@article{AbdullahiWesselHuberetal.2019,
  author    = {Abdullahi, Sahra and Wessel, Birgit and Huber, Martin and Wendleder, Anna and Roth, Achim and Kuenzer, Claudia},
  title     = {Estimating penetration-related X-band InSAR elevation bias: a study over the Greenland ice sheet},
  series = {Remote Sensing},
  volume    = {11},
  journal   = {Remote Sensing},
  number    = {24},
  issn      = {2072-4292},
  doi       = {10.3390/rs11242903},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193902},
  year      = {2019},
  abstract  = {Accelerating melt on the Greenland ice sheet leads to dramatic changes at a global scale. Especially in the last decades, not only the monitoring, but also the quantification of these changes has gained considerably in importance. In this context, Interferometric Synthetic Aperture Radar (InSAR) systems complement existing data sources by their capability to acquire 3D information at high spatial resolution over large areas independent of weather conditions and illumination. However, penetration of the SAR signals into the snow and ice surface leads to a bias in measured height, which has to be corrected to obtain accurate elevation data. Therefore, this study purposes an easy transferable pixel-based approach for X-band penetration-related elevation bias estimation based on single-pass interferometric coherence and backscatter intensity which was performed at two test sites on the Northern Greenland ice sheet. In particular, the penetration bias was estimated using a multiple linear regression model based on TanDEM-X InSAR data and IceBridge laser-altimeter measurements to correct TanDEM-X Digital Elevation Model (DEM) scenes. Validation efforts yielded good agreement between observations and estimations with a coefficient of determination of R\(^2\) = 68\% and an RMSE of 0.68 m. Furthermore, the study demonstrates the benefits of X-band penetration bias estimation within the application context of ice sheet elevation change detection.},
  language  = {en}
}
@article{AbimannanSumathiKrishnarajasekharetal.2019,
  author    = {Abimannan, Nagarajan and Sumathi, G. and Krishnarajasekhar, O. R. and Sinha, Bhanu and Krishnan, Padma},
  title     = {Clonal Clusters and Virulence Factors of Methicillin-Resistant \(Staphylococcus\) \(Aureus\): Evidence for Community-Acquired Methicillin-Resistant \(Staphylococcus\) \(Aureus\) Infiltration into Hospital Settings in Chennai, South India},
  series = {Indian Journal of Medical Microbiology},
  volume    = {37},
  journal   = {Indian Journal of Medical Microbiology},
  number    = {3},
  doi       = {10.4103/ijmm.IJMM_18_271},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-226963},
  pages     = {326-336},
  year      = {2019},
  abstract  = {Background and Objective: Staphylococcus aureus is one of the major pathogens of nosocomial infections as wells as community-acquired (CA) infections worldwide. So far, large-scale comprehensive molecular and epidemiological characterisation of S. aureus from very diverse settings has not been carried out in India. The objective of this study is to evaluate the molecular, epidemiological and virulence characteristics of S. aureus in both community and hospital settings in Chennai, southern India. Methods: S. aureus isolates were obtained from four different groups (a) healthy individuals from closed community settings, (b) inpatients from hospitals, (c) outpatients from hospitals, representing isolates of hospital-community interface and (d) HIV-infected patients to define isolates associated with the immunocompromised. Antibiotic susceptibility testing, multiplex polymerase chain reactions for detection of virulence and resistance determinants, molecular typing including Staphylococcal cassette chromosome mec (SCCmec) and agr typing, were carried out. Sequencing-based typing was done using spa and multilocus sequence typing (MLST) methods. Clonal complexes (CC) of hospital and CA methicillin-resistant S. aureus (MRSA) were identified and compared for virulence and resistance. Results and Conclusion: A total of 769 isolates of S. aureus isolates were studied. The prevalence of MRSA was found to be 7.17\%, 81.67\%, 58.33\% and 22.85\% for groups a, b, c and d, respectively. Of the four SCCmec types (I, III, IV and V) detected, SCCmec V was found to be predominant. Panton-Valentine leucocidin toxin genes were detected among MRSA isolates harbouring SCCmec IV and V. A total of 78 spa types were detected, t657 being the most prevalent. 13 MLST types belonging to 9 CC were detected. CC1 (ST-772, ST-1) and CC8 (ST238, ST368 and ST1208) were found to be predominant among MRSA. CA-MRSA isolates with SCCmec IV and V were isolated from all study groups including hospitalised patients and were found to be similar by molecular tools. This shows that CA MRSA has probably infiltrated into the hospital settings.},
  language  = {en}
}
@phdthesis{Aboagye2019,
  author    = {Aboagye, Benjamin},
  title     = {Behavioral and physiologic consequences of inducible inactivation of the \(Tryptophan\) \(hydroxylase\) 2 gene in interaction with early-life adversity},
  doi       = {10.25972/OPUS-17358},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-173581},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Disruptions in brain serotonin (5-hydroxytryptamine, 5-HT) signaling pathways have been associated with etiology and pathogenesis of various neuropsychiatric disorders, but specific neural mechanisms of 5-HT function are yet to be fully elucidated. Tryptophan hydroxylase 2 (TPH2) is the rate-limiting enzyme for brain 5-HT synthesis. Therefore, in this study a tamoxifen (Tam)-inducible cre-mediated conditional gene (Tph2) knockout in adult mouse brain (Tph2icKO) has been established to decipher the specific role of brain 5-HT in the regulation of behavior in adulthood. Immunohistochemistry and high-performance liquid chromatography (HPLC) were used first to test the efficacy of Tam-inducible inactivation of Tph2 and consequential reduction of 5-HT in adult mouse brain. Tam treatment resulted in ≥90\% reduction in the number of 5-HT immuno-reactive cells in the anterior raphe nuclei. HPLC revealed a significant reduction in concentration of 5-HT and its metabolite 5-hydroxyindole acetic acid (5-HIAA) in selected brain regions of Tph2icKO, indicating the effectiveness of the protocol used. Second, standard behavioral tests were used to assess whether reduced brain 5-HT concentrations could alter anxiety-, fear- and depressive-like behavior in mice. No altered anxiety- and depressive-like behaviors were observed in Tph2icKO compared to control mice (Tph2CON) in all indices measured, but Tph2icKO mice exhibited intense and sustained freezing during context-dependent fear memory retrieval. Tph2icKO mice also exhibited locomotor hyperactivity in the aversive environments, such as the open field, and consumed more food and fluid than Tph2CON mice. Lastly, the combined effect of maternal separation (MS) stress and adult brain 5-HT depletion on behavior was assessed in male and female mice. Here, MS stress, 5-HT depletion and their interaction elicited anxiety-like behavior in a sex-dependent manner. MS reduced exploratory behavior in both male and female mice. Reduced 5-HT enhanced anxiety in female, but not in male mice. Furthermore, expression of genes related to the 5-HT system and emotionality (Tph2, Htr1a, Htr2a, Maoa and Avpr1a) was assessed by performing a quantitative real-time PCR. In Tph2icKO mice there was a reduction in expression of Tph2 in the raphe nuclei of both male and female mice. Interaction between MS stress and 5-HT deficiency was detected showing increased Htr2a and Maoa expression in raphe and hippocampus respectively of female mice. In male mice, MS stress and 5-HT depletion interaction effects reduced Avpr1a expression in raphe, while the expression of Htr1a, Htr2a and Maoa was differentially altered by 5-HT depletion and MS in various brain regions.},
  subject      = {Anxiety},
  language  = {en}
}
@phdthesis{Abt2019,
  author    = {Abt, Raimond},
  title     = {Implementing Aspects of Quantum Information into the AdS/CFT Correspondence},
  doi       = {10.25972/OPUS-18801},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-188012},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {In recent years many discoveries have been made that reveal a close relation between quantum information and geometry in the context of the AdS/CFT correspondence. In this duality between a conformal quantum field theory (CFT) and a theory of gravity on Anti-de Sitter spaces (AdS) quantum information quantities in CFT are associated with geometric objects in AdS. Subject of this thesis is the examination of this intriguing property of AdS/CFT. We study two central elements of quantum information: subregion complexity -- which is a measure for the effort required to construct a given reduced state -- and the modular Hamiltonian -- which is given by the logarithm of a considered reduced state. While a clear definition for subregion complexity in terms of unitary gates exists for discrete systems, a rigorous formulation for quantum field theories is not known. In AdS/CFT, subregion complexity is proposed to be related to certain codimension one regions on the AdS side. The main focus of this thesis lies on the examination of such candidates for gravitational duals of subregion complexity. We introduce the concept of \textit{topological complexity}, which considers subregion complexity to be given by the integral over the Ricci scalar of codimension one regions in AdS. The Gauss-Bonnet theorem provides very general expressions