Ivo Wolf
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View article: FUNAvg: Federated Uncertainty Weighted Averaging for Datasets with Diverse Labels
FUNAvg: Federated Uncertainty Weighted Averaging for Datasets with Diverse Labels Open
Federated learning is one popular paradigm to train a joint model in a distributed, privacy-preserving environment. But partial annotations pose an obstacle meaning that categories of labels are heterogeneous over clients. We propose to le…
View article: pyM2aia: Python interface for mass spectrometry imaging with focus on deep learning
pyM2aia: Python interface for mass spectrometry imaging with focus on deep learning Open
Summary Python is the most commonly used language for deep learning (DL). Existing Python packages for mass spectrometry imaging (MSI) data are not optimized for DL tasks. We, therefore, introduce pyM2aia, a Python package for MSI data ana…
View article: Surgical phase and instrument recognition: how to identify appropriate dataset splits
Surgical phase and instrument recognition: how to identify appropriate dataset splits Open
Purpose Machine learning approaches can only be reliably evaluated if training, validation, and test data splits are representative and not affected by the absence of classes. Surgical workflow and instrument recognition are two tasks that…
View article: Anatomy-informed Data Augmentation for Enhanced Prostate Cancer Detection
Anatomy-informed Data Augmentation for Enhanced Prostate Cancer Detection Open
Data augmentation (DA) is a key factor in medical image analysis, such as in prostate cancer (PCa) detection on magnetic resonance images. State-of-the-art computer-aided diagnosis systems still rely on simplistic spatial transformations t…
View article: Surgical Phase and Instrument Recognition: How to identify appropriate Dataset Splits
Surgical Phase and Instrument Recognition: How to identify appropriate Dataset Splits Open
Purpose: Machine learning models can only be reliably evaluated if training, validation, and test data splits are representative and not affected by the absence of classes of interest. Surgical workflow and instrument recognition tasks are…
View article: Comparative evaluation of three commercially available markerless depth sensors for close-range use in surgical simulation
Comparative evaluation of three commercially available markerless depth sensors for close-range use in surgical simulation Open
Purpose Minimally invasive surgeries have restricted surgical ports, demanding a high skill level from the surgeon. Surgical simulation potentially reduces this steep learning curve and additionally provides quantitative feedback. Markerle…
View article: Spatial probabilistic mapping of metabolite ensembles in mass spectrometry imaging
Spatial probabilistic mapping of metabolite ensembles in mass spectrometry imaging Open
Mass spectrometry imaging vows to enable simultaneous spatially resolved investigation of hundreds of metabolites in tissues, but it primarily relies on traditional ion images for non-data-driven metabolite visualization and analysis. The …
View article: 3D-Mass Spectrometry Imaging of Micro-scale 3D Cell Culture Models in Cancer Research
3D-Mass Spectrometry Imaging of Micro-scale 3D Cell Culture Models in Cancer Research Open
Three-dimensional (3D) human cell culture models have emerged as a key technology for personalized medicine and for phenotypic compound screening in more disease-like in-vitro systems. Mass spectrometry imaging (MSI) is one of the most ver…
View article: Comparison of Depth Estimation Setups from Stereo Endoscopy and Optical Tracking for Point Measurements
Comparison of Depth Estimation Setups from Stereo Endoscopy and Optical Tracking for Point Measurements Open
To support minimally-invasive intraoperative mitral valve repair, quantitative measurements from the valve can be obtained using an infra-red tracked stylus. It is desirable to view such manually measured points together with the endoscopi…
View article: Spatial Probabilistic Mapping of Metabolite Ensembles in Mass Spectrometry Imaging
Spatial Probabilistic Mapping of Metabolite Ensembles in Mass Spectrometry Imaging Open
Mass spectrometry imaging (MSI) vows to enable simultaneous spatially-resolved investigation of hundreds of metabolites in tissue sections, but it still relies on poorly defined ion images for data interpretation. Here, we outline molecula…
View article: Spatial Probabilistic Mapping of Metabolite Ensembles in Mass Spectrometry Imaging
