@phdthesis{Jihyoung2024,
  author    = {Jihyoung, Choi},
  title     = {Development of an Add-On Electrode for Non-Invasive Monitoring in Bioreactor Cultures and Medical Devices},
  doi       = {10.25972/OPUS-35823},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-358232},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Electrochemical impedance spectroscopy (EIS) is a valuable technique analyzing electrochemical behavior of biological systems such as electrical characterization of cells and biomolecules, drug screening, and biomaterials in biomedical field. In EIS, an alternating current (AC) power signal is applied to the biological system, and the impedance of the system is measured over a range of frequencies. In vitro culture models of endothelial or epithelial barrier tissue can be achieved by culturing barrier tissue on scaffolds made with synthetic or biological materials that provide separate compartments (apical and basal sides), allowing for further studies on drug transport. EIS is a great candidate for non-invasive and real-time monitoring of the electrical properties that correlate with barrier integrity during the tissue modeling. Although commercially available transendothelial/transepithelial electrical resistance (TEER) measurement devices are widely used, their use is particularly common in static transwell culture. EIS is considered more suitable than TEER measurement devices in bioreactor cultures that involve dynamic fluid flow to obtain accurate and reliable measurements. Furthermore, while TEER measurement devices can only assess resistance at a single frequency, EIS measurements can capture both resistance and capacitance properties of cells, providing additional information about the cellular barrier's characteristics across various frequencies. Incorporating EIS into a bioreactor system requires the careful optimization of electrode integration within the bioreactor setup and measurement parameters to ensure accurate EIS measurements. Since bioreactors vary in size and design depending on the purpose of the study, most studies have reported using an electrode system specifically designed for a particular bioreactor. The aim of this work was to produce multi-applicable electrodes and established methods for automated non-invasive and real-time monitoring using the EIS technique in bioreactor cultures. Key to the electrode material, titanium nitride (TiN) coating was fabricated on different substrates (materials and shape) using physical vapor deposition (PVD) and housed in a polydimethylsiloxane (PDMS) structure to allow the electrodes to function as independent units. Various electrode designs were evaluated for double-layer capacitance and morphology using EIS and scanning electron microscopy (SEM), respectively. The TiN-coated tube electrode was identified as the optimal choice. Furthermore, EIS measurements were performed to examine the impact of influential parameters related to culture conditions on the TiN-coated electrode system. In order to demonstrate the versatility of the electrodes, these electrodes were then integrated into in different types of perfusion bioreactors for monitoring barrier cells. Blood-brain barrier (BBB) cells were cultured in the newly developed dynamic flow bioreactor, while human umblical vascular endothelial cells (HUVECs) and Caco-2 cells were cultured in the miniature hollow fiber bioreactor (HFBR). As a result, the TiN-coated tube electrode system enabled investigation of BBB barrier integrity in long-term bioreactor culture. While EIS measurement could not detect HUVECs electrical properties in miniature HFBR culture, there was the possibility of measuring the barrier integrity of Caco-2 cells, indicating potential usefulness for evaluating their barrier function. Following the bioreactor cultures, the application of the TiN-coated tube electrode was expanded to hemofiltration, based on the hypothesis that the EIS system may be used to monitor clotting or clogging phenomena in hemofiltration. The findings suggest that the EIS monitoring system can track changes in ion concentration of blood before and after hemofiltration in real-time, which may serve as an indicator of clogging of filter membranes. Overall, our research demonstrates the potential of TiN-coated tube electrodes for sensitive and versatile non-invasive monitoring in bioreactor cultures and medical devices.},
  subject      = {Monitoring},
  language  = {en}
}
@phdthesis{Ulrich2024,
  author    = {Ulrich, Johannes},
  title     = {Molekulare Charaktierisierung einer DyP-Typ Peroxidase des Humanparasiten \(Echinococcus\) \(multilocularis\)},
  doi       = {10.25972/OPUS-35714},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-357143},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Die Alveol{\"a}re Echinokokkose (AE) ist eine t{\"o}dliche Infektionserkrankung, die durch den parasit{\"a}ren Plattwurm Echinococcus multilocularis verursacht wird. Genomanalysen von E. multilocularis ergaben ein Gen, das laut Vorhersage f{\"u}r eine DyP-Typ Peroxidase codiere. Ziel dieser Arbeit ist die biologische Funktion des codierten Enzyms besser zu verstehen und Hinweise auf eine m{\"o}gliche Rolle in der Abwehr von Reaktiven Sauerstoffspezies (ROS) zu erlangen. Das Gen wurde heterolog in E. Coli exprimiert und molekulare Charakteristika des Gens mit bioinformatischen und molekularbiologischen Methoden untersucht. Quantitative RT-PCR Untersuchungen gaben Aufschluss {\"u}ber das Transkriptprofil von emipox in unterschiedlichen Entwicklungsstadien von E. mulitlocularis. Mittels Whole-Mount In Situ-Hybridisierung (WMISH) wurden die Transkripte zudem lokalisiert und ihre Beziehung zum Stammzellsystem von E. multilocularis n{\"a}her untersucht. Die Zugeh{\"o}rigkeit von EmIPOX zur Gruppe der DyP-Typ Peroxidasen wurde best{\"a}tigt. Homologe beim Menschen kommen nicht vor. Es konnte nachgewiesen werden, dass Transkripte von emipox auch, aber keinesfalls ausschließlich, in Stammzellen vorliegen. {\"U}berdurchschnittlich viele Transkripte liegen im aktivierten Protoscolex und im Metacestoden ex vivo aus einer infizierten Wirtsleber vor. Untersuchungen zur Enzymaktivit{\"a}t von EmIPOX zeigten neben einer Peroxidase- auch eine Katalaseaktivit{\"a}t. Die vorliegende Arbeit ist die erste Charakterisierung einer DyP-Typ Peroxidase bei Tieren. Sie legt nahe, dass EmIPOX eine Rolle in der Entgiftung von ROS in E. multilocularis spielt und stellt den Charakter von EmIPOX als potenzieller pharmakologischer Zielstruktur heraus.},
  subject      = {Fuchsbandwurm},
  language  = {de}
}
@phdthesis{Kutschka2024,
  author    = {Kutschka, Ilona},
  title     = {Activation of the integrated stress response induces remodeling of cardiac metabolism in Barth Syndrome},
  doi       = {10.25972/OPUS-35818},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-358186},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Barth Syndrome (BTHS) is an inherited X-chromosomal linked disorder, characterized by early development of cardiomyopathy, immune system defects, skeletal muscle myopathy and growth retardation. The disease displays a wide variety of symptoms including heart failure, exercise intolerance and fatigue due to the muscle weakness. The cause of the disease are mutations in the gene encoding for the mitochondrial transacylase Tafazzin (TAZ), which is important for remodeling of the phospholipid cardiolipin (CL). All mutations result in a pronounced decrease of the functional enzyme leading to an increase of monolysocardiolipin (MLCL), the precursor of mature CL, and a decrease in mature CL itself. CL is a hallmark phospholipid of mitochondrial membranes, highly enriched in the inner mitochondrial membrane (IMM). It is not only important for the formation of the cristae structures, but also for the function of different protein complexes associated with the mitochondrial membrane. Reduced levels of mature CL cause remodeling of the respiratory chain supercomplexes, impaired respiration, defects in the Krebs cycle and a loss of mitochondrial calcium uniporter (MCU) protein. The defective Ca2+ handling causes impaired redox homeostasis and energy metabolism resulting in cellular arrhythmias and defective electrical conduction. In an uncompensated situation, blunting mitochondrial Ca2+ uptake provokes increased mitochondrial emission of H2O2 during workload transitions, related to oxidation of NADPH, which is required to regenerate anti-oxidative enzymes. However, in the hearts and cardiac myocytes of mice with a global knock-down of the Taz gene (Taz-KD), no increase in mitochondrial ROS was observed, suggesting that other metabolic pathways may have compensated for reduced Krebs cycle activation. The healthy heart produces most of its energy by consuming fatty acids. In this study, the fatty acid uptake into mitochondria and their further degradation was investigated, which showed a switch of the metabolism in general in the Taz-KD mouse model. In vivo studies revealed an increase of glucose uptake into the heart and decreased fatty acid uptake and oxidation. Disturbed energy conversion resulted in activation of retrograde signaling pathways, implicating overall changes in the cell metabolism. Upregulated integrated stress response (ISR) was confirmed by increased levels of the downstream target, i.e., the activating transcription factor 4 (ATF4). A Tafazzin knockout mouse embryonal fibroblast cell model (TazKO) was used to inhibit the ISR using siRNA transfection or pharmaceutical inhibition. This verified the central role of II the ISR in regulating the metabolism in BTHS. Moreover, an increased metabolic flux into glutathione biosynthesis was observed, which supports redox homeostasis. In vivo PET-CT scans depicted elevated activity of the xCT system in the BTHS mouse heart, which transports essential amino acids for the biosynthesis of glutathione precursors. Furthermore, the stress induced signaling pathway also affected the glutamate metabolism, which fuels into the Krebs cycle via -ketoglutarate and therefore supports energy converting pathways. In summary, this thesis provides novel insights into the energy metabolism and redox homeostasis in Barth syndrome cardiomyopathy and its regulation by the integrated stress response, which plays a central role in the metabolic alterations. The aim of the thesis was to improve the understanding of these metabolic changes and to identify novel targets, which can provide new possibilities for therapeutic intervention in Barth syndrome.},
  subject      = {Herzmuskelkrankheit},
  language  = {en}
}
@phdthesis{WeigelverhHoffmann2024,
  author    = {Weigel [verh. Hoffmann], Mathis Leonard},
  title     = {Thrombozytenfunktionsanalyse als potenzielles Instrument zur Fr{\"u}herkennung von Sepsis},
  doi       = {10.25972/OPUS-35819},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-358193},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Sepsis ist ein h{\"a}ufiges und akut lebensbedrohliches Syndrom, das eine Organfunktionsst{\"o}rung in Folge einer dysregulierten Immunantwort auf eine Infektion beschreibt. Eine fr{\"u}hzeitige Diagnosestellung und Therapieeinleitung sind von zentraler Bedeutung f{\"u}r das {\"U}berleben der Patient:innen. In einer Pilotstudie konnte unsere Forschungsgruppe mittels Durchflusszytometrie eine ausgepr{\"a}gte Hyporeaktivit{\"a}t der Thrombozyten bei Sepsis nachweisen, die einen potenziell neuen Biomarker zur Sepsis-Fr{\"u}herkennung darstellt. Zur Evaluation des Ausmaßes und Entstehungszeitpunktes der detektierten Thrombozytenfunktionsst{\"o}rung wurden im Rahmen der vorliegenden Arbeit zus{\"a}tzlich zu Patient:innen mit Sepsis (SOFA-Score ≥ 2; n=13) auch hospitalisierte Patient:innen mit einer Infektion ohne Sepsis (SOFA-Score < 2; n=12) rekrutiert. Beide Kohorten wurden zu zwei Zeitpunkten (t1: <24h; t2: Tag 5-7) im Krankheitsverlauf mittels Durchflusszytometrie und PFA-200 untersucht und mit einer gesunden Kontrollgruppe (n=28) verglichen. Ph{\"a}notypische Auff{\"a}lligkeiten der Thrombozyten bei Sepsis umfassten: (i) eine ver{\"a}nderte Expression verschiedener Untereinheiten des GPIb-IX-V-Rezeptorkomplexes, die auf ein verst{\"a}rktes Rezeptor-Shedding hindeutet; (ii) ein ausgepr{\"a}gtes Mepacrin-Beladungsdefizit, das auf eine zunehmend reduzierte Anzahl von δ-Granula entlang des Infektion-Sepsis Kontinuums hinweist; (iii) eine Reduktion endst{\"a}ndig gebundener Sialins{\"a}ure im Sinne einer verst{\"a}rkten Desialylierung. Die funktionelle Analyse der Thrombozyten bei Sepsis ergab bei durchflusszytometrischer Messung der Integrin αIIbβ3-Aktivierung (PAC-1-Bindung) eine ausgepr{\"a}gte generalisierte Hyporeaktivit{\"a}t gegen{\"u}ber multiplen Agonisten, die abgeschw{\"a}cht bereits bei Infektion nachweisbar war und gem{\"a}ß ROC-Analysen gut zwischen Infektion und Sepsis diskriminierte (AUC >0.80 f{\"u}r alle Agonisten). Im Gegensatz dazu zeigten Thrombozyten bei Sepsis und Analyse mittels PFA-200 unter Einfluss physiologischer Scherkr{\"a}fte eine normale bis gar beschleunigte Aggregation. Die Reaktivit{\"a}tsmessung von Thrombozyten mittels Durchflusszytometrie stellt weiterhin einen vielversprechenden Biomarker f{\"u}r die Sepsis-Fr{\"u}herkennung dar. F{\"u}r weitere Schlussfolgerungen ist jedoch eine gr{\"o}ßere Kohorte erforderlich. In nachfolgenden Untersuchungen sollten zudem mechanistische Ursachen der beschriebenen ph{\"a}notypischen und funktionellen Auff{\"a}lligkeiten von Thrombozyten bei Infektion und Sepsis z.B. mittels Koinkubationsexperimenten untersucht werden.},
  subject      = {Sepsis},
  language  = {de}
}
@phdthesis{Neagoe2024,
  author    = {Neagoe, Raluca Alexandra Iulia},
  title     = {Development of techniques for studying the platelet glycoprotein receptors GPVI and GPIb localisation and signalling},
  doi       = {10.25972/OPUS-31306},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-313064},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Platelets play an important role in haemostasis by mediating blood clotting at sites of blood vessel damage. Platelets, also participate in pathological conditions including thrombosis and inflammation. Upon vessel damage, two glycoprotein receptors, the GPIb-IX-V complex and GPVI, play important roles in platelet capture and activation. GPIb-IX-V binds to von Willebrand factor and GPVI to collagen. This initiates a signalling cascade resulting in platelet shape change and spreading, which is dependent on the actin cytoskeleton. This thesis aimed to develop and implement different super-resolution microscopy techniques to gain a deeper understanding of the conformation and location of these receptors in the platelet plasma membrane, and to provide insights into their signalling pathways. We suggest direct stochastic optical reconstruction microscopy (dSTORM) and structured illumination microscopy (SIM) as the best candidates for imaging single platelets, whereas expansion microscopy (ExM) is ideal for imaging platelets aggregates. Furthermore, we highlighted the role of the actin cytoskeleton, through Rac in GPVI signalling pathway. Inhibition of Rac, with EHT1864 in human platelets induced GPVI and GPV, but not GPIbα shedding. Furthermore, EHT1864 treatment did not change GPVI dimerisation or clustering, however, it decreased phospholipase Cγ2 phosphorylation levels, in human, but not murine platelets, highlighting interspecies differences. In summary, this PhD thesis demonstrates that; 1) Rac alters GPVI signalling pathway in human but not mouse platelets; 2) our newly developed ExM protocol can be used to image platelet aggregates labelled with F(ab') fragments},
  subject      = {Platelet-Membranglykoprotein p62},
  language  = {en}
}
@misc{Schnermann2024,
  type      = {Master Thesis},
  author    = {Schnermann, Sophia Victoria},
  title     = {The impact of China's e-mobility development on German motor vehicle manufacturers},
  doi       = {10.25972/OPUS-35327},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353276},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Compared to other countries, China was particularly early in developing a comprehensive set of policies to promote electric mobility (e-mobility). The aim of this study is to examine how China's e-mobility development - through changes in formal institutions as well as market forces - has affected German passenger car manufacturers and their competitive environment and positions. The study is guided by two strands of research: new institutional economics and strategic management literature. A holistic multiple-case design is used to analyze five German case study firms. Qualitative interview data are collected through interviews and analyzed using a thematic analysis. The results show that the electric transformation in China has been shaped by changes in formal institutions at the macro, meso, and micro levels. Interestingly, the case study firms were affected not only by changes in China's formal institutions but also by disparities between institutions in China and Europe. Furthermore, the data suggest that German car manufacturers are facing an increasingly competitive environment in China: at least four forces in Porter's five-forces model seem to have intensified in recent years. The extent to which the case study firms have been affected by these developments may depend on the industry segments in which they are positioned. However, it can be argued that the electric transition has blurred the lines between traditional segments of the car industry to some extent. The interview data do not provide evidence that any of the German car brands have substantially changed their positioning, but they do suggest that some of the case study companies did not have an adequate offering for the Chinese market at the time of the interviews. In addition, the study finds that China's transition to e-mobility has led to changes in various parts of the German automakers' value chains, including production, sales, marketing, services, research and development, and procurement. Whether these changes will ultimately result in competitive advantage, parity, or disadvantage remains to be seen.},
  subject      = {Institutionen{\"o}konomie},
  language  = {en}
}
@article{RudnoRudzińskiSyperekAndrezejewskietal.2017,
  author    = {Rudno-Rudziński, W. and Syperek, M. and Andrezejewski, J. and Maryński, A. and Misiewicz, J. and Somers, A. and H{\"o}fling, S. and Reithmaier, J. P. and Sęk, G.},
  title     = {Carrier delocalization in InAs/InGaAlAs/InP quantum-dash-based tunnel injection system for 1.55 μm emission},
  series = {AIP Advances},
  volume    = {7},
  journal   = {AIP Advances},
  number    = {1},
  doi       = {10.1063/1.4975634},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-181787},
  year      = {2017},
  abstract  = {We have investigated optical properties of hybrid two-dimensional-zero-dimensional (2D-0D) tunnel structures containing strongly elongated InAs/InP(001) quantum dots (called quantum dashes), emitting at 1.55 μm. These quantum dashes (QDashes) are separated by a 2.3 nm-width barrier from an InGaAs quantum well (QW), lattice matched to InP. We have tailored quantum-mechanical coupling between the states confined in QDashes and a QW by changing the QW thickness. By combining modulation spectroscopy and photoluminescence excitation, we have determined the energies of all relevant optical transitions in the system and proven the carrier transfer from the QW to the QDashes, which is the fundamental requirement for the tunnel injection scheme. A transformation between 0D and mixed-type 2D-0D character of an electron and a hole confinement in the ground state of the hybrid system have been probed by time-resolved photoluminescence that revealed considerable changes in PL decay time with the QW width changes. The experimental discoveries have been explained by band structure calculations in the framework of the eight-band k·p model showing that they are driven by delocalization of the lowest energy hole state. The hole delocalization process from the 0D QDash confinement is unfavorable for optical devices based on such tunnel injection structures.},
  language  = {en}
}
@article{RiedererterMeulen2020,
  author    = {Riederer, Peter and ter Meulen, Volker},
  title     = {Coronaviruses: a challenge of today and a call for extended human postmortem brain analyses},
  series = {Journal of Neural Transmission},
  volume    = {127},
  journal   = {Journal of Neural Transmission},
  number    = {9},
  issn      = {0300-9564},
  doi       = {10.1007/s00702-020-02230-x},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-314637},
  pages     = {1217-1228},
  year      = {2020},
  abstract  = {While there is abounding literature on virus-induced pathology in general and coronavirus in particular, recent evidence accumulates showing distinct and deleterious brain affection. As the respiratory tract connects to the brain without protection of the blood-brain barrier, SARS-CoV-2 might in the early invasive phase attack the cardiorespiratory centres located in the medulla/pons areas, giving rise to disturbances of respiration and cardiac problems. Furthermore, brainstem regions are at risk to lose their functional integrity. Therefore, long-term neurological as well as psychiatric symptomatology and eventual respective disorders cannot be excluded as evidenced from influenza-A triggered post-encephalitic Parkinsonism and HIV-1 triggered AIDS-dementia complex. From the available evidences for coronavirus-induced brain pathology, this review concludes a number of unmet needs for further research strategies like human postmortem brain analyses. SARS-CoV-2 mirroring experimental animal brain studies, characterization of time-dependent and region-dependent spreading behaviours of coronaviruses, enlightening of pathological mechanisms after coronavirus infection using long-term animal models and clinical observations of patients having had COVID-19 infection are calling to develop both protective strategies and drug discoveries to avoid early and late coronavirus-induced functional brain disturbances, symptoms and eventually disorders. To fight SARS-CoV-2, it is an urgent need to enforce clinical, molecular biological, neurochemical and genetic research including brain-related studies on a worldwide harmonized basis.},
  language  = {en}
}
@article{KuonBlasiUnsoeldetal.2022,
  author    = {Kuon, Jonas and Blasi, Miriam and Uns{\"o}ld, Laura and Vogt, Jeannette and Mehnert, Anja and Alt-Epping, Bernd and Oorschot, Birgitt van and Sistermanns, Jochen and Ahlborn, Miriam and Ritterbusch, Ulrike and Stevens, Susanne and Kahl, Christoph and Ruellan, Anne and Matthias, Kathrin and Kubin, Thomas and Stahlhut, Kerstin and Heider, Andrea and Lordick, Florian and Thomas, Michael},
  title     = {Impact of molecular alterations on quality of life and prognostic understanding over time in patients with incurable lung cancer: a multicenter, longitudinal, prospective cohort study},
  series = {Supportive Care in Cancer},
  volume    = {30},
  journal   = {Supportive Care in Cancer},
  number    = {4},
  organization    = {Arbeitsgemeinschaft Palliativmedizin (APM) of the German Cancer Society (DKG)},
  issn      = {0941-4355},
  doi       = {10.1007/s00520-021-06736-2},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-308211},
  pages     = {3131-3140},
  year      = {2022},
  abstract  = {Purpose The purpose of this study is to investigate changes over time in quality of life (QoL) in incurable lung cancer patients and the impact of determinants like molecular alterations (MA). Methods In a prospective, longitudinal, multicentric study, we assessed QoL, symptom burden, psychological distress, unmet needs, and prognostic understanding of patients diagnosed with incurable lung cancer at the time of the diagnosis (T0) and after 3 (T1), 6 (T2) and 12 months (T3) using validated questionnaires like FACT-L, National Comprehensive Cancer Network (NCCN) Distress Thermometer (DT), PHQ-4, SCNS-SF-34, and SEIQoL. Results Two hundred seventeen patients were enrolled, 22 (10\%) with reported MA. QoL scores improved over time, with a significant trend for DT, PHQ-4, and SCNS-SF-34. Significant determinants for stable or improving scores over time were survival > 6 months, performance status at the time of diagnosis, and presence of MA. Patients with MA showed better QoL scores (FACT-L at T1 104.4 vs 86.3; at T2 107.5 vs 90.0; at T3 100.9 vs 92.8) and lower psychological distress (NCCN DT at T1 3.3 vs 5; at T2 2.7 vs 4.5; at T3 3.7 vs 4.5; PHQ-4 at T1 2.3 vs 4.1; at T2 1.7 vs 3.6; at T3 2.2 vs 3.6), but also a worsening of the scores at 1 year and a higher percentage of inaccurate prognostic understanding (27 vs 17\%) compared to patients without MA. Conclusion Patients with tumors harboring MA are at risk of QoL deterioration during the course of the disease. Physicians should adapt their communication strategies in order to maintain or improve QoL.},
  language  = {en}
}
@article{LawitschkaBrunmairBaueretal.2021,
  author    = {Lawitschka, Anita and Brunmair, Matthias and Bauer, Dorothea and Zubarovskaya, Natalia and Felder-Puig, Rosemarie and Strahm, Brigitte and Bader, Peter and Strauss, Gabriele and Albert, Michael and Luettichau, Irene von and Greinix, Hildegard and Wolff, Daniel and Peters, Christina},
  title     = {Psychometric properties of the Activities Scale for Kids-performance after allogeneic hematopoietic stem cell transplantation in adolescents and children},
  series = {Wiener klinische Wochenschrift},
  volume    = {133},
  journal   = {Wiener klinische Wochenschrift},
  number    = {1-2},
  doi       = {10.1007/s00508-020-01641-w},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-281100},
  pages     = {41-51},
  year      = {2021},
