Ulrike Attenberger

David Biesner, Helen Schneider, Benjamin Wulff et al.

Chest X-Ray imaging is one of the most common radiological tools for detection of various pathologies related to the chest area and lung function. In a clinical setting, automated assessment of chest radiographs has the potential of assisting physicians in their decision making process and optimize clinical workflows, for example by prioritizing emergency patients. Most work analyzing the potential of machine learning models to classify chest X-ray images focuses on vision methods processing and predicting pathologies for one image at a time. However, many patients undergo such a procedure multiple times during course of a treatment or during a single hospital stay. The patient history, that is previous images and especially the corresponding diagnosis contain useful information that can aid a classification system in its prediction. In this study, we analyze how information about diagnosis can improve CNN-based image classification models by constructing a novel dataset from the well studied CheXpert dataset of chest X-rays. We show that a model trained on additional patient history information outperforms a model trained without the information by a significant margin. We provide code to replicate the dataset creation and model training.

Felicia Bader, Philipp Seeböck, Anastasia Bartashova et al.

In diagnostic reports, experts encode complex imaging data into clinically actionable information. They describe subtle pathological findings that are meaningful in their anatomical context. Reports follow relatively consistent structures, expressing diagnostic information with few words that are often associated with tiny but consequential image observations. Standard vision language models struggle to identify the associations between these informative text components and small locations in the images. Here, we propose "MApLe", a multi-task, multi-instance vision language alignment approach that overcomes these limitations. It disentangles the concepts of anatomical region and diagnostic finding, and links local image information to sentences in a patch-wise approach. Our method consists of a text embedding trained to capture anatomical and diagnostic concepts in sentences, a patch-wise image encoder conditioned on anatomical structures, and a multi-instance alignment of these representations. We demonstrate that MApLe can successfully align different image regions and multiple diagnostic findings in free-text reports. We show that our model improves the alignment performance compared to state-of-the-art baseline models when evaluated on several downstream tasks. The code is available at https://github.com/cirmuw/MApLe.

Wenzhao Zhao, Steffen Albert, Barbara D. Wichtmann et al.

Filter-decomposition-based group equivariant convolutional neural networks (CNNs) have shown promising stability and data efficiency for 3D image feature extraction. However, these networks, which rely on parameter sharing and discrete transformation groups, often underperform in modern deep neural network architectures for processing volumetric images, such as the common 3D medical images. To address these limitations, this paper presents an efficient non-parameter-sharing continuous 3D affine group equivariant neural network for volumetric images. This network uses an adaptive aggregation of Monte Carlo augmented spherical Fourier-Bessel filter bases to improve the efficiency and flexibility of 3D group equivariant CNNs for volumetric data. Unlike existing methods that focus only on angular orthogonality in filter bases, the introduced spherical Bessel Fourier filter base incorporates both angular and radial orthogonality to improve feature extraction. Experiments on four medical image segmentation datasets show that the proposed methods achieve better affine group equivariance and superior segmentation accuracy than existing 3D group equivariant convolutional neural network layers, significantly improving the training stability and data efficiency of conventional CNN layers (at 0.05 significance level). The code is available at https://github.com/ZhaoWenzhao/WMCSFB.

Helen Schneider, Sebastian Nowak, Aditya Parikh et al.

Image-based diagnostic decision support systems (DDSS) utilizing deep learning have the potential to optimize clinical workflows. However, developing DDSS requires extensive datasets with expert annotations and is therefore costly. Leveraging report contents from radiological data bases with Natural Language Processing to annotate the corresponding image data promises to replace labor-intensive manual annotation. As mining "real world" databases can introduce label noise, noise-robust training losses are of great interest. However, current noise-robust losses do not consider noise estimations that can for example be derived based on the performance of the automatic label generator used. In this study, we expand the noise-robust Deep Abstaining Classifier (DAC) loss to an Informed Deep Abstaining Classifier (IDAC) loss by incorporating noise level estimations during training. Our findings demonstrate that IDAC enhances the noise robustness compared to DAC and several state-of-the-art loss functions. The results are obtained on various simulated noise levels using a public chest X-ray data set. These findings are reproduced on an in-house noisy data set, where labels were extracted from the clinical systems of the University Hospital Bonn by a text-based transformer. The IDAC can therefore be a valuable tool for researchers, companies or clinics aiming to develop accurate and reliable DDSS from routine clinical data.