Spatial Probabilistic Mapping of Metabolite Ensembles in Mass Spectrometry Imaging Open
Mass spectrometry imaging (MSI) vows to enable simultaneous spatially-resolved investigation of hundreds of metabolites in tissue sections, but it still relies on poorly defined ion images for data interpretation. Here, we outline molecula…
View article: M2aia—Interactive, fast, and memory-efficient analysis of 2D and 3D multi-modal mass spectrometry imaging data
M2aia—Interactive, fast, and memory-efficient analysis of 2D and 3D multi-modal mass spectrometry imaging data Open
Background Mass spectrometry imaging (MSI) is a label-free analysis method for resolving bio-molecules or pharmaceuticals in the spatial domain. It offers unique perspectives for the examination of entire organs or other tissue specimens. …
View article: Computational Analysis of Alzheimer Amyloid Plaque Composition in 2D- and Elastically Reconstructed 3D-MALDI MS Images
Computational Analysis of Alzheimer Amyloid Plaque Composition in 2D- and Elastically Reconstructed 3D-MALDI MS Images Open
MALDI mass spectrometry imaging (MSI) enables label-free, spatially resolved analysis of a wide range of analytes in tissue sections. Quantitative analysis of MSI datasets is typically performed on single pixels or manually assigned region…
View article: Domain gap in adapting self-supervised depth estimation methods for stereo-endoscopy
Domain gap in adapting self-supervised depth estimation methods for stereo-endoscopy Open
In endoscopy, depth estimation is a task that potentially helps in quantifying visual information for better scene understanding. A plethora of depth estimation algorithms have been proposed in the computer vision community. The endoscopic…
View article: How well do U-Net-based segmentation trained on adult cardiac magnetic resonance imaging data generalise to rare congenital heart diseases for surgical planning?
How well do U-Net-based segmentation trained on adult cardiac magnetic resonance imaging data generalise to rare congenital heart diseases for surgical planning? Open
Planning the optimal time of intervention for pulmonary valve replacement surgery in patients with the congenital heart disease Tetralogy of Fallot (TOF) is mainly based on ventricular volume and function according to current guidelines. B…
View article: Replicated mitral valve models from real patients offer training opportunities for minimally invasive mitral valve repair
Replicated mitral valve models from real patients offer training opportunities for minimally invasive mitral valve repair Open
Preoperative patient-specific simulation could improve the safety and effectiveness of mitral valve repair in the hands of a larger number of surgeons. Because the system is based on a quantitative segmentation of the anatomy of the mitral…
View article: Deep Learning Techniques for Automatic MRI Cardiac Multi-Structures Segmentation and Diagnosis: Is the Problem Solved?
Deep Learning Techniques for Automatic MRI Cardiac Multi-Structures Segmentation and Diagnosis: Is the Problem Solved? Open
Delineation of the left ventricular cavity, myocardium, and right ventricle from cardiac magnetic resonance images (multi-slice 2-D cine MRI) is a common clinical task to establish diagnosis. The automation of the corresponding tasks has t…
View article: What does it all mean? Capturing Semantics of Surgical Data and Algorithms with Ontologies
What does it all mean? Capturing Semantics of Surgical Data and Algorithms with Ontologies Open
Every year approximately 234 million major surgeries are performed, leading to plentiful, highly diverse data. This is accompanied by a matching number of novel algorithms for the surgical domain. To garner all benefits of surgical data sc…
View article: Computer-based comparison of different methods for selecting mitral annuloplasty ring size
Computer-based comparison of different methods for selecting mitral annuloplasty ring size Open
This novel comprehensive computer-based analysis reveals that the surveyed sizing methods led to the selection of significantly different annuloplasty rings and therefore underscore the ambiguity of routinely applied annuloplasty sizing st…
View article: Additional file 1: of Computer-based comparison of different methods for selecting mitral annuloplasty ring size
Additional file 1: of Computer-based comparison of different methods for selecting mitral annuloplasty ring size Open
Measurements of mitral annulus dimensions extracted from Mitralyzer software. (XLSX 42Â kb)