  abstract  = {Background The psychometric properties of an instrument, the Activity Scale for Kids-performance (ASKp), were assessed which was proposed to capture physical functioning after allogeneic hematopoietic stem cell transplantation (HSCT). Additionally, this multicenter observational prospective study investigated the influence of clinical correlates focusing on chronic graft-versus-host disease (cGVHD). Methods Patient-reported ASKp, clinician-reported Karnofsky/Lansky status (KPS/PSS), patient characteristics and cGVHD details were assessed of 55 patients with a median age of 12 years at baseline after day +100 post-HSCT and every 3 months during the next 18 months. The psychometric properties were evaluated and ASKp and KPS/PSS status was compared using ANOVAS and multiple regression models. Results The German version of the ASKp showed good psychometric properties except for ceiling effects. Discrimination ability of the ASKp was good regarding the need for devices but failed to predict cGVHD patients. Both the ASKp and the KPS/PSS were associated with patients after adoptive cell therapy being in need for devices, suffering from overlap cGVHD and from steroid side effects but not with patients' age and gender. In contrast to the KPS/PSS the ASKp only showed significant differences after merging moderate and severe cGHVD patients when comparing them to No-cGVHD (F = 4.050; p = 0.049), being outperformed by the KPS/PSS (F = 20.082; p < 0.001). Conclusion The ASKp showed no clear advantages compared to KPS/PSS even though economical and patients' effort was higher. Further application range may be limited through ceiling effects. Both should be taken into consideration. Therefore, the results may not support the usage of ASKp after HSCT and rather suggest KPS/PSS, both patient and clinician reported.},
  language  = {en}
}
@article{DashkovskiyKapustyanSchmid2020,
  author    = {Dashkovskiy, Sergey and Kapustyan, Oleksiy and Schmid, Jochen},
  title     = {A local input-to-state stability result w.r.t. attractors of nonlinear reaction-diffusion equations},
  series = {Mathematics of Control, Signals, and Systems},
  volume    = {32},
  journal   = {Mathematics of Control, Signals, and Systems},
  number    = {3},
  doi       = {10.1007/s00498-020-00256-w},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-281099},
  pages     = {309-326},
  year      = {2020},
  abstract  = {We establish the local input-to-state stability of a large class of disturbed nonlinear reaction-diffusion equations w.r.t. the global attractor of the respective undisturbed system.},
  language  = {en}
}
@article{DorjiSchuldtNeudametal.2021,
  author    = {Dorji, Yonten and Schuldt, Bernhard and Neudam, Liane and Dorji, Rinzin and Middleby, Kali and Isasa, Emilie and K{\"o}rber, Klaus and Ammer, Christian and Annigh{\"o}fer, Peter and Seidel, Dominik},
  title     = {Three-dimensional quantification of tree architecture from mobile laser scanning and geometry analysis},
  series = {Trees},
  volume    = {35},
  journal   = {Trees},
  number    = {4},
  issn      = {0931-1890},
  doi       = {10.1007/s00468-021-02124-9},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307501},
  pages     = {1385-1398},
  year      = {2021},
  abstract  = {Key message Mobile laser scanning and geometrical analysis revealed relationships between tree geometry and seed dispersal mechanism, latitude of origin, as well as growth. Abstract The structure and dynamics of a forest are defined by the architecture and growth patterns of its individual trees. In turn, tree architecture and growth result from the interplay between the genetic building plans and environmental factors. We set out to investigate whether (1) latitudinal adaptations of the crown shape occur due to characteristic solar elevation angles at a species' origin, (2) architectural differences in trees are related to seed dispersal strategies, and (3) tree architecture relates to tree growth performance. We used mobile laser scanning (MLS) to scan 473 trees and generated three-dimensional data of each tree. Tree architectural complexity was then characterized by fractal analysis using the box-dimension approach along with a topological measure of the top heaviness of a tree. The tree species studied originated from various latitudinal ranges, but were grown in the same environmental settings in the arboretum. We found that trees originating from higher latitudes had significantly less top-heavy geometries than those from lower latitudes. Therefore, to a certain degree, the crown shape of tree species seems to be determined by their original habitat. We also found that tree species with wind-dispersed seeds had a higher structural complexity than those with animal-dispersed seeds (p < 0.001). Furthermore, tree architectural complexity was positively related to the growth performance of the trees (p < 0.001). We conclude that the use of 3D data from MLS in combination with geometrical analysis, including fractal analysis, is a promising tool to investigate tree architecture.},
  language  = {en}
}
@article{BernhardKrumpholzKriegeretal.2022,
  author    = {Bernhard, Lukas and Krumpholz, Roman and Krieger, Yannick and Czempiel, Tobias and Meining, Alexander and Navab, Nassir and L{\"u}th, Tim and Wilhelm, Dirk},
  title     = {PLAFOKON: a new concept for a patient-individual and intervention-specific flexible surgical platform},
  series = {Surgical Endoscopy},
  volume    = {36},
  journal   = {Surgical Endoscopy},
  number    = {7},
  issn      = {0930-2794},
  doi       = {10.1007/s00464-021-08908-x},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307490},
  pages     = {5303-5312},
  year      = {2022},
  abstract  = {Background Research in the field of surgery is mainly driven by aiming for trauma reduction as well as for personalized treatment concepts. Beyond laparoscopy, other proposed approaches for further reduction of the therapeutic trauma have failed to achieve clinical translation, with few notable exceptions. We believe that this is mainly due to a lack of flexibility and high associated costs. We aimed at addressing these issues by developing a novel minimally invasive operating platform and a preoperative design workflow for patient-individual adaptation and cost-effective rapid manufacturing of surgical manipulators. In this article, we report on the first in-vitro cholecystectomy performed with our operating platform. Methods The single-port overtube (SPOT) is a snake-like surgical manipulator for minimally invasive interventions. The system layout is highly flexible and can be adapted in design and dimensions for different kinds of surgery, based on patient- and disease-specific parameters. For collecting and analyzing this data, we developed a graphical user interface, which assists clinicians during the preoperative planning phase. Other major components of our operating platform include an instrument management system and a non-sterile user interface. For the trial surgery, we used a validated phantom which was further equipped with a porcine liver including the gallbladder. Results Following our envisioned preoperative design workflow, a suitable geometry of the surgical manipulator was determined for our trial surgery and rapidly manufactured by means of 3D printing. With this setup, we successfully performed a first in-vitro cholecystectomy, which was completed in 78 min. Conclusions By conducting the trial surgery, we demonstrated the effectiveness of our PLAFOKON operating platform. While some aspects - especially regarding usability and ergonomics - can be further optimized, the overall performance of the system is highly promising, with sufficient flexibility and strength for conducting the necessary tissue manipulations.},
  language  = {en}
}
@article{GhirardoNosenkoKreuzwieseretal.2021,
  author    = {Ghirardo, Andrea and Nosenko, Tetyana and Kreuzwieser, J{\"u}rgen and Winkler, J. Barbro and Kruse, J{\"o}rg and Albert, Andreas and Merl-Pham, Juliane and Lux, Thomas and Ache, Peter and Zimmer, Ina and Alfarraj, Saleh and Mayer, Klaus F. X. and Hedrich, Rainer and Rennenberg, Heinz and Schnitzler, J{\"o}rg-Peter},
  title     = {Protein expression plasticity contributes to heat and drought tolerance of date palm},
  series = {Oecologia},
  volume    = {197},
  journal   = {Oecologia},
  number    = {4},
  issn      = {0029-8549},
  doi       = {10.1007/s00442-021-04907-w},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-308075},
  pages     = {903-919},
  year      = {2021},
  abstract  = {Climate change is increasing the frequency and intensity of warming and drought periods around the globe, currently representing a threat to many plant species. Understanding the resistance and resilience of plants to climate change is, therefore, urgently needed. As date palm (Phoenix dactylifera) evolved adaptation mechanisms to a xeric environment and can tolerate large diurnal and seasonal temperature fluctuations, we studied the protein expression changes in leaves, volatile organic compound emissions, and photosynthesis in response to variable growth temperatures and soil water deprivation. Plants were grown under controlled environmental conditions of simulated Saudi Arabian summer and winter climates challenged with drought stress. We show that date palm is able to counteract the harsh conditions of the Arabian Peninsula by adjusting the abundances of proteins related to the photosynthetic machinery, abiotic stress and secondary metabolism. Under summer climate and water deprivation, these adjustments included efficient protein expression response mediated by heat shock proteins and the antioxidant system to counteract reactive oxygen species formation. Proteins related to secondary metabolism were downregulated, except for the P. dactylifera isoprene synthase (PdIspS), which was strongly upregulated in response to summer climate and drought. This study reports, for the first time, the identification and functional characterization of the gene encoding for PdIspS, allowing future analysis of isoprene functions in date palm under extreme environments. Overall, the current study shows that reprogramming of the leaf protein profiles confers the date palm heat- and drought tolerance. We conclude that the protein plasticity of date palm is an important mechanism of molecular adaptation to environmental fluctuations.},
  language  = {en}
}
@article{Geiger2020,
  author    = {Geiger, Dietmar},
  title     = {Plant glucose transporter structure and function},
  series = {Pfl{\"u}gers Archiv - European Journal of Physiology},
  volume    = {472},
  journal   = {Pfl{\"u}gers Archiv - European Journal of Physiology},
  number    = {9},
  doi       = {10.1007/s00424-020-02449-3},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-280643},
  pages     = {1111-1128},
  year      = {2020},
  abstract  = {The carbohydrate D-glucose is the main source of energy in living organisms. In contrast to animals, as well as most fungi, bacteria, and archaea, plants are capable to synthesize a surplus of sugars characterizing them as autothrophic organisms. Thus, plants are de facto the source of all food on earth, either directly or indirectly via feed to livestock. Glucose is stored as polymeric glucan, in animals as glycogen and in plants as starch. Despite serving a general source for metabolic energy and energy storage, glucose is the main building block for cellulose synthesis and represents the metabolic starting point of carboxylate- and amino acid synthesis. Finally yet importantly, glucose functions as signalling molecule conveying the plant metabolic status for adjustment of growth, development, and survival. Therefore, cell-to-cell and long-distance transport of photoassimilates/sugars throughout the plant body require the fine-tuned activity of sugar transporters facilitating the transport across membranes. The functional plant counterparts of the animal sodium/glucose transporters (SGLTs) are represented by the proton-coupled sugar transport proteins (STPs) of the plant monosaccharide transporter(-like) family (MST). In the framework of this special issue on "Glucose Transporters in Health and Disease," this review gives an overview of the function and structure of plant STPs in comparison to the respective knowledge obtained with the animal Na+-coupled glucose transporters (SGLTs).},
  language  = {en}
}
@article{GrosseRueckriegelThomaleetal.2021,
  author    = {Grosse, Frederik and Rueckriegel, Stefan Mark and Thomale, Ulrich-Wilhelm and Hern{\´a}iz Driever, Pablo},
  title     = {Mapping of long-term cognitive and motor deficits in pediatric cerebellar brain tumor survivors into a cerebellar white matter atlas},
  series = {Child's Nervous System},
  volume    = {37},
  journal   = {Child's Nervous System},
  number    = {9},
  issn      = {0256-7040},
  doi       = {10.1007/s00381-021-05244-2},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307416},
  pages     = {2787-2797},
  year      = {2021},
  abstract  = {Purpose Diaschisis of cerebrocerebellar loops contributes to cognitive and motor deficits in pediatric cerebellar brain tumor survivors. We used a cerebellar white matter atlas and hypothesized that lesion symptom mapping may reveal the critical lesions of cerebellar tracts. Methods We examined 31 long-term survivors of pediatric posterior fossa tumors (13 pilocytic astrocytoma, 18 medulloblastoma). Patients underwent neuronal imaging, examination for ataxia, fine motor and cognitive function, planning abilities, and executive function. Individual consolidated cerebellar lesions were drawn manually onto patients' individual MRI and normalized into Montreal Neurologic Institute (MNI) space for further analysis with voxel-based lesion symptom mapping. Results Lesion symptom mapping linked deficits of motor function to the superior cerebellar peduncle (SCP), deep cerebellar nuclei (interposed nucleus (IN), fastigial nucleus (FN), ventromedial dentate nucleus (DN)), and inferior vermis (VIIIa, VIIIb, IX, X). Statistical maps of deficits of intelligence and executive function mapped with minor variations to the same cerebellar structures. Conclusion We identified lesions to the SCP next to deep cerebellar nuclei as critical for limiting both motor and cognitive function in pediatric cerebellar tumor survivors. Future strategies safeguarding motor and cognitive function will have to identify patients preoperatively at risk for damage to these critical structures and adapt multimodal therapeutic options accordingly.},
  language  = {en}
}
@article{BrenzingerCostaHoetal.2021,
  author    = {Brenzinger, Kristof and Costa, Ohana Y. A. and Ho, Adrian and Koorneef, Guusje and Robroek, Bjorn and Molenaar, Douwe and Korthals, Gerard and Bodelier, Paul L. E.},
  title     = {Steering microbiomes by organic amendments towards climate-smart agricultural soils},
  series = {Biology and Fertility of Soils},
  volume    = {57},
  journal   = {Biology and Fertility of Soils},
  number    = {8},
  doi       = {10.1007/s00374-021-01599-5},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-326930},
  pages     = {1053-1074},
  year      = {2021},
  abstract  = {We steered the soil microbiome via applications of organic residues (mix of cover crop residues, sewage sludge + compost, and digestate + compost) to enhance multiple ecosystem services in line with climate-smart agriculture. Our result highlights the potential to reduce greenhouse gases (GHG) emissions from agricultural soils by the application of specific organic amendments (especially digestate + compost). Unexpectedly, also the addition of mineral fertilizer in our mesocosms led to similar combined GHG emissions than one of the specific organic amendments. However, the application of organic amendments has the potential to increase soil C, which is not the case when using mineral fertilizer. While GHG emissions from cover crop residues were significantly higher compared to mineral fertilizer and the other organic amendments, crop growth was promoted. Furthermore, all organic amendments induced a shift in the diversity and abundances of key microbial groups. We show that organic amendments have the potential to not only lower GHG emissions by modifying the microbial community abundance and composition, but also favour crop growth-promoting microorganisms. This modulation of the microbial community by organic amendments bears the potential to turn soils into more climate-smart soils in comparison to the more conventional use of mineral fertilizers.},
  language  = {en}
}
@article{D'AndreaSoriaGrotenhuisetal.2021,
  author    = {D'Andrea, David and Soria, Francesco and Grotenhuis, Anne J. and Cha, Eugene K. and Malats, Nuria and Di Stasi, Savino and Joniau, Steven and Cai, Tommaso and Rhijn, Bas W. G. van and Irani, Jaques and Karnes, Jeffrey and Varkarakis, John and Baniel, Jack and Palou, Joan and Babjuk, Marek and Spahn, Martin and Ardelt, Peter and Colombo, Renzo and Serretta, Vincenzo and Dalbagni, Guido and Gontero, Paolo and Bartoletti, Riccardo and Larr{\´e}, Stephane and Malmstrom, Per-Uno and Sylvester, Richard and Shariat, Shahrokh F.},
  title     = {Association of patients' sex with treatment outcomes after intravesical bacillus Calmette-Gu{\´e}rin immunotherapy for T1G3/HG bladder cancer},
  series = {World Journal of Urology},
  volume    = {39},
  journal   = {World Journal of Urology},
  number    = {9},
  doi       = {10.1007/s00345-021-03653-1},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-344486},
  pages     = {3337-3344},
  year      = {2021},
  abstract  = {Purpose To investigate the association of patients' sex with recurrence and disease progression in patients treated with intravesical bacillus Calmette-Gu{\´e}rin (BCG) for T1G3/HG urinary bladder cancer (UBC). Materials and methods We analyzed the data of 2635 patients treated with adjuvant intravesical BCG for T1 UBC between 1984 and 2019. We accounted for missing data using multiple imputations and adjusted for covariate imbalance between males and females using inverse probability weighting (IPW). Crude and IPW-adjusted Cox regression analyses were used to estimate the hazard ratios (HR) with their 95\% confidence intervals (CI) for the association of patients' sex with HG-recurrence and disease progression. Results A total of 2170 (82\%) males and 465 (18\%) females were available for analysis. Overall, 1090 (50\%) males and 244 (52\%) females experienced recurrence, and 391 (18\%) males and 104 (22\%) females experienced disease progression. On IPW-adjusted Cox regression analyses, female sex was associated with disease progression (HR 1.25, 95\%CI 1.01-1.56, p = 0.04) but not with recurrence (HR 1.06, 95\%CI 0.92-1.22, p = 0.41). A total of 1056 patients were treated with adequate BCG. In these patients, on IPW-adjusted Cox regression analyses, patients' sex was not associated with recurrence (HR 0.99, 95\%CI 0.80-1.24, p = 0.96), HG-recurrence (HR 1.00, 95\%CI 0.78-1.29, p = 0.99) or disease progression (HR 1.12, 95\%CI 0.78-1.60, p = 0.55). Conclusion Our analysis generates the hypothesis of a differential response to BCG between males and females if not adequately treated. Further studies should focus on sex-based differences in innate and adaptive immune system and their association with BCG response.},
  language  = {en}
}
@article{LinzBrandsKertelsetal.2021,
  author    = {Linz, Christian and Brands, Roman C. and Kertels, Olivia and Dierks, Alexander and Brumberg, Joachim and Gerhard-Hartmann, Elena and Hartmann, Stefan and Schirbel, Andreas and Serfling, Sebastian and Zhi, Yingjun and Buck, Andreas K. and K{\"u}bler, Alexander and Hohm, Julian and Lapa, Constantin and Kircher, Malte},
  title     = {Targeting fibroblast activation protein in newly diagnosed squamous cell carcinoma of the oral cavity - initial experience and comparison to [\(^{18}\)F]FDG PET/CT and MRI},
  series = {European Journal of Nuclear Medicine and Molecular Imaging},
  volume    = {48},
  journal   = {European Journal of Nuclear Medicine and Molecular Imaging},
  number    = {12},
  issn      = {1619-7070},
  doi       = {10.1007/s00259-021-05422-z},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307246},
  pages     = {3951-3960},
  year      = {2021},
  abstract  = {Purpose While [\(^{18}\)F]-fluorodeoxyglucose ([\(^{18}\)F]FDG) is the standard for positron emission tomography/computed tomography (PET/CT) imaging of oral squamous cell carcinoma (OSCC), diagnostic specificity is hampered by uptake in inflammatory cells such as neutrophils or macrophages. Recently, molecular imaging probes targeting fibroblast activation protein α (FAP), which is overexpressed in a variety of cancer-associated fibroblasts, have become available and might constitute a feasible alternative to FDG PET/CT. Methods Ten consecutive, treatment-na{\"i}ve patients (8 males, 2 females; mean age, 62 ± 9 years) with biopsy-proven OSCC underwent both whole-body [\(^{18}\)F]FDG and [\(^{68}\)Ga]FAPI-04 (FAP-directed) PET/CT for primary staging prior to tumor resection and cervical lymph node dissection. Detection of the primary tumor, as well as the presence and number of lymph node and distant metastases was analysed. Intensity of tracer accumulation was assessed by means of maximum (SUV\(_{max}\)) and peak (SUV\(_{peak}\) standardized uptake values. Histological work-up including immunohistochemical staining for FAP served as standard of reference. Results [\(^{18}\)F]FDG and FAP-directed PET/CT detected all primary tumors with a SUVmax of 25.5 ± 13.2 (FDG) and 20.5 ± 6.4 (FAP-directed) and a SUVpeak of 16.1 ± 10.3 ([\(^{18}\)F]FDG) and 13.8 ± 3.9 (FAP-directed), respectively. Regarding cervical lymph node metastases, FAP-directed PET/CT demonstrated comparable sensitivity (81.3\% vs. 87.5\%; P = 0.32) and specificity (93.3\% vs. 81.3\%; P = 0.16) to [\(^{18}\)F]FDG PET/CT. FAP expression on the cell surface of cancer-associated fibroblasts in both primary lesions as well as lymph nodes metastases was confirmed in all samples. Conclusion FAP-directed PET/CT in OSCC seems feasible. Future research to investigate its potential to improve patient staging is highly warranted.},
  language  = {en}
}
@article{HossfeldHeegaardKellerer2023,
  author    = {Hossfeld, Tobias and Heegaard, Poul E. and Kellerer, Wolfgang},
  title     = {Comparing the scalability of communication networks and systems},
  series = {IEEE Access},
  volume    = {11},
  journal   = {IEEE Access},
  doi       = {10.1109/ACCESS.2023.3314201},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-349403},
  pages     = {101474-101497},
  year      = {2023},
  abstract  = {Scalability is often mentioned in literature, but a stringent definition is missing. In particular, there is no general scalability assessment which clearly indicates whether a system scales or not or whether a system scales better than another. The key contribution of this article is the definition of a scalability index (SI) which quantifies if a system scales in comparison to another system, a hypothetical system, e.g., linear system, or the theoretically optimal system. The suggested SI generalizes different metrics from literature, which are specialized cases of our SI. The primary target of our scalability framework is, however, benchmarking of two systems, which does not require any reference system. The SI is demonstrated and evaluated for different use cases, that are (1) the performance of an IoT load balancer depending on the system load, (2) the availability of a communication system depending on the size and structure of the network, (3) scalability comparison of different location selection mechanisms in fog computing with respect to delays and energy consumption; (4) comparison of time-sensitive networking (TSN) mechanisms in terms of efficiency and utilization. Finally, we discuss how to use and how not to use the SI and give recommendations and guidelines in practice. To the best of our knowledge, this is the first work which provides a general SI for the comparison and benchmarking of systems, which is the primary target of our scalability analysis.},
  language  = {en}
}
@article{GieselKratochwilSchlittenhardtetal.2021,
  author    = {Giesel, Frederik L. and Kratochwil, Clemens and Schlittenhardt, Joel and Dendl, Katharina and Eiber, Matthias and Staudinger, Fabian and Kessler, Lukas and Fendler, Wolfgang P. and Lindner, Thomas and Koerber, Stefan A. and Cardinale, Jens and Sennung, David and Roehrich, Manuel and Debus, Juergen and Sathekge, Mike and Haberkorn, Uwe and Calais, Jeremie and Serfling, Sebastian and Buck, Andreas L.},
  title     = {Head-to-head intra-individual comparison of biodistribution and tumor uptake of \(^{68}\)Ga-FAPI and \(^{18}\)F-FDG PET/CT in cancer patients},
  series = {European Journal of Nuclear Medicine and Molecular Imaging},
  volume    = {48},
  journal   = {European Journal of Nuclear Medicine and Molecular Imaging},
  number    = {13},
  issn      = {1619-7070},
  doi       = {10.1007/s00259-021-05307-1},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307252},
  pages     = {4377-4385},
  year      = {2021},