for the topological complexity of CFT\(_2\) states dual to global AdS\(_3\), BTZ black holes and conical defects. In particular, our calculations show that the topology of the considered codimension one bulk region plays an essential role for topological complexity. Moreover, we study holographic subregion complexity (HSRC), which associates the volume of a particular codimension one bulk region with subregion complexity. We derive an explicit field theory expression for the HSRC of vacuum states. The formulation of HSRC in terms of field theory quantities may allow to investigate whether this bulk object indeed provides a concept of subregion complexity on the CFT side. In particular, if this turns out to be the case, our expression for HSRC may be seen as a field theory definition of subregion complexity. We extend our expression to states dual to BTZ black holes and conical defects. A further focus of this thesis is the modular Hamiltonian of a family of states \(\rho_\lambda\) depending on a continuous parameter \(\lambda\). Here \(\lambda\) may be associated with the energy density or the temperature, for instance. The importance of the modular Hamiltonian for quantum information is due to its contribution to relative entropy -- one of the very few objects in quantum information with a rigorous definition for quantum field theories. The first order contribution in \(\tilde{\lambda}=\lambda-\lambda_0\) of the modular Hamiltonian to the relative entropy between \(\rho_\lambda\) and a reference state \(\rho_{\lambda_0}\) is provided by the first law of entanglement. We study under which circumstances higher order contributions in \(\tilde{\lambda}\) are to be expected. We show that for states reduced to two entangling regions \(A\), \(B\) the modular Hamiltonian of at least one of these regions is expected to provide higher order contributions in \(\tilde{\lambda}\) to the relative entropy if \(A\) and \(B\) saturate the Araki-Lieb inequality. The statement of the Araki-Lieb inequality is that the difference between the entanglement entropies of \(A\) and \(B\) is always smaller or equal to the entanglement entropy of the union of \(A\) and \(B\). Regions for which this inequality is saturated are referred to as entanglement plateaux. In AdS/CFT the relation between geometry and quantum information provides many examples for entanglement plateaux. We apply our result to several of them, including large intervals for states dual to BTZ black holes and annuli for states dual to black brane geometries.},
  subject      = {AdS-CFT-Korrespondenz},
  language  = {en}
}
@article{AbtErdmengerGerbershagenetal.2019,
  author    = {Abt, Raimond and Erdmenger, Johanna and Gerbershagen, Marius and Melby-Thompson, Charles M. and Northe, Christian},
  title     = {Holographic subregion complexity from kinematic space},
  series = {Journal of High Energy Physics},
  volume    = {1},
  journal   = {Journal of High Energy Physics},
  number    = {12},
  doi       = {10.1007/JHEP01(2019)012},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227711},
  pages     = {1-35},
  year      = {2019},
  abstract  = {We consider the computation of volumes contained in a spatial slice of AdS(3) in terms of observables in a dual CFT. Our main tool is kinematic space, defined either from the bulk perspective as the space of oriented bulk geodesics, or from the CFT perspective as the space of entangling intervals. We give an explicit formula for the volume of a general region in a spatial slice of AdS(3) as an integral over kinematic space. For the region lying below a geodesic, we show how to write this volume purely in terms of entangling entropies in the dual CFT. This expression is perhaps most interesting in light of the complexity = volume proposal, which posits that complexity of holographic quantum states is computed by bulk volumes. An extension of this idea proposes that the holographic subregion complexity of an interval, defined as the volume under its Ryu-Takayanagi surface, is a measure of the complexity of the corresponding reduced density matrix. If this is true, our results give an explicit relationship between entanglement and subregion complexity in CFT, at least in the vacuum. We further extend many of our results to conical defect and BTZ black hole geometries.},
  language  = {en}
}
@phdthesis{AdelAbdelrehimMohamedSoliman2019,
  author    = {Adel Abdelrehim Mohamed Soliman, Hadya},
  title     = {Structural Equation Modeling of Factors Influencing EFL Reading comprehension: Comparative study between Egypt and Germany},
  doi       = {10.25972/OPUS-18695},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-186957},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {In most foreign language learning contexts, there are only rare chance for contact with native speakers of the target language. In such a situation, reading plays an important role in language acquisition as well as in gaining cultural information about the target language and its speakers. Previous research indicated that reading in foreign language is a complex process, which is influenced by various linguistic, cognitive and affective factors. The aim of the present study was to test two structural models of the relationship between reading comprehension in native language (L1), English language (L2) reading motivation, metacognitive awareness of L2 reading strategies, and reading comprehension of English as a foreign language among the two samples. Furthermore, the current study aimed to examine the differences between Egyptian and German students in their perceived usage of reading strategies during reading English texts, as well as to explore the pattern of their motivation toward reading English texts. For this purpose, 401 students were recruited from Germany (n=200) and Egypt (n=201) to participate in the current study. In order to have information about metacognitive awareness of reading strategies, a self-report questionnaire (SORS) developed by Moktari and Sheory (2002) was used. While the L2 reading motivation variable, was measured by a reading motivation survey (L2RMQ) which was based on reviewed reading motivation research. In addition, two reading tests were administrated one to measure reading comprehension for native language (German/Arabic) and the other to measure English reading comprehension. To analyze the collected data, descriptive statistics and independent t-tests were performed. In addition, further analysis using structural equation modeling was applied to test the strength of relationships between the variables under study. The results from the current research revealed that L1 reading comprehension, whether in a German or Arabic language, had the strongest relationship with L2 reading comprehension. However, the relationship between L2 intrinsic reading motivation was not proven to be significant in either the German or Egyptian models. On the other hand, the relationship between L2 extrinsic reading motivation, metacognitive awareness of reading strategies, and L2 reading comprehension was only proven significant in the German sample. The discussion of these results along with their pedagogical implications for education and practice will be illustrated in the following study.},
  subject      = {Leseverstehen},
  language  = {en}
}
@phdthesis{Agnetta2019,
  author    = {Agnetta, Luca},
  title     = {Novel Photoswitchable and Dualsteric Ligands Acting on Muscarinic Acetylcholine Receptors for Receptor Function Investigation},
  doi       = {10.25972/OPUS-18717},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-187170},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {G protein-coupled receptor research looks out for new technologies to elucidate the complex processes of receptor activation, function and downstream signaling with spatiotemporal resolution, preferably in living cells and organisms. A thriving approach consists in making use of the unsurpassed properties of light, including its high precision in space and time, noninvasiveness and high degree of orthogonality regarding biological processes. This is realized by the incorporation of molecular photoswitches, which are able to effectively respond to light, such as azobenzene, into the structure of a ligand of a given receptor. The muscarinic acetylcholine receptors belong to class A GPCRs and have received special attention in this regard due to their role as a prototypic pharmacological system and their therapeutic potential. They mediate the excitatory and inhibitory effects of the neurotransmitter acetylcholine and thus regulate diverse important biological processes, especially many neurological functions in our brain. In this work, the application of photopharmacological tool compounds to muscarinic receptors is presented, consisting of pharmacophores extended with azobenzene as light-responsive motif. Making use of the dualsteric concept, such photochromic ligands can be designed to bind concomitantly to the orthosteric and allosteric binding site of the receptor, which is demonstrated for BQCAAI (M1) and PAI (M2) and may lead to subtype- and functionalselective photoswitchable ligands, suitable for further ex vivo and in vivo studies. Moreover, photoswitchable ligands based on the synthetic agonist iperoxo were investigated extensively with regard to their photochemical behavior and pharmacological profile, outlining the advantages and challenges of using red-shifted molecular photoswitches, such as tetraortho- fluoro azobenzene. For the first time on a GPCR it was examined, which impact the different substitution pattern has on both the binding and the activity on the M1 receptor. Results show that substituted azobenzenes in photopharmacological compounds (F4-photoiperoxo and F4-iper-azo-iper) not just represent analogs with other photophysical properties but can exhibit a considerably different biological profile that has to be investigated carefully. The achievements gained in this study can give important new insights into the binding mode and time course of activation processes, enabling precise spatial and temporal resolution of the complex signaling pathway of muscarinic receptors. Due to their role as exemplary model system, these findings may be useful for the investigation into other therapeutically relevant GPCRs.},
