Simon Andermatt
YOU?
Author Swipe
View article: An automated pipeline for computation and analysis of functional ventilation and perfusion lung MRI with matrix pencil decomposition: TrueLung
An automated pipeline for computation and analysis of functional ventilation and perfusion lung MRI with matrix pencil decomposition: TrueLung Open
Purpose: To introduce and evaluate TrueLung, an automated pipeline for computation and analysis of free-breathing and contrast-agent free pulmonary functional MRI. Material and Methods: time-resolved ultra-fast bSSFP acquisitions are trans…
View article: MRI lung lobe segmentation in pediatric cystic fibrosis patients using a recurrent neural network trained with publicly accessible CT datasets
MRI lung lobe segmentation in pediatric cystic fibrosis patients using a recurrent neural network trained with publicly accessible CT datasets Open
Purpose To introduce a widely applicable workflow for pulmonary lobe segmentation of MR images using a recurrent neural network (RNN) trained with chest CT datasets. The feasibility is demonstrated for 2D coronal ultrafast balanced SSFP (u…
View article: MRI lung lobe segmentation in pediatric cystic fibrosis patients using a recurrent neural network trained with publicly accessible CT datasets
MRI lung lobe segmentation in pediatric cystic fibrosis patients using a recurrent neural network trained with publicly accessible CT datasets Open
Purpose: To introduce a widely applicable workflow for pulmonary lobe segmentation of MR images using a recurrent neural network (RNN) trained with chest computed tomography (CT) datasets. The feasibility is demonstrated for 2D coronal ult…
View article: Improving Accuracy of Brainstem MRI Volumetry: Effects of Age and Sex, and Normalization Strategies
Improving Accuracy of Brainstem MRI Volumetry: Effects of Age and Sex, and Normalization Strategies Open
Background: Brainstem-mediated functions are impaired in neurodegenerative diseases and aging. Atrophy can be visualized by MRI. This study investigates extrinsic sources of brainstem volume variability, intrinsic sources of anatomical var…
View article: Accurate, rapid and reliable, fully automated MRI brainstem segmentation for application in multiple sclerosis and neurodegenerative diseases
Accurate, rapid and reliable, fully automated MRI brainstem segmentation for application in multiple sclerosis and neurodegenerative diseases Open
Neurodegenerative disorders, such as Alzheimer's disease (AD) and progressive forms of multiple sclerosis (MS), can affect the brainstem and are associated with atrophy that can be visualized by MRI. Anatomically accurate, large‐scale asse…
View article: Recurrent Registration Neural Networks for Deformable Image Registration
Recurrent Registration Neural Networks for Deformable Image Registration Open
Parametric spatial transformation models have been successfully applied to image registration tasks. In such models, the transformation of interest is parameterized by a fixed set of basis functions as for example B-splines. Each basis fun…
View article: Recurrent Registration Neural Networks for Deformable Image Registration
Recurrent Registration Neural Networks for Deformable Image Registration Open
Parametric spatial transformation models have been successfully applied to image registration tasks. In such models, the transformation of interest is parameterized by a fixed set of basis functions as for example B-splines. Each basis fun…
View article: Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge
Standardized Assessment of Automatic Segmentation of White Matter Hyperintensities and Results of the WMH Segmentation Challenge Open
Quantification of cerebral white matter hyperintensities (WMH) of presumed vascular origin is of key importance in many neurological research studies. Currently, measurements are often still obtained from manual segmentations on brain MR i…
View article: Spinal Cord Gray Matter-White Matter Segmentation on Magnetic Resonance AMIRA Images with MD-GRU
Spinal Cord Gray Matter-White Matter Segmentation on Magnetic Resonance AMIRA Images with MD-GRU Open
The small butterfly shaped structure of spinal cord (SC) gray matter (GM) is challenging to image and to delinate from its surrounding white matter (WM). Segmenting GM is up to a point a trade-off between accuracy and precision. We propose…
View article: Spinal Cord Gray Matter-White Matter Segmentation on Magnetic Resonance\n AMIRA Images with MD-GRU
Spinal Cord Gray Matter-White Matter Segmentation on Magnetic Resonance\n AMIRA Images with MD-GRU Open
The small butterfly shaped structure of spinal cord (SC) gray matter (GM) is\nchallenging to image and to delinate from its surrounding white matter (WM).\nSegmenting GM is up to a point a trade-off between accuracy and precision. We\nprop…
View article: AirLab: Autograd Image Registration Laboratory
AirLab: Autograd Image Registration Laboratory Open
Medical image registration is an active research topic and forms a basis for many medical image analysis tasks. Although image registration is a rather general concept specialized methods are usually required to target a specific registrat…
View article: Automated brain lesion segmentation in magnetic resonance images
Automated brain lesion segmentation in magnetic resonance images Open
In this thesis, we investigate the potential of automation in brain lesion segmentation in magnetic resonance images. We first develop a novel supervised method, which segments regions in magnetic resonance images using gated recurrent uni…
View article: Multi-dimensional Gated Recurrent Units for Automated Anatomical Landmark Localization
Multi-dimensional Gated Recurrent Units for Automated Anatomical Landmark Localization Open
We present an automated method for localizing an anatomical landmark in three-dimensional medical images. The method combines two recurrent neural networks in a coarse-to-fine approach: The first network determines a candidate neighborhood…