  abstract  = {Purpose FAPI ligands (fibroblast activation protein inhibitor), a novel class of radiotracers for PET/CT imaging, demonstrated in previous studies rapid and high tumor uptake. The purpose of this study is the head-to-head intra-individual comparison of \(^{68}\)Ga-FAPI versus standard-of-care \(^{18}\)F-FDG in PET/CT in organ biodistribution and tumor uptake in patients with various cancers. Material and Methods This international retrospective multicenter analysis included PET/CT data from 71 patients from 6 centers who underwent both \(^{68}\)Ga-FAPI and \(^{18}\)F-FDG PET/CT within a median time interval of 10 days (range 1-89 days). Volumes of interest (VOIs) were manually drawn in normal organs and tumor lesions to quantify tracer uptake by SUVmax and SUVmean. Furthermore, tumor-to-background ratios (TBR) were generated (SUVmax tumor/ SUVmax organ). Results A total of 71 patients were studied of, which 28 were female and 43 male (median age 60). In 41 of 71 patients, the primary tumor was present. Forty-three of 71 patients exhibited 162 metastatic lesions. \(^{68}\)Ga-FAPI uptake in primary tumors and metastases was comparable to 18F-FDG in most cases. The SUVmax was significantly lower for \(^{68}\)Ga-FAPI than \(^{18}\)F-FDG in background tissues such as the brain, oral mucosa, myocardium, blood pool, liver, pancreas, and colon. Thus, \(^{68}\)Ga-FAPI TBRs were significantly higher than 18F-FDG TBRs in some sites, including liver and bone metastases. Conclusion Quantitative tumor uptake is comparable between \(^{68}\)Ga-FAPI and \(^{18}\)F-FDG, but lower background uptake in most normal organs results in equal or higher TBRs for \(^{68}\)Ga-FAPI. Thus, \(^{68}\)Ga-FAPI PET/CT may yield improved diagnostic information in various cancers and especially in tumor locations with high physiological \(^{18}\)F-FDG uptake.},
  language  = {en}
}
@article{PennigHoyerKrauskopfetal.2021,
  author    = {Pennig, Lenhard and Hoyer, Ulrike Cornelia Isabel and Krauskopf, Alexandra and Shahzad, Rahil and J{\"u}nger, Stephanie T. and Thiele, Frank and Laukamp, Kai Roman and Grunz, Jan-Peter and Perkuhn, Michael and Schlamann, Marc and Kabbasch, Christoph and Borggrefe, Jan and Goertz, Lukas},
  title     = {Deep learning assistance increases the detection sensitivity of radiologists for secondary intracranial aneurysms in subarachnoid hemorrhage},
  series = {Neuroradiology},
  volume    = {63},
  journal   = {Neuroradiology},
  number    = {12},
  issn      = {0028-3940},
  doi       = {10.1007/s00234-021-02697-9},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-308117},
  pages     = {1985-1994},
  year      = {2021},
  abstract  = {Purpose To evaluate whether a deep learning model (DLM) could increase the detection sensitivity of radiologists for intracranial aneurysms on CT angiography (CTA) in aneurysmal subarachnoid hemorrhage (aSAH). Methods Three different DLMs were trained on CTA datasets of 68 aSAH patients with 79 aneurysms with their outputs being combined applying ensemble learning (DLM-Ens). The DLM-Ens was evaluated on an independent test set of 104 aSAH patients with 126 aneuryms (mean volume 129.2 ± 185.4 mm3, 13.0\% at the posterior circulation), which were determined by two radiologists and one neurosurgeon in consensus using CTA and digital subtraction angiography scans. CTA scans of the test set were then presented to three blinded radiologists (reader 1: 13, reader 2: 4, and reader 3: 3 years of experience in diagnostic neuroradiology), who assessed them individually for aneurysms. Detection sensitivities for aneurysms of the readers with and without the assistance of the DLM were compared. Results In the test set, the detection sensitivity of the DLM-Ens (85.7\%) was comparable to the radiologists (reader 1: 91.2\%, reader 2: 86.5\%, and reader 3: 86.5\%; Fleiss κ of 0.502). DLM-assistance significantly increased the detection sensitivity (reader 1: 97.6\%, reader 2: 97.6\%,and reader 3: 96.0\%; overall P=.024; Fleiss κ of 0.878), especially for secondary aneurysms (88.2\% of the additional aneurysms provided by the DLM). Conclusion Deep learning significantly improved the detection sensitivity of radiologists for aneurysms in aSAH, especially for secondary aneurysms. It therefore represents a valuable adjunct for physicians to establish an accurate diagnosis in order to optimize patient treatment.},
  language  = {en}
}
@article{FeketeEgbertsPreissleretal.2021,
  author    = {Fekete, Stefanie and Egberts, K. and Preissler, T. and Wewetzer, C. and Mehler-Wex, C. and Romanos, M. and Gerlach, M.},
  title     = {Estimation of a preliminary therapeutic reference range for children and adolescents with tic disorders treated with tiapride},
  series = {European Journal of Clinical Pharmacology},
  volume    = {77},
  journal   = {European Journal of Clinical Pharmacology},
  number    = {2},
  doi       = {10.1007/s00228-020-03000-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-279893},
  pages     = {163-170},
  year      = {2021},
  abstract  = {Purpose Tiapride is commonly used in Europe for the treatment of tics. The aim of this study was to examine the relationship between dose and serum concentrations of tiapride and potential influential pharmacokinetic factors in children and adolescents. In addition, a preliminary therapeutic reference range for children and adolescents with tics treated with tiapride was calculated. Methods Children and adolescents treated with tiapride at three university hospitals and two departments of child and adolescents psychiatry in Germany and Austria were included in the study. Patient characteristics, doses, serum concentrations, and therapeutic outcome were assessed during clinical routine care using standardised measures. Results In the 49 paediatric patients (83.7\% male, mean age = 12.5 years), a positive correlation was found between tiapride dose (median 6.9 mg/kg, range 0.97-19.35) and serum concentration with marked inter-individual variability. The variation in dose explained 57\% of the inter-patient variability in tiapride serum concentrations; age, gender, and concomitant medication did not contribute to the variability. The symptoms improved in 83.3\% of the patients. 27.1\% of the patients had mild or moderate ADRs. No patient suffered from severe ADRs. Conclusions This study shows that tiapride treatment was effective and safe in most patients with tics. Compared with the therapeutic concentration range established for adults with Chorea Huntington, our data hinted at a lower lower limit (560 ng/ml) and similar upper limit (2000 ng/ml).},
  language  = {en}
}
@article{BarileBerryBlaauboeretal.2021,
  author    = {Barile, Frank A. and Berry, Colin and Blaauboer, Bas and Boobis, Alan and Bolt, Herrmann M. and Borgert, Christopher and Dekant, Wolfgang and Dietrich, Daniel and Domingo, Jose L. and Galli, Corrado L. and Gori, Gio Batta and Greim, Helmut and Hengstler, Jan G. and Heslop-Harrison, Pat and Kacew, Sam and Marquardt, Hans and Mally, Angela and Pelkonen, Olavi and Savolainen, Kai and Testai, Emanuela and Tsatsakis, Aristides and Vermeulen, Nico P.},
  title     = {The EU chemicals strategy for sustainability: in support of the BfR position},
  series = {Archives of Toxicology},
  volume    = {95},
  journal   = {Archives of Toxicology},
  number    = {9},
  issn      = {0340-5761},
  doi       = {10.1007/s00204-021-03125-w},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307154},
  pages     = {3133-3136},
  year      = {2021},
  abstract  = {The EU chemicals strategy for sustainability (CSS) asserts that both human health and the environment are presently threatened and that further regulation is necessary. In a recent Guest Editorial, members of the German competent authority for risk assessment, the BfR, raised concerns about the scientific justification for this strategy. The complexity and interdependence of the networks of regulation of chemical substances have ensured that public health and wellbeing in the EU have continuously improved. A continuous process of improvement in consumer protection is clearly desirable but any initiative directed towards this objective must be based on scientific knowledge. It must not confound risk with other factors in determining policy. This conclusion is fully supported in the present Commentary including the request to improve both, data collection and the time-consuming and bureaucratic procedures that delay the publication of regulations.},
  language  = {en}
}
@article{GuthHueserRothetal.2021,
  author    = {Guth, Sabine and H{\"u}ser, Stephanie and Roth, Angelika and Degen, Gisela and Diel, Patrick and Edlund, Karolina and Eisenbrand, Gerhard and Engel, Karl-Heinz and Epe, Bernd and Grune, Tilman and Heinz, Volker and Henle, Thomas and Humpf, Hans-Ulrich and J{\"a}ger, Henry and Joost, Hans-Georg and Kulling, Sabine E. and Lampen, Alfonso and Mally, Angela and Marchan, Rosemarie and Marko, Doris and M{\"u}hle, Eva and Nitsche, Michael A. and R{\"o}hrdanz, Elke and Stadler, Richard and van Thriel, Christoph and Vieths, Stefan and Vogel, Rudi F. and Wascher, Edmund and Watzl, Carsten and N{\"o}thlings, Ute and Hengstler, Jan G.},
  title     = {Contribution to the ongoing discussion on fluoride toxicity},
  series = {Archives of Toxicology},
  volume    = {95},
  journal   = {Archives of Toxicology},
  number    = {7},
  issn      = {0340-5761},
  doi       = {10.1007/s00204-021-03072-6},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307161},
  pages     = {2571-2587},
  year      = {2021},
  abstract  = {Since the addition of fluoride to drinking water in the 1940s, there have been frequent and sometimes heated discussions regarding its benefits and risks. In a recently published review, we addressed the question if current exposure levels in Europe represent a risk to human health. This review was discussed in an editorial asking why we did not calculate benchmark doses (BMD) of fluoride neurotoxicity for humans. Here, we address the question, why it is problematic to calculate BMDs based on the currently available data. Briefly, the conclusions of the available studies are not homogeneous, reporting negative as well as positive results; moreover, the positive studies lack control of confounding factors such as the influence of well-known neurotoxicants. We also discuss the limitations of several further epidemiological studies that did not meet the inclusion criteria of our review. Finally, it is important to not only focus on epidemiological studies. Rather, risk analysis should consider all available data, including epidemiological, animal, as well as in vitro studies. Despite remaining uncertainties, the totality of evidence does not support the notion that fluoride should be considered a human developmental neurotoxicant at current exposure levels in European countries.},
  language  = {en}
}
@article{RyczkoMisiewiczHoflingetal.2017,
  author    = {Ryczko, K. and Misiewicz, J. and Hofling, S. and Kamp, M. and Sęk, G.},
  title     = {Optimizing the active region of interband cascade lasers for passive mode-locking},
  series = {AIP Advances},
  volume    = {7},
  journal   = {AIP Advances},
  number    = {1},
  doi       = {10.1063/1.4973937},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-181790},
  year      = {2017},
  abstract  = {The work proposes possible designs of active regions for a mode-locked interband cascade laser emitting in the mid infrared. For that purpose we investigated the electronic structure properties of respectively modified GaSb-based type II W-shaped quantum wells, including the effect of external bias in order to simultaneously fulfil the requirements for both the absorber as well as the gain sections of a device. The results show that introducing multiple InAs layers in type II InAs/GaInSb quantum wells or introducing a tensely-strained GaAsSb layer into "W-shaped" type II QWs offers significant difference in optical transitions' oscillator strengths (characteristic lifetimes) of the two oppositely polarized parts of such a laser, being promising for utilization in mode-locked devices.},
  language  = {en}
}
@article{ChumduriTurco2021,
  author    = {Chumduri, Cindrilla and Turco, Margherita Y.},
  title     = {Organoids of the female reproductive tract},
  series = {Journal of Molecular Medicine},
  volume    = {99},
  journal   = {Journal of Molecular Medicine},
  number    = {4},
  doi       = {10.1007/s00109-020-02028-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-328374},
  pages     = {531-553},
  year      = {2021},
  abstract  = {Healthy functioning of the female reproductive tract (FRT) depends on balanced and dynamic regulation by hormones during the menstrual cycle, pregnancy and childbirth. The mucosal epithelial lining of different regions of the FRT—ovaries, fallopian tubes, uterus, cervix and vagina—facilitates the selective transport of gametes and successful transfer of the zygote to the uterus where it implants and pregnancy takes place. It also prevents pathogen entry. Recent developments in three-dimensional (3D) organoid systems from the FRT now provide crucial experimental models that recapitulate the cellular heterogeneity and physiological, anatomical and functional properties of the organ in vitro. In this review, we summarise the state of the art on organoids generated from different regions of the FRT. We discuss the potential applications of these powerful in vitro models to study normal physiology, fertility, infections, diseases, drug discovery and personalised medicine.},
  language  = {en}
}
@article{DietzschBraesigkSeideletal.2022,
  author    = {Dietzsch, Stefan and Braesigk, Annett and Seidel, Clemens and Remmele, Julia and Kitzing, Ralf and Schlender, Tina and Mynarek, Martin and Geismar, Dirk and Jablonska, Karolina and Schwarz, Rudolf and Pazos, Montserrat and Weber, Damien C. and Frick, Silke and Gurtner, Kristin and Matuschek, Christiane and Harrabi, Semi Ben and Gl{\"u}ck, Albrecht and Lewitzki, Victor and Dieckmann, Karin and Benesch, Martin and Gerber, Nicolas U. and Obrecht, Denise and Rutkowski, Stefan and Timmermann, Beate and Kortmann, Rolf-Dieter},
  title     = {Types of deviation and review criteria in pretreatment central quality control of tumor bed boost in medulloblastoma—an analysis of the German Radiotherapy Quality Control Panel in the SIOP PNET5 MB trial},
  series = {Strahlentherapie und Onkologie},
  volume    = {198},
  journal   = {Strahlentherapie und Onkologie},
  number    = {3},
  issn      = {0179-7158},
  doi       = {10.1007/s00066-021-01822-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307812},
  pages     = {282-290},
  year      = {2022},
  abstract  = {Purpose In Germany, Austria, and Switzerland, pretreatment radiotherapy quality control (RT-QC) for tumor bed boost (TB) in non-metastatic medulloblastoma (MB) was not mandatory but was recommended for patients enrolled in the SIOP PNET5 MB trial between 2014 and 2018. This individual case review (ICR) analysis aimed to evaluate types of deviations in the initial plan proposals and develop uniform review criteria for TB boost. Patients and methods A total of 78 patients were registered in this trial, of whom a subgroup of 65 patients were available for evaluation of the TB treatment plans. Dose uniformity was evaluated according to the definitions of the protocol. Additional RT-QC criteria for standardized review of target contours were elaborated and data evaluated accordingly. Results Of 65 initial TB plan proposals, 27 (41.5\%) revealed deviations of target volume delineation. Deviations according to the dose uniformity criteria were present in 14 (21.5\%) TB plans. In 25 (38.5\%) cases a modification of the RT plan was recommended. Rejection of the TB plans was rather related to unacceptable target volume delineation than to insufficient dose uniformity. Conclusion In this analysis of pretreatment RT-QC, protocol deviations were present in a high proportion of initial TB plan proposals. These findings emphasize the importance of pretreatment RT-QC in clinical trials for MB. Based on these data, a proposal for RT-QC criteria for tumor bed boost in non-metastatic MB was developed.},
  language  = {en}
}
@article{PinkawaAebersoldBoehmeretal.2021,
  author    = {Pinkawa, Michael and Aebersold, Daniel M. and B{\"o}hmer, Dirk and Flentje, Michael and Ghadjar, Pirus and Schmidt-Hegemann, Nina-Sophie and H{\"o}cht, Stefan and H{\"o}lscher, Tobias and M{\"u}ller, Arndt-Christian and Niehoff, Peter and Sedlmayer, Felix and Wolf, Frank and Zamboglou, Constantinos and Zips, Daniel and Wiegel, Thomas},
  title     = {Radiotherapy in nodal oligorecurrent prostate cancer},
  series = {Strahlentherapie und Onkologie},
  volume    = {197},
  journal   = {Strahlentherapie und Onkologie},
  number    = {7},
  issn      = {0179-7158},
  doi       = {10.1007/s00066-021-01778-1},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307763},
  pages     = {575-580},
  year      = {2021},
  abstract  = {Objective The current article encompasses a literature review and recommendations for radiotherapy in nodal oligorecurrent prostate cancer. Materials and methods A literature review focused on studies comparing metastasis-directed stereotactic ablative radiotherapy (SABR) vs. external elective nodal radiotherapy (ENRT) and studies analyzing recurrence patterns after local nodal treatment was performed. The DEGRO Prostate Cancer Expert Panel discussed the results and developed treatment recommendations. Results Metastasis-directed radiotherapy results in high local control (often > 90\% within a follow-up of 1-2 years) and can be used to improve progression-free survival or defer androgen deprivation therapy (ADT) according to prospective randomized phase II data. Distant progression after involved-node SABR only occurs within a few months in the majority of patients. ENRT improves metastases-free survival rates with increased toxicity in comparison to SABR according to retrospective comparative studies. The majority of nodal recurrences after initial local treatment of pelvic nodal metastasis are detected within the true pelvis and common iliac vessels. Conclusion ENRT with or without a boost should be preferred to SABR in pelvic nodal recurrences. In oligometastatic prostate cancer with distant (extrapelvic) nodal recurrences, SABR alone can be performed in selected cases. Application of additional systemic treatments should be based on current guidelines, with ADT as first-line treatment for hormone-sensitive prostate cancer. Only in carefully selected patients can radiotherapy be initially used without additional ADT outside of the current standard recommendations. Results of (randomized) prospective studies are needed for definitive recommendations.},
  language  = {en}
}
@article{DornHerzberg2021,
  author    = {Dorn, Franziska and Herzberg, Moriz},
  title     = {Response to Letter to the Editor "Keeping Late Thrombectomy Imaging Protocols Simple to Avoid Analysis Paralysis"},
  series = {Clinical Neuroradiology},
  volume    = {31},
  journal   = {Clinical Neuroradiology},
  number    = {3},
  issn      = {1869-1439},
  doi       = {10.1007/s00062-021-01091-5},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-307023},
  pages     = {813-814},
  year      = {2021},
  language  = {en}
}
@article{MorisChristmannWirtgenetal.2021,
  author    = {Moris, Victoria C. and Christmann, Katharina and Wirtgen, Aline and Belokobylskij, Sergey A. and Berg, Alexander and Liebig, Wolf-Harald and Soon, Villu and Baur, Hannes and Schmitt, Thomas and Niehuis, Oliver},
  title     = {Cuticular hydrocarbons on old museum specimens of the spiny mason wasp, Odynerus spinipes (Hymenoptera: Vespidae: Eumeninae), shed light on the distribution and on regional frequencies of distinct chemotypes},
  series = {Chemoecology},
  volume    = {31},
  journal   = {Chemoecology},
  number    = {5},
  issn      = {0937-7409},
  doi       = {10.1007/s00049-021-00350-8},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-306999},
  pages     = {311-322},
  year      = {2021},
  abstract  = {The mason wasp Odynerus spinipes shows an exceptional case of intrasexual cuticular hydrocarbon (CHC) profile dimorphism. Females of this species display one of two CHC profiles (chemotypes) that differ qualitatively and quantitatively from each other. The ratio of the two chemotypes was previously shown to be close to 1:1 at three sites in Southern Germany, which might not be representative given the Palearctic distribution of the species. To infer the frequency of the two chemotypes across the entire distributional range of the species, we analyzed with GC-MS the CHC profile of 1042 dry-mounted specimens stored in private and museum collections. We complemented our sampling by including 324 samples collected and preserved specifically for studying their CHCs. We were capable of reliably identifying the chemotypes in 91\% of dry-mounted samples, some of which collected almost 200 years ago. We found both chemotypes to occur in the Far East, the presumed glacial refuge of the species, and their frequency to differ considerably between sites and geographic regions. The geographic structure in the chemotype frequencies could be the result of differential selection regimes and/or different dispersal routes during the colonization of the Western Palearctic. The presented data pave the route for disentangling these factors by providing information where to geographically sample O. spinipes for population genetic analyses. They also form the much-needed basis for future studies aiming to understand the evolutionary and geographic origin as well as the genetics of the astounding CHC profile dimorphism that O. spinipes females exhibit.},
  language  = {en}
}
@article{LavyshSokolovaSlashchevaetal.2017,
  author    = {Lavysh, Daria and Sokolova, Maria and Slashcheva, Marina and F{\"o}rstner, Konrad U. and Severinov, Konstantin},
  title     = {Transcription profiling of "bacillus subtilis" cells infected with AR9, a giant phage encoding two multisubunit RNA polymerases},
  series = {mBio},
  volume    = {8},
  journal   = {mBio},
  number    = {1},
  doi       = {10.1128/mBio.02041-16},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-181810},
  year      = {2017},
  abstract  = {Bacteriophage AR9 is a recently sequenced jumbo phage that encodes two multisubunit RNA polymerases. Here we investigated the AR9 transcription strategy and the effect of AR9 infection on the transcription of its host, Bacillus subtilis. Analysis of whole-genome transcription revealed early, late, and continuously expressed AR9 genes. Alignment of sequences upstream of the 5′ ends of AR9 transcripts revealed consensus sequences that define early and late phage promoters. Continuously expressed AR9 genes have both early and late promoters in front of them. Early AR9 transcription is independent of protein synthesis and must be determined by virion RNA polymerase injected together with viral DNA. During infection, the overall amount of host mRNAs is significantly decreased. Analysis of relative amounts of host transcripts revealed notable differences in the levels of some mRNAs. The physiological significance of up- or downregulation of host genes for AR9 phage infection remains to be established. AR9 infection is significantly affected by rifampin, an inhibitor of host RNA polymerase transcription. The effect is likely caused by the antibiotic-induced killing of host cells, while phage genome transcription is solely performed by viral RNA polymerases.},
  language  = {en}
}
@article{MuellerLeppichGeissetal.2023,
  author    = {M{\"u}ller, Konstantin and Leppich, Robert and Geiß, Christian and Borst, Vanessa and Pelizari, Patrick Aravena and Kounev, Samuel and Taubenb{\"o}ck, Hannes},
  title     = {Deep neural network regression for normalized digital surface model generation with Sentinel-2 imagery},
  series = {IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing},
  volume    = {16},
  journal   = {IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing},
  issn      = {1939-1404},
  doi       = {10.1109/JSTARS.2023.3297710},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-349424},
  pages     = {8508-8519},
  year      = {2023},
  abstract  = {In recent history, normalized digital surface models (nDSMs) have been constantly gaining importance as a means to solve large-scale geographic problems. High-resolution surface models are precious, as they can provide detailed information for a specific area. However, measurements with a high resolution are time consuming and costly. Only a few approaches exist to create high-resolution nDSMs for extensive areas. This article explores approaches to extract high-resolution nDSMs from low-resolution Sentinel-2 data, allowing us to derive large-scale models. We thereby utilize the advantages of Sentinel 2 being open access, having global coverage, and providing steady updates through a high repetition rate. Several deep learning models are trained to overcome the gap in producing high-resolution surface maps from low-resolution input data. With U-Net as a base architecture, we extend the capabilities of our model by integrating tailored multiscale encoders with differently sized kernels in the convolution as well as conformed self-attention inside the skip connection gates. Using pixelwise regression, our U-Net base models can achieve a mean height error of approximately 2 m. Moreover, through our enhancements to the model architecture, we reduce the model error by more than 7\%.},
  language  = {en}
}
@article{LimanMayFetteetal.2023,
  author    = {Liman, Leon and May, Bernd and Fette, Georg and Krebs, Jonathan and Puppe, Frank},
  title     = {Using a clinical data warehouse to calculate and present key metrics for the radiology department: implementation and performance evaluation},
  series = {JMIR Medical Informatics},
  volume    = {11},
  journal   = {JMIR Medical Informatics},
  issn      = {2291-9694},
  doi       = {10.2196/41808},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-349411},
  year      = {2023},