  subject      = {Muscarinrezeptor},
  language  = {en}
}
@phdthesis{Akakpo2019,
  author    = {Akakpo, Martin Gameli},
  title     = {The influence of learner characteristics on interactions to seek and share information in e-learning: A media psychology perspective},
  doi       = {10.25972/OPUS-18593},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-185934},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Research on the deployment and use of technology to assist learning has seen a significant rise over the last decades (Aparicio et al., 2017). The focus on course quality, technology, learning outcome and learner satisfaction in e-learning has led to insufficient attention by researchers to individual characteristics of learners (Cidral et al., 2017 ; Hsu et al., 2013). The current work aims to bridge this gap by investigating characteristics identified by previous works and backed by theory as influential individual differences in e-learning. These learner characteristics have been suggested as motivational factors (Edmunds et al., 2012) in decisions by learners to interact and exchange information (Luo et al., 2017). In this work e-learning is defined as interaction dependent information seeking and sharing enabled by technology. This is primarily approached from a media psychology perspective. The role of learner characteristics namely, beliefs about the source of knowledge (Schommer, 1990), learning styles (Felder \& Silverman, 1988), need for affect (Maio \& Esses, 2001), need for cognition (Cacioppo \& Petty, 1982) and power distance (Hofstede, 1980) on interactions to seek and share information in e-learning are investigated. These investigations were shaped by theory and empirical lessons as briefly mentioned in the next paragraphs. Theoretical support for investigations is derived from the technology acceptance model(TAM) by psychologist Davis (1989) and the hyper-personal model by communication scientist Walther (1996). The TAM was used to describe the influence of learner characteristics on decisions to use e-learning systems (Stantchev et al., 2014). The hyper-personal model described why computer-mediated communication thrives in e-learning (Kaye et al., 2016) and how learners interpret messages exchanged online (Hansen et al., 2015). This theoretical framework was followed by empirical reviews which justified the use of interaction and information seeking-sharing as key components of e-learning as well as the selection of learner characteristics. The reviews provided suggestions for the measurement of variables (K{\"u}hl et al., 2014) and the investigation design (Dascalau et al., 2015). Investigations were designed and implemented through surveys and quasi experiments which were used for three preliminary studies and two main studies. Samples were selected from Germany and Ghana with same variables tested in both countries. Hypotheses were tested with interaction and information seeking-sharing as dependent variables while beliefs about the source of knowledge, learning styles, need for affect, need for cognition and power distance were independent variables. Firstly, using analyses of variance, the influence of beliefs about the source of knowledge on interaction choices of learners was supported. Secondly, the role of need for cognition on interaction choices of learners was supported by results from a logistic regression. Thirdly, results from multiple linear regressions backed the influence of need for cognition and power distance on information seeking-sharing behaviour of learners. Fourthly, the relationship between need for affect and need for cognition was supported. The findings may have implications for media psychology research, theories used in this work, research on e-learning, measurement of learner characteristics and the design of e-learning platforms. The findings suggest that, the beliefs learners have about the source of knowledge, their need for cognition and their power distance can influence decisions to interact and seek or share information. The outlook from reviews and findings in this work predicts more research on learner characteristics and a corresponding intensity in the use of e-learning by individuals. It is suggested that future studies investigate the relationship between learner autonomy and power distance. Studies on inter-cultural similarities amongst e-learners in different populations are also suggested.},
  subject      = {e-learning},
  language  = {en}
}
@article{AkhoonGuptaTiwarietal.2019,
  author    = {Akhoon, Bashir A. and Gupta, Shishir K. and Tiwari, Sudeep and Rathor, Laxmi and Pant, Aakanksha and Singh, Nivedita and Gupta, Shailendra K. and Dandekar, Thomas and Pandey, Rakesh},
  title     = {C. elegans protein interaction network analysis probes RNAi validated pro-longevity effect of nhr-6, a human homolog of tumor suppressor Nr4a1},
  series = {Scientific Reports},
  volume    = {9},
  journal   = {Scientific Reports},
  doi       = {10.1038/s41598-019-51649-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-202666},
  pages     = {15711},
  year      = {2019},
  abstract  = {Protein-protein interaction (PPI) studies are gaining momentum these days due to the plethora of various high-throughput experimental methods available for detecting PPIs. Proteins create complexes and networks by functioning in harmony with other proteins and here in silico network biology hold the promise to reveal new functionality of genes as it is very difficult and laborious to carry out experimental high-throughput genetic screens in living organisms. We demonstrate this approach by computationally screening C. elegans conserved homologs of already reported human tumor suppressor and aging associated genes. We select by this nhr-6, vab-3 and gst-23 as predicted longevity genes for RNAi screen. The RNAi results demonstrated the pro-longevity effect of these genes. Nuclear hormone receptor nhr-6 RNAi inhibition resulted in a C. elegans phenotype of 23.46\% lifespan reduction. Moreover, we show that nhr-6 regulates oxidative stress resistance in worms and does not affect the feeding behavior of worms. These findings imply the potential of nhr-6 as a common therapeutic target for aging and cancer ailments, stressing the power of in silico PPI network analysis coupled with RNAi screens to describe gene function.},
  language  = {en}
}
@article{AkshatAaboudAadetal.2019,
  author    = {Akshat, Puri and Aaboud, M. and Aad, G. and Abbott, B. and Abdinov, O. and Abeloos, B. and Abhayasinghe, D. K. and Abidi, S. H. and Abou Zeid, O. S. and Abraham, N. L. and Abramowicz, H. and Abreu, H. and Abulaiti, Y. and Acharya, B. S. and Adachi, S. and Adam, L. and Adamczyk, L. and Adelman, J. and Adersberger, M. and Adiguzel, A. and Adye, T. and Affolder, A. A. and Afik, Y. and Agheorghiesei, C. and Aguilar-Saavedra, J. A. and Ahmadov, F. and Aiellil, G. and Akatsuka, S. and Akesson, T. P. A. and Akilli, E. and Akimov, A. V. and Alberghi, G. L. and Albert, J. and Albicocco, P. and Alconada Verzini, M. J. and Alderweireld, S. and Aleksa, M. and Aleksandrov, I. N. and Alexa, C. and Alexopoulos, T. and Alhroob, M. and Ali, B. and Alimonti, G. and Alison, J. and Andre, S. P. and Allaire, C. and Allbrooke, B. M. M. and Allen, B. W. and Allport, P. P. and Aloisio, A. and Alonso, A. and Alonso, F. and Alpigiani, C. and Alshehri, A. A. and Alstaty, M. I. and Alvarez, Gonzalez B. and Alvarez Piqueras, D. and Alviggi, M. G. and Amadio, B. T. and Amaral, Coutinho, Y. and Ambler, A. and Ambroz, L. and Amelung, C. and Amidei, D. and Amor Dos Santos, S. P. and Amoroso, S. and Amrouche, C. S. and Anastopoulos, C. and Ancu, L. S. and Andari, N. and Andeen, T. and Anders, C. F. and Anders, J. K. and Anderson, K. J. and Andreazza, A. and Andrei, V. and et al,},
  title     = {Measurement of angular and momentum distributions of charged particles within and around jets in Pb plus Pb and pp collisions at root s(NN)=5.02 TeV with ATLAS at the LHC : XXVIIth International Conference on Ultrarelativistic Nucleus-Nucleus Collisions (Quark Matter 2018)},
  series = {Nuclear Physics A},
  volume    = {982},
  journal   = {Nuclear Physics A},
  number    = {2},
  doi       = {10.1016/j.nuclphysa.2018.09.021},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-224703},
  pages     = {177-179},
  year      = {2019},
  abstract  = {Studies of the fragmentation of jets into charged particles in heavy-ion collisions can help in understanding the mechanism of jet quenching by the hot and dense QCD matter created in such collisions, the quark-gluon plasma. These proceedings present a measurement of the angular distribution of charged particles around the jet axis in root s(NN) = 5.02 TeV Pb+Pb and pp collisions, done using the ATLAS detector at the LHC. The measurement is performed inside jets reconstructed with the anti-k(t) algorithm with radius parameter R = 0.4, and is extended to regions outside the jet cone. Results are presented as a function of Pb+Pb collision centrality, and both jet and charged-particle transverse momenta.},
