@inproceedings{RushSchmidRaptis, author = {Rush, Logan and Schmid, Marina and Raptis, Georgios}, title = {Privacy Challenges in Genomic Data: A Scoping Review of Risks, Mitigation Strategies, and Research Gaps.}, series = {Information and Communication Technology: 13th International Symposium, SOICT 2024, Danang, Vietnam, December 13-15, 2024, Proceedings, Part II}, booktitle = {Information and Communication Technology: 13th International Symposium, SOICT 2024, Danang, Vietnam, December 13-15, 2024, Proceedings, Part II}, publisher = {Springer}, address = {Singapore}, doi = {10.1007/978-981-96-4285-4_34}, pages = {416 -- 430}, abstract = {Advances in genomic research have created new privacy challenges. This scoping review analyzes the risks associated with the processing, storage, and sharing of genomic data including epigenetics, and examines current privacy protection strategies. It also attempts to identify research gaps in this area. Using the PRISMA methodology, 37 relevant studies were identified and analyzed. The results of the risk assessment can be grouped into four main themes: Risks posed by processing of functional genomic data, sharing of genomic data, patient (re-)identification, and dividuality, i.e. the extending of privacy risks to blood relatives. The identified risk mitigation strategies were systematically categorized into five classes: pre-release measures, governance, secure data processing and exchange, access restriction and transparency, anonymization and masking. However, there are some important research gaps that still need to be addressed. The current literature neglects to assess the likelihood of potential breaches and tends to focus only on assessing possible scenarios of privacy risks. It also mainly fails to assess the role of contextualized data and the effectiveness of policies and governance systems with respect to privacy risks.}, language = {en} } @article{RusavyCechovaDendorferetal., author = {Rusavy, Zdenek and Cechova, Hana and Dendorfer, Sebastian and Kalis, Vladimir and Ismail, Khaled M.}, title = {Is the Finnish grip tight enough? A manometric study of two manual perineal protection techniques}, series = {Acta Obstetricia et Gynecologica Scandinavica}, volume = {104}, journal = {Acta Obstetricia et Gynecologica Scandinavica}, number = {2}, publisher = {Wiley}, doi = {10.1111/aogs.15033}, pages = {423 -- 425}, language = {en} } @article{FoltanDinhGruberetal., author = {Foltan, Maik and Dinh, D. and Gruber, Michael and M{\"u}ller, Thomas and Hart, C. and Krenkel, Lars and Schmid, C. and Lehle, Karla}, title = {Incidence of neutrophil extracellular traps (NETs) in different membrane oxygenators: pilot in vitro experiments in commercially available coated membranes}, series = {Journal of artificial organs : the official journal of the Japanese Society for Artificial Organs}, journal = {Journal of artificial organs : the official journal of the Japanese Society for Artificial Organs}, doi = {10.1007/s10047-024-01486-4}, abstract = {Neutrophil extracellular traps (NETs) were detected in blood samples and in cellular deposits of oxygenator membranes during extracorporeal membrane oxygenation (ECMO) therapy and may be responsible for thrombogenesis. The aim was to evaluate the effect of the base material of gas fiber (GF, polymethylpentene) and heat exchange (HE) membranes and different antithrombogenic coatings on isolated granulocytes from healthy volunteers under static culture conditions. Contact of granulocytes with membranes from different ECMO oxygenators (with different surface coatings) and uncoated-GFs allowed detection of adherent cells and NETotic nuclear structures (normal, swollen, ruptured) using nuclear staining. Flow cytometry was used to identify cell activation (CD11b/CD62L, oxidative burst) of non-adherent cells. Uncoated-GFs were used as a reference. Within 3 h, granulocytes adhered to the same extent on all surfaces. In contrast, the ratio of normal to NETotic cells was significantly higher for uncoated-GFs (56-83\%) compared to all