  abstract  = {Background: Due to the importance of radiologic examinations, such as X-rays or computed tomography scans, for many clinical diagnoses, the optimal use of the radiology department is 1 of the primary goals of many hospitals. Objective: This study aims to calculate the key metrics of this use by creating a radiology data warehouse solution, where data from radiology information systems (RISs) can be imported and then queried using a query language as well as a graphical user interface (GUI). Methods: Using a simple configuration file, the developed system allowed for the processing of radiology data exported from any kind of RIS into a Microsoft Excel, comma-separated value (CSV), or JavaScript Object Notation (JSON) file. These data were then imported into a clinical data warehouse. Additional values based on the radiology data were calculated during this import process by implementing 1 of several provided interfaces. Afterward, the query language and GUI of the data warehouse were used to configure and calculate reports on these data. For the most common types of requested reports, a web interface was created to view their numbers as graphics. Results: The tool was successfully tested with the data of 4 different German hospitals from 2018 to 2021, with a total of 1,436,111 examinations. The user feedback was good, since all their queries could be answered if the available data were sufficient. The initial processing of the radiology data for using them with the clinical data warehouse took (depending on the amount of data provided by each hospital) between 7 minutes and 1 hour 11 minutes. Calculating 3 reports of different complexities on the data of each hospital was possible in 1-3 seconds for reports with up to 200 individual calculations and in up to 1.5 minutes for reports with up to 8200 individual calculations. Conclusions: A system was developed with the main advantage of being generic concerning the export of different RISs as well as concerning the configuration of queries for various reports. The queries could be configured easily using the GUI of the data warehouse, and their results could be exported into the standard formats Excel and CSV for further processing.},
  language  = {en}
}
@article{SeufertPoigneeSeufertetal.2023,
  author    = {Seufert, Anika and Poign{\´e}e, Fabian and Seufert, Michael and Hoßfeld, Tobias},
  title     = {Share and multiply: modeling communication and generated traffic in private WhatsApp groups},
  series = {IEEE Access},
  volume    = {11},
  journal   = {IEEE Access},
  doi       = {10.1109/ACCESS.2023.3254913},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-349430},
  pages     = {25401-25414},
  year      = {2023},
  abstract  = {Group-based communication is a highly popular communication paradigm, which is especially prominent in mobile instant messaging (MIM) applications, such as WhatsApp. Chat groups in MIM applications facilitate the sharing of various types of messages (e.g., text, voice, image, video) among a large number of participants. As each message has to be transmitted to every other member of the group, which multiplies the traffic, this has a massive impact on the underlying communication networks. However, most chat groups are private and network operators cannot obtain deep insights into MIM communication via network measurements due to end-to-end encryption. Thus, the generation of traffic is not well understood, given that it depends on sizes of communication groups, speed of communication, and exchanged message types. In this work, we provide a huge data set of 5,956 private WhatsApp chat histories, which contains over 76 million messages from more than 117,000 users. We describe and model the properties of chat groups and users, and the communication within these chat groups, which gives unprecedented insights into private MIM communication. In addition, we conduct exemplary measurements for the most popular message types, which empower the provided models to estimate the traffic over time in a chat group.},
  language  = {en}
}
@article{RamirezZavalaBetsovaSchwanfelderetal.2023,
  author    = {Ram{\´i}rez-Zavala, Bernardo and Betsova, Darina and Schwanfelder, Sonja and Kr{\"u}ger, Ines and Mottola, Austin and Kr{\"u}ger, Thomas and Kniemeyer, Olaf and Brakhage, Axel A. and Morschh{\"a}user, Joachim},
  title     = {Multiple phosphorylation sites regulate the activity of the repressor Mig1 in \(Candida\) \(albicans\)},
  series = {mSphere},
  volume    = {8},
  journal   = {mSphere},
  number    = {6},
  doi       = {10.1128/msphere.00546-23},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350060},
  year      = {2023},
  abstract  = {ABSTRACT The highly conserved heterotrimeric protein kinase SNF1 is important for metabolic adaptations in the pathogenic yeast Candida albicans. A key function of SNF1 is to inactivate the repressor protein Mig1 and thereby allow the expression of genes that are required for the utilization of alternative carbon sources when the preferred carbon source, glucose, is absent or becomes limiting. However, how SNF1 controls Mig1 activity in C. albicans has remained elusive. Using a phosphoproteomics approach, we found that Mig1 is phosphorylated at multiple serine residues. Replacement of these serine residues by nonphosphorylatable alanine residues strongly increased the repressor activity of Mig1 in cells lacking a functional SNF1 complex, indicating that additional protein kinases are involved in the regulation of Mig1. Unlike wild-type Mig1, whose levels strongly decreased when the cells were grown on sucrose or glycerol instead of glucose, the levels of a mutant Mig1 protein lacking nine phosphorylation sites remained high under these conditions. Despite the increased protein levels and the absence of multiple phosphorylation sites, cells with a functional SNF1 complex could still sufficiently inhibit the hyperactive Mig1 to enable wild-type growth on alternative carbon sources. In line with this, phosphorylated forms of the mutant Mig1 were still detected in the presence and absence of a functional SNF1, demonstrating that Mig1 contains additional, unidentified phosphorylation sites and that downstream protein kinases are involved in the control of Mig1 activity by SNF1. IMPORTANCE The SNF1 protein kinase signaling pathway, which is highly conserved in eukaryotic cells, is important for metabolic adaptations in the pathogenic yeast Candida albicans. However, so far, it has remained elusive how SNF1 controls the activity of one of its main effectors, the repressor protein Mig1 that inhibits the expression of genes required for the utilization of alternative carbon sources when glucose is available. In this study, we have identified multiple phosphorylation sites in Mig1 that contribute to its inactivation. Mutation of these sites strongly increased Mig1 repressor activity in the absence of SNF1, but SNF1 could still sufficiently inhibit the hyperactive Mig1 to enable growth on alternative carbon sources. These findings reveal features of Mig1 that are important for controlling its repressor activity. Furthermore, they demonstrate that both SNF1 and additional protein kinases regulate Mig1 in this pathogenic yeast.},
  language  = {en}
}
@article{RamirezZavalaKruegerWollneretal.2023,
  author    = {Ram{\´i}rez-Zavala, Bernardo and Kr{\"u}ger, Ines and Wollner, Andreas and Schwanfelder, Sonja and Morschh{\"a}user, Joachim},
  title     = {The Ypk1 protein kinase signaling pathway is rewired and not essential for viability in \(Candida\) \(albicans\)},
  series = {PLoS Genetics},
  volume    = {19},
  journal   = {PLoS Genetics},
  number    = {8},
  doi       = {10.1371/journal.pgen.1010890},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350076},
  year      = {2023},
  abstract  = {Abstract Protein kinases are central components of almost all signaling pathways that control cellular activities. In the model organism Saccharomyces cerevisiae, the paralogous protein kinases Ypk1 and Ypk2, which control membrane lipid homeostasis, are essential for viability, and previous studies strongly indicated that this is also the case for their single ortholog Ypk1 in the pathogenic yeast Candida albicans. Here, using FLP-mediated inducible gene deletion, we reveal that C. albicans ypk1Δ mutants are viable but slow-growing, explaining prior failures to obtain null mutants. Phenotypic analyses of the mutants showed that the functions of Ypk1 in regulating sphingolipid biosynthesis and cell membrane lipid asymmetry are conserved, but the consequences of YPK1 deletion are milder than in S. cerevisiae. Mutational studies demonstrated that the highly conserved PDK1 phosphorylation site T548 in its activation loop is essential for Ypk1 function, whereas the TORC2 phosphorylation sites S687 and T705 at the C-terminus are important for Ypk1-dependent resistance to membrane stress. Unexpectedly, Pkh1, the single C. albicans orthologue of Pkh1/Pkh2, which mediate Ypk1 phosphorylation at the PDK1 site in S. cerevisiae, was not required for normal growth of C. albicans under nonstressed conditions, and Ypk1 phosphorylation at T548 was only slightly reduced in pkh1Δ mutants. We found that another protein kinase, Pkh3, whose ortholog in S. cerevisiae cannot substitute Pkh1/2, acts redundantly with Pkh1 to activate Ypk1 in C. albicans. No phenotypic effects were observed in cells lacking Pkh3 alone, but pkh1Δ pkh3Δ double mutants had a severe growth defect and Ypk1 phosphorylation at T548 was completely abolished. These results establish that Ypk1 is not essential for viability in C. albicans and that, despite its generally conserved function, the Ypk1 signaling pathway is rewired in this pathogenic yeast and includes a novel upstream kinase to activate Ypk1 by phosphorylation at the PDK1 site. Author summary Protein kinases are key components of cellular signaling pathways, and elucidating the specific roles of individual kinases is important to understand how organisms adapt to changes in their environment. The protein kinase Ypk1 is highly conserved in eukaryotic organisms and crucial for the maintenance of cell membrane homeostasis. It was previously thought that Ypk1 is essential for viability in the pathogenic yeast Candida albicans, as in the model organism Saccharomyces cerevisiae. Here, by using forced, inducible gene deletion, we reveal that C. albicans mutants lacking Ypk1 are viable but have a strong growth defect. The phenotypes of the mutants indicate that the known functions of Ypk1 are conserved in C. albicans, but loss of this kinase has less severe consequences than in S. cerevisiae. We also unravel the puzzling previous observation that C. albicans mutants lacking the Ypk1-activating kinase Pkh1, which is essential in S. cerevisiae, have no obvious growth defects. We show that the protein kinase Pkh3, which has not previously been implicated in the Ypk1 signaling pathway, can substitute Pkh1 and activate Ypk1 in C. albicans. These findings provide novel insights into this conserved signaling pathway and how it is rewired in a human-pathogenic fungus.},
  language  = {en}
}
@article{HombergerHaywardBarquistetal.2023,
  author    = {Homberger, Christina and Hayward, Regan J. and Barquist, Lars and Vogel, J{\"o}rg},
  title     = {Improved bacterial single-cell RNA-seq through automated MATQ-seq and Cas9-based removal of rRNA reads},
  series = {mBio},
  volume    = {14},
  journal   = {mBio},
  number    = {2},
  doi       = {10.1128/mbio.03557-22},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350059},
  year      = {2023},
  abstract  = {Bulk RNA sequencing technologies have provided invaluable insights into host and bacterial gene expression and associated regulatory networks. Nevertheless, the majority of these approaches report average expression across cell populations, hiding the true underlying expression patterns that are often heterogeneous in nature. Due to technical advances, single-cell transcriptomics in bacteria has recently become reality, allowing exploration of these heterogeneous populations, which are often the result of environmental changes and stressors. In this work, we have improved our previously published bacterial single-cell RNA sequencing (scRNA-seq) protocol that is based on multiple annealing and deoxycytidine (dC) tailing-based quantitative scRNA-seq (MATQ-seq), achieving a higher throughput through the integration of automation. We also selected a more efficient reverse transcriptase, which led to reduced cell loss and higher workflow robustness. Moreover, we successfully implemented a Cas9-based rRNA depletion protocol into the MATQ-seq workflow. Applying our improved protocol on a large set of single Salmonella cells sampled over different growth conditions revealed improved gene coverage and a higher gene detection limit compared to our original protocol and allowed us to detect the expression of small regulatory RNAs, such as GcvB or CsrB at a single-cell level. In addition, we confirmed previously described phenotypic heterogeneity in Salmonella in regard to expression of pathogenicity-associated genes. Overall, the low percentage of cell loss and high gene detection limit makes the improved MATQ-seq protocol particularly well suited for studies with limited input material, such as analysis of small bacterial populations in host niches or intracellular bacteria. IMPORTANCE: Gene expression heterogeneity among isogenic bacteria is linked to clinically relevant scenarios, like biofilm formation and antibiotic tolerance. The recent development of bacterial single-cell RNA sequencing (scRNA-seq) enables the study of cell-to-cell variability in bacterial populations and the mechanisms underlying these phenomena. Here, we report a scRNA-seq workflow based on MATQ-seq with increased robustness, reduced cell loss, and improved transcript capture rate and gene coverage. Use of a more efficient reverse transcriptase and the integration of an rRNA depletion step, which can be adapted to other bacterial single-cell workflows, was instrumental for these improvements. Applying the protocol to the foodborne pathogen Salmonella, we confirmed transcriptional heterogeneity across and within different growth phases and demonstrated that our workflow captures small regulatory RNAs at a single-cell level. Due to low cell loss and high transcript capture rates, this protocol is uniquely suited for experimental settings in which the starting material is limited, such as infected tissues.},
  language  = {en}
}
@phdthesis{Miller2024,
  author    = {Miller, Kirill},
  title     = {Untersuchung von Nanostrukturen basierend auf LaAlO\(_3\)/SrTiO\(_3\) f{\"u}r Anwendungen in nicht von-Neumann-Rechnerarchitekturen},
  doi       = {10.25972/OPUS-35472},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-354724},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Die Dissertation besch{\"a}ftigt sich mit der Analyse von oxidischen Nanostrukturen. Die Grundlage der Bauelemente stellt dabei die LaAlO3/SrTiO3-Heterostruktur dar. Hierbei entsteht an der Grenzfl{\"a}che beider {\"U}bergangsmetalloxide ein quasi zweidimensionales Elektronengas, welches wiederum eine F{\"u}lle von beachtlichen Eigenschaften und Charakteristika zeigt. Mithilfe lithographischer Verfahren wurden zwei unterschiedliche Bauelemente verwirklicht. Dabei handelt es sich einerseits um einen planaren Nanodraht mit lateralen Gates, welcher auf der Probenoberfl{\"a}che prozessiert wurde und eine bemerkenswerte Trialit{\"a}t aufweist. Dieses Bauelement kann unter anderem als ein herk{\"o}mmlicher Feldeffekttransistor agieren, wobei der Ladungstransport durch die lateral angelegte Spannung manipuliert wird. Zus{\"a}tzlich konnten auch Speichereigenschaften beobachtet werden, sodass das gesamte Bauelement als ein sogenannter Memristor fungieren kann. In diesem Fall h{\"a}ngt der Ladungstransport von der Elektronenakkumulation auf den lateralen potentialfreien Gates ab. Die Memristanz des Nanodrahts l{\"a}sst sich unter anderem durch Lichtleistungen im Nanowattbereich und mithilfe von kurzen Spannungspulsen ver{\"a}ndern. Dar{\"u}ber hinaus kann die Elektronenakkumulation auch in Form einer memkapazitiven Charakteristik beobachtet werden. Neben dem Nanodraht wurde auch eine Kreuzstruktur, die eine erg{\"a}nzende ferromagnetischen Elektrode beinhaltet, realisiert. Mit diesem neuartigen Bauteil wird die Umwandlung zwischen Spin- und Ladungsstr{\"o}men innerhalb der nanoskaligen Struktur untersucht. Hierbei wird die starke Spin-Bahn-Kopplung im quasi zweidimensionalen Elektronengas ausgenutzt.},
  subject      = {Memristor},
  language  = {de}
}
@article{MeistervonSuchodoletzZeeden2023,
  author    = {Meister, Julia and von Suchodoletz, Hans and Zeeden, Christian},
  title     = {Preface: Quaternary research from and inspired by the first virtual DEUQUA conference},
  series = {E\&G Quaternary Science Journal},
  volume    = {72},
  journal   = {E\&G Quaternary Science Journal},
  number    = {2},
  doi       = {10.5194/egqsj-72-185-2023},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350157},
  pages     = {185-187},
  year      = {2023},
  abstract  = {No abstract available.},
  language  = {en}
}
@article{KunzUllmannKneiseletal.2023,
  author    = {Kunz, Julius and Ullmann, T. and Kneisel, C. and Baumhauer, R.},
  title     = {Three-dimensional subsurface architecture and its influence on the spatiotemporal development of a retrogressive thaw slump in the Richardson Mountains, Northwest Territories, Canada},
  series = {Arctic, Antarctic, and Alpine Research},
  volume    = {55},
  journal   = {Arctic, Antarctic, and Alpine Research},
  number    = {1},
  issn      = {1523-0430},
  doi       = {10.1080/15230430.2023.2167358},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350147},
  year      = {2023},
  abstract  = {The development of retrogressive thaw slumps (RTS) is known to be strongly influenced by relief-related parameters, permafrost characteristics, and climatic triggers. To deepen the understanding of RTS, this study examines the subsurface characteristics in the vicinity of an active thaw slump, located in the Richardson Mountains (Western Canadian Arctic). The investigations aim to identify relationships between the spatiotemporal slump development and the influence of subsurface structures. Information on these were gained by means of electrical resistivity tomography (ERT) and ground-penetrating radar (GPR). The spatiotemporal development of the slump was revealed by high-resolution satellite imagery and unmanned aerial vehicle-based digital elevation models (DEMs). The analysis indicated an acceleration of slump expansion, especially since 2018. The comparison of the DEMs enabled the detailed balancing of erosion and accumulation within the slump area between August 2018 and August 2019. In addition, manual frost probing and GPR revealed a strong relationship between the active layer thickness, surface morphology, and hydrology. Detected furrows in permafrost table topography seem to affect the active layer hydrology and cause a canalization of runoff toward the slump. The three-dimensional ERT data revealed a partly unfrozen layer underlying a heterogeneous permafrost body. This may influence the local hydrology and affect the development of the RTS. The results highlight the complex relationships between slump development, subsurface structure, and hydrology and indicate a distinct research need for other RTSs.},
  language  = {en}
}
@phdthesis{Knorr2024,
  author    = {Knorr, Susanne},
  title     = {Pathophysiology of early-onset isolated dystonia in a DYT-TOR1A rat model with trauma-induced dystonia-like movements},
  doi       = {10.25972/OPUS-20609},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-206096},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Early-onset torsion dystonia (DYT-TOR1A, DYT1) is an inherited hyperkinetic movement disorder caused by a mutation of the TOR1A gene encoding the torsinA protein. DYT-TOR1A is characterized as a network disorder of the central nervous system (CNS), including predominantly the cortico-basal ganglia-thalamo-cortical loop resulting in a severe generalized dystonic phenotype. The pathophysiology of DYTTOR1A is not fully understood. Molecular levels up to large-scale network levels of the CNS are suggested to be affected in the pathophysiology of DYT-TOR1A. The reduced penetrance of 30\% - 40\% indicates a gene-environmental interaction, hypothesized as "second hit". The lack of appropriate and phenotypic DYT-TOR1A animal models encouraged us to verify the "second hit" hypothesis through a unilateral peripheral nerve trauma of the sciatic nerve in a transgenic asymptomatic DYT-TOR1A rat model (∆ETorA), overexpressing the human mutated torsinA protein. In a multiscale approach, this animal model was characterized phenotypically and pathophysiologically. Nerve-injured ∆ETorA rats revealed dystonia-like movements (DLM) with a partially generalized phenotype. A physiomarker of human dystonia, describing increased theta oscillation in the globus pallidus internus (GPi), was found in the entopeduncular nucleus (EP), the rodent equivalent to the human GPi, of nerve-injured ∆ETorA rats. Altered oscillation patterns were also observed in the primary motor cortex. Highfrequency stimulation (HFS) of the EP reduced DLM and modulated altered oscillatory activity in the EP and primary motor cortex in nerve-injured ∆ETorA rats. Moreover, the dopaminergic system in ∆ETorA rats demonstrated a significant increased striatal dopamine release and dopamine turnover. Whole transcriptome analysis revealed differentially expressed genes of the circadian clock and the energy metabolism, thereby pointing towards novel, putative pathways in the pathophysiology of DYTTOR1A dystonia. In summary, peripheral nerve trauma can trigger DLM in genetically predisposed asymptomatic ΔETorA rats leading to neurobiological alteration in the central motor network on multiple levels and thereby supporting the "second hit" hypothesis. This novel symptomatic DYT-TOR1A rat model, based on a DYT-TOR1A genetic background, may prove as a valuable chance for DYT-TOR1A dystonia, to further investigate the pathomechanism in more detail and to establish new treatment strategies.},
  subject      = {Dystonie},
  language  = {en}
}
@article{FaistAnkenbrandSickeletal.2023,
  author    = {Faist, Hanna and Ankenbrand, Markus J. and Sickel, Wiebke and Hentschel, Ute and Keller, Alexander and Deeken, Rosalia},
  title     = {Opportunistic bacteria of grapevine crown galls are equipped with the genomic repertoire for opine utilization},
  series = {Genome Biology and Evolution},
  volume    = {15},
  journal   = {Genome Biology and Evolution},
  number    = {12},
  doi       = {10.1093/gbe/evad228},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350172},
  year      = {2023},
  abstract  = {Young grapevines (Vitis vinifera) suffer and eventually can die from the crown gall disease caused by the plant pathogen Allorhizobium vitis (Rhizobiaceae). Virulent members of A. vitis harbor a tumor-inducing plasmid and induce formation of crown galls due to the oncogenes encoded on the transfer DNA. The expression of oncogenes in transformed host cells induces unregulated cell proliferation and metabolic and physiological changes. The crown gall produces opines uncommon to plants, which provide an important nutrient source for A. vitis harboring opine catabolism enzymes. Crown galls host a distinct bacterial community, and the mechanisms establishing a crown gall-specific bacterial community are currently unknown. Thus, we were interested in whether genes homologous to those of the tumor-inducing plasmid coexist in the genomes of the microbial species coexisting in crown galls. We isolated 8 bacterial strains from grapevine crown galls, sequenced their genomes, and tested their virulence and opine utilization ability in bioassays. In addition, the 8 genome sequences were compared with 34 published bacterial genomes, including closely related plant-associated bacteria not from crown galls. Homologous genes for virulence and opine anabolism were only present in the virulent Rhizobiaceae. In contrast, homologs of the opine catabolism genes were present in all strains including the nonvirulent members of the Rhizobiaceae and non-Rhizobiaceae. Gene neighborhood and sequence identity of the opine degradation cluster of virulent and nonvirulent strains together with the results of the opine utilization assay support the important role of opine utilization for cocolonization in crown galls, thereby shaping the crown gall community.},
  language  = {en}
}
@article{DirkFischerSchardtetal.2023,
  author    = {Dirk, Robin and Fischer, Jonas L. and Schardt, Simon and Ankenbrand, Markus J. and Fischer, Sabine C.},
  title     = {Recognition and reconstruction of cell differentiation patterns with deep learning},
  series = {PLoS Computational Biology},
  volume    = {19},
  journal   = {PLoS Computational Biology},
  number    = {10},
  doi       = {10.1371/journal.pcbi.1011582},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350167},
  year      = {2023},