  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}
}
@phdthesis{ALHijailan2019,
  author    = {AL-Hijailan, Reem Saud},
  title     = {Establishment of endothelialized cardiac tissue using human induced pluripotent stem cells generated cardiomyocytes},
  doi       = {10.25972/OPUS-17397},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-173979},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Cardiovascular diseases are considered the leading cause of death worldwide according to the World Health Organization. Heart failure is the last stage of most of these diseases, where loss of myocardium leads to architectural and functional decline. The definitive treatment option for patients with CVDs is organ or tissue transplantation, which relies on donor availability. Therefore, generating an autologous bioengineered myocardium or heart could overcome this limitation. In addition, generating cardiac patches will provide ventricular wall support and enable reparative stem cells delivery to damaged areas. Although many hurdles still exist, a good number of researches have attempted to create an engineered cardiac tissue which can induce endogenous cardiac repair by replacing damaged myocardium. The present study provided cardiac patches in two models, one by a detergent coronary perfusion decellularization protocol that was optimized, and the other that resulted in a 3D cell-free extracellular matrix with intact architecture and preserved s-glycosaminoglycan and vasculature conduits. Perfusion with 1\% Sodium dodecyle sulfate (SDS) under constant pressure resulted in cell-free porcine scaffold within two and cell-free rat scaffold in 7 days, whereas scaffold perfused with 4\% sodium deoxycholate (SDO) was not able to remove cells completely. Re-reendothelialization of tissue vasculature was obtained by injecting human microvascular endothelial cell and human fibroblast in 2:1 ratio in a dynamic culture. One-week later, CD31 positive cells and endothelium markers were observed, indicating new blood lining. Moreover, functionality test of re-endothelialized tissue revealed improvement in clotting seen in decellularized tissues. When the tissue was ready to be repopulated, porcine induced pluripotent stem cells (PiPSc) were generated by transfected reprogramming of porcine skin fibroblast and then differentiated to cardiac cells following a robust protocol, for an autologous cardiac tissue model. However, due to the limitation in the PiPSc cell number, alternatively, human induced pluripotent stem cells generated cardiac cells were used. For reseeding a coculture of human iPSc generated cardiac cells, human mesenchymal stem cells and human fibroblast in 2:1:1 ratio respectively were used in a dynamic culture for 6-8 weeks. Contractions at different areas of the tissue were recorded at an average beating rate of 67 beats/min. In addition, positive cardiac markers (Troponin T), Fibroblast (vemintin), and mesenchymal stem cells (CD90) were detected. Not only that, but by week 3, MSC started differentiating to cardiac cells progressively until few CD90 positive cells were very few by week 6 with increasing troponin t positive cells in parallel. Electrophysiological and drug studies were difficult to obtain due to tissue thickness and limited assessment sources. However, the same construct was established using small intestine submucosa (SISer) scaffold, which recorded a spontaneous beating rate between 0.88 and 1.2 Hz, a conduction velocity of 23.9 ± 0.74 cm s-1, and a maximal contraction force of 0.453 ± 0.015 mN. Moreover, electrophysiological studies demonstrated a drug-dependent response on beating rate; a higher adrenalin frequency was revealed in comparison to the untreated tissue and isoproterenol administration, whereas a decrease in beating rate was observed with propranolol and untreated tissue. The present study demonstrated the establishment of vascularized cardiac tissue, which can be used for human clinical application.},
  language  = {en}
}
@article{AlZabenMedyukhinaDietrichetal.2019,
  author    = {Al-Zaben, Naim and Medyukhina, Anna and Dietrich, Stefanie and Marolda, Alessandra and H{\"u}nniger, Kerstin and Kurzai, Oliver and Figge, Marc Thilo},
  title     = {Automated tracking of label-free cells with enhanced recognition of whole tracks},
  series = {Scientific Reports},
  volume    = {9},
  journal   = {Scientific Reports},
  doi       = {10.1038/s41598-019-39725-x},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-221093},
  year      = {2019},
  abstract  = {Migration and interactions of immune cells are routinely studied by time-lapse microscopy of in vitro migration and confrontation assays. To objectively quantify the dynamic behavior of cells, software tools for automated cell tracking can be applied. However, many existing tracking algorithms recognize only rather short fragments of a whole cell track and rely on cell staining to enhance cell segmentation. While our previously developed segmentation approach enables tracking of label-free cells, it still suffers from frequently recognizing only short track fragments. In this study, we identify sources of track fragmentation and provide solutions to obtain longer cell tracks. This is achieved by improving the detection of low-contrast cells and by optimizing the value of the gap size parameter, which defines the number of missing cell positions between track fragments that is accepted for still connecting them into one track. We find that the enhanced track recognition increases the average length of cell tracks up to 2.2-fold. Recognizing cell tracks as a whole will enable studying and quantifying more complex patterns of cell behavior, e.g. switches in migration mode or dependence of the phagocytosis efficiency on the number and type of preceding interactions. Such quantitative analyses will improve our understanding of how immune cells interact and function in health and disease.},
  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{AlbertAndreAnghinolfietal.2019,
  author    = {Albert, A. and Andr{\´e}, M. and Anghinolfi, M. and Anton, G. and Ardid, M. and Aubert, J.-J. and Aublin, J. and Avgitas, T. and Baret, B. and Barrios-Mart{\´i}t, J. and Basa, S. and Belhorma, B. and Bertin, V. and Biagi, S. and Bormuth, R. and Boumaaza, J and Bourret, S. and Bouwhuis, M. C. and Br{\^a}nzas, H. and Bruijn, R. and Brunner, J. and Busto, J. and Capone, A. and Caramete, L. and Carr, J. and Celli, S. and Chabab, M. and Cherkaoui El Moursli, R. and Chiarusi, T. and Circella, M. and Coelho, J. A. B. and Coleiro, A. and Colomer, M and Coniglione, R. and Costantini, H. and Coyle, P. and Creusot, A. and D{\´i}az, A. F. and Deschamps, A. and Distefano, C. and Di Palma, I. and Domi, A. and Donzaud, C. and Dornic, D. and Drouhin, D. and Eberl, T. and El Bojaddaini, I. and El Khayati, N. and Els{\"a}sser, D. and Enzenh{\"o}fer, A. and Ettahiri, A. and Fassi, F. and Felis, I. and Fermani, P. and Ferrara, G. and Fusco, L. A. and Gay, P. and Glotin, H. and Gr{\´e}goire, T. and Gracia Ruiz, R. and Graf, K. and Hallmann, S. and van Haren, H. and Heijboer, A. J. and Hello, Y. and Hern{\´a}ndez-Rey, J. J. and H{\"o}ßl, J. and Hofest{\"a}dt, J. and Illuminati, G. and de Jong, M. and Jongen, M. and Kadler, M. and Kalekin, O. and Katz, U. and Khan-Chowdhury, N. R. and Kouchner, A. and Kreter, M. and Kreykenbohm, I. and Kulikovskiy, V. and Lachaud, C. and Lahmann, R. and Lef{\`e}vre, D. and Leonora, E. and Levi, G. and Lotze, M. and Loucatos, S. and Marcelin, M. and Margiotta, A. and Marinelli, A. and Mart{\´i}nez-Mora, J. A. and Mele, R. and Melis, K. and Migliozzi, P. and Moussa, A. and Navas, S. and Nezri, E. and Nu{\~n}ez, A. and Organokov, M. and Pavalas, G. E. and Pellegrino, C. and Piattelli, P. and Popa, V. and Pradier, T. and Quinn, L. and Racca, C. and Randazzo, N. and Riccobene, G. and S{\´a}nchez-Losa, A. and Salda{\~n}a, M. and Salvadori, I. and Samtleben, D. F. E. and Sanguineti, M. and Sapienza, P. and Sch{\"u}ssler, F. and Spurio, M. and Stolarczyk, Th. and Taiuti, M. and Tayalati, Y. and Trovato, A. and Vallage, B. and Van Elewyck, V. and Versari, F. and Vivolo, D. and Wilms, J. and Zaborov, D. and Zornoza, J. D. and Z{\´u}{\~n}iga, J.},
  title     = {The cosmic ray shadow of the Moon observed with the ANTARES neutrino telescope},
  series = {European Physical Journal C},
  volume    = {78},
  journal   = {European Physical Journal C},
  doi       = {10.1140/epjc/s10052-018-6451-3},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-227802},
  pages     = {1-9},
  year      = {2019},
  abstract  = {One of the main objectives of the ANTARES telescope is the search for point- like neutrino sources. Both the pointing accuracy and the angular resolution of the detector are important in this context and a reliableway to evaluate this performance is needed. In order to measure the pointing accuracy of the detector, one possibility is to study the shadow of the Moon, i. e. the deficit of the atmospheric muon flux from the direction of the Moon induced by the absorption of cosmic rays. Analysing the data taken between 2007 and 2016, theMoon shadow is observed with 3.5s statistical significance. The detector angular resolution for downwardgoing muons is 0.73. +/- 0.14.. The resulting pointing performance is consistent with the expectations. An independent check of the telescope pointing accuracy is realised with the data collected by a shower array detector onboard of a ship temporarily moving around the ANTARES location.},
  language  = {en}
}
@phdthesis{Albert2019,