coated GFs (34-72\%) (p < 0.001) with no difference between the coatings. After material contact, non-adherent cells remained vital with unchanged oxidative burst function and the proportion of activated cells remained low. The expression of activation markers was independent of the origin of the GF material. In conclusion, the polymethylpentene surfaces of the GFs already induce NET formation. Antithrombogenic coatings can already reduce the proportion of NETotic nuclei. However, it cannot be ruled out that NET formation can induce thrombotic events. Therefore, new surfaces or coatings are required for future ECMO systems and long-term implantable artificial lungs.}, language = {en} } @article{DeuterHajBrawanskietal., author = {Deuter, Daniel and Haj, Amer and Brawanski, Alexander and Krenkel, Lars and Schmidt, Nils Ole and Doenitz, Christian}, title = {Fast simulation of hemodynamics in intracranial aneurysms for clinical use}, series = {Acta Neurochirurgica}, volume = {167}, journal = {Acta Neurochirurgica}, publisher = {Springer}, doi = {10.1007/s00701-025-06469-9}, pages = {14}, abstract = {BACKGROUND: A widely accepted tool to assess hemodynamics, one of the most important factors in aneurysm pathophysiology, is Computational Fluid Dynamics (CFD). As current workflows are still time consuming and difficult to operate, CFD is not yet a standard tool in the clinical setting. There it could provide valuable information on aneurysm treatment, especially regarding local risks of rupture, which might help to optimize the individualized strategy of neurosurgical dissection during microsurgical aneurysm clipping. METHOD: We established and validated a semi-automated workflow using 3D rotational angiographies of 24 intracranial aneurysms from patients having received aneurysm treatment at our centre. Reconstruction of vessel geometry and generation of volume meshes was performed using AMIRA 6.2.0 and ICEM 17.1. For solving ANSYS CFX was used. For validational checks, tests regarding the volumetric impact of smoothing operations, the impact of mesh sizes on the results (grid convergence), geometric mesh quality and time tests for the time needed to perform the workflow were conducted in subgroups. RESULTS: Most of the steps of the workflow were performed directly on the 3D images requiring no programming experience. The workflow led to final CFD results in a mean time of 22 min 51.4 s (95\%-CI 20 min 51.562 s-24 min 51.238 s, n = 5). Volume of the geometries after pre-processing was in mean 4.46\% higher than before in the analysed subgroup (95\%-CI 3.43-5.50\%). Regarding mesh sizes, mean relative aberrations of 2.30\% (95\%-CI 1.51-3.09\%) were found for surface meshes and between 1.40\% (95\%-CI 1.07-1.72\%) and 2.61\% (95\%-CI 1.93-3.29\%) for volume meshes. Acceptable geometric mesh quality of volume meshes was found. CONCLUSIONS: We developed a semi-automated workflow for aneurysm CFD to benefit from hemodynamic data in the clinical setting. The ease of handling opens the workflow to clinicians untrained in programming. As previous studies have found that the distribution of hemodynamic parameters correlates with thin-walled aneurysm areas susceptible to rupture, these data might be beneficial for the operating neurosurgeon during aneurysm surgery, even in acute cases.}, language = {en} } @article{SchaefferHerrmannSchratzenstalleretal., author = {Schaeffer, Leon and Herrmann, David and Schratzenstaller, Thomas and Dendorfer, Sebastian and B{\"o}hm, Valter}, title = {Theoretical considerations on stiffness characteristics of a 3-dimensional tensegrity joint model for the use in dynamic hand orthoses}, series = {Journal of Medical Robotics Research}, journal = {Journal of Medical Robotics Research}, publisher = {World Scientific}, doi = {10.1142/S2424905X25400069}, language = {en} } @article{MaierZentgrafAngeleetal., author = {Maier, Eva and Zentgraf, Jan and Angele, Eveline and Zorzin, Jos{\´e} and Taschner, Michael and Widbiller, Matthias and Galler, Kerstin and Schratzenstaller, Thomas}, title = {A re-usable 3D-printed training model for the endodontic management of dental trauma in immature teeth}, series = {International endodontic journal}, volume = {2025}, journal = {International endodontic journal}, publisher = {Wiley}, issn = {1365-2591}, doi = {10.1111/iej.14235}, pages = {12}, abstract = {AIM: To develop a 3D-printed model enabling treatment simulation of trauma-related endodontic and restorative procedures like revitalization or placement of an apical plug on teeth with incomplete root formation. METHODOLOGY: To generate a realistic training model suitable for trauma-related simulations, CT-Data sets were segmented, combined, adjusted and optimized using computer-aided design features. Specific focus was on optimally reflecting characteristics of immature teeth like open apical foramina and thin root walls. For reflection of the revitalization process, a set-up including a tube filled with red liquid under pressure was developed to be perforated during the procedure by the trainee, simulating bleeding from the apical papilla into the root canal system. Design was based on a combination of cost-effective simple parts combined with 3D-printed components to achieve maximal accessibility, exchangeability and re-usability. Model assembly and preparation were described in step-by-step instructions. RESULTS: As a result of the developmental process, the presented model qualifies for the training of the endodontic management of complications on immature teeth after dental trauma. Step-by-step descriptions aligned with the clinical procedures are performable for a revitalization procedure, for pulpotomy followed by fragment re-attachment and splint application and for placement of an apical plug using hydraulic calcium silicate cements. CONCLUSIONS: The model successfully achieved its intended objectives, so that it may be used in the future in various dental trauma treatment simulations for undergraduate and postgraduate education on the endodontic management of trauma-related therapies in immature teeth. Its common manufacturing process, affordability and re-usability support accessibility and sustainability.}, language = {en} } @inproceedings{SchaefferSchmausserHerrmannetal., author = {Schaeffer, Leon and Schmaußer, Theresa and Herrmann, David and Lehmann, Lukas and Dendorfer, Sebastian and B{\"o}hm, Valter}, title = {Multi-Body Simulation of a Dynamic Hand Orthosis based on a Prestressed Compliant Structure Incorporating the Human Hand}, series = {2025 International Symposium on Medical Robotics (ISMR), May 14-16, 2025, Atlanta, GA, USA,}, booktitle = {2025 International Symposium on Medical Robotics (ISMR), May 14-16, 2025, Atlanta, GA, USA,}, publisher = {IEEE}, doi = {10.1109/ISMR67322.2025.11025982}, pages = {80 -- 86}, abstract = {Many dynamic hand orthoses use one degree of freedom joints, such as hinge joints. Therefore, these orthoses can only partially replicate the complex, multi-axis movement of the hand. A possible solution for this is the use of prestressed compliant structures as the basis for orthoses. Determining the joint forces in the wrist and optimizing the dynamic orthosis to influence these forces as well as acting muscle forces are important steps in the development of these orthoses. For this reason, in this work multi-body simulation models of an orthosis with human hand models are presented. Based on these theoretical investigations, more detailed orthosis models as well as initial prototypes of prestressed compliant dynamic hand orthoses can be developed.