  abstract  = {Abstract Cell lineage decisions occur in three-dimensional spatial patterns that are difficult to identify by eye. There is an ongoing effort to replicate such patterns using mathematical modeling. One approach uses long ranging cell-cell communication to replicate common spatial arrangements like checkerboard and engulfing patterns. In this model, the cell-cell communication has been implemented as a signal that disperses throughout the tissue. On the other hand, machine learning models have been developed for pattern recognition and pattern reconstruction tasks. We combined synthetic data generated by the mathematical model with spatial summary statistics and deep learning algorithms to recognize and reconstruct cell fate patterns in organoids of mouse embryonic stem cells. Application of Moran's index and pair correlation functions for in vitro and synthetic data from the model showed local clustering and radial segregation. To assess the patterns as a whole, a graph neural network was developed and trained on synthetic data from the model. Application to in vitro data predicted a low signal dispersion value. To test this result, we implemented a multilayer perceptron for the prediction of a given cell fate based on the fates of the neighboring cells. The results show a 70\% accuracy of cell fate imputation based on the nine nearest neighbors of a cell. Overall, our approach combines deep learning with mathematical modeling to link cell fate patterns with potential underlying mechanisms. Author summary Mammalian embryo development relies on organized differentiation of stem cells into different lineages. Particularly at the early stages of embryogenesis, cells of different fates form three-dimensional spatial patterns that are difficult to identify by eye. Pattern quantification and mathematical modeling have produced first insights into potential mechanisms for the cell fate arrangements. However, these approaches have relied on classifications of the patterns such as inside-out or random, or used summary statistics such as pair correlation functions or cluster radii. Deep neural networks allow characterizing patterns directly. Since the tissue context can be readily reproduced by a graph, we implemented a graph neural network to characterize the patterns of embryonic stem cell organoids as a whole. In addition, we implemented a multilayer perceptron model to reconstruct the fate of a given cell based on its neighbors. To train and test the models, we used synthetic data generated by our mathematical model for cell-cell communication. This interplay of deep learning and mathematical modeling in combination with summary statistics allowed us to identify a potential mechanism for cell fate determination in mouse embryonic stem cells. Our results agree with a mechanism with a dispersion of the intercellular signal that links a cell's fate to those of the local neighborhood.},
  language  = {en}
}
@article{OPUS4-22779,
  title     = {Measuring the atmospheric neutrino oscillation parameters and constraining the 3+1 neutrino model with ten years of ANTARES data},
  series = {Journal of High Energy Physics},
  volume    = {113},
  journal   = {Journal of High Energy Physics},
  number    = {6},
  organization    = {The ANTARES collaboration},
  doi       = {10.1007/JHEP06(2019)113},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227791},
  pages     = {1-20},
  year      = {2019},
  abstract  = {The ANTARES neutrino telescope has an energy threshold of a few tens of GeV. This allows to study the phenomenon of atmospheric muon neutrino disappearance due to neutrino oscillations. In a similar way, constraints on the 3+1 neutrino model, which foresees the existence of one sterile neutrino, can be inferred. Using data collected by the ANTARES neutrino telescope from 2007 to 2016, a new measurement of m 2 and (23) has been performed which is consistent with world best-fit values and constraints on the 3+1 neutrino model have been derived.},
  language  = {en}
}
@article{OPUS4-22778,
  title     = {Long-term outcomes for neoadjuvant versus adjuvant chemotherapy in early breast cancer: meta-analysis of individual patient data from ten randomised trials},
  series = {Lancet Oncology},
  volume    = {19},
  journal   = {Lancet Oncology},
  number    = {1},
  organization    = {Early Breast Cancer Trialists' Collaborative Group (EBCTCG)},
  doi       = {10.1016/S1470-2045(17)30777-5},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227782},
  pages     = {27-39},
  year      = {2018},
  abstract  = {Background Neoadjuvant chemotherapy (NACT) for early breast cancer can make breast-conserving surgery more feasible and might be more likely to eradicate micrometastatic disease than might the same chemotherapy given after surgery. We investigated the long-term benefits and risks of NACT and the influence of tumour characteristics on outcome with a collaborative meta-analysis of individual patient data from relevant randomised trials. Methods We obtained information about prerandomisation tumour characteristics, clinical tumour response, surgery, recurrence, and mortality for 4756 women in ten randomised trials in early breast cancer that began before 2005 and compared NACT with the same chemotherapy given postoperatively. Primary outcomes were tumour response, extent of local therapy, local and distant recurrence, breast cancer death, and overall mortality. Analyses by intention-to-treat used standard regression (for response and frequency of breast-conserving therapy) and log-rank methods (for recurrence and mortality). Findings Patients entered the trials from 1983 to 2002 and median follow-up was 9 years (IQR 5-14), with the last follow-up in 2013. Most chemotherapy was anthracycline based (3838 [81\%] of 4756 women). More than two thirds (1349 [69\%] of 1947) of women allocated NACT had a complete or partial clinical response. Patients allocated NACT had an increased frequency of breast-conserving therapy (1504 [65\%] of 2320 treated with NACT vs 1135 [49\%] of 2318 treated with adjuvant chemotherapy). NACT was associated with more frequent local recurrence than was adjuvant chemotherapy: the 15 year local recurrence was 21.4\% for NACT versus 15.9\% for adjuvant chemotherapy (5.5\% increase [95\% CI 2.4-8.6]; rate ratio 1.37 [95\% CI 1.17-1.61]; p = 0.0001). No significant difference between NACT and adjuvant chemotherapy was noted for distant recurrence (15 year risk 38.2\% for NACT vs 38.0\% for adjuvant chemotherapy; rate ratio 1.02 [95\% CI 0.92-1.14]; p = 0.66), breast cancer mortality (34.4\% vs 33.7\%; 1.06 [0.95-1.18]; p = 0.31), or death from any cause (40.9\% vs 41.2\%; 1.04 [0.94-1.15]; p = 0.45). Interpretation Tumours downsized by NACT might have higher local recurrence after breast-conserving therapy than might tumours of the same dimensions in women who have not received NACT. Strategies to mitigate the increased local recurrence after breast-conserving therapy in tumours downsized by NACT should be considered-eg, careful tumour localisation, detailed pathological assessment, and appropriate radiotherapy. Copyright (c) The Author(s). Published by Elsevier Ltd.},
  language  = {en}
}
@article{AlacevichCarloniCalameChiesaetal.2019,
  author    = {Alacevich, Massimo and Carloni Calame, Carlo M. and Chiesa, Mauro and Montagna, Guido and Nicrosini, Oreste and Piccinini, Fulvio},
  title     = {Muon-electron scattering at NLO},
  series = {Journal of High Energy Physics},
  volume    = {155},
  journal   = {Journal of High Energy Physics},
  number    = {2},
  doi       = {10.1007/JHEP02(2019)155},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227777},
  pages     = {1-25},
  year      = {2019},
  abstract  = {We consider the process of muon-electron elastic scattering, which has been proposed as an ideal framework to measure the running of the electromagnetic coupling constant at space-like momenta and determine the leading-order hadronic contribution to the muon g-2 (MUonE experiment). We compute the next-to-leading (NLO) contributions due to QED and purely weak corrections and implement them into a fully differential Monte Carlo event generator, which is available for first experimental studies. We show representative phenomenological results of interest for the MUonE experiment and examine in detail the impact of the various sources of radiative corrections under different selection criteria, in order to study the dependence of the NLO contributions on the applied cuts. The study represents the first step towards the realisation of a high-precision Monte Carlo code necessary for data analysis.},
  language  = {en}
}
@article{AktasUpcinHenkeetal.2019,
  author    = {Aktas, Bertal H. and Upcin, Berin and Henke, Erik and Padmasekar, Manju and Qin, Xuebin and Erg{\"u}n, S{\"u}leyman},
  title     = {The Best for the Most Important: Maintaining a Pristine Proteome in Stem and Progenitor Cells},
  series = {Stem Cells International},
  journal   = {Stem Cells International},
  doi       = {10.1155/2019/1608787},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227769},
  pages     = {1-20},
  year      = {2019},
  abstract  = {Pluripotent stem cells give rise to reproductively enabled offsprings by generating progressively lineage-restricted multipotent stem cells that would differentiate into lineage-committed stem and progenitor cells. These lineage-committed stem and progenitor cells give rise to all adult tissues and organs. Adult stem and progenitor cells are generated as part of the developmental program and play critical roles in tissue and organ maintenance and/or regeneration. The ability of pluripotent stem cells to self-renew, maintain pluripotency, and differentiate into a multicellular organism is highly dependent on sensing and integrating extracellular and extraorganismal cues. Proteins perform and integrate almost all cellular functions including signal transduction, regulation of gene expression, metabolism, and cell division and death. Therefore, maintenance of an appropriate mix of correctly folded proteins, a pristine proteome, is essential for proper stem cell function. The stem cells' proteome must be pristine because unfolded, misfolded, or otherwise damaged proteins would interfere with unlimited self-renewal, maintenance of pluripotency, differentiation into downstream lineages, and consequently with the development of properly functioning tissue and organs. Understanding how various stem cells generate and maintain a pristine proteome is therefore essential for exploiting their potential in regenerative medicine and possibly for the discovery of novel approaches for maintaining, propagating, and differentiating pluripotent, multipotent, and adult stem cells as well as induced pluripotent stem cells. In this review, we will summarize cellular networks used by various stem cells for generation and maintenance of a pristine proteome. We will also explore the coordination of these networks with one another and their integration with the gene regulatory and signaling networks.},
  language  = {en}
}
@article{FischerSchardtLilaoGarzonetal.2023,
  author    = {Fischer, Sabine C. and Schardt, Simon and Lilao-Garz{\´o}n, Joaqu{\´i}n and Mu{\~n}oz-Descalzo, Silvia},
  title     = {The salt-and-pepper pattern in mouse blastocysts is compatible with signaling beyond the nearest neighbors},
  series = {iScience},
  volume    = {26},
  journal   = {iScience},
  number    = {11},
  doi       = {10.1016/j.isci.2023.108106},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350184},
  year      = {2023},
  abstract  = {Summary Embryos develop in a concerted sequence of spatiotemporal arrangements of cells. In the preimplantation mouse embryo, the distribution of the cells in the inner cell mass evolves from a salt-and-pepper pattern to spatial segregation of two distinct cell types. The exact properties of the salt-and-pepper pattern have not been analyzed so far. We investigate the spatiotemporal distribution of NANOG- and GATA6-expressing cells in the ICM of the mouse blastocysts with quantitative three-dimensional single-cell-based neighborhood analyses. A combination of spatial statistics and agent-based modeling reveals that the cell fate distribution follows a local clustering pattern. Using ordinary differential equations modeling, we show that this pattern can be established by a distance-based signaling mechanism enabling cells to integrate information from the whole inner cell mass into their cell fate decision. Our work highlights the importance of longer-range signaling to ensure coordinated decisions in groups of cells to successfully build embryos. Highlights • The local cell neighborhood and global ICM population composition correlate • ICM cells show characteristics of local clustering in early and mid mouse blastocysts • ICM patterning requires integration of signals from cells beyond the first neighbors},
  language  = {en}
}
@article{NeubertSchlechtMengetal.2023,
  author    = {Neubert, Sven and Schlecht, Sina and Meng, Karin and Rabe, Antonia and Jentschke, Elisabeth},
  title     = {Effects of a video sequence based intervention on anxiety, fatigue and depression in cancer patients: results of a randomized controlled trial},
  series = {Integrative Cancer Therapies},
  volume    = {22},
  journal   = {Integrative Cancer Therapies},
  issn      = {1552-695X},
  doi       = {10.1177/15347354231153172},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-304581},
  year      = {2023},
  abstract  = {Background: Cancer patients often suffer from psychological symptoms and need psychological support. Especially during the COVID-19 pandemic, eHealth interventions might be helpful to overcome the obstacles of the pandemic. This study evaluates the effectiveness of a video sequence-based eHealth intervention on anxiety, fatigue, and depression in cancer patients. Methods: Patients (N = 157) with different tumor entities were randomly assigned to the video intervention group (IG) and the waiting control group (CG). Patients in the IG received a video intervention comprising 8 video sequences over 4 weeks. The videos included psychoeducation on distress and psychological symptoms, Acceptance and Commitment Therapy elements, and Yoga and Qigong exercises. Patients' anxiety and fear of progression (primary outcomes) and secondary outcomes were assessed before randomization (T1) and after the end of the intervention for IG or the waiting period for CG (T2) using self-reported questionnaires (GAD-7, PA-F-KF, EORTC QLQ-FA12, PHQ-8). Results: Patients of the IG showed no significant improvement in anxiety (GAD-7; P = .75), fear of progression (FoP-Q-SF; P = .29), fatigue (EORTC QLQ-FA12; P = .72), and depression (PHQ-8; P = .95) compared to patients in the waiting CG. However, symptoms of anxiety, fatigue, and depression decreased in both groups. Exploratory subgroup analysis regarding sex, therapy status, therapy goal, and tumor entity showed no effects. Overall, the intervention had a high level of acceptance. Conclusions: The video intervention was ineffective in reducing the psychological burden compared to a waiting CG. The findings support prior observations of the value of therapeutic guidance and promoting self-management for improving patients' psychological burdens. Further studies are required to evaluate the effectiveness of psycho-oncological eHealth delivered through video sequences.},
  language  = {en}
}
@article{TrifaultMamontovaCossaetal.2024,
  author    = {Trifault, Barbara and Mamontova, Victoria and Cossa, Giacomo and Ganskih, Sabina and Wei, Yuanjie and Hofstetter, Julia and Bhandare, Pranjali and Baluapuri, Apoorva and Nieto, Blanca and Solvie, Daniel and Ade, Carsten P. and Gallant, Peter and Wolf, Elmar and Larsen, Dorthe H. and Munschauer, Mathias and Burger, Kaspar},
  title     = {Nucleolar detention of NONO shields DNA double-strand breaks from aberrant transcripts},
  series = {Nucleic Acids Research},
  volume    = {52},
  journal   = {Nucleic Acids Research},
  number    = {6},
  doi       = {10.1093/nar/gkae022},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350208},
  pages     = {3050-3068},
  year      = {2024},
  abstract  = {RNA-binding proteins emerge as effectors of the DNA damage response (DDR). The multifunctional non-POU domain-containing octamer-binding protein NONO/p54\(^{nrb}\) marks nuclear paraspeckles in unperturbed cells, but also undergoes re-localization to the nucleolus upon induction of DNA double-strand breaks (DSBs). However, NONO nucleolar re-localization is poorly understood. Here we show that the topoisomerase II inhibitor etoposide stimulates the production of RNA polymerase II-dependent, DNA damage-inducible antisense intergenic non-coding RNA (asincRNA) in human cancer cells. Such transcripts originate from distinct nucleolar intergenic spacer regions and form DNA-RNA hybrids to tether NONO to the nucleolus in an RNA recognition motif 1 domain-dependent manner. NONO occupancy at protein-coding gene promoters is reduced by etoposide, which attenuates pre-mRNA synthesis, enhances NONO binding to pre-mRNA transcripts and is accompanied by nucleolar detention of a subset of such transcripts. The depletion or mutation of NONO interferes with detention and prolongs DSB signalling. Together, we describe a nucleolar DDR pathway that shields NONO and aberrant transcripts from DSBs to promote DNA repair.},
  language  = {en}
}
@article{HofstetterOgunleyeKutschkeetal.2024,
  author    = {Hofstetter, Julia and Ogunleye, Ayoola and Kutschke, Andr{\´e} and Buchholz, Lisa Marie and Wolf, Elmar and Raabe, Thomas and Gallant, Peter},
  title     = {Spt5 interacts genetically with Myc and is limiting for brain tumor growth in Drosophila},
  series = {Life Science Alliance},
  volume    = {7},
  journal   = {Life Science Alliance},
  number    = {1},
  issn      = {2575-1077},
  doi       = {10.26508/lsa.202302130},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350197},
  year      = {2024},
  abstract  = {The transcription factor SPT5 physically interacts with MYC oncoproteins and is essential for efficient transcriptional activation of MYC targets in cultured cells. Here, we use Drosophila to address the relevance of this interaction in a living organism. Spt5 displays moderate synergy with Myc in fast proliferating young imaginal disc cells. During later development, Spt5-knockdown has no detectable consequences on its own, but strongly enhances eye defects caused by Myc overexpression. Similarly, Spt5-knockdown in larval type 2 neuroblasts has only mild effects on brain development and survival of control flies, but dramatically shrinks the volumes of experimentally induced neuroblast tumors and significantly extends the lifespan of tumor-bearing animals. This beneficial effect is still observed when Spt5 is knocked down systemically and after tumor initiation, highlighting SPT5 as a potential drug target in human oncology.},
  language  = {en}
}
@phdthesis{Koenig2024,
  author    = {K{\"o}nig, Sebastian Thomas},
  title     = {Temperature-driven assembly processes of Orthoptera communities: Lessons on diversity, species traits, feeding interactions, and associated faecal microorganisms from elevational gradients in Southern Germany (Berchtesgaden Alps)},
  doi       = {10.25972/OPUS-35460},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-354608},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Chapter I: Introduction Temperature is a major driver of biodiversity and abundance patterns on our planet, which becomes particularly relevant facing the entanglement of an imminent biodiversity and climate crisis. Climate shapes the composition of species assemblages either directly via abiotic filtering mechanisms or indirectly through alterations in biotic interactions. Insects - integral elements of Earth's ecosystems - are affected by climatic variation such as warming, yet responses vary among species. While species' traits, antagonistic biotic interactions, and even species' microbial mutualists may determine temperature-dependent assembly processes, the lion's share of these complex relationships remains poorly understood due to methodological constraints. Mountains, recognized as hotspots of diversity and threatened by rapidly changing climatic conditions, can serve as natural experimental settings to study the response of insect assemblages and their trophic interactions to temperature variation, instrumentalizing the high regional heterogeneity of micro- and macroclimate. With this thesis, we aim to enhance our mechanistic understanding of temperature-driven assembly processes within insect communities, exemplified by Orthoptera, that are significant herbivores in temperate mountain grassland ecosystems. Therefore, we combined field surveys of Orthoptera assemblages on grassland sites with molecular tools for foodweb reconstruction, primarily leveraging the elevational gradients offered by the complex topography within the Berchtesgaden Alpine region (Bavaria, Germany) as surrogate for temperature variation (space-for-time substitution approach). In this framework, we studied the effects of temperature variation on (1) species richness, abundance, community composition, and interspecific as well as intraspecific trait patterns, (2) ecological feeding specialisation, and (3) previously neglected links to microbial associates found in the faeces. Chapter II: Temperature-driven assembly processes Climate varies at multiple scales. Since microclimate is often overlooked, we assessed effects of local temperature deviations on species and trait compositions of insect communities along macroclimatic temperature gradients in Chapter II. Therefore, we employed joint species distribution modelling to explore how traits drive variation in the climatic niches of Orthoptera species at grassland sites characterized by contrasting micro- and macroclimatic conditions. Our findings revealed two key insights: (1) additive effects of micro- and macroclimate on the diversity, but (2) interactive effects on the abundance of several species, resulting in turnover and indicating that species possess narrower climatic niches than their elevational distributions might imply. This chapter suggests positive effects of warming on Orthoptera, but also highlights that the interplay of macro- and microclimate plays a pivotal role in structuring insect communities. Thus, it underscores the importance of considering both elements when predicting the responses of species to climate change. Additionally, this chapter revealed inter- and intraspecific effects of traits on the niches and distribution of species. Chapter III: Dietary specialisation along climatic gradients A crucial trait linked to the position of climatic niches is dietary specialisation. According to the 'altitudinal niche-breadth hypothesis', species of high-elevation habitats should be less specialized compared to their low-elevation counterparts. However, empirical evidence on shifts in specialization is scarce for generalist insect herbivores and existing studies often fail to control for the phylogeny and abundance of interaction partners. In Chapter III, we used a combination of field observations and amplicon sequencing to reconstruct dietary relationships between Orthoptera and plants along an extensive temperature gradient. We did not find close but flexible links between individual grasshopper and plant taxa in space. While interaction network specialisation increased with temperature, the corrected dietary specialisation pattern peaked at intermediate elevations on assemblage level. These nuanced findings demonstrate that (1) resource availability, (2) phylogenetic relationships, and (3) climate can affect empirical foodwebs intra- and interspecifically and, hence, the dietary specialisation of herbivorous insects. In this context, we discuss that the underlying mechanisms involved in shaping the specialisation of herbivore assemblages may switch along temperature clines. Chapter IV: Links between faecal microbe communities, feeding habits, and climate Since gut microbes affect the fitness and digestion of insects, studying their diversity could provide novel insights into specialisation patterns. However, their association with insect hosts that differ in feeding habits and specialisation has never been investigated along elevational climatic gradients. In Chapter IV, we utilized the dietary information gathered in Chapter III to characterize links between insects with distinct feeding behaviour and the microbial communities present in their faeces, using amplicon sequencing. Both, feeding and climate affected the bacterial communities. However, the large overlap of microbes at site level suggests that common bacteria are acquired from the shared feeding environment, such as the plants consumed by the insects. These findings emphasize the influence of a broader environmental context on the composition of insect gut microbial communities. Chapter V: Discussion \& Conclusions Cumulatively, the sections of this dissertation provide support for the hypothesis that climatic conditions play a role in shaping plant-herbivore systems. The detected variation of taxonomic and functional compositions contributes to our understanding of assembly processes and resulting diversity patterns within Orthoptera communities, shedding light on the mechanisms that structure their trophic interactions in diverse climates. The combined results presented suggest that a warmer climate could foster an increase of Orthoptera species richness in Central European semi-natural grasslands, also because the weak links observed between insect herbivores and plants are unlikely to limit decoupled range shifts. However, the restructuring of Orthoptera communities in response to warmer temperatures depends on species' traits such as moisture preferences or phenology. Notably, we were able to demonstrate a crucial role of microclimate for many species, partly unravelling narrower climatic niches than their elevational ranges suggest. We found evidence that not only Orthoptera community composition, specialisation, and traits varied along elevational gradients, but even microbial communities in the faeces of Orthoptera changed, which is a novel finding. This complex restructuring and reassembly of communities, coupled with the nonlinear specialisation of trophic interactions and a high diversity of associated bacteria, emphasize our currently incomplete comprehension of how ecosystems will develop under future climatic conditions, demanding caution in making simplified predictions for biodiversity change under climate warming. Since these predictions may benefit from including biotic interactions and both, micro- and macroclimate based on our findings, conservation authorities and practitioners must not neglect improving microclimatic conditions to ensure local survival of a diverse set of threatened and demanding species. In this context, mountains can play a pivotal role for biodiversity conservation since these offer heterogeneous microclimatic conditions in proximity that can be utilized by species with distinct niches.},
