610 Medizin, Gesundheit
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Automatic segmentation is essential for the brain tumor diagnosis, disease prognosis, and follow-up therapy of patients with gliomas. Still, accurate detection of gliomas and their sub-regions in multimodal MRI is very challenging due to the variety of scanners and imaging protocols. Over the last years, the BraTS Challenge has provided a large number of multi-institutional MRI scans as a benchmark for glioma segmentation algorithms. This paper describes our contribution to the BraTS 2022 Continuous Evaluation challenge. We propose a new ensemble of multiple deep learning frameworks namely, DeepSeg, nnU-Net, and DeepSCAN for automatic glioma boundaries detection in pre-operative MRI. It is worth noting that our ensemble models took first place in the final evaluation on the BraTS testing dataset with Dice scores of 0.9294, 0.8788, and 0.8803, and Hausdorf distance of 5.23, 13.54, and 12.05, for the whole tumor, tumor core, and enhancing tumor, respectively. Furthermore, the proposed ensemble method ranked first in the final ranking on another unseen test dataset, namely Sub-Saharan Africa dataset, achieving mean Dice scores of 0.9737, 0.9593, and 0.9022, and HD95 of 2.66, 1.72, 3.32 for the whole tumor, tumor core, and enhancing tumor, respectively.
Purpose
Artificial intelligence (AI), in particular deep neural networks, has achieved remarkable results for medical image analysis in several applications. Yet the lack of explainability of deep neural models is considered the principal restriction before applying these methods in clinical practice.
Methods
In this study, we propose a NeuroXAI framework for explainable AI of deep learning networks to increase the trust of medical experts. NeuroXAI implements seven state-of-the-art explanation methods providing visualization maps to help make deep learning models transparent.
Results
NeuroXAI has been applied to two applications of the most widely investigated problems in brain imaging analysis, i.e., image classification and segmentation using magnetic resonance (MR) modality. Visual attention maps of multiple XAI methods have been generated and compared for both applications. Another experiment demonstrated that NeuroXAI can provide information flow visualization on internal layers of a segmentation CNN.
Conclusion
Due to its open architecture, ease of implementation, and scalability to new XAI methods, NeuroXAI could be utilized to assist radiologists and medical professionals in the detection and diagnosis of brain tumors in the clinical routine of cancer patients. The code of NeuroXAI is publicly accessible at https://github.com/razeineldin/NeuroXAI.
Purpose: Gliomas are the most common and aggressive type of brain tumors due to their infiltrative nature and rapid progression. The process of distinguishing tumor boundaries from healthy cells is still a challenging task in the clinical routine. Fluid attenuated inversion recovery (FLAIR) MRI modality can provide the physician with information about tumor infiltration. Therefore, this paper proposes a new generic deep learning architecture, namely DeepSeg, for fully automated detection and segmentation of the brain lesion using FLAIR MRI data.
Methods: The developed DeepSeg is a modular decoupling framework. It consists of two connected core parts based on an encoding and decoding relationship. The encoder part is a convolutional neural network (CNN) responsible for spatial information extraction. The resulting semantic map is inserted into the decoder part to get the full-resolution probability map. Based on modified U-Net architecture, different CNN models such as residual neural network (ResNet), dense convolutional network (DenseNet), and NASNet have been utilized in this study.
Results: The proposed deep learning architectures have been successfully tested and evaluated on-line based on MRI datasets of brain tumor segmentation (BraTS 2019) challenge, including s336 cases as training data and 125 cases for validation data. The dice and Hausdorff distance scores of obtained segmentation results are about 0.81 to 0.84 and 9.8 to 19.7 correspondingly.
Conclusion: This study showed successful feasibility and comparative performance of applying different deep learning models in a new DeepSeg framework for automated brain tumor segmentation in FLAIR MR images. The proposed DeepSeg is open source and freely available at https://github.com/razeineldin/DeepSeg/.