  author    = {Albert, Michael},
  title     = {Intelligent analysis of medical data in a generic telemedicine infrastructure},
  isbn      = {978-3-945459-26-3 (Online)},
  doi       = {10.25972/OPUS-17421},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-174213},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Telemedicine uses telecommunication and information technology to provide health care services over spatial distances. In the upcoming demographic changes towards an older average population age, especially rural areas suffer from a decreasing doctor to patient ratio as well as a limited amount of available medical specialists in acceptable distance. These areas could benefit the most from telemedicine applications as they are known to improve access to medical services, medical expertise and can also help to mitigate critical or emergency situations. Although the possibilities of telemedicine applications exist in the entire range of healthcare, current systems focus on one specific disease while using dedicated hardware to connect the patient with the supervising telemedicine center. This thesis describes the development of a telemedical system which follows a new generic design approach. This bridges the gap of existing approaches that only tackle one specific application. The proposed system on the contrary aims at supporting as many diseases and use cases as possible by taking all the stakeholders into account at the same time. To address the usability and acceptance of the system it is designed to use standardized hardware like commercial medical sensors and smartphones for collecting medical data of the patients and transmitting them to the telemedical center. The smartphone can also act as interface to the patient for health questionnaires or feedback. The system can handle the collection and transport of medical data, analysis and visualization of the data as well as providing a real time communication with video and audio between the users. On top of the generic telemedical framework the issue of scalability is addressed by integrating a rule-based analysis tool for the medical data. Rules can be easily created by medical personnel via a visual editor and can be personalized for each patient. The rule-based analysis tool is extended by multiple options for visualization of the data, mechanisms to handle complex rules and options for performing actions like raising alarms or sending automated messages. It is sometimes hard for the medical experts to formulate their knowledge into rules and there may be information in the medical data that is not yet known. This is why a machine learning module was integrated into the system. It uses the incoming medical data of the patients to learn new rules that are then presented to the medical personnel for inspection. This is in line with European legislation where the human still needs to be in charge of such decisions. Overall, we were able to show the benefit of the generic approach by evaluating it in three completely different medical use cases derived from specific application needs: monitoring of COPD (chronic obstructive pulmonary disease) patients, support of patients performing dialysis at home and councils of intensive-care experts. In addition the system was used for a non-medical use case: monitoring and optimization of industrial machines and robots. In all of the mentioned cases, we were able to prove the robustness of the generic approach with real users of the corresponding domain. This is why we can propose this approach for future development of telemedical systems.},
  subject      = {Telemedizin},
  language  = {en}
}
@article{AlbrechtMuellerBallarinietal.2019,
  author    = {Albrecht, Franziska and Mueller, Karsten and Ballarini, Tommaso and Lampe, Leonie and Diehl-Schmid, Janine and Fassbender, Klaus and Fliessbach, Klaus and Jahn, Holger and Jech, Robert and Kassubek, Jan and Kornhuber, Johannes and Landwehrmeyer, Bernhard and Lauer, Martin and Ludolph, Albert C. and Lyros, Epameinondas and Prudlo, Johannes and Schneider, Anja and Synofzik, Matthis and Wiltfang, Jens and Danek, Adrian and Otto, Markus and Schroeter, Matthias L.},
  title     = {Unraveling corticobasal syndrome and alien limb syndrome with structural brain imaging},
  series = {Cortex},
  volume    = {117},
  journal   = {Cortex},
  doi       = {10.1016/j.cortex.2019.02.015},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-221040},
  pages     = {33-40},
  year      = {2019},
  abstract  = {Alien limb phenomenon is a rare syndrome associated with a feeling of non-belonging and disowning toward one's limb. In contrast, anarchic limb phenomenon leads to involuntary but goal-directed movements. Alien/anarchic limb phenomena are frequent in corticobasal syndrome (CBS), an atypical parkinsonian syndrome characterized by rigidity, akinesia, dystonia, cortical sensory deficit, and apraxia. The structure function relationship of alien/anarchic limb was investigated in multi centric structural magnetic resonance imaging (MRI) data. Whole-group and single subject comparisons were made in 25 CBS and eight CBS-alien/anarchic limb patients versus controls. Support vector machine was used to see if CBS with and without alien/anarchic limb could be distinguished by structural MRI patterns. Whole-group comparison of CBS versus controls revealed asymmetric frontotemporal atrophy. CBS with alien/anarchic limb syndrome versus controls showed frontoparietal atrophy including the supplementary motor area contralateral to the side of the affected limb. Exploratory analysis identified frontotemporal regions encompassing the pre-/and postcentral gyrus as compromised in CBS with alien limb syndrome. Classification of CBS patients yielded accuracies of 79\%. CBS-alien/anarchic limb syndrome was differentiated from CBS patients with an accuracy of 81\%. Predictive differences were found in the cingulate gyrus spreading to frontomedian cortex, postcentral gyrus, and temporoparietoocipital regions. We present the first MRI-based group analysis on CBS-alien/anarchic limb. Results pave the way for individual clinical syndrome prediction and allow understanding the underlying neurocognitive architecture. (C) 2019 The Authors. Published by Elsevier Ltd. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).},
  language  = {en}
}
@phdthesis{Alexander2019,
  author    = {Alexander, Stephanie},
  title     = {Collective cancer cell invasion \(in\) \(vivo\): function of β1 and β3 integrins in perivascular invasion and resistance to therapy},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-85435},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Pro-migratory signals mediated by the tumor microenvironment contribute to the cancer progression cascade, including invasion, metastasis and resistance to therapy. Derived from in vitro studies, isolated molecular steps of cancer invasion programs have been identified but their integration into the tumor microenvironment and suitability as molecular targets remain elusive. The purpose of the study was to visualize central aspects of tumor progression, including proliferation, survival and invasion by real-time intravital microscopy. The specific aims were to monitor the kinetics, mode, adhesion and chemoattraction mechanisms of tumor cell invasion, the involved guidance structures, and the response of invasion zones to anti-cancer therapy. To reach deeper tumor regions by optical imaging with subcellular resolution, near-infrared and infrared excited multiphoton microscopy was combined with a modified dorsal skinfold chamber model. Implanted HT-1080 fibrosarcoma and B16/F10 and MV3 melanoma tumors developed zones of invasive growth consisting of collective invasion strands that retained cell-cell contacts and high mitotic activity while invading at velocities of up to 200 μm per day. Collective invasion occurred predominantly along preexisting tissue structures, including blood and lymph vessels, collagen fibers and muscle strands of the deep dermis, and was thereby insensitive to RNAi based knockdown and/or antibody-based treatment against β1 and β3 integrins, chemokine (SDF-1/CXCL12) and growth factor (EGF) signaling. Therapeutic hypofractionated irradiation induced partial to complete regression of the tumor main mass, yet failed to eradicate the collective invasion strands, suggesting a microenvironmentally privileged niche. Whereas no radiosensitization was achieved by interference with EGFR or doxorubicin, the simultaneous inhibition of β1 and β3 integrins impaired cell proliferation and survival in spontaneously growing tumors and strongly enhanced the radiation response up to complete eradication of both main tumor and invasion strands. In conclusion, collective invasion in vivo is a robust process which follows preexisting tissue structures and is mainly independent of established adhesion and chemoattractant signaling. Due to its altered biological response to irradiation, collective invasion strands represent a microenvironmentally controlled and clinically relevant resistance niche to therapy. Therefore supportive regimens, such as anoikisinduction by anti-integrin therapy, may serve to enhance radio- and chemoefficacy and complement classical treatment regimens.},
  subject      = {Tumorzelle},
  language  = {en}
}
@phdthesis{Anany2019,
  author    = {Anany, Mohamed Ahmed Mohamed Mohamed},
  title     = {Enhancement of Toll-like receptor3 (TLR3)-induced death signaling by TNF-like weak inducer of apoptosis (TWEAK)},