  subject      = {Heuschrecken},
  language  = {en}
}
@article{OPUS4-22775,
  title     = {Sensitivity of the KM3NeT/ARCA neutrino telescope to point-like neutrino sources},
  series = {Astroparticle Physics},
  volume    = {111},
  journal   = {Astroparticle Physics},
  organization    = {The KM3NeT Collaboration},
  doi       = {10.1016/j.astropartphys.2019.04.002},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227759},
  pages     = {100-110},
  year      = {2019},
  abstract  = {KM3NeT will be a network of deep-sea neutrino telescopes in the Mediterranean Sea. The KM3NeT/ARCA detector, to be installed at the Capo Passero site (Italy), is optimised for the detection of high-energy neutrinos of cosmic origin. Thanks to its geographical location on the Northern hemisphere, KM3NeT/ARCA can observe upgoing neutrinos from most of the Galactic Plane, including the Galactic Centre. Given its effective area and excellent pointing resolution, KM3NeT/ARCA will measure or significantly constrain the neutrino flux from potential astrophysical neutrino sources. At the same time, it will test flux predictions based on gamma-ray measurements and the assumption that the gamma-ray flux is of hadronic origin. Assuming this scenario, discovery potentials and sensitivities for a selected list of Galactic sources and to generic point sources with an E-2 spectrum are presented. These spectra are assumed to be time independent. The results indicate that an observation with 3 sigma significance is possible in about six years of operation for the most intense sources, such as Supernovae Remnants RX J1713.7-3946 and Vela Jr. If no signal will be found during this time, the fraction of the gamma-ray flux coming from hadronic processes can be constrained to be below 50\% for these two objects. (C) 2019 The Authors. Published by Elsevier B.V.},
  language  = {en}
}
@techreport{HerrmannRizk2023,
  type      = {Working Paper},
  author    = {Herrmann, Martin and Rizk, Amr},
  title     = {On Data Plane Multipath Scheduling for Connected Mobility Applications},
  series = {KuVS Fachgespr{\"a}ch - W{\"u}rzburg Workshop on Modeling, Analysis and Simulation of Next-Generation Communication Networks 2023 (WueWoWAS'23)},
  journal   = {KuVS Fachgespr{\"a}ch - W{\"u}rzburg Workshop on Modeling, Analysis and Simulation of Next-Generation Communication Networks 2023 (WueWoWAS'23)},
  edition   = {aktualisierte Version},
  doi       = {10.25972/OPUS-35344},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353444},
  pages     = {4},
  year      = {2023},
  abstract  = {Cooperative, connected and automated mobility (CCAM) systems depend on a reliable communication to provide their service and more crucially to ensure the safety of users. One way to ensure the reliability of a data transmission is to use multiple transmission technologies in combination with redundant flows. In this paper, we describe a system requiring multipath communication in the context of CCAM. To this end, we introduce a data plane-based scheduler that uses replication and integration modules to provide redundant and transparent multipath communication. We provide an analytical model for the full replication module of the system and give an overview of how and where the data-plane scheduler components can be realized.},
  language  = {en}
}
@incollection{Jung2024,
  author    = {Jung, Matthias},
  title     = {Einf{\"u}hrende Bemerkungen des Herausgebers},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-7},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353027},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {7-9},
  year      = {2024},
  abstract  = {No abstract available.},
  subject      = {Konflikt},
  language  = {de}
}
@incollection{Jung2024,
  author    = {Jung, Matthias},
  title     = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt. Negative Reziprozit{\"a}t, Konfigurationen des Dritten und die Bedeutung materieller Kultur},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-11},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353061},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {11-120},
  year      = {2024},
  abstract  = {Dieser Band der „W{\"u}rzburger Studien zur Vor- und Fr{\"u}hgeschichtlichen Arch{\"a}ologie" legt zum einen die Ergebnisse des DFG-Projektes „Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt" vor, das zwischen dem 1. April 2021 und dem 31. M{\"a}rz 2024 am Lehrstuhl f{\"u}r Vor- und Fr{\"u}hgeschichtliche Arch{\"a}ologie des Instituts f{\"u}r Altertumswissenschaften der Julius-Maximilians-Universit{\"a}t W{\"u}rzburg angesiedelt war und unter der Leitung des Herausgebers durchgef{\"u}hrt wurde. Sein einleitender Beitrag gliedert sich nach den drei Themen, die im Rahmen des Projektes bearbeitet wurden. Das erste zielte auf eine begriffliche Kl{\"a}rung des Ph{\"a}nomens der negativen Reziprozit{\"a}t, die nicht als Derivat oder Verfallserscheinung „eigentlicher" Reziprozit{\"a}t zu verstehen ist, sondern gleichurspr{\"u}nglich mit der positiven in einer strukturellen Reziprozit{\"a}t gr{\"u}ndet. Konkret geht es um die Frage, wie Beziehungen des Austauschs wechselseitiger sch{\"a}digender Handlungen in Gang gesetzt werden, mittels welcher Mechanismen sie auf Dauer gestellt und wie sie gegebenenfalls beendet werden k{\"o}nnen. Ein wichtiger empirischer Faktor f{\"u}r den Umgang mit Dynamiken negativer Reziprozit{\"a}t ist die Erweiterung der dyadischen Konstellation zu einer triadischen durch Einbeziehung eines Dritten (oder von etwas Drittem). Die g{\"a}ngigen Konfliktmanagementtypologien beschreiben zumeist rollenf{\"o}rmig agierende, unparteiische, personale und singul{\"a}re Dritte, deshalb lag der Fokus im Kontext des Projektes auf Konfigurationen von Dritten, die von diesen Typologien invisibilisiert werden, das heißt auf parteiischen oder kollektiv verfassten Dritten sowie tats{\"a}chlich unsichtbaren, also imaginierten, fiktiven, abwesenden oder antizipierten Dritten. Und schließlich wurde untersucht, welche Bedeutungen der materiellen Kultur in Prozessen der Konfliktregelung zukommen, welche Funktionen konkrete Objekte {\"u}bernehmen k{\"o}nnen bei der Definition und Einrichtung der Situation, der Symbolisierung von Transformationen und Fortschritten in Konfliktl{\"o}sungsprozessen sowie der sinnf{\"a}lligen und dauerhaften Symbolisierung der erzielten Ergebnisse.},
  language  = {de}
}
@incollection{Loer2024,
  author    = {Loer, Thomas},
  title     = {Reziprozit{\"a}t in Transgression. Zum {\"U}bergang zwischen negativer und positiver Reziprozit{\"a}t},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-121},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353074},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {121-153},
  year      = {2024},
  abstract  = {Vor dem Hintergrund einer Theorie der strukturellen oder konstitutiven Reziprozit{\"a}t geht Thomas Loer der Frage nach, wie eine Transgression von positiver zu negativer Reziprozit{\"a}t (und umgekehrt) gestaltet werden kann, welche M{\"o}glichkeiten empirisch bezeugt sind, auf Dynamiken negativer Reziprozit{\"a}t zu reagieren, und welche sozialen Folgen diese Reaktionen jeweils nach sich ziehen.},
  subject      = {Gabe},
  language  = {de}
}
@incollection{Huebner2024,
  author    = {H{\"u}bner, Dietmar},
  title     = {{\"U}ber Eskalation},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-155},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353085},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {155-175},
  year      = {2024},
  abstract  = {Das Ph{\"a}nomen der Eskalation von Auseinandersetzungen zwischen Konfliktparteien ist seitens der Philosophie und Ethik bislang kaum untersucht worden. Dietmar H{\"u}bner nimmt sich dieses Desiderates an und analysiert die normative Tiefenstruktur von Eskalationen als Schl{\"u}ssel zu einem Verst{\"a}ndnis der Stabilit{\"a}t eskalierender Konflikte, ihrer psychosozialen Dynamik sowie paradoxal erscheinender Ausdrucksformen.},
  subject      = {Eskalation},
  language  = {de}
}
@incollection{Sutterluety2024,
  author    = {Sutterl{\"u}ty, Ferdinand},
  title     = {Blutsbande. Ethnische „Verwandtschaft" als Tiefendimension sozialer Ungleichheit},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-177},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353090},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {177-203},
  year      = {2024},
  abstract  = {Die Verweigerung von Reziprozit{\"a}t schildert Ferdinand Sutterl{\"u}ty am Beispiel einer Blutspendeaktion, die ein t{\"u}rkischer Moscheeverein als Teil einer Integrationsstrategie initiierte. Mit dem symbolisch hoch aufgeladenen Blut werden von der autochthonen Bev{\"o}lkerung zugleich die angestrebten Einebnungen interethnischer Ungleichheiten sowie die mit den Spenden verbundenen konkreten Reziprozit{\"a}tserwartungen zur{\"u}ckgewiesen.},
  subject      = {Ethnizit{\"a}t},
  language  = {de}
}
@incollection{Dinges2024,
  author    = {Dinges, Martin},
  title     = {Justiznutzung und Medizinnutzung in der europ{\"a}ischen „Fr{\"u}hmoderne" (1500-1800): {\"A}hnlichkeiten, Unterschiede, Perspektiven},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-205},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353101},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {205-213},
  year      = {2024},
  abstract  = {Martin Dinges' Konzept der „Justiznutzung" meint eine Instrumentalisierung der Justiz beispielsweise mittels einer gleichzeitigen oder alternativen Nutzung verschiedener justizf{\"o}rmiger Angebote nach Opportunit{\"a}tskriterien. Ausgehend von diesem Konzept, ermittelt er Gemeinsamkeiten mit und Differenzen zu der Nutzung medizinischer Angebote in der europ{\"a}ischen Fr{\"u}hmoderne.},
  subject      = {Selbsthilfe},
  language  = {de}
}
@incollection{Heck2024,
  author    = {Heck, Justus},
  title     = {Vermittelnde Konfliktregulierung in segment{\"a}rer und funktionaldifferenzierter Gesellschaft},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-215},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353115},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {215-236},
  year      = {2024},
  abstract  = {Justus Heck untersucht vergleichend Formen der Konfliktvermittlung in segment{\"a}ren Gesellschaften einerseits und funktional differenzierten Gesellschaften andererseits. W{\"a}hrend in gering differenzierten sozialen Systemen diese selbst als implizite Dritte fungieren, unabh{\"a}ngig davon, ob konkrete Personen schlichtend intervenieren, und die Vermittlung ritualhafte Z{\"u}ge tr{\"a}gt, erm{\"o}glichen funktional differenzierte Gesellschaften verfahrensf{\"o}rmige, formalisierte und professionalisierte Vermittlungen.},
  subject      = {Mediation},
  language  = {de}
}
@incollection{Muente2024,
  author    = {M{\"u}nte, Peter},
  title     = {Konfliktbearbeitung und Vermittlungsvermeidung in versozialwissenschaftlichten Gesellschaften: Beobachtungen zur Struktur und Dynamik mediatorischer Interaktion},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-237},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353123},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {237-265},
  year      = {2024},
  abstract  = {Im Mittelpunkt des Beitrags von Peter M{\"u}nte steht die detaillierte Analyse von Ausschnitten des Transkripts einer Mediationssitzung, die exemplarische Einblicke in die Struktur und den Verlauf mediatorischer Interaktion gew{\"a}hrt - auch bez{\"u}glich der Frage, welchen Einfluss die Artefaktkultur moderierter Kommunikation, insbesondere die Verwendung eines Flipcharts, auf diesen Verlauf nimmt.},
  language  = {de}
}
@incollection{Mayer2024,
  author    = {Mayer, Lotta},
  title     = {Akephale Konfliktkonstellationen in der ver-staatlichten Gegenwart und die Frage nach der Einhegung von Gewalt: eine Skizze},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-267},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353132},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {267-285},
  year      = {2024},
  abstract  = {Lotta Mayer fragt nach akephalen Konfliktkonstellationen in Gesellschaften, in denen entweder eine Zentralgewalt zwar existiert, jedoch faktisch nicht willens bzw. nicht in der Lage ist, Konflikte zu regulieren, oder aber den Konfliktparteien selbst daran gelegen ist, ein Eingreifen der Zentralgewalt durch klandestines Handeln zu verhindern, und sie deshalb auf Formen der Selbstregulation von Konflikten zur{\"u}ckgreifen},
  subject      = {Sozialer Konflikt},
  language  = {de}
}
@incollection{Youssef2024,
  author    = {Youssef, Ramy},
  title     = {Kollektivverantwortlichkeit und Konfliktaversion als Probleme tribaler Diplomatie},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-287},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353145},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {287-299},
  year      = {2024},
  abstract  = {Eigent{\"u}mlichkeiten diplomatischer Konfliktl{\"o}sungen unter den Rahmenbedingungen segment{\"a}rer Gesellschaften geht Ramy Youssef nach. Zu diesen Bedingungen z{\"a}hlen die Kollektivverantwortlichkeit, also die Zurechnung individuellen Verhaltens auf die Gruppenzugeh{\"o}rigkeit des Individuums, sowie die Alternativlosigkeit einer Kommunikation unter Anwesenden. Dar{\"u}ber hinaus kontrastiert er die Besonderheiten tribaler und moderner Diplomatie.},
  subject      = {Diplomatie},
  language  = {de}
}
@incollection{Schwenk2024,
  author    = {Schwenk, Jochen},
  title     = {Not Giving Anyone a Bad Gallbladder: Konfliktvermeidung und Konfliktbeilegung bei den Teduray},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-301},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353151},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {301-318},
  year      = {2024},
  abstract  = {Der Beitrag von Jochen Schwenk diskutiert am Fallbeispiel der Teduray (s{\"u}dliche Philippinen) Institutionen der Mediation und Konsensfindung, mit denen Dynamiken negativer Reziprozit{\"a}t begegnet werden kann, wie beispielsweise die Versammlung des tiyawan, in dem {\"o}ffentlich und mittels einer ritualisierten Sprache der Konflikt in ein zum Wohle aller zu l{\"o}sendes Problem transformiert wird.},
  subject      = {Ethnogenese},
  language  = {de}
}
@incollection{Brandt2024,
  author    = {Brandt, Hans-J{\"u}rgen},
  title     = {Indigene Justiz, Rechtspluralismus und Ursachen des Wandels in Peru und Ecuador},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-319},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353167},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {319-338},
  year      = {2024},
  abstract  = {Auf der Grundlage einer quantitativen Analyse untersucht Hans-J{\"u}rgen Brandt Konfliktl{\"o}sungen und deren Wandel unter der Bedingung des Rechtspluralismus in andinen Gemeinschaften Perus und Ecuadors. Die indigene Justiz ist einerseits wegen ihrer friedensstiftenden und integrativen Funktion angesehen, sie ist andererseits aber nicht universalistisch orientiert und steht, beispielsweise im Hinblick auf K{\"o}rperstrafen, zuweilen in Widerspruch zu den Menschenrechten.},
  subject      = {Rechtspluralismus},
  language  = {de}
}
@incollection{Antweiler2024,
  author    = {Antweiler, Christoph},
  title     = {Konflikte meiden oder regeln. Ethnologische Perspektiven und Befunde},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-339},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353170},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {339-356},
  year      = {2024},
  abstract  = {In einer ethnologisch-vergleichenden Perspektive zeigt Christoph Antweiler auf, dass auch in nichtindustriellen Gesellschaften Gewaltlosigkeit aktiv hergestellt werden muss, welche Ressourcen und kulturellen Kompetenzen dazu erforderlich sind und welche Rolle dritte Personen oder Instanzen dabei spielen k{\"o}nnen. Mechanismen gewaltfreier Konfliktregelung beschreibt er anhand des Fallbeispiels der Semai in Malaysia.},
  language  = {de}
}
@incollection{Helbling2024,
  author    = {Helbling, J{\"u}rg},
  title     = {Figurationen des Dritten in Konfliktverl{\"a}ufen},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-357},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353180},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {357-370},
  year      = {2024},
  abstract  = {Ebenfalls ethnologisch-vergleichend befasst sich J{\"u}rg Helbling mit dem Einfluss bestimmter Drittparteien auf den Verlauf tribaler Kriege: den Alliierten einer Lokalgruppe, die sie im Kampf gegen einen Feind unterst{\"u}tzen, und einem gemeinsamen Feind, gegen den sich zwei Lokalgruppen verb{\"u}nden. Beide Typen von Drittparteien beeinflussen nicht nur die Einhegung oder Beilegung von Gewaltkonflikten, sie k{\"o}nnen auch zu ihrer Verl{\"a}ngerung und Versch{\"a}rfung beitragen.},
  language  = {de}
}
@incollection{Veit2024,
  author    = {Veit, Ulrich},
  title     = {Ethnosoziologische Perspektiven zur inhaltlichen Erschließung pr{\"a}historischarch{\"a}ologischer (Be-)Funde: Matthias Jungs arch{\"a}ologische Adaption der Objektiven Hermeneutik im Kontext paralleler Debatten in der Ur- und Fr{\"u}hgeschichtlichen Arch{\"a}ologie},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-371},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353198},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {371-391},
  year      = {2024},
  abstract  = {Ulrich Veit reflektiert Fragen der arch{\"a}ologischen Modell- und Theoriebildung, insbesondere die Aktualit{\"a}t einer sich als kulturanthropologisch verstehenden und auf allgemein-vergleichenden Analogien basierenden Arch{\"a}ologie, die zur Deutung des Quellenmaterials einer Erweiterung um kultur- bzw. sozialwissenschaftliche Konzepte bedarf.},
  subject      = {Objektive Hermeneutik},
  language  = {de}
}
@incollection{PeterRoecher2024,
  author    = {Peter-R{\"o}cher, Heidi},
  title     = {„Stellt Euch vor, es ist Krieg, und kaum einer geht hin…" - Soziale Strukturen, Kognition und Konfliktregelung in Gesellschaften ohne Zentralgewalt},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-393},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353209},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {393-403},
  year      = {2024},
  abstract  = {Vor dem Hintergrund eines kognitionsethnologischen Ansatzes hinterfragt Heidi Peter-R{\"o}cher die Interpretation einiger auf dem endneolithischen Gr{\"a}berfeld von Eulau Bestatteter als Opfer eines Massakers. Die zahlreichen verheilten Sch{\"a}delverletzungen zeugen eher davon, dass Konflikte zwar unter Anwendung von Gewalt, aber auf einer niedrigen Eskalationsstufe beigelegt wurden, wof{\"u}r sie als Modell das Spektrum ritualisierter Gewaltformen bei den s{\"u}damerikanischen Yanomami anf{\"u}hrt.},
  subject      = {Konfliktregelung},
  language  = {de}
}
@incollection{Karl2024,
  author    = {Karl, Raimund},
  title     = {Wer sich nicht selbst hilft, dem wird nicht geholfen. Konfliktvermeidung und Konfliktbeilegung im pr{\"a}historischen europ{\"a}ischen Recht},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-405},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353219},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {405-428},
  year      = {2024},
  abstract  = {Raimund Karl diskutiert Konfliktl{\"o}sungsmodi, wie sie {\"u}blich waren w{\"a}hrend der allm{\"a}hlichen Herausbildung (staatlicher) Zentralgewalten in Europa. Die fr{\"u}hen europ{\"a}ischen Rechtssysteme bestanden in der Explikation m{\"u}ndlich tradierter oder der Verschriftlichung lokal konstituierter Rechtsverst{\"a}ndnisse, f{\"u}r die trotz der entstehenden Zentralgewalten vor allem Selbsthilfemechanismen maßgebend waren.},
  subject      = {Zentralgewalt},
  language  = {de}
}
@incollection{Burmeister2024,
  author    = {Burmeister, Stefan},
  title     = {Auf der Suche nach Frieden. Zur Gestaltung von Nachkriegsordnungen - eine arch{\"a}ologische Spurensuche},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-429},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353229},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {429-442},
  year      = {2024},
  abstract  = {Ein in der arch{\"a}ologischen Konfliktforschung bislang wenig beachtetes Thema, die Geschehnisse nach Kampfhandlungen und die Etablierung einer Nachkriegsordnung, verbunden mit der Entstehung symbolischer Landschaften als Element einer Erinnerungskultur, behandelt Stefan Burmeister, der unter anderem die Ereignisse nach dem sog. Karfreitagsgefecht der Bundeswehr am 2. April 2010 in Afghanistan und die Rolle der materiellen Kultur in diesem Kontext analysiert.},
  subject      = {Konfliktregelung},
  language  = {de}
}
@incollection{KneiselLoyNakoinzetal.2024,
  author    = {Kneisel, Jutta and Loy, Anna K. and Nakoinz, Oliver and Schaefer-Di Maida, Stefanie},
  title     = {Konfliktvermeidung und Konfliktbeilegung in der S{\"u}dzone des Nordischen Kreises und Polen},
  series = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  booktitle = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  doi       = {10.25972/WUP-978-3-95826-241-6-443},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353234},
  publisher      = {W{\"u}rzburg University Press},
  pages     = {443-478},
  year      = {2024},
  abstract  = {Jutta Kneisel, Anna K. Loy, Oliver Nakoinz und Stefanie Schaefer-Di Maida formulieren ein Modell, das verschiedene Stufen der Eskalation und der Deeskalation von Konflikten unterscheidet, und untersuchen f{\"u}r die S{\"u}dzone des Nordischen Kreises sowie f{\"u}r Polen, wie die Deeskalationsstufen in der materiellen Kultur der Bronze- und fr{\"u}hen Eisenzeit - von einzelnen Objekten bis hin zur Umgestaltung von Landschaften - Ausdruck fanden.},
  subject      = {Deeskalation},
  language  = {de}
}
@article{KoernerMeyerMarincolaetal.2023,
  author    = {K{\"o}rner, Maria and Meyer, Susanne R. and Marincola, Gabriella and Kern, Maximilian J. and Grimm, Clemens and Schuelein-Voelk, Christina and Fischer, Utz and Hofmann, Kay and Buchberger, Alexander},
  title     = {The FAM104 proteins VCF1/2 promote the nuclear localization of p97/VCP},
  series = {eLife},
  volume    = {12},
  journal   = {eLife},
  doi       = {10.7554/eLife.92409},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350222},
  year      = {2023},
  abstract  = {The ATPase p97 (also known as VCP, Cdc48) has crucial functions in a variety of important cellular processes such as protein quality control, organellar homeostasis, and DNA damage repair, and its de-regulation is linked to neuromuscular diseases and cancer. p97 is tightly controlled by numerous regulatory cofactors, but the full range and function of the p97-cofactor network is unknown. Here, we identify the hitherto uncharacterized FAM104 proteins as a conserved family of p97 interactors. The two human family members VCP nuclear cofactor family member 1 and 2 (VCF1/2) bind p97 directly via a novel, alpha-helical motif and associate with p97-UFD1-NPL4 and p97-UBXN2B complexes in cells. VCF1/2 localize to the nucleus and promote the nuclear import of p97. Loss of VCF1/2 results in reduced nuclear p97 levels, slow growth, and hypersensitivity to chemical inhibition of p97 in the absence and presence of DNA damage, suggesting that FAM104 proteins are critical regulators of nuclear p97 functions.},
  language  = {en}
}
@article{FetivaLissGertzmannetal.2023,
  author    = {Fetiva, Maria Camila and Liss, Franziska and Gertzmann, D{\"o}rthe and Thomas, Julius and Gantert, Benedikt and Vogl, Magdalena and Sira, Nataliia and Weinstock, Grit and Kneitz, Susanne and Ade, Carsten P. and Gaubatz, Stefan},
  title     = {Oncogenic YAP mediates changes in chromatin accessibility and activity that drive cell cycle gene expression and cell migration},
  series = {Nucleic Acids Research},
  volume    = {51},
  journal   = {Nucleic Acids Research},
  number    = {9},
  doi       = {10.1093/nar/gkad107},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350218},
  pages     = {4266-4283},
  year      = {2023},
  abstract  = {YAP, the key protein effector of the Hippo pathway, is a transcriptional co-activator that controls the expression of cell cycle genes, promotes cell growth and proliferation and regulates organ size. YAP modulates gene transcription by binding to distal enhancers, but the mechanisms of gene regulation by YAP-bound enhancers remain poorly understood. Here we show that constitutive active YAP5SA leads to widespread changes in chromatin accessibility in untransformed MCF10A cells. Newly accessible regions include YAP-bound enhancers that mediate activation of cycle genes regulated by the Myb-MuvB (MMB) complex. By CRISPR-interference we identify a role for YAP-bound enhancers in phosphorylation of Pol II at Ser5 at MMB-regulated promoters, extending previously published studies that suggested YAP primarily regulates the pause-release step and transcriptional elongation. YAP5SA also leads to less accessible 'closed' chromatin regions, which are not directly YAP-bound but which contain binding motifs for the p53 family of transcription factors. Diminished accessibility at these regions is, at least in part, a consequence of reduced expression and chromatin-binding of the p53 family member ΔNp63 resulting in downregulation of ΔNp63-target genes and promoting YAP-mediated cell migration. In summary, our studies uncover changes in chromatin accessibility and activity that contribute to the oncogenic activities of YAP.},
  language  = {en}
}
@inproceedings{OPUS4-34808,
  title     = {Konfliktvermeidung und Konfliktbeilegung in Gesellschaften ohne Zentralgewalt},
  editor    = {Jung, Matthias},