Intraoperative brain deformation, so called brain shift, affects the applicability of preoperative magnetic resonance imaging (MRI) data to assist the procedures of intraoperative ultrasound (iUS) guidance during neurosurgery. This paper proposes a deep learning-based approach for fast and accurate deformable registration of preoperative MRI to iUS images to correct brain shift. Based on the architecture of 3D convolutional neural networks, the proposed deep MRI-iUS registration method has been successfully tested and evaluated on the retrospective evaluation of cerebral tumors (RESECT) dataset. This study showed that our proposed method outperforms other registration methods in previous studies with an average mean squared error (MSE) of 85. Moreover, this method can register three 3D MRI-US pair in less than a second, improving the expected outcomes of brain surgery.
Glioblastomas are the most aggressive fast-growing primary brain cancer which originate in the glial cells of the brain. Accurate identification of the malignant brain tumor and its sub-regions is still one of the most challenging problems in medical image segmentation. The Brain Tumor Segmentation Challenge (BraTS) has been a popular benchmark for automatic brain glioblastomas segmentation algorithms since its initiation. In this year, BraTS 2021 challenge provides the largest multi-parametric (mpMRI) dataset of 2,000 pre-operative patients. In this paper, we propose a new aggregation of two deep learning frameworksnamely, DeepSeg and nnU-Net for automatic glioblastoma recognition in pre-operative mpMRI. Our ensemble method obtains Dice similarity scores of 92.00, 87.33, and 84.10 and Hausdorff Distances of 3.81, 8.91, and 16.02 for the enhancing tumor, tumor core, and whole tumor regions, respectively, on the BraTS 2021 validation set, ranking us among the top ten teams. These experimental findings provide evidence that it can be readily applied clinically and thereby aiding in the brain cancer prognosis, therapy planning, and therapy response monitoring. A docker image for reproducing our segmentation results is available online at (https://hub.docker.com/r/razeineldin/deepseg21).
Radiofrequency ablation is an ablation technique to treat tumors with focused heat. Computer tomography, ultrasound and magnetic resonance imaging (MRI) are imaging modalities which can be used for image-guided procedures. MRI offers several advantages in comparison to the other imaging modalities, such as radiation-free fluoroscopic imaging, temperature mapping, a high-soft-tissue contrast and free selection of imaging planes. This work addresses the application of 3Dcontrollers for controlling interventional, fluoroscopic MR sequences at the scenario of MR guided radiofrequency ablation of hepatic malignancies. During this procedure, the interventionalist can monitor the targeting of the tumor with near-real time fluoroscopic sequences. In general, adjustments of the imaging planes are necessary during tumor targeting, which is performed by an assistant in the control room. Therefore, communication between the interventionalist in the scanner room and the assistant in the control room is essential. However, verbal communication is impaired due to the loud scanning noises. Alternatively, non-verbal communication between the two persons is possible, however limited to a few gestures and susceptible to misunderstandings. This work is analyzing different 3D-controllers to enable control of interventional MR sequences during MR-guided procedures directly by the interventionalist. Leap Motion, Wii Remote, SpaceNavigator, Phantom Omni and Foot Switch were selected. For that a simulation was built in C++ with VTK to feign the real scenario for test purposes. Previous results showed that Leap Motion is not suitable for the application while Wii Remote and Foot Switch are possible input devices. Final evaluation showed a generally time reduction with the use of 3D-controllers. Best results were reached with Wii Remote in 34 seconds. Handholding input devices like Wii Remote have further potential to integrate them in real environment to reduce intervention time.
Proceedings of the International Workshop on Mobile Networks for Biometric Data Analysis (mBiDA)
(2014)
Prevention and treatment of common and widesprea (chronic) diseases is a challenge in any modern Society and vitally important for health maintenance in aging societies. Capturing biometric data is a cornerstone for any analysis and Treatment strategy. Latest advances in sensor technology allow accurate data measurement in a non-intrusive way. In many cases, it is necessary to provide online monitoring and real-time data capturing to support patients´ prevention plans or to allow medical professionals to access the current status. Different communication standards are required to push sensor data and to store and analyze them on different (mobile) platforms. The objective of the workshop is to show new and innovative approaches dedicated to biometric data capture and analysis in a non-intrusive way maintaining mobility. Examples can be found in human centered ambient intelligence attributed with sensors or even in methodologies applied in automotive real-time conform mobile system design. The workshop´s main challenge is to focus on approaches promoting non-intrusiveness, reliable prediction algorithms and high user-acceptance. The workshop will provide overview presentations, Young researcher poster tracks, doctoral tracks and classical peer-review full paper tracks. Especially, would like to encourage students and young researchers to participate and to contribute to the workshop. Scientific contributions to the event are peer-reviewed by a suited program committee.