}, language = {en} } @article{MaerklRueckertRauberetal., author = {Maerkl, Raphaela and Rueckert, Tobias and Rauber, David and Gutbrod, Max and Weber Nunes, Danilo and Palm, Christoph}, title = {Enhancing generalization in zero-shot multi-label endoscopic instrument classification}, series = {International Journal of Computer Assisted Radiology and Surgery}, volume = {20}, journal = {International Journal of Computer Assisted Radiology and Surgery}, publisher = {Springer Nature}, doi = {10.1007/s11548-025-03439-5}, url = {http://nbn-resolving.de/urn:nbn:de:bvb:898-opus4-85674}, pages = {1577 -- 1587}, abstract = {Purpose Recognizing previously unseen classes with neural networks is a significant challenge due to their limited generalization capabilities. This issue is particularly critical in safety-critical domains such as medical applications, where accurate classification is essential for reliability and patient safety. Zero-shot learning methods address this challenge by utilizing additional semantic data, with their performance relying heavily on the quality of the generated embeddings. Methods This work investigates the use of full descriptive sentences, generated by a Sentence-BERT model, as class representations, compared to simpler category-based word embeddings derived from a BERT model. Additionally, the impact of z-score normalization as a post-processing step on these embeddings is explored. The proposed approach is evaluated on a multi-label generalized zero-shot learning task, focusing on the recognition of surgical instruments in endoscopic images from minimally invasive cholecystectomies. Results The results demonstrate that combining sentence embeddings and z-score normalization significantly improves model performance. For unseen classes, the AUROC improves from 43.9\% to 64.9\%, and the multi-label accuracy from 26.1\% to 79.5\%. Overall performance measured across both seen and unseen classes improves from 49.3\% to 64.9\% in AUROC and from 37.3\% to 65.1\% in multi-label accuracy, highlighting the effectiveness of our approach. Conclusion These findings demonstrate that sentence embeddings and z-score normalization can substantially enhance the generalization performance of zero-shot learning models. However, as the study is based on a single dataset, future work should validate the method across diverse datasets and application domains to establish its robustness and broader applicability.}, language = {en} } @article{BarthelSuessDendorfer, author = {Barthel, Mareike and S{\"u}ß, Franz and Dendorfer, Sebastian}, title = {Application of a transformer encoder for the prediction of intra-abdominal pressure}, series = {Computer Methods in Biomechanics and Biomedical Engineering}, journal = {Computer Methods in Biomechanics and Biomedical Engineering}, publisher = {Taylor \& Francis}, doi = {10.1080/10255842.2025.2586143}, pages = {11}, abstract = {Intra-abdominal pressure is a significant physiological parameter influencing spinal stability and pelvic floor health. This study investigates the potential of a transformer encoder model to predict IAP using motion capture data and musculoskeletal modeling. Data from 211 subjects performing walking, fast walking, and running were used to train a transformer encoder. The model showed promising results with an overall Mean Absolute Percentage Error of 13.5\% and a Pearson correlation coefficient of 0.85. Predictions for fast walking and running proved to be more challenging compared to walking, which was attributed to the greater variability and complexity of faster movements.}, language = {en} } @misc{OPUS4-7967, title = {Bildverarbeitung f{\"u}r die Medizin 2025}, editor = {Palm, Christoph and Breininger, Katharina and Deserno, Thomas M. and Handels, Heinz and Maier, Andreas and Maier-Hein, Klaus H. and Tolxdorff, Thomas M.}, publisher = {Springer Fachmedien Wiesbaden}, address = {Wiesbaden}, isbn = {978-3-658-47421-8}, issn = {1431-472X}, doi = {10.1007/978-3-658-47422-5}, pages = {XXIII, 354}, abstract = {Die Konferenz "BVM - Bildverarbeitung f{\"u}r die Medizin" ist seit vielen Jahren als die nationale Plattform f{\"u}r den Austausch von Ideen und die Diskussion der neuesten Forschungsergebnisse im Bereich der Medizinischen Bildverarbeitung und der K{\"u}nstlichen Intelligenz (KI) etabliert. Auch 2025 werden wir aktuelle Forschungsergebnisse vorstellen und Gespr{\"a}che zwischen (jungen) Wissenschaftler*innen, Industrie und Anwender*innen vertiefen. Die Beitr{\"a}ge dieses Bandes - die meisten davon in englischer Sprache - umfassen alle Bereiche der medizinischen Bildverarbeitung, insbesondere die Bildgebung und -akquisition, Segmentierung und Analyse, Registrierung, Visualisierung und Animation, computerunterst{\"u}tzte Diagnose sowie bildgest{\"u}tzte Therapieplanung und Therapie. Hierbei kommen Methoden des maschinellen Lernens, der biomechanischen Modellierung sowie der Validierung und Qualit{\"a}tssicherung zum Einsatz. Das Kapitel "Leveraging multiple total body segmentators and anatomy-informed post-processing for segmenting bones in Lung CTs" ist unter einer Creative Commons Attribution 4.0 International License {\"u}ber link.springer.com frei verf{\"u}gbar (Open Access). Die Herausgebenden Prof. Palm forscht im Bereich KI f{\"u}r die Medizin mit einem Schwerpunkt in der Analyse endoskopischer Bilddaten zur computerunterst{\"u}tzten Diagnose und Therapie. Prof. Breininger entwickelt robuste Ans{\"a}tze des maschinellen Lernens in verschiedenen interdisziplin{\"a}ren Bereichen, mit einem Schwerpunkt auf medizinischen Bilddaten. Prof. Deserno forscht in Biosignal- und Bilderzeugung und -verarbeitung, insbesondere in der videobasierten Vitaldatenmessung. Prof. Handels entwickelt problemoptimierte, lernf{\"a}hige Bildverarbeitungsmethoden und integriert diese in hybride Bildverarbeitungssysteme zur Unterst{\"u}tzung der medizinischen Diagnostik und Therapie. Prof. Maier entwickelt Anwendungen in der medizinischen Bildverarbeitung zur Diagnoseunterst{\"u}tzung bis hin zur Schichtbildberechnung durch k{\"u}nstliche Intelligenz. Prof. Maier-Hein forscht im Bereich maschinelles Lernen und entwickelt Open-Source-L{\"o}sungen wie das Medical Imaging Interaction Toolkit (MITK), Kaapana oder das nnU-Net. Prof. em. Tolxdorff ist Experte f{\"u}r maschinelles Lernen, biomedizinisches Datenmanagement, Datenvisualisierung und -analyse sowie Medizinproduktentwicklung in klinischen Workflows.}, subject = {Bildverarbeitung}, language = {de} } @article{LehlePhilippKrenkeletal., author = {Lehle, Karla and Philipp, Alois and Krenkel, Lars and Gruber, Michael and Hiller, Karl-Anton and M{\"u}ller, Thomas and Lubnow, Matthias}, title = {Thrombocytopenia During Venovenous Extracorporeal Membrane Oxygenation in Adult Patients With Bacterial, Viral, and COVID-19 Pneumonia}, series = {ASAIO Journal}, journal = {ASAIO Journal}, publisher = {Wolters Kluwer}, issn = {1058-2916}, doi = {10.1097/MAT.0000000000002383}, abstract = {Contact of blood with artificial surfaces triggers platelet activation. The aim was to compare platelet kinetics after venovenous extracorporeal membrane oxygenation (V-V ECMO) start and after system exchange in different etiologies of acute lung failure. Platelet counts and coagulation parameters were analyzed from adult patients with long and exchange-free (≥8 days) ECMO runs (n = 330) caused by bacterial (n = 142), viral (n = 76), or coronavirus disease 2019 (COVID-19) (n = 112) pneumonia. A subpopulation requiring a system exchange and with long, exchange-free runs of the second oxygenator (≥7 days) (n = 110) was analyzed analogously. Patients with COVID-19 showed the highest platelet levels before ECMO implantation. Independent of the underlying disease and ECMO type, platelet counts decreased significantly within 24 hours and reached a steady state after 5 days. In the subpopulation, at the day of a system exchange, platelet counts were lower compared with ECMO start, but without differences between underlying diseases. Subsequently, platelets remained unchanged in the bacterial pneumonia group, but increased in the COVID-19 and viral pneumonia groups within 2-4 days, whereas D-dimers decreased and fibrinogen levels increased. Thus, overall platelet counts on V-V ECMO show disease-specific initial dynamics followed by an ongoing consumption by the ECMO device, which is not boosted by new artificial surfaces after a system exchange.}, language = {en} } @misc{Dendorfer, author = {Dendorfer, Sebastian}, title = {Towards a deeper understanding of Pelvic Floor Disorders via Biomechanical Models}, language = {en} }