  edition   = {1. Auflage},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  isbn      = {978-3-95826-240-9},
  issn      = {2367-0681},
  doi       = {10.25972/WUP-978-3-95826-241-6},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-348086},
  pages     = {480},
  year      = {2024},
  abstract  = {Einer der neueren Trends in der Vor- und Fr{\"u}hgeschichtlichen Arch{\"a}ologie ist die Besch{\"a}ftigung mit pr{\"a}historischen Konflikten. Zumeist beschr{\"a}nkt sich diese sogenannte Konfliktforschung jedoch auf eine bloße Gewaltforschung unter Vernachl{\"a}ssigung der Frage, was Konflikte als Konflikte eigentlich ausmacht und wie sie vermieden oder geregelt beigelegt werden k{\"o}nnen. Vor diesem Hintergrund verstehen sich die Beitr{\"a}ge in diesem Band als Theorieangebote an die Arch{\"a}ologie: Aus der Perspektive ihrer jeweiligen Disziplinen - Soziologie, Philosophie, Ethnologie, Arch{\"a}ologie, Geschichts- und Politikwissenschaften - gehen die Autorinnen und Autoren den Fragen nach, wie sich in Gesellschaften ohne (oder mit nur eingeschr{\"a}nkter) Zentralgewalt Dynamiken negativer Reziprozit{\"a}t darstellen und wie sie sich beenden lassen, welche Rolle dritte Parteien oder Instanzen dabei spielen k{\"o}nnen und welche Bedeutung der materiellen Kultur im Kontext dieser Prozesse zukommt.},
  subject      = {Konflikt},
  language  = {de}
}
@article{SiverinoFahmyGarciaNiklausetal.2023,
  author    = {Siverino, Claudia and Fahmy-Garcia, Shorouk and Niklaus, Viktoria and Kops, Nicole and Dolcini, Laura and Misciagna, Massimiliano Maraglino and Ridwan, Yanto and Farrell, Eric and van Osch, Gerjo J. V. M. and Nickel, Joachim},
  title     = {Addition of heparin binding sites strongly increases the bone forming capabilities of BMP9 in vivo},
  series = {Bioactive Materials},
  volume    = {29},
  journal   = {Bioactive Materials},
  doi       = {10.1016/j.bioactmat.2023.07.010},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350470},
  pages     = {241-250},
  year      = {2023},
  abstract  = {Highlights • Despite not being crucial for bone development BMP9 can induce bone growth in vivo. • BMP9 induced bone formation is strongly enhanced by introduced heparin binding sites. • BMP9s bone forming capabilities are triggered by extracellular matrix binding. • Heparin binding BMP9 (BMP9 HB) can improve the current therapies in treating bone fractures. Abstract Bone Morphogenetic proteins (BMPs) like BMP2 and BMP7 have shown great potential in the treatment of severe bone defects. In recent in vitro studies, BMP9 revealed the highest osteogenic potential compared to other BMPs, possibly due to its unique signaling pathways that differs from other osteogenic BMPs. However, in vivo the bone forming capacity of BMP9-adsorbed scaffolds is not superior to BMP2 or BMP7. In silico analysis of the BMP9 protein sequence revealed that BMP9, in contrast to other osteogenic BMPs such as BMP2, completely lacks so-called heparin binding motifs that enable extracellular matrix (ECM) interactions which in general might be essential for the BMPs' osteogenic function. Therefore, we genetically engineered a new BMP9 variant by adding BMP2-derived heparin binding motifs to the N-terminal segment of BMP9′s mature part. The resulting protein (BMP9 HB) showed higher heparin binding affinity than BMP2, similar osteogenic activity in vitro and comparable binding affinities to BMPR-II and ALK1 compared to BMP9. However, remarkable differences were observed when BMP9 HB was adsorbed to collagen scaffolds and implanted subcutaneously in the dorsum of rats, showing a consistent and significant increase in bone volume and density compared to BMP2 and BMP9. Even at 10-fold lower BMP9 HB doses bone tissue formation was observed. This innovative approach of significantly enhancing the osteogenic properties of BMP9 simply by addition of ECM binding motifs, could constitute a valuable replacement to the commonly used BMPs. The possibility to use lower protein doses demonstrates BMP9 HB's high translational potential.},
  language  = {en}
}
@phdthesis{Wenderoth2024,
  author    = {Wenderoth, Sarah},
  title     = {Synthesis and characterization of shear stress indicator supraparticles},
  doi       = {10.25972/OPUS-35281},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352819},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {The detection of smallest mechanical loads plays an increasingly important role in many areas of advancing automation and manufacturing technology, but also in everyday life. In this doctoral thesis, various microparticle systems were developed that are able to indicate mechanical shear stress via simple mechanisms. Using a toolbox approach, these systems can be spray-dried from various nanoscale primary particles (silica and iron oxide) to micrometer-sized units, so-called supraparticles. By varying the different building blocks and in combination with different dyes, a new class of mechanochromic shear stress indicators was developed by constructing hierarchically structured core-shell supraparticles that can indicate mechanical stress via an easily detectable color change. Three different mechanisms can be distinguished. If a signal becomes visible only by a mechanical load, it is a turn-on indicator. In the opposite case, the turn-off indicator, the signal is switched off by a mechanical load. In the third mechanism, the color-change indicator, the color changes as a result of a mechanical load. In principle, these indicators can be used in two different ways. First, they can be incorporated into a coating as an additive. These coatings can be applied to a wide range of products, including food packaging, medical devices, and generally any sensitive surface where mechanical stress, such as scratches, is difficult to detect but can have serious consequences. Second, these shear stress indicators can also be used directly in powder form and for example then applied in 3D-printing or in ball mills. A total of six different shear stress indicators were developed, three of which were used as additives in coatings and three were applied in powder form. Depending on their composition, these indicators were readout by fluorescence, UV-Vis or Magnetic Particle Spectroscopy. The development of these novel shear stress indicator supraparticles were successfully combined molecular chemistry with the world of nano-objects to develop macroscopic systems that can enable smart and communicating materials to indicate mechanical stress in a variety of applications.},
  subject      = {Nanopartikel},
  language  = {en}
}
@phdthesis{Demeter2024,
  author    = {Demeter, Eran},
  title     = {Retrospektive Untersuchung zur H{\"a}ufigkeit von unerw{\"u}nschten immunvermittelten Ereignissen unter Immuntherapie mit Nivolumab oder Pembrolizumab bei {\"a}lteren und j{\"u}ngeren Patient*innen},
  doi       = {10.25972/OPUS-35258},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352586},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {ICIs sind inzwischen integrales Therapiemittel vieler Tumoren, selbst in nicht metastasierten Stadien. Das Management von dabei eventuell entstehenden Nebenwirkungen bleibt wichtiger Bestandteil der Therapie vor allem im fortgeschrittenen Alter. Retrospektive Untersuchungen wie unsere tragen dazu bei, das in vielen klinischen Studien unterrepr{\"a}sentierte Patientenkollektiv {\"a}lterer Patienten in den klinischen Alltag sowie in Therapieentscheidungen und -planungen zu integrieren. Der prim{\"a}re Studienendpunkt unserer Arbeit unterst{\"u}tzt wichtige Erkenntnisse anderer Studien, dass irAEs insgesamt unter {\"a}lteren Patienten nicht h{\"a}ufiger auftreten. Zwischen allen drei Altersklassen von ~55, ~70 und ~80 Jahren zeigten sich keine signifikanten Unterschiede im Auftreten von irAEs aller Grade, wobei irAEs Grad III/IV etwas h{\"a}ufiger bei ~80-J{\"a}hrigen auftraten. In unserem Fall stellten wir fest, dass auftretende irAEs im Alter h{\"a}ufiger behandelt wurden, und dass die Immuntherapie h{\"a}ufiger pausiert oder abgebrochen wurde. Zudem war der Anteil an Therapieabbr{\"u}chen unter den {\"a}lteren Patienten wegen bestimmter Ereignisse wie TRAEs und dem Einsatz von Glukokortikoiden h{\"o}her als bei j{\"u}ngeren Patienten. Die Ergebnisse unserer Studie deuten außerdem darauf hin, dass selbst unter Polypharmazie und Multimorbidit{\"a}t irAEs nicht h{\"a}ufiger bei {\"A}lteren auftraten. Ebenso k{\"o}nnen wir die interessante Beobachtung verzeichnen, dass Patienten mit >5 Medikamenten und gleichzeitig >5 Erkrankungen signifikant mehr irAEs Grad III/IV aufwiesen oder mehr Patienten Glukokortikoide verabreicht bekommen haben. Auch der Anteil an Interventionsbedarf oder Therapieabbruch war hier in allen Altersklassen h{\"o}her. Es stellt sich die Frage, inwiefern hohes Alter, Komorbidit{\"a}t und Polypharmazie Risikofaktoren f{\"u}r Interventionsbedarf oder Therapieabbruch in der Immuntherapie sind, und ob ihnen eher besondere Gewichtung als Risikofaktor zukommt als dem Alter selbst.},
  subject      = {Immuntherapie},
  language  = {de}
}
@phdthesis{RombachgebGrosso2024,
  author    = {Rombach [geb. Grosso], Franziska},
  title     = {Der Interaktionsrezeptor des Masernvirus auf h{\"a}matopoetischen Zellen},
  doi       = {10.25972/OPUS-35339},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-353394},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Das Masernvirus (MV) kann in Erkrankten eine schwere, langanhaltende Immunsuppression verursachen, wodurch Infektionen mit opportunistischen Pathogenen beg{\"u}nstigt werden. Diese basiert auf einer Paralyse der h{\"a}matopoetischen Zellen, welche das Virus durch Kontakt eines viralen Glykoproteinkomplexes zu einem unbekannten RezeptorX auf der Zell- Oberfl{\"a}che induzieren kann. Kerncharakterisitika hiervon sind unter anderem die Herabregulation der Akt-Kinase-Phosphorylierung, die Inhibition der zellul{\"a}ren Proliferation und die Aktivierung der neutralen Sphingomyelinase 2 (NSM2). In einem kinetischen Phosphoproteom konnten zwei potentielle Interaktionsrezeptoren des MV identifiziert werden: CD43 und P2X3. Das hochglykosylierte Oberfl{\"a}chenmolek{\"u}l CD43 ist auf h{\"a}matopoetischen Zellen ubiquit{\"a}r exprimiert und reguliert in T-Zellen deren {\"U}berleben, Proliferation, Aktivierung, Migration und Adh{\"a}sion. P2X3 wird in h{\"a}matopoetischen Zellen nur in geringem Maße exprimiert. Seine funktionelle Bedeutung ist in diesem Kompartiment nicht bekannt. Beide Kandidaten wurden mittels CRISPR/Cas9 Verfahren einzeln oder kombiniert aus Jurkat-T-Zellen ablatiert, welche nachfolgend nach MV-Kontakt hinsichtlich der oben erw{\"a}hnten MV-modulierten Parameter getestet wurden. Zus{\"a}tzlich wurden iso- und allosterische P2X3-Inhibitoren an prim{\"a}ren und Jurkat-T-Zellen verwendet, um dessen Rolle in Ca2+-Mobilisierung und Proliferation nach T-Zell-Rezeptor Co-Stimulation zu analysieren. Die genetische Depletion beider Rezeptor-Kandidaten verringerte die Effekte des MV auf alle getesteten Parameter signifikant, was darauf hindeutet, dass beide Proteine entscheidend an der T-Zell-Suppression beteiligt sind. W{\"a}hrend die isosterische Inhibition von P2X3 keinen Effekt hatte, wurde die Proliferation prim{\"a}rer T-Zellen durch dessen allosterische Inhibition vor Co-Stimulation fast verdoppelt und die Effizienz der Ca2+-Mobilisierung in Jurkat- und prim{\"a}ren T-Zellen signifikant erh{\"o}ht. In P2X3-depletierten Jurkat-Zellen hingegen war die Ca2+-Mobilisierung nach Stimulation signifikant geringer als in WT-Zellen. In dieser Arbeit konnten zwei wichtige Mediatoren der MV induzierten T-Zell-Suppression identifiziert werden. Vor allem P2X3, dessen Expression, Regulation und funktionelle Bedeutung im h{\"a}matopoetischen Kompartiment noch nicht erforscht wurde, k{\"o}nnte ein vielversprechender Kandidat f{\"u}r eine antivirale Therapie darstellen, da ein klinisch getesteter P2X3-Inhibitor bereits verf{\"u}gbar ist.},
  subject      = {Masernvirus},
  language  = {de}
}
@article{OPUS4-22774,
  title     = {Characterisation of the Hamamatsu photomultipliers for the KM3NeT Neutrino Telescope},
  series = {Journal of Instrumentation},
  volume    = {13},
  journal   = {Journal of Instrumentation},
  organization    = {The KM3NeT collaboration},
  doi       = {10.1088/1748-0221/13/05/P05035},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227744},
  pages     = {1-14},
  year      = {2018},
  abstract  = {The Hamamatsu R12199-023-inch photomultiplier tube is the photodetector chosen for the first phase of the KM3NeT neutrino telescope. About 7000 photomultipliers have been characterised for dark count rate, timing spread and spurious pulses. The quantum efficiency, the gain and the peak-to-valley ratio have also been measured for a sub-sample in order to determine parameter values needed as input to numerical simulations of the detector.},
  language  = {en}
}
@phdthesis{Peindl2024,
  author    = {Peindl, Matthias},
  title     = {Refinement of 3D lung cancer models for automation and patient stratification with mode-of-action studies},
  doi       = {10.25972/OPUS-31069},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-310693},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Lung cancer is the main cause of cancer-related deaths worldwide. Despite the availability of several targeted therapies and immunotherapies in the clinics, the prognosis for lung cancer remains poor. A major problem for the low benefit of these therapies is intrinsic and acquired resistance, asking for pre-clinical models for closer investigation of predictive biomarkers for refined personalized medicine and testing of possible combination therapies as well as novel therapeutic approaches to break resistances. One third of all lung adenocarcinoma harbor mutations in the KRAS gene, of which 39 \% are transitions from glycine to cysteine in codon 12 (KRASG12C). Being considered "undruggable" in previous decades, KRASG12C-inhibitors now paved the way into the standard-of-care for lung adenocarcinoma treatment in the clinics. Still, the overall response rates as well as overall survival of patients treated with KRASG12C-inhibitors are sobering. Therefore, 3D KRASG12C-biomarker in vitro models were developed based on a decellularized porcine jejunum (SISmuc) using commercial and PDX-derived cell lines and characterized in regards of epithelial-mesenchymal-transition (EMT), stemness, proliferation, invasion and c-MYC expression as well as the sensitivity towards KRASG12C-inhibiton. The phenotype of lung tumors harboring KRAS mutations together with a c-MYC overexpression described in the literature regarding invasion and proliferation for in vivo models was well represented in the SISmuc models. A higher resistance towards targeted therapies was validated in the 3D models compared to 2D cultures, while reduced viability after treatment with combination therapies were exclusively observed in the 3D models. In the test system neither EMT, stemness nor the c-MYC expression were directly predictive for drug sensitivity. Testing of a panel of combination therapies, a sensitizing effect of the aurora kinase A (AURKA) inhibitor alisertib for the KRASG12C-inhibitor ARS-1620 directly correlating with the level of c-MYC expression in the corresponding 3D models was observed. Thereby, the capability of SISmuc tumor models as an in vitro test system for patient stratification was demonstrated, holding the possibility to reduce animal experiments. Besides targeted therapies the treatment of NSCLC with oncolytic viruses (OVs) is a promising approach. However, a lack of in vitro models to test novel OVs limits the transfer from bench to bedside. In this study, 3D NSCLC models based on the SISmuc were evaluated for their capability to perform efficacy and risk assessment of oncolytic viruses (OVs) in a pre-clinical setting. Hereby, the infection of cocultures of tumor cells and fibroblasts on the SISmuc with provided viruses demonstrated that in contrast to a wildtype herpes simplex virus 1 (HSV-1) based OV, the attenuated version of the OV exhibited specificity for NSCLC cells with a more advanced and highly proliferative phenotype, while fibroblasts were no longer permissive for infection. This approach introduced SISmuc tumor models as novel test system for in vitro validation of OVs. Finally, a workflow for validating the efficacy of anti-cancer therapies in 3D tumor spheroids was established for the transfer to an automated platform based on a two-arm-robot system. In a proof-of-concept process, H358 spheroids were characterized and treated with the KRASG12C-inhibitor ARS-1620. A time- and dose-dependent reduction of the spheroid area after treatment was defined together with a live/dead-staining as easy-to-perform and cost-effective assays for automated drug testing that can be readily performed in situ in an automated system.},
  subject      = {Krebs <Medizin>},
  language  = {en}
}
@phdthesis{Sokalski2024,
  author    = {Sokalski, Victoria Luisa Sarah},
  title     = {Klinische und echokardiografische Pr{\"a}diktoren des Kurz- und Langzeit{\"u}berlebens bei PatientInnen nach einer kathetergest{\"u}tzten Aortenklappenimplantation},
  doi       = {10.25972/OPUS-35277},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352770},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Die Aortenklappenstenose stellt eine der h{\"a}ufigsten Herzklappenerkrankungen der westlichen Welt mit steigender Inzidenz dar. Mithilfe der kathetergest{\"u}tzten Aortenklappenimplantation (TAVI) ist es heutzutage m{\"o}glich, auch chirurgisch inoperable PatientInnen mit einer Klappenprothese zielgerichtet zu behandeln. Ziel dieser Arbeit war es, klinische und echokardiografische Pr{\"a}diktoren der Gesamtmortalit{\"a}t sowie des Kurz- (30 Tage) und Langzeit{\"u}berlebens (12 Monate) nach TAVI zu ermitteln. Es wurden zahlreiche klinische und echokardiografische Parameter bei 618 PatientInnen, die zwischen Juli 2009 und Oktober 2018 eine TAVI erhielten, untersucht. Anschließend erfolgte ein Follow-up mittels Telefoninterview oder haus{\"a}rztlicher Auskunft. Es folgten statistische Analysen zur Ermittlung signifikanter Unterschiede zwischen verstorbenen und lebenden PatientInnen. Abschließend wurden m{\"o}gliche Pr{\"a}diktoren der Mortalit{\"a}t mithilfe multivariabler Cox Regressionmodelle identifiziert. In den Analysen ergaben sich zahlreiche signifikante Unterschiede zwischen Lebenden und Verstorbenen. Klinische Pr{\"a}diktoren, die ein h{\"o}heres Risiko der Gesamt- sowie Langzeitmortalit{\"a}t anzeigen, sind der Zugangsweg (transapikal), pAVK, Vorhofflimmern, erh{\"o}hte CRP-Level sowie eine Amiodaroneinnahme. Letztere erwies sich als der einzige Pr{\"a}diktor der Kurzzeitmortalit{\"a}t. Als echokardiografische Pr{\"a}diktoren (nach Adjustierung bez{\"u}glich klinischer Parameter) der Gesamtmortalit{\"a}t pr{\"a}sentieren sich eine erniedrigte TAPSE (≤14mm), erniedrigte septale MAPSE (≤6mm) sowie erh{\"o}htes septales E/e' (≥28). Dieses ist auch ein Pr{\"a}diktor des Lang- und Kurzzeit{\"u}berlebens. Zus{\"a}tzlich zeigt ein sPAP-Anstieg pro 5mmHg eine erh{\"o}hte Kurzzeitsterblichkeit an. F{\"u}r die Mortalit{\"a}t nach einem TAVI-Eingriff sind neben kardiovaskul{\"a}ren Komorbidit{\"a}ten auch echokardiografisch messbare kardiale Faktoren entscheidend, insbesondere eine systolische Dysfunktion (erniedrigte TAPSE und MAPSE), diastolische Dysfunktion (erh{\"o}hter F{\"u}llungsdruckindex E/e') sowie erh{\"o}hte pulmonalarterielle Dr{\"u}cke (sPAP). Wenn PatientInnen schon vor dem Eingriff diese pathologischen Werte zeigen, sind sie als einem „Hochrisikokollektiv" zugeh{\"o}rig aufzufassen, was in der Aufkl{\"a}rung wie auch Vor- und in der Nachsorge solcher PatientInnen zuk{\"u}nftig Ber{\"u}cksichtigung finden sollte.},
  subject      = {Transkatheter-Aortenklappenimplantation},
  language  = {de}
}
@techreport{OPUS4-35271,
  type      = {Working Paper},
  title     = {Krisen, Potenziale und Perspektiven der EU - Die mainEUropa Blogs 2017 bis 2021},
  editor    = {M{\"u}ller-Brandeck-Bocquet, Gisela},
  issn      = {2625-6193},
  doi       = {10.25972/OPUS-35271},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352715},
  pages     = {146},
  year      = {2024},
  abstract  = {Dieses f{\"u}nfte Jean Monnet Paper f{\"u}gt alle 36 mainEUropa-Blogs, die zwischen 2017 und 2021 an der mit einem Jean Monnet Lehrstuhl ausgezeichneten Professur f{\"u}r Europaforschung und Internationale Beziehungen der Universit{\"a}t W{\"u}rzburg verfasst wurden, zu einer einheitlichen Publikation zusammen. Die mainEUropa-Blogs wollten {\"u}ber ausgew{\"a}hlte Aspekte der EU-Politik aktuell, knapp und leicht verst{\"a}ndlich informieren; damit haben sie dem EU-Geschehen der Jahre 2017 bis 2021 aus jeweils aktuellen Anl{\"a}ssen den Puls genommen und zu einem besseren Verst{\"a}ndnis der EU-Politik- und Entscheidungsprozesse beigetragen. Die Blog-Themen sind breit gef{\"a}chert und bilden somit ausgew{\"a}hlte Ereignisse und Weichenstellungen aus der j{\"u}ngeren Integrationsgeschichte ab. Die Themen reichen {\"u}ber klimapolitische Beschl{\"u}sse, das Ringen um den Erhalt bzw. die Wiederherstellung der Rechtstaatlichkeit in einigen EU-Mitgliedstaaten, das Endlos-Drama des Brexits, wichtige Wahlen in der EU und ausgew{\"a}hlten Mitgliedstaaten bis hin zu neuen Entwicklungen in der EU-Außen-, Sicherheits- und Verteidigungspolitik sowie zu den {\"u}berraschend zupackenden Antworten der EU auf die Covid-19-Pandemie. Ein Blick auf die europapolitische Agenda der im Dezember 2021 angetretenen rot-gr{\"u}n-gelben Ampel-Bundesregierung beschließt die Reihe. Denn 2021 endete auch das die mainEUropa-Blogs tragende Jean Monnet Projekt, so dass das vorliegende f{\"u}nfte Jean Monnet Paper auch das letzte sein wird.},
  subject      = {Europ{\"a}ische Union},
  language  = {de}
}
@phdthesis{Rammler2024,
  author    = {Rammler, Tanja Elisabeth},
  title     = {3D-gedruckte Z{\"a}hne zur Verbesserung der Lehre von Veneerpr{\"a}parationen},
  doi       = {10.25972/OPUS-35259},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352593},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {In der vorliegenden Arbeit pr{\"a}parierten Studierende 3D-gedruckte {\"U}bungsz{\"a}hne, in denen die korrekte Pr{\"a}paration eines Veneers farblich abgesetzt war. Die neue Lehrmethode wurde durch die Teilnehmer in einem Fragebogen evaluiert und zus{\"a}tzlich wurden die Pr{\"a}parationen digital mit einer Referenzpr{\"a}paration verglichen. Die Teilnehmer des praktischen Kurses sch{\"a}tzten die Zweischichttechnik als gute Lehrmethode ein ({\O} 2,0 ± 0,37) und gaben zahlreiche Vorteile der Zweischichttechnik an. Die digitale Auswertung der pr{\"a}parierten Z{\"a}hne konnte unter den Limitationen der vorliegenden Studie keine signifikant schlechtere Pr{\"a}parationsqualit{\"a}t nach zweimaligem Pr{\"a}parieren von einschichtigen Modellz{\"a}hnen als nach zweimaligem Pr{\"a}parieren von zweischichtigen {\"U}bungsz{\"a}hnen nachweisen (p = 0,91). Der Lernerfolg der Studierenden erwies sich durch in Zweischichttechnik gedruckte Z{\"a}hne mit integriertem Veneer nicht besser als durch einschichtige Modellz{\"a}hne (〖ΔL〗_A= -0,01; 〖ΔL〗_B= -0,03). Der Unterschied zwischen den Pr{\"a}parationsergebnissen des ersten und vierten Durchgangs war allerdings nicht signifikant (Gruppe A: {\O} GMW+/- 0,17 ± 0,07 → {\O} GMW+/- 0,18 ± 0,05, p = 0,317; Gruppe B: {\O} GMW+/- 0,15 ± 0,07 → 0,18 ± 0,09, p = 0.066). Gr{\"u}nde hierf{\"u}r k{\"o}nnten unter anderem Erm{\"u}dung und sinkende Motivation w{\"a}hrend des praktischen Kurses gewesen sein. Diesem Problem k{\"o}nnte Rechnung getragen werden, indem folgende Studien an mehreren Terminen durchgef{\"u}hrt werden. Auch eine m{\"o}gliche Fokussierung der Studierenden auf das Abl{\"o}sen der oberen Schicht sowie die unterschiedliche H{\"a}rte der beiden Schichten k{\"o}nnten einen besseren Lernerfolg mit zweischichtigen {\"U}bungsz{\"a}hnen verhindert haben. Die Teilnehmer, die ihre manuellen Fertigkeiten als besonders gut einsch{\"a}tzen, pr{\"a}parierten mit einer durchschnittlichen mittleren absoluten Abweichung von 0,17 ± 0,07 nicht signifikant besser als die Teilnehmer mit geringer Selbsteinsch{\"a}tzung, welche eine mittlere absolute Abweichung von 0,16 ± 0,05 (p = 0 ,967) erreichten.},
  subject      = {Verblendkrone},
  language  = {de}
}
@phdthesis{Lager2024,
  author    = {Lager, Johanna},
  title     = {Expression immunmodulierende Marker in Zusammenhang mit Immuntherapie bei kindlichen Hirntumoren},
  doi       = {10.25972/OPUS-35220},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352202},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Atypische teratoide Rhabdoidtumore sind trotz Aussch{\"o}pfen der multimodalen Therapieoptionen weiterhin mit einer schlechten Prognose belastet. Gr{\"u}nde hierf{\"u}r liegen in den oftmals unzureichenden Resektionsm{\"o}glichkeiten, dem jungen Erkrankungsalter der PatientInnen und der Resistenz der Tumorzellen gegen{\"u}ber Chemotherapeutika (Fr{\"u}hwald et al. 2020; Egiz et al. 2022; Richards et al. 2019). Gerade deshalb versucht man durch die aktuelle Forschung zu kindlichen Hirntumoren mit Immuntherapie ein besseres Outcome zu erreichen. Wichtige Grundlagen hierzu sind durch diese Arbeit dargestellt worden. Erstmals wurde gezeigt, dass Tumorzellen der AT/RT sowohl HLA-Klasse I und -Klasse II Antigene pr{\"a}sentieren. Es wurde außerdem die Expression von PD-L1 nachgewiesen. Des Weiteren konnte die Anwesenheit von Immunzellen durch den Nachweis CD 3+ Zellen bewiesen werden. Insgesamt zeigte sich eine große Heterogenit{\"a}t innerhalb des einzelnen und unter den verschiedenen Tumoren. Es zeigte sich eine negative Korrelation zwischen der Expression von MHC I und CD 3+ Zellen, welche insgesamt f{\"u}r einen Tumor Escape Mechanismus sprechen k{\"o}nnte, wie er bereits bei Glioblastomen nachgewiesen wurde (Bagley et al. 2018; Marcu et al. 2021). Es sollte eine Ausweitung der hier begonnen Forschung mit Einbeziehung der personenbezogenen Daten und Vergr{\"o}ßerung der untersuchten Fallzahl erfolgen.},