  doi       = {10.25972/OPUS-18975},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-189757},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Tumor necrosis factor (TNF)-like weak inducer of apoptosis (TWEAK) is a member of the TNF superfamily (TNFSF) and is as such initially expressed as type II class transmembrane glycoprotein from which a soluble ligand form can be released by proteolytic processing. While the expression of TWEAK has been detected at the mRNA level in various cell lines and cell types, its cell surface expression has so far only been documented for dendritic cells, monocytes and interferon-γ stimulated NK cells. The fibroblast growth factor-inducible-14 (Fn14) is a TRAF2-interacting receptor of the TNF receptor superfamily (TNFRSF) and is the only receptor for TWEAK. The expression of Fn14 is strongly induced in a variety of non-hematopoietic cell types after tissue injury. The TWEAK/Fn14 system induces pleiotropic cellular activities such as induction of proinflammatory genes, stimulation of cellular angiogenesis, proliferation, differentiation, migration and in rare cases induction of apoptosis. On the other side, Toll-like receptor3 (TLR3) is one of DNA- and RNA-sensing pattern recognition receptors (PRRs), plays a crucial role in the first line of defense against virus and invading foreign pathogens and cancer cells. Polyinosinic-polycytidylic acid poly(I:C) is a synthetic analog of dsRNA, binds to TLR3 which acts through the adapter TRIF/TICAM1, leading to cytokine secretion, NF-B activation, IRF3 nuclear translocation, inflammatory response and may also elicit the cell death. TWEAK sensitizes cells for TNFR1-induced apoptosis and necroptosis by limiting the availability of protective TRAF2-cIAP1 and TRAF2-cIAP2 complexes, which interact with the TNFR1-binding proteins TRADD and RIPK1. In accordance with the fact that poly(I:C)-induced signaling also involves these proteins, we found enhanced necroptosis-induction in HaCaT and HeLa-RIPK3 by poly(I:C) in the presence of TWEAK (Figure 24). Analysis of a panel of TRADD, FADD, RIPK1 and caspase-8 knockout cells revealed furthermore similarities and differences in the way how these molecules act in cell death signaling by poly(I:C)/TWEAK and TNF and TRAIL. RIPK1 turned out to be essential for poly(I:C)/TWEAK-induced caspase-8-mediated apoptosis but was dispensable for these responses in TNF and TRAIL signaling. Lack of FADD protein abrogated TRAIL- but not TNF- and poly(I:C)-induced necroptosis. Moreover, we observed that both long and short FLIP rescued HaCaT and HeLa-RIPK3 cells from poly(I:C)-induced apoptosis or necroptosis. To sum up, our results demonstrate that TWEAK, which is produced by interferon stimulated myeloid cells, controls the induction of apoptosis and necroptosis by the TLR3 ligand poly(I:C) and may thus contribute to cancer or anti-viral immunity treatment.},
  subject      = {Immunologe},
  language  = {en}
}
@article{AnnunziatavandeVlekkertWolfetal.2019,
  author    = {Annunziata, Ida and van de Vlekkert, Diantha and Wolf, Elmar and Finkelstein, David and Neale, Geoffrey and Machado, Eda and Mosca, Rosario and Campos, Yvan and Tillman, Heather and Roussel, Martine F. and Weesner, Jason Andrew and Fremuth, Leigh Ellen and Qiu, Xiaohui and Han, Min-Joon and Grosveld, Gerard C. and d'Azzo, Alessandra},
  title     = {MYC competes with MiT/TFE in regulating lysosomal biogenesis and autophagy through an epigenetic rheostat},
  series = {Nature Communications},
  volume    = {10},
  journal   = {Nature Communications},
  doi       = {10.1038/s41467-019-11568-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-221189},
  year      = {2019},
  abstract  = {Coordinated regulation of the lysosomal and autophagic systems ensures basal catabolism and normal cell physiology, and failure of either system causes disease. Here we describe an epigenetic rheostat orchestrated by c-MYC and histone deacetylases that inhibits lysosomal and autophagic biogenesis by concomitantly repressing the expression of the transcription factors MiT/TFE and FOXH1, and that of lysosomal and autophagy genes. Inhibition of histone deacetylases abates c-MYC binding to the promoters of lysosomal and autophagy genes, granting promoter occupancy to the MiT/TFE members, TFEB and TFE3, and/or the autophagy regulator FOXH1. In pluripotent stem cells and cancer, suppression of lysosomal and autophagic function is directly downstream of c-MYC overexpression and may represent a hallmark of malignant transformation. We propose that, by determining the fate of these catabolic systems, this hierarchical switch regulates the adaptive response of cells to pathological and physiological cues that could be exploited therapeutically.},
  language  = {en}
}
@article{AppelMarkerMara2019,
  author    = {Appel, Markus and Marker, Caroline and Mara, Martina},
  title     = {Otakuism and the appeal of sex robots},
  series = {Frontiers in Psychology},
  volume    = {10},
  journal   = {Frontiers in Psychology},
  number    = {569},
  issn      = {1664-1078},
  doi       = {10.3389/fpsyg.2019.00569},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-195893},
  year      = {2019},
  abstract  = {Social robots are becoming increasingly prevalent in everyday life and sex robots are a sub-category of especially high public interest and controversy. Starting from the concept of the otaku, a term from Japanese youth culture that describes secluded persons with a high affinity for fictional manga characters, we examine individual differences behind sex robot appeal (anime and manga fandom, interest in Japanese culture, preference for indoor activities, shyness). In an online-experiment, 261 participants read one out of three randomly assigned descriptions of future technologies (sex robot, nursing robot, genetically modified organism) and reported on their overall evaluation, eeriness, and contact/purchase intentions. Higher anime and manga fandom was associated with higher appeal for all three future technologies. For our male subsample, sex robots and GMOs stood out as shyness yielded a particularly strong relationship to contact/purchase intentions for these new technologies.},
  language  = {en}
}
@unpublished{ArrowsmithDoemlingSchmidtetal.2019,
  author    = {Arrowsmith, Merle and D{\"o}mling, Michael and Schmidt, Uwe and Werner, Luis and Castro, Abril C. and Jim{\´e}nez-Halla, J. Oscar C. and M{\"u}ssig, Jonas and Prieschl, Dominic and Braunschweig, Holger},
  title     = {Spontaneous trans-Selective Transfer Hydrogenation of Apolar B=B Double Bonds},
  series = {Angewandte Chemie, International Edition},
  journal   = {Angewandte Chemie, International Edition},
  doi       = {10.1002/anie.201902656},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-184874},
  year      = {2019},
  abstract  = {The transfer hydrogenation of NHC-supported diborenes with dimethylamine borane proceeds with high selectivity for the trans-1,2-dihydrodiboranes(6). DFT calculations suggest a stepwise proton-first-hydride-second reaction mechanism via an intermediate μ-hydrodiboronium dimethylaminoborate ion pair.},
  language  = {en}
}
@article{AtaeeMaghsoudiLatifietal.2019,
  author    = {Ataee, Mohammad Sadegh and Maghsoudi, Yasser and Latifi, Hooman and Fadaie, Farhad},
  title     = {Improving estimation accuracy of growing stock by multi-frequency SAR and multi-spectral data over Iran's heterogeneously-structured broadleaf Hyrcanian forests},
  series = {Forests},
  volume    = {10},
  journal   = {Forests},
  number    = {8},
  issn      = {1999-4907},
  doi       = {10.3390/f10080641},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-197212},
  year      = {2019},
  abstract  = {Via providing various ecosystem services, the old-growth Hyrcanian forests play a crucial role in the environment and anthropogenic aspects of Iran and beyond. The amount of growing stock volume (GSV) is a forest biophysical parameter with great importance in issues like economy, environmental protection, and adaptation to climate change. Thus, accurate and unbiased estimation of GSV is also crucial to be pursued across the Hyrcanian. Our goal was to investigate the potential of ALOS-2 and Sentinel-1's polarimetric features in combination with Sentinel-2 multi-spectral features for the GSV estimation in a portion of heterogeneously-structured and mountainous Hyrcanian forests. We used five different kernels by the support vector regression (nu-SVR) for the GSV estimation. Because each kernel differently models the parameters, we separately selected features for each kernel by a binary genetic algorithm (GA). We simultaneously optimized R\(^2\) and RMSE in a suggested GA fitness function. We calculated R\(^2\), RMSE to evaluate the models. We additionally calculated the standard deviation of validation metrics to estimate the model's stability. Also for models over-fitting or under-fitting analysis, we used mean difference (MD) index. The results suggested the use of polynomial kernel as the final model. Despite multiple methodical challenges raised from the composition and structure of the study site, we conclude that the combined use of polarimetric features (both dual and full) with spectral bands and indices can improve the GSV estimation over mixed broadleaf forests. This was partially supported by the use of proposed evaluation criterion within the GA, which helped to avoid the curse of dimensionality for the applied SVR and lowest over estimation or under estimation.},
  language  = {en}
}
@unpublished{AuerhammerSchulzSchmiedeletal.2019,
  author    = {Auerhammer, Nina and Schulz, Alexander and Schmiedel, Alexander and Holzapfel, Marco and Hoche, Joscha and R{\"o}hr, Merle I. S. and Mitric, Roland and Lambert, Christoph},
