for images with poor contrast or resolution. The presence of disease exacerbates this further, increasing the need for an automated solution. To this extent, SynthSeg is a robust deep learning model designed for automatic brain segmentation across various contrasts and resolutions. This study validates the SynthSeg robust brain segmentation model on computed tomography (CT), using a multi-center dataset. An open access dataset of 260 paired CT and magnetic resonance imaging (MRI) from radiotherapy patients treated in 5 centers was collected. Brain segmentations from CT and MRI were obtained with SynthSeg model, a component of the Freesurfer imaging suite. These segmentations were compared and evaluated using Dice scores and Hausdorff 95 distance (HD95), treating MRI-based segmentations as the ground truth. Brain regions that failed to meet performance criteria were excluded based on automated quality control (QC) scores. Dice scores indicate a median overlap of 0.76 (IQR: 0.65-0.83). The median HD95 is 2.95 mm (IQR: 1.73-5.39). QC score based thresholding improves median dice by 0.1 and median HD95 by 0.05mm. Morphological differences related to sex and age, as detected by MRI, were also replicated with CT, with an approximate 17% difference between the CT and MRI results for sex and 10% difference between the results for age. SynthSeg can be utilized for CT-based automatic brain segmentation, but only in applications where precision is not essential. CT performance is lower than MRI based on the integrated QC scores, but low-quality segmentations can be excluded with QC-based thresholding. Additionally, performing CT-based neuroanatomical studies is encouraged, as the results show correlations in sex- and age-based analyses similar to those found with MRI.

Related papers

• TotalSegmentator MRI: Sequence-Independent Segmentation of 59 Anatomical Structures in MR images [62.53931644063323]
  In this study we extended the capabilities of TotalSegmentator to MR images. We trained an nnU-Net segmentation algorithm on this dataset and calculated similarity coefficients (Dice) to evaluate the model's performance. The model significantly outperformed two other publicly available segmentation models (Dice score 0.824 versus 0.762; p0.001 and 0.762 versus 0.542; p)
  arXiv  Detail & Related papers  (2024-05-29T20:15:54Z)
• MRSegmentator: Robust Multi-Modality Segmentation of 40 Classes in MRI and CT Sequences [4.000329151950926]
  The model was trained on 1,200 manually annotated MRI scans from the UK Biobank, 221 in-house MRI scans and 1228 CT scans. It showcased high accuracy in segmenting well-defined organs, achieving Dice Similarity Coefficient (DSC) scores of 0.97 for the right and left lungs, and 0.95 for the heart. It also demonstrated robustness in organs like the liver (DSC: 0.96) and kidneys (DSC: 0.95 left, 0.95 right), which present more variability.
  arXiv  Detail & Related papers  (2024-05-10T13:15:42Z)
• Minimally Interactive Segmentation of Soft-Tissue Tumors on CT and MRI using Deep Learning [0.0]
  We develop a minimally interactive deep learning-based segmentation method for soft-tissue tumors (STTs) on CT and MRI. The method requires the user to click six points near the tumor's extreme boundaries to serve as input for a Convolutional Neural Network.
  arXiv  Detail & Related papers  (2024-02-12T16:15:28Z)
• Advancing Brain Tumor Detection: A Thorough Investigation of CNNs, Clustering, and SoftMax Classification in the Analysis of MRI Images [0.0]
  Brain tumors pose a significant global health challenge due to their high prevalence and mortality rates across all age groups. This study presents a comprehensive investigation into the use of Convolutional Neural Networks (CNNs) for brain tumor detection using Magnetic Resonance Imaging (MRI) images. The dataset, consisting of MRI scans from both healthy individuals and patients with brain tumors, was processed and fed into the CNN architecture.
  arXiv  Detail & Related papers  (2023-10-26T18:27:20Z)
• TotalSegmentator: robust segmentation of 104 anatomical structures in CT images [48.50994220135258]
  We present a deep learning segmentation model for body CT images. The model can segment 104 anatomical structures relevant for use cases such as organ volumetry, disease characterization, and surgical or radiotherapy planning.
  arXiv  Detail & Related papers  (2022-08-11T15:16:40Z)
• Automated SSIM Regression for Detection and Quantification of Motion Artefacts in Brain MR Images [54.739076152240024]
  Motion artefacts in magnetic resonance brain images are a crucial issue. The assessment of MR image quality is fundamental before proceeding with the clinical diagnosis. An automated image quality assessment based on the structural similarity index (SSIM) regression has been proposed here.
  arXiv  Detail & Related papers  (2022-06-14T10:16:54Z)
• Weakly-supervised Biomechanically-constrained CT/MRI Registration of the Spine [72.85011943179894]
  We propose a weakly-supervised deep learning framework that preserves the rigidity and the volume of each vertebra while maximizing the accuracy of the registration. We specifically design these losses to depend only on the CT label maps since automatic vertebra segmentation in CT gives more accurate results contrary to MRI. Our results show that adding the anatomy-aware losses increases the plausibility of the inferred transformation while keeping the accuracy untouched.
  arXiv  Detail & Related papers  (2022-05-16T10:59:55Z)
• A Novel Mask R-CNN Model to Segment Heterogeneous Brain Tumors through Image Subtraction [0.0]
  We propose using a method performed by radiologists called image segmentation and applying it to machine learning models to prove a better segmentation. Using Mask R-CNN, its ResNet backbone being pre-trained on the RSNA pneumonia detection challenge dataset, we can train a model on the Brats 2020 Brain Tumor dataset. We can see how well the method of image subtraction works by comparing it to models without image subtraction through DICE coefficient (F1 score), recall, and precision on the untouched test set.
  arXiv  Detail & Related papers  (2022-04-04T01:45:11Z)
• Segmentation of the Myocardium on Late-Gadolinium Enhanced MRI based on 2.5 D Residual Squeeze and Excitation Deep Learning Model [55.09533240649176]
  The aim of this work is to develop an accurate automatic segmentation method based on deep learning models for the myocardial borders on LGE-MRI. A total number of 320 exams (with a mean number of 6 slices per exam) were used for training and 28 exams used for testing. The performance analysis of the proposed ensemble model in the basal and middle slices was similar as compared to intra-observer study and slightly lower at apical slices.
  arXiv  Detail & Related papers  (2020-05-27T20:44:38Z)
• JCS: An Explainable COVID-19 Diagnosis System by Joint Classification and Segmentation [95.57532063232198]
  coronavirus disease 2019 (COVID-19) has caused a pandemic disease in over 200 countries. To control the infection, identifying and separating the infected people is the most crucial step. This paper develops a novel Joint Classification and (JCS) system to perform real-time and explainable COVID-19 chest CT diagnosis.
  arXiv  Detail & Related papers  (2020-04-15T12:30:40Z)

This list is automatically generated from the titles and abstracts of the papers in this site.

This site does not guarantee the quality of this site (including all information) and is not responsible for any consequences.