  subject      = {Immuntherapie},
  language  = {de}
}
@phdthesis{Kruse2024,
  author    = {Kruse, Daniel},
  title     = {Quantitative Analyse histologischer Aufnahmen der Haut},
  doi       = {10.25972/OPUS-35294},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352946},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2024},
  abstract  = {Diese Arbeit hatte zum Ziel quantitative Analysen histologischer Aufnahmen der Haut nach unterschiedlichen Gesichtspunkten zu etablieren. Im ersten Abschnitt wurde die bildgest{\"u}tzte Quantifizierung der epidermalen Histomorphologie untersucht. Nach Sichtung und Beurteilung von 2145 hochaufl{\"o}senden Fotografien HE-gef{\"a}rbter Epidermis- und Vollhautmodellen jeglichen Zustands, wurde der BSGC-Score als Facettenklassifikation mit seinen insgesamt 40 Beurteilungskriterien aufgestellt. Die unterschiedlichen epidermalen Strata wurden mit Wichtungsfaktoren belegt. Die Bewertungskategorien sind mit einem Ampelsystem unterlegt. Eine Befundungsformel wurde aufgestellt. Weitere Bestandteile des BSGC-Scores sind eine Anleitung mit Bildbeilage sowie Dokumentationselemente. Die Anwendung erfolgte erfolgreich im Rahmen der Qualit{\"a}tssicherung an Chargentests und zur Verlaufsbeurteilung eines In-vitro-Verbrennungsmodells aus humaner Epidermis durch Schneider et al. (2021) Der BSGC-Score dient als z{\"u}gig durchf{\"u}hrbares Evaluationstool zur Befundung von In-vitro-Epidermismodellen und nicht als diagnostisches Mittel. Der zweite Abschnitt besch{\"a}ftigt sich mit der Vaskularisierung als Parameter der kutanen Wundheilung. Es wurden aSMA-IF-gef{\"a}rbte Abbildungen porciner Verwundungsmodelle betrachtet und nach der Entfernung dr{\"u}siger Strukturen Gef{\"a}ßanschnitte zu Beginn manuell ausgez{\"a}hlt. Hieraus wurden die n{\"o}tigen Einstellungen f{\"u}r die Bildbearbeitungssoftware ImageJ ermittelt und die Abbildungen dieser anschließend zugef{\"u}hrt. Es erfolgte die automatisierte Quantifizierung elliptischer Formationen mit einer Gr{\"o}ße ≥ 30 Pixel. Im n{\"a}chsten Schritt wurden die Abbildungen in die Bereiche Wundrand, Wundgrund und Wundheilung unterteilt. In dem Bereich Wundheilung zeigte sich eine signifikant gr{\"o}ßere Revaskularisierung als in Wundgrund. Abschließend erfolgte der Vergleich sekund{\"a}rer Wundauflagen. Der Vergleich der Quotienten Wundheilung/Wundgrund nicht-okklusiver und okklusiver Wundauflagen zeigte keinen signifikanten Unterschied in der Neovaskularisierung. Die isolierte Betrachtung der Revaskularisierung als einzelner Prozess der Wundheilung kann nicht als generelles Kriterium f{\"u}r die Gesamtbeurteilung dienen. Hier findet die gew{\"a}hlte Methodik ihre Limitation. Zuk{\"u}nftige Anwendungsbereiche des BSGC-Scores sind die Ausweitung auf Vollhautmodelle und andere Verwundungsmodalit{\"a}ten. Eine automatisierte und durch eine KI-gest{\"u}tzte Befundung ist ebenfalls aufgrund des zugrundeliegenden umfangreichen Datensatzes denkbar. Auch kann eine automatisierte softwaregest{\"u}tzte Quantifizierung der Vaskularisierung als {\"u}berblickende und z{\"u}gige Beurteilung der Wundheilung sinnvoll erscheinen.},
  subject      = {Wundheilung},
  language  = {de}
}
@misc{FeketeEgbertsPreissleretal.2021,
  author    = {Fekete, Stefanie and Egberts, K. and Preissler, T. and Wewetzer, C. and Mehler-Wex, C. and Romanos, M. and Gerlach, M.},
  title     = {Correction to: Estimation of a preliminary therapeutic reference range for children and adolescents with tic disorders treated with tiapride},
  series = {European Journal of Clinical Pharmacology},
  volume    = {77},
  journal   = {European Journal of Clinical Pharmacology},
  number    = {8},
  doi       = {10.1007/s00228-021-03159-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-329467},
  pages     = {1257},
  year      = {2021},
  abstract  = {Correction to: European Journal of Clinical Pharmacology (2021) 77:163-170 https://doi.org/10.1007/s00228-020-03000-0},
  language  = {en}
}
@misc{DietzKudsiGarciaUrenaetal.2021,
  author    = {Dietz, Ulrich A. and Kudsi, O. Yusef and Garcia-Ure{\~n}a, Miguel and Baur, Johannes and Ramser, Michaela and Maksimovic, Sladjana and Keller, Nicola and D{\"o}rfer, J{\"o}rg and Eisner, Lukas and Wiegering, Armin},
  title     = {Erratum to: Robotic hernia repair III. English version},
  series = {Der Chirurg},
  volume    = {92},
  journal   = {Der Chirurg},
  number    = {Suppl 1},
  doi       = {10.1007/s00104-021-01564-w},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-329360},
  pages     = {40},
  year      = {2021},
  abstract  = {No abstract available.},
  language  = {en}
}
@article{AhmedOjhaHirschetal.2017,
  author    = {Ahmed, Bilal and Ojha, Animesh K. and Hirsch, Florian and Fischer, Ingo and Patrice, Donfack and Materny, Arnulf},
  title     = {Tailoring of enhanced interfacial polarization in WO\(_3\) nanorods grown over reduced graphene oxide synthesized by a one-step hydrothermal method},
  series = {RSC Advances},
  volume    = {7},
  journal   = {RSC Advances},
  number    = {23},
  doi       = {10.1039/c7ra00730b},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-181829},
  pages     = {13985-13996},
  year      = {2017},
  abstract  = {In the present report, well-defined WO3 nanorods (NRs) and a rGO-WO\(_3\) composite were successfully synthesized using a one-pot hydrothermal method. The crystal phase, structural morphology, shape, and size of the as-synthesized samples were studied using X-ray diffraction (XRD) and transmission electron microscopy (TEM) measurements. The optical properties of the synthesized samples were investigated by Raman, ultraviolet-visible (UV-Vis) and photoluminescence (PL) spectroscopy. Raman spectroscopy and TEM results validate the formation of WO\(_3\) (NRs) on the rGO sheet. The value of the dielectric constant (ε′) of WO3 NRs and rGO-WO\(_3\) composite is decreased with an increase in frequency. At low frequency (2.5 to 3.5 Hz), the value of ε′ for the rGO-WO3 composite is greater than that of pure WO\(_3\) NRs. This could be due to the fact that the induced charges follow the ac signal. However, at higher frequency (3.4 to 6.0), the value of ε′ for the rGO-WO\(_3\) composite is less compared to that of the pure WO3 NRs. The overall decrease in the value of ε′ could be due to the occurrence of a polarization process at the interface of the rGO sheet and WO3 NRs. Enhanced interfacial polarization in the rGO-WO\(_3\) composite is observed, which may be attributed to the presence of polar functional groups on the rGO sheet. These functional groups trap charge carriers at the interface, resulting in an enhancement of the interfacial polarization. The value of the dielectric modulus is also calculated to further confirm this enhancement. The values of the ac conductivity of the WO\(_3\) NRs and rGO-WO\(_3\) composite were calculated as a function of the frequency. The greater value of the ac conductivity in the rGO-WO\(_3\) composite compared to that of the WO\(_3\) NRs confirms the restoration of the sp:\(^{++}\) network during the in situ synthesis of the rGO-WO\(_3\) composite, which is well supported by the results obtained by Raman spectroscopy.},
  language  = {en}
}
@book{Braun2024,
  author    = {Braun, Ludwig},
  title     = {Pedisequa Camenae minoris. Zur Begleitung durch weitere neulateinische Epen Italiens.},
  edition   = {2. Auflage, verbessert und erg{\"a}nzt},
  doi       = {10.25972/OPUS-35254},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-352544},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {605},
  year      = {2024},
  abstract  = {Ein Hilfsangebot f{\"u}r die, die immer schon alle die interessanten Werke der neulateinischen Epik aus Italien lesen wollten, die heute so bequem im Internet stehen, aber nie die Zeit daf{\"u}r fanden: Rund 50 wenig bekannte Epen aus f{\"u}nf Jahrhunderten werden in griffiger Zusammenfassung des Inhalts geboten, mit grundlegenden Verst{\"a}ndnishilfen und Hinweisen auf die besonders gelungenen wie auch auf weniger gegl{\"u}ckte Stellen. Die Darstellung wird hier in zweiter, korrigierter und erg{\"a}nzter Auflage vorgelegt. Die Sammlung erweitert und erg{\"a}nzt die bereits gedruckt erschienene Zusammenstellung „Ludwig Braun, Pedisequa Camenae. Zur Begleitung durch kaum bekannte Meisterwerke der neulateinischen Epik Italiens. Noctes Neolatinae 38, Hildesheim/Z{\"u}rich/New York 2020."},
  subject      = {Epik},
  language  = {de}
}
@article{DaeullaryImdahlDietrichetal.2023,
  author    = {D{\"a}ullary, Thomas and Imdahl, Fabian and Dietrich, Oliver and Hepp, Laura and Krammer, Tobias and Fey, Christina and Neuhaus, Winfried and Metzger, Marco and Vogel, J{\"o}rg and Westermann, Alexander J. and Saliba, Antoine-Emmanuel and Zdzieblo, Daniela},
  title     = {A primary cell-based in vitro model of the human small intestine reveals host olfactomedin 4 induction in response to Salmonella Typhimurium infection},
  series = {Gut Microbes},
  volume    = {15},
  journal   = {Gut Microbes},
  number    = {1},
  doi       = {10.1080/19490976.2023.2186109},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350451},
  year      = {2023},
  abstract  = {Infection research largely relies on classical cell culture or mouse models. Despite having delivered invaluable insights into host-pathogen interactions, both have limitations in translating mechanistic principles to human pathologies. Alternatives can be derived from modern Tissue Engineering approaches, allowing the reconstruction of functional tissue models in vitro. Here, we combined a biological extracellular matrix with primary tissue-derived enteroids to establish an in vitro model of the human small intestinal epithelium exhibiting in vivo-like characteristics. Using the foodborne pathogen Salmonella enterica serovar Typhimurium, we demonstrated the applicability of our model to enteric infection research in the human context. Infection assays coupled to spatio-temporal readouts recapitulated the established key steps of epithelial infection by this pathogen in our model. Besides, we detected the upregulation of olfactomedin 4 in infected cells, a hitherto unrecognized aspect of the host response to Salmonella infection. Together, this primary human small intestinal tissue model fills the gap between simplistic cell culture and animal models of infection, and shall prove valuable in uncovering human-specific features of host-pathogen interplay.},
  language  = {en}
}
@article{CaliskanDangwalDandekar2023,
  author    = {Caliskan, Aylin and Dangwal, Seema and Dandekar, Thomas},
  title     = {Metadata integrity in bioinformatics: bridging the gap between data and knowledge},
  series = {Computational and Structural Biotechnology Journal},
  volume    = {21},
  journal   = {Computational and Structural Biotechnology Journal},
  issn      = {2001-0370},
  doi       = {10.1016/j.csbj.2023.10.006},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-349990},
  pages     = {4895-4913},
  year      = {2023},
  abstract  = {In the fast-evolving landscape of biomedical research, the emergence of big data has presented researchers with extraordinary opportunities to explore biological complexities. In biomedical research, big data imply also a big responsibility. This is not only due to genomics data being sensitive information but also due to genomics data being shared and re-analysed among the scientific community. This saves valuable resources and can even help to find new insights in silico. To fully use these opportunities, detailed and correct metadata are imperative. This includes not only the availability of metadata but also their correctness. Metadata integrity serves as a fundamental determinant of research credibility, supporting the reliability and reproducibility of data-driven findings. Ensuring metadata availability, curation, and accuracy are therefore essential for bioinformatic research. Not only must metadata be readily available, but they must also be meticulously curated and ideally error-free. Motivated by an accidental discovery of a critical metadata error in patient data published in two high-impact journals, we aim to raise awareness for the need of correct, complete, and curated metadata. We describe how the metadata error was found, addressed, and present examples for metadata-related challenges in omics research, along with supporting measures, including tools for checking metadata and software to facilitate various steps from data analysis to published research. Highlights • Data awareness and data integrity underpins the trustworthiness of results and subsequent further analysis. • Big data and bioinformatics enable efficient resource use by repurposing publicly available RNA-Sequencing data. • Manual checks of data quality and integrity are insufficient due to the overwhelming volume and rapidly growing data. • Automation and artificial intelligence provide cost-effective and efficient solutions for data integrity and quality checks. • FAIR data management, various software solutions and analysis tools assist metadata maintenance.},
  language  = {en}
}
@article{CaliskanCaliskanRasbachetal.2023,
  author    = {Caliskan, Aylin and Caliskan, Deniz and Rasbach, Lauritz and Yu, Weimeng and Dandekar, Thomas and Breitenbach, Tim},
  title     = {Optimized cell type signatures revealed from single-cell data by combining principal feature analysis, mutual information, and machine learning},
  series = {Computational and Structural Biotechnology Journal},
  volume    = {21},
  journal   = {Computational and Structural Biotechnology Journal},
  issn      = {2001-0370},
  doi       = {10.1016/j.csbj.2023.06.002},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-349989},
  pages     = {3293-3314},
  year      = {2023},
  abstract  = {Machine learning techniques are excellent to analyze expression data from single cells. These techniques impact all fields ranging from cell annotation and clustering to signature identification. The presented framework evaluates gene selection sets how far they optimally separate defined phenotypes or cell groups. This innovation overcomes the present limitation to objectively and correctly identify a small gene set of high information content regarding separating phenotypes for which corresponding code scripts are provided. The small but meaningful subset of the original genes (or feature space) facilitates human interpretability of the differences of the phenotypes including those found by machine learning results and may even turn correlations between genes and phenotypes into a causal explanation. For the feature selection task, the principal feature analysis is utilized which reduces redundant information while selecting genes that carry the information for separating the phenotypes. In this context, the presented framework shows explainability of unsupervised learning as it reveals cell-type specific signatures. Apart from a Seurat preprocessing tool and the PFA script, the pipeline uses mutual information to balance accuracy and size of the gene set if desired. A validation part to evaluate the gene selection for their information content regarding the separation of the phenotypes is provided as well, binary and multiclass classification of 3 or 4 groups are studied. Results from different single-cell data are presented. In each, only about ten out of more than 30000 genes are identified as carrying the relevant information. The code is provided in a GitHub repository at https://github.com/AC-PHD/Seurat_PFA_pipeline.},
  language  = {en}
}
@article{EngstlerBeneke2023,
  author    = {Engstler, Markus and Beneke, Tom},
  title     = {Gene editing and scalable functional genomic screening in Leishmania species using the CRISPR/Cas9 cytosine base editor toolbox LeishBASEedit},
  series = {eLife},
  volume    = {12},
  journal   = {eLife},
  doi       = {10.7554/eLife.85605},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350002},
  year      = {2023},
  abstract  = {CRISPR/Cas9 gene editing has revolutionised loss-of-function experiments in Leishmania, the causative agent of leishmaniasis. As Leishmania lack a functional non-homologous DNA end joining pathway however, obtaining null mutants typically requires additional donor DNA, selection of drug resistance-associated edits or time-consuming isolation of clones. Genome-wide loss-of-function screens across different conditions and across multiple Leishmania species are therefore unfeasible at present. Here, we report a CRISPR/Cas9 cytosine base editor (CBE) toolbox that overcomes these limitations. We employed CBEs in Leishmania to introduce STOP codons by converting cytosine into thymine and created http://www.leishbaseedit.net/ for CBE primer design in kinetoplastids. Through reporter assays and by targeting single- and multi-copy genes in L. mexicana, L. major, L. donovani, and L. infantum, we demonstrate how this tool can efficiently generate functional null mutants by expressing just one single-guide RNA, reaching up to 100\% editing rate in non-clonal populations. We then generated a Leishmania-optimised CBE and successfully targeted an essential gene in a plasmid library delivered loss-of-function screen in L. mexicana. Since our method does not require DNA double-strand breaks, homologous recombination, donor DNA, or isolation of clones, we believe that this enables for the first time functional genetic screens in Leishmania via delivery of plasmid libraries.},
  language  = {en}
}
@article{HeidtKaemmererFobkeretal.2023,
  author    = {Heidt, Christina and K{\"a}mmerer, Ulrike and Fobker, Manfred and R{\"u}ffer, Andreas and Marquardt, Thorsten and Reuss-Borst, Monika},
  title     = {Assessment of intestinal permeability and inflammation bio-markers in patients with rheumatoid arthritis},
  series = {Nutrients},
  volume    = {15},
  journal   = {Nutrients},
  number    = {10},
  issn      = {2072-6643},
  doi       = {10.3390/nu15102386},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-319377},
  year      = {2023},
  abstract  = {Increased intestinal permeability and inflammation, both fueled by dysbiosis, appear to contribute to rheumatoid arthritis (RA) pathogenesis. This single-center pilot study aimed to investigate zonulin, a marker of intestinal permeability, and calprotectin, a marker of intestinal inflammation, measured in serum and fecal samples of RA patients using commercially available kits. We also analyzed plasma lipopolysaccharide (LPS) levels, a marker of intestinal permeability and inflammation. Furthermore, univariate, and multivariate regression analyses were carried out to determine whether or not there were associations of zonulin and calprotectin with LPS, BMI, gender, age, RA-specific parameters, fiber intake, and short-chain fatty acids in the gut. Serum zonulin levels were more likely to be abnormal with a longer disease duration and fecal zonulin levels were inversely associated with age. A strong association between fecal and serum calprotectin and between fecal calprotectin and LPS were found in males, but not in females, independent of other biomarkers, suggesting that fecal calprotectin may be a more specific biomarker than serum calprotectin is of intestinal inflammation in RA. Since this was a proof-of-principle study without a healthy control group, further research is needed to validate fecal and serum zonulin as valid biomarkers of RA in comparison with other promising biomarkers.},
  language  = {en}
}
@article{HausmanKubik2023,
  author    = {Hausman, Hannah and Kubik, Veit},
  title     = {Delayed metacomprehension judgments do not directly improve learning from texts},
  series = {Journal of Intelligence},
  volume    = {11},
  journal   = {Journal of Intelligence},
  number    = {7},
  issn      = {2079-3200},
  doi       = {10.3390/jintelligence11070150},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-323361},
  year      = {2023},
  abstract  = {Making judgments of learning (JOLs) after studying can directly improve learning. This JOL reactivity has been shown for simple materials but has scarcely been investigated with educationally relevant materials such as expository texts. The few existing studies have not yet reported any consistent gains in text comprehension due to providing JOLs. In the present study, we hypothesized that increasing the chances of covert retrieval attempts when making JOLs after each of five to-be-studied text passages would produce comprehension benefits at 1 week compared to restudy. In a between-subjects design, we manipulated both whether participants (N = 210) were instructed to covertly retrieve the texts, and whether they made delayed target-absent JOLs. The results indicated that delayed, target-absent JOLs did not improve text comprehension after 1 week, regardless of whether prior instructions to engage in covert retrieval were provided. Based on the two-stage model of JOLs, we reasoned that participants' retrieval attempts during metacomprehension judgments were either insufficient (i.e., due to a quick familiarity assessment) or were ineffective (e.g., due to low retrieval success).},
  language  = {en}
}
@article{HolzmannLittigStadlerPoppetal.2023,
  author    = {Holzmann-Littig, Christopher and Stadler, David and Popp, Maria and Kranke, Peter and Fichtner, Falk and Schmaderer, Christoph and Renders, Lutz and Braunisch, Matthias Christoph and Assali, Tarek and Platen, Louise and Wijnen-Meijer, Marjo and L{\"u}hnen, Julia and Steckelberg, Anke and Pfadenhauer, Lisa and Haller, Bernhard and Fuetterer, Cornelia and Seeber, Christian and Schaaf, Christian},
  title     = {Locating medical information during an infodemic: information seeking behavior and strategies of health-care workers in Germany},
  series = {Healthcare},
  volume    = {11},
  journal   = {Healthcare},
  number    = {11},
  issn      = {2227-9032},
  doi       = {10.3390/healthcare11111602},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-319306},
  year      = {2023},
  abstract  = {Background: The COVID-19 pandemic has led to a flood of — often contradictory — evidence. HCWs had to develop strategies to locate information that supported their work. We investigated the information-seeking of different HCW groups in Germany. Methods: In December 2020, we conducted online surveys on COVID-19 information sources, strategies, assigned trustworthiness, and barriers — and in February 2021, on COVID-19 vaccination information sources. Results were analyzed descriptively; group comparisons were performed using χ\(^2\)-tests. Results: For general COVID-19-related medical information (413 participants), non-physicians most often selected official websites (57\%), TV (57\%), and e-mail/newsletters (46\%) as preferred information sources — physicians chose official websites (63\%), e-mail/newsletters (56\%), and professional journals (55\%). Non-physician HCWs used Facebook/YouTube more frequently. The main barriers were insufficient time and access issues. Non-physicians chose abstracts (66\%), videos (45\%), and webinars (40\%) as preferred information strategy; physicians: overviews with algorithms (66\%), abstracts (62\%), webinars (48\%). Information seeking on COVID-19 vaccination (2700 participants) was quite similar, however, with newspapers being more often used by non-physicians (63\%) vs. physician HCWs (70\%). Conclusion: Non-physician HCWs more often consulted public information sources. Employers/institutions should ensure the supply of professional, targeted COVID-19 information for different HCW groups.},
  language  = {en}
}
@article{SalihogluSrivastavaLiangetal.2023,
  author    = {Salihoglu, Rana and Srivastava, Mugdha and Liang, Chunguang and Schilling, Klaus and Szalay, Aladar and Bencurova, Elena and Dandekar, Thomas},
  title     = {PRO-Simat: Protein network simulation and design tool},
  series = {Computational and Structural Biotechnology Journal},
  volume    = {21},
  journal   = {Computational and Structural Biotechnology Journal},
  issn      = {2001-0370},
  doi       = {10.1016/j.csbj.2023.04.023},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-350034},
  pages     = {2767-2779},
  year      = {2023},
  abstract  = {PRO-Simat is a simulation tool for analysing protein interaction networks, their dynamic change and pathway engineering. It provides GO enrichment, KEGG pathway analyses, and network visualisation from an integrated database of more than 8 million protein-protein interactions across 32 model organisms and the human proteome. We integrated dynamical network simulation using the Jimena framework, which quickly and efficiently simulates Boolean genetic regulatory networks. It enables simulation outputs with in-depth analysis of the type, strength, duration and pathway of the protein interactions on the website. Furthermore, the user can efficiently edit and analyse the effect of network modifications and engineering experiments. In case studies, applications of PRO-Simat are demonstrated: (i) understanding mutually exclusive differentiation pathways in Bacillus subtilis, (ii) making Vaccinia virus oncolytic by switching on its viral replication mainly in cancer cells and triggering cancer cell apoptosis and (iii) optogenetic control of nucleotide processing protein networks to operate DNA storage. Multilevel communication between components is critical for efficient network switching, as demonstrated by a general census on prokaryotic and eukaryotic networks and comparing design with synthetic networks using PRO-Simat. The tool is available at https://prosimat.heinzelab.de/ as a web-based query server.},
  language  = {en}
}