  title     = {Dynamic exciton localisation in a pyrene-BODIPY-pyrene dye conjugate},
  series = {Physical Chemistry Chemical Physics},
  journal   = {Physical Chemistry Chemical Physics},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-198718},
  year      = {2019},
  abstract  = {The photophysics of a molecular triad consisting of a BODIPY dye and two pyrene chromophores attached in 2-position are investigated by steady state and fs-time resolved transient absorption spectroscopy as well as by field induced surface hopping (FISH) simulations. While the steady state measurements indicate moderate chromophore interactions within the triad, the time resolved measurements show upon pyrene excitation a delocalised excited state which localises onto the BODIPY chromophore with a time constant of 0.12 ps. This could either be interpreted as an internal conversion process within the excitonically coupled chromophores or as an energy transfer from the pyrenes to the BODIPY dye. The analysis of FISH-trajectories reveals an oscillatory behaviour where the excitation hops between the pyrene units and the BODIPY dye several times until finally they become localised on the BODIPY chromophore within 100 fs. This is accompanied by an ultrafast nonradiative relaxation within the excitonic manifold mediated by the nonadiabatic coupling. Averaging over an ensemble of trajectories allowed us to simulate the electronic state population dynamics and determine the time constants for the nonradiative transitions that mediate the ultrafast energy transfer and exciton localisation on BODIPY.},
  language  = {en}
}
@article{AvotadeLiraSchneiderSchaulies2019,
  author    = {Avota, Elita and de Lira, Maria Nathalia and Schneider-Schaulies, Sibylle},
  title     = {Sphingomyelin breakdown in T cells: role of membrane compartmentalization in T cell signaling and interference by a pathogen},
  series = {Frontiers in Cell and Developmental Biology},
  volume    = {7},
  journal   = {Frontiers in Cell and Developmental Biology},
  number    = {152},
  issn      = {2296-634X},
  doi       = {10.3389/fcell.2019.00152},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-199168},
  year      = {2019},
  abstract  = {Sphingolipids are major components of cellular membranes, and at steady-state level, their metabolic fluxes are tightly controlled. On challenge by external signals, they undergo rapid turnover, which substantially affects the biophysical properties of membrane lipid and protein compartments and, consequently, signaling and morphodynamics. In T cells, external cues translate into formation of membrane microdomains where proximal signaling platforms essential for metabolic reprograming and cytoskeletal reorganization are organized. This review will focus on sphingomyelinases, which mediate sphingomyelin breakdown and ensuing ceramide release that have been implicated in T-cell viability and function. Acting at the sphingomyelin pool at the extrafacial or cytosolic leaflet of cellular membranes, acid and neutral sphingomyelinases organize ceramide-enriched membrane microdomains that regulate T-cell homeostatic activity and, upon stimulation, compartmentalize receptors, membrane proximal signaling complexes, and cytoskeletal dynamics as essential for initiating T-cell motility and interaction with endothelia and antigen-presenting cells. Prominent examples to be discussed in this review include death receptor family members, integrins, CD3, and CD28 and their associated signalosomes. Progress made with regard to experimental tools has greatly aided our understanding of the role of bioactive sphingolipids in T-cell biology at a molecular level and of targets explored by a model pathogen (measles virus) to specifically interfere with their physiological activity.},
  language  = {en}
}
@phdthesis{Awad2019,
  author    = {Awad, Eman Da'as},
  title     = {Modulation of insulin-induced genotoxicity in vitro and genomic damage in gestational diabetes},
  doi       = {10.25972/OPUS-16186},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-161866},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Diabetes mellitus is a global health problem, where the risk of diabetes increases rapidly due to the lifestyle changes. Patients with type II diabetes have many complications with increased risk of morbidity and mortality. High levels of insulin may lead to DNA oxidation and damage. Several studies proposed that hyperinsulinemia may be an important risk factor for various types of cancer. To investigate insulin signaling pathway inducing oxidative stress and genomic damage, pharmaceutical and natural compounds which can interfere with the insulin pathway including PI3K inhibitors, resveratrol, lovastatin, and RAD-001 were selected due to their beneficial effects against metabolic disorder. Thus, the anti-genotoxic potential of these compounds regarding insulin-mediated oxidative stress were investigated in normal rat kidney cells in vitro. Our compounds showed protective effect against genotoxic damage and significantly decreased reactive oxygen specious after treatment of cells with insulin with different mechanisms of protection between the compounds. Thus, these compounds may be attractive candidates for future support of diabetes mellitus therapy. Next, we explored the link between gestational diabetes mellitus and genomic damage in cells derived from human blood. Moreover, we investigated the influence of estradiol, progesterone, adrenaline and triiodothyronine on insulin-induced genomic damage in vitro. First, we studied the effect of these hormones in human promyelocytic leukemia cells and next ex vivo with non-stimulated and stimulated peripheral blood mononuclear cells. In parallel, we also measured the basal genomic damage using three conditions (whole blood, non-stimulated and stimulated peripheral blood mononuclear cells) in a small patient study including non-pregnant controls with/without hormonal contraceptives, with a subgroup of obese women, pregnant women, and gestational diabetes affected women. A second-time point after delivery was also applied for analysis of the blood samples. Our results showed that GDM subjects and obese individuals exhibited higher basal DNA damage compared to lower weight nonpregnant or healthy pregnant women in stimulated peripheral blood mononuclear cells in both comet and micronucleus assays. On the other hand, the DNA damage in GDM women had decreased at two months after birth. Moreover, the applied hormones also showed an influence in vitro in the enhancement of the genomic damage in cells of the control and pregnant groups but this damage did not exceed the damage which existed in obese and gestational diabetes mellitus patients with high level of genomic damage. In conclusion, insulin can induce genomic damage in cultured cells, which can be modulated by pharmaceutical and naturals substances. This may be for future use in the protection of diabetic patients, who suffer from hyperinsulinemia during certain disease stages. A particular form of diabetes, GDM, was shown to lead to elevated DNA damage in affected women, which is reduced again after delivery. Cells of affected women do not show an enhanced, but rather a reduced sensitivity for further DNA damage induction by hormonal treatment in vitro. A potential reason may be an existence of a maximally inducible damage by hormonal influences.},
  subject      = {Gestationsdiabetes},
  language  = {en}
}
@phdthesis{Baig2019,
  author    = {Baig, Ayesha Anjum},
  title     = {Studies on platelet interactions with the coagulation system and on modulators of platelet (hem)ITAM signaling in genetically modified mice},
  doi       = {10.25972/OPUS-16488},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-164888},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Activated platelets and coagulation jointly contribute to physiological hemostasis. However, pathological conditions can also trigger unwanted platelet activation and initiation of coagulation resulting in thrombosis and precipitation of ischemic damage of vital organs such as the heart or brain. The specific contribution of procoagulant platelets, positioned at the interface of the processes of platelet activation and coagulation, in ischemic stroke had remained uninvestigated. The first section of the thesis addresses this aspect through experiments conducted in novel megakaryocyte- and platelet-specific TMEM16F conditional KO mice (cKO). cKO platelets phenocopied defects in platelets from Scott Syndrome patients and had severely impaired procoagulant characteristics. This led to decelerated platelet-driven thrombin generation and delayed fibrin formation. cKO mice displayed prolonged bleeding times and impaired arterial thrombosis. However, infarct volumes in cKO mice were comparable to wildtype (WT) mice in an experimental model of ischemic stroke. Therefore, while TMEM16F-regulated platelet procoagulant activity is critical for hemostasis and thrombosis, it is dispensable for cerebral thrombo-inflammation in mice. The second section describes the generation and initial characterization of a novel knockin mouse strain that expresses human coagulation factor XII (FXII) instead of endogenous murine FXII. These knockin mice had normal occlusion times in an experimental model of arterial thrombosis demonstrating that human FXII is functional in mice. Therefore, these mice constitute a valuable tool for testing novel pharmacological agents against human FXII - an attractive potential target for antithrombotic therapy. Glycoprotein (GP)VI and C-type lectin-like receptor 2 (CLEC-2)-mediated (hem)immunoreceptor tyrosine-based activation motif (ITAM) signaling represent a major pathway for platelet activation. The last section of the thesis provides experimental evidence for redundant functions between the two members of the Grb2 family of adapter proteins - Grb2 and Gads that lie downstream of GPVI and CLEC-2 stimulation. In vitro and in vivo studies in mice deficient in both Grb2 and Gads (DKO) revealed that DKO platelets had defects in (hem)ITAM-stimulation-specific activation, aggregation and signal transduction that were more severe than the defects observed in single Grb2 KO or Gads KO mice. Furthermore, the specific role of these adapters downstream of (hem)ITAM signaling was essential for maintenance of hemostasis but dispensable for the known CLEC-2 dependent regulation of blood-lymphatic vessel separation.},