The workshop aims to discuss leading edge contributions to the interdisciplinary research area of ambient intelligence (AmI) applied to the domains of telemedicine and driving assistance. AmI refers to human centered environments attributed with sensors. The development of AmI in the two application domains of the workshop shares several commonalities: the extensive usage of networked devices and sensors, the design of artificial intelligence algorithms for diagnosis, including recommendation systems and qualitative reasoning or the application of mobile and wireless communication to their distributed systems. Together with the presentation of common aspects of Ambient Intelligence, a further goal of the workshop is to stimulate synergies among both application domains and present examples. The telemedicine domain can benefit from methodologies in designing complex devices, real-time conform system design, audiovisual or computer vision system design used in automotive driving assistance. Furthermore, the automotive domain can benefit from the usercentric view, biometric sensor data design, multi-user data bases for aggregation and diagnosis using big data like used in telemedicine. The German Government supports these research lines in its Hightec-Strategie under the domains “Health and Nutrition” and “Climate and Energy”. In Spain the term “Spanish Program for R&D Challenged Oriented Society – Challenge in energy safe, efficient and clean & Challenge in sustainable transport, smart and integrated” is used. Scientific contributions to the event are peer-reviewed by a suited program committee having members from Germany and Spain. The same committee is serving the JARCA workshop (Jornadas sobre Sistemas cualitativos y sus Aplicaciones en Diagnosis, Robótica e Inteligencia Ambiental - Conference on Qualitative Systems and their Applications in Diagnoses, Robotics and Ambient Intelligence) since 15 years. This workshop is sponsored by the German Academic Exchange Service (DAAD) under contract number 57070010.
Information and communication technologies support telemedicine to lower health access barriers and to provide better health care. While the potential in Active Assisted Living (AAL) is increasing, it is difficult to evaluate its benefits for the user, and it requires coordinated actions to launch it. The European Commission’s action plan 2012–2020 provides a roadmap to patient empowerment and healthcare, to link up devices and technologies, and to invest in research towards the personalized medicine of the future. As a quickly developing area in medicine, telemonitoring is a demanding field in research and development. Telemonitoring is an essential component of personalized medicine, where health providers can obtain precise information on outcare or chronic patients to improve diagnosis and therapy and also help healthy persons with prevention support. Telemonitoring combines mobile and wearable devices with the personal AAL home environment, a private or (partly) supervised home, most often called ’smart home’. The focus of this workshop is on new hardware and software solutions specifically designed to be applicable in AAL environments to empower patients. This workshop presents system-oriented solutions covering wearable and AAL-embedded devices, computer science infrastructure both at the users’ and the medical premises, to handle the data and decision support systems to support diagnose and treatment.
This book contains the proceedings of the KES International conferences on Innovation in Medicine and Healthcare (KES-InMed-19) and Intelligent Interactive Multimedia Systems and Services (KES-IIMSS-19), held on 17–19 June 2019 and co-located in St. Julians, on the island of Malta, as part of the KES Smart Digital Futures 2019 multi theme conference.
The major areas covered by KES-InMed-19 include: Digital IT Architecture in Healthcare; Advanced ICT for Medical and Healthcare; Biomedical Engineering, Trends, Research and Technologies and Healthcare Support System. The major areas covered by KES-IIMSS-19 were: Interactive Technologies; Artificial Intelligence and Data Analytics; Intelligent Services and Architectures and Applications.
This book is of use to researchers in these vibrant areas, managers, industrialists and anyone wishing to gain an overview of the latest research in these fields.