Franz Pfister

Aadhithya Sankar, Matthias Keicher, Rami Eisawy et al.

Disentangled representations can be useful in many downstream tasks, help to make deep learning models more interpretable, and allow for control over features of synthetically generated images that can be useful in training other models that require a large number of labelled or unlabelled data. Recently, flow-based generative models have been proposed to generate realistic images by directly modeling the data distribution with invertible functions. In this work, we propose a new flow-based generative model framework, named GLOWin, that is end-to-end invertible and able to learn disentangled representations. Feature disentanglement is achieved by factorizing the latent space into components such that each component learns the representation for one generative factor. Comprehensive experiments have been conducted to evaluate the proposed method on a public brain tumor MR dataset. Quantitative and qualitative results suggest that the proposed method is effective in disentangling the features from complex medical images.

Abinav Ravi Venkatakrishnan, Seong Tae Kim, Rami Eisawy et al.

Medical imaging data suffers from the limited availability of annotation because annotating 3D medical data is a time-consuming and expensive task. Moreover, even if the annotation is available, supervised learning-based approaches suffer highly imbalanced data. Most of the scans during the screening are from normal subjects, but there are also large variations in abnormal cases. To address these issues, recently, unsupervised deep anomaly detection methods that train the model on large-sized normal scans and detect abnormal scans by calculating reconstruction error have been reported. In this paper, we propose a novel self-supervised learning technique for anomaly detection. Our architecture largely consists of two parts: 1) Reconstruction and 2) predicting geometric transformations. By training the network to predict geometric transformations, the model could learn better image features and distribution of normal scans. In the test time, the geometric transformation predictor can assign the anomaly score by calculating the error between geometric transformation and prediction. Moreover, we further use self-supervised learning with context restoration for pretraining our model. By comparative experiments on clinical brain CT scans, the effectiveness of the proposed method has been verified.

Abhijeet Parida, Aadhithya Sankar, Rami Eisawy et al.

High-quality labeled data is essential to successfully train supervised machine learning models. Although a large amount of unlabeled data is present in the medical domain, labeling poses a major challenge: medical professionals who can expertly label the data are a scarce and expensive resource. Making matters worse, voxel-wise delineation of data (e.g. for segmentation tasks) is tedious and suffers from high inter-rater variance, thus dramatically limiting available training data. We propose a recursive training strategy to perform the task of semantic segmentation given only very few training samples with pixel-level annotations. We expand on this small training set having cheaper image-level annotations using a recursive training strategy. We apply this technique on the segmentation of intracranial hemorrhage (ICH) in CT (computed tomography) scans of the brain, where typically few annotated data is available.

Kamer A. Yuksel, Jann Goschenhofer, Hridya V. Varma et al.

Parkinson's disease (PD) is the second most common neurodegenerative disease worldwide and affects around 1% of the (60+ years old) elderly population in industrial nations. More than 80% of PD patients suffer from motor symptoms, which could be well addressed if a personalized medication schedule and dosage could be administered to them. However, such personalized medication schedule requires a continuous, objective and precise measurement of motor symptoms experienced by the patients during their regular daily activities. In this work, we propose the use of a wrist-worn smart-watch, which is equipped with 3D motion sensors, for estimating the motor fluctuation severity of PD patients in a free-living environment. We introduce a novel network architecture, a post-training scheme and a custom loss function that accounts for label noise to improve the results of our previous work in this domain and to establish a novel benchmark for nine-level PD motor state estimation.

Muriel Lang, Franz M. J. Pfister, Jakob Fröhner et al.

The assessment of Parkinson's disease (PD) poses a significant challenge as it is influenced by various factors which lead to a complex and fluctuating symptom manifestation. Thus, a frequent and objective PD assessment is highly valuable for effective health management of people with Parkinson's disease (PwP). Here, we propose a method for monitoring PwP by stochastically modeling the relationships between their wrist movements during unscripted daily activities and corresponding annotations about clinical displays of movement abnormalities. We approach the estimation of PD motor signs by independently modeling and hierarchically stacking Gaussian process models for three classes of commonly observed movement abnormalities in PwP including tremor, (non-tremulous) bradykinesia, and (non-tremulous) dyskinesia. We use clinically adopted severity measures as annotations for training the models, thus allowing our multi-layer Gaussian process prediction models to estimate not only their presence but also their severities. The experimental validation of our approach demonstrates strong agreement of the model predictions with these PD annotations. Our results show the proposed method produces promising results in objective monitoring of movement abnormalities of PD in the presence of arbitrary and unknown voluntary motions, and makes an important step towards continuous monitoring of PD in the home environment.

Terry Taewoong Um, Franz Michael Josef Pfister, Daniel Christian Pichler et al.

Parkinson's Disease (PD) is characterized by disorders in motor function such as freezing of gait, rest tremor, rigidity, and slowed and hyposcaled movements. Medication with dopaminergic medication may alleviate those motor symptoms, however, side-effects may include uncontrolled movements, known as dyskinesia. In this paper, an automatic PD motor-state assessment in free-living conditions is proposed using an accelerometer in a wrist-worn wearable sensor. In particular, an ensemble of convolutional neural networks (CNNs) is applied to capture the large variability of daily-living activities and overcome the dissimilarity between training and test patients due to the inter-patient variability. In addition, class activation map (CAM), a visualization technique for CNNs, is applied for providing an interpretation of the results.