  subject      = {Blutgerinnung},
  language  = {en}
}
@article{BallinHotzBourratetal.2019,
  author    = {Ballin, Nadja and Hotz, Alrun and Bourrat, Emmanuelle and K{\"u}sel, Julia and Oji, Vinzenz and Bouadjar, Bakar and Brognoli, Davide and Hickman, Geoffroy and Heinz, Lisa and Vabres, Pierre and Marrakchi, Slaheddine and Leclerc-Mercier, St{\´e}phanie and Irvine, Alan and Tadini, Gianluca and Hamm, Henning and Has, Cristina and Blume-Peytavi, Ulrike and Mitter, Diana and Reitenbach, Marina and Hausser, Ingrid and Zimmer, Andreas D. and Alter, Svenja and Fischer, Judith},
  title     = {Genetical, clinical, and functional analysis of a large international cohort of patients with autosomal recessive congenital ichthyosis due to mutations in NIPAL4},
  series = {Human Mutation},
  volume    = {40},
  journal   = {Human Mutation},
  number    = {12},
  doi       = {10.1002/humu.23883},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-212747},
  pages     = {2318-2333},
  year      = {2019},
  abstract  = {Autosomal recessive congenital ichthyosis (ARCI) belongs to a heterogeneous group of disorders of keratinization. To date, 10 genes have been identified to be causative for ARCI. NIPAL4 (Nipa-Like Domain-Containing 4) is the second most commonly mutated gene in ARCI. In this study, we present a large cohort of 101 families affected with ARCI carrying mutations in NIPAL4. We identified 16 novel mutations and increase the total number of pathogenic mutations in NIPAL4 to 34. Ultrastructural analysis of biopsies from six patients showed morphological abnormalities consistent with an ARCI EM type III. One patient with a homozygous splice site mutation, which leads to a loss of NIPAL4 mRNA, showed additional ultrastructural aberrations together with a more severe clinical phenotype. Our study gives insights into the frequency of mutations, a potential hot spot for mutations, and genotype-phenotype correlations.},
  language  = {en}
}
@phdthesis{Bangert2019,
  author    = {Bangert, Philip},
  title     = {Magnetic Attitude Control of Miniature Satellites and its Extension towards Orbit Control using an Electric Propulsion System},
  isbn      = {978-3-945459-28-7 (online)},
  issn      = {1868-7474},
  doi       = {10.25972/OPUS-17702},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-177020},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {The attitude and orbit control system of pico- and nano-satellites to date is one of the bottle necks for future scientific and commercial applications. A performance increase while keeping with the satellites' restrictions will enable new space missions especially for the smallest of the CubeSat classes. This work addresses methods to measure and improve the satellite's attitude pointing and orbit control performance based on advanced sensor data analysis and optimized on-board software concepts. These methods are applied to spaceborne satellites and future CubeSat missions to demonstrate their validity. An in-orbit calibration procedure for a typical CubeSat attitude sensor suite is developed and applied to the UWE-3 satellite in space. Subsequently, a method to estimate the attitude determination accuracy without the help of an external reference sensor is developed. Using this method, it is shown that the UWE-3 satellite achieves an in-orbit attitude determination accuracy of about 2°. An advanced data analysis of the attitude motion of a miniature satellite is used in order to estimate the main attitude disturbance torque in orbit. It is shown, that the magnetic disturbance is by far the most significant contribution for miniature satellites and a method to estimate the residual magnetic dipole moment of a satellite is developed. Its application to three CubeSats currently in orbit reveals that magnetic disturbances are a common issue for this class of satellites. The dipole moments measured are between 23.1mAm² and 137.2mAm². In order to autonomously estimate and counteract this disturbance in future missions an on-board magnetic dipole estimation algorithm is developed. The autonomous neutralization of such disturbance torques together with the simplification of attitude control for the satellite operator is the focus of a novel on-board attitude control software architecture. It incorporates disturbance torques acting on the satellite and automatically optimizes the control output. Its application is demonstrated in space on board of the UWE-3 satellite through various attitude control experiments of which the results are presented here. The integration of a miniaturized electric propulsion system will enable CubeSats to perform orbit control and, thus, open up new application scenarios. The in-orbit characterization, however, poses the problem of precisely measuring very low thrust levels in the order of µN. A method to measure this thrust based on the attitude dynamics of the satellite is developed and evaluated in simulation. It is shown, that the demonstrator mission UWE-4 will be able to measure these thrust levels with a high accuracy of 1\% for thrust levels higher than 1µN. The orbit control capabilities of UWE-4 using its electric propulsion system are evaluated and a hybrid attitude control system making use of the satellite's magnetorquers and the electric propulsion system is developed. It is based on the flexible attitude control architecture mentioned before and thrust vector pointing accuracies of better than 2° can be achieved. This results in a thrust delivery of more than 99\% of the desired acceleration in the target direction.},
  subject      = {Satellit},
  language  = {en}
}
@article{BartelPeinPopperetal.2019,
  author    = {Bartel, Karin and Pein, Helmut and Popper, Bastian and Schmitt, Sabine and Janaki-Raman, Sudha and Schulze, Almut and Lengauer, Florian and Koeberle, Andreas and Werz, Oliver and Zischka, Hans and M{\"u}ller, Rolf and Vollmar, Angelika M. and Schwarzenberg, Karin von},
  title     = {Connecting lysosomes and mitochondria - a novel role for lipid metabolism in cancer cell death},
  series = {Cell Communication and Signaling},
  volume    = {17},
  journal   = {Cell Communication and Signaling},
  doi       = {10.1186/s12964-019-0399-2},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-221524},
  year      = {2019},
  abstract  = {Background The understanding of lysosomes has been expanded in recent research way beyond their view as cellular trash can. Lysosomes are pivotal in regulating metabolism, endocytosis and autophagy and are implicated in cancer. Recently it was discovered that the lysosomal V-ATPase, which is known to induce apoptosis, interferes with lipid metabolism in cancer, yet the interplay between these organelles is poorly understood. Methods LC-MS/MS analysis was performed to investigate lipid distribution in cells. Cell survival and signaling pathways were analyzed by means of cell biological methods (qPCR, Western Blot, flow cytometry, CellTiter-Blue). Mitochondrial structure was analyzed by confocal imaging and electron microscopy, their function was determined by flow cytometry and seahorse measurements. Results Our data reveal that interfering with lysosomal function changes composition and subcellular localization of triacylglycerids accompanied by an upregulation of PGC1α and PPARα expression, master regulators of energy and lipid metabolism. Furthermore, cardiolipin content is reduced driving mitochondria into fission, accompanied by a loss of membrane potential and reduction in oxidative capacity, which leads to a deregulation in cellular ROS and induction of mitochondria-driven apoptosis. Additionally, cells undergo a metabolic shift to glutamine dependency, correlated with the fission phenotype and sensitivity to lysosomal inhibition, most prominent in Ras mutated cells. Conclusion This study sheds mechanistic light on a largely uninvestigated triangle between lysosomes, lipid metabolism and mitochondrial function. Insight into this organelle crosstalk increases our understanding of mitochondria-driven cell death. Our findings furthermore provide a first hint on a connection of Ras pathway mutations and sensitivity towards lysosomal inhibitors.},
  language  = {en}
}
@phdthesis{Bathon2019,
  author    = {Bathon, Kerstin},
  title     = {Mutations in protein kinase A catalytic subunit as a cause of adrenal Cushing's syndrome: mechanisms and functional consequences},
  doi       = {10.25972/OPUS-16893},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-168937},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Protein kinase A (PKA) is the main effector of cyclic-adenosine monophosphate (cAMP) and plays an important role in steroidogenesis and proliferation of adrenal cells. In a previous study we found two mutations (L206R, 199_200insW) in the main catalytic subunit of protein kinase A (PKA C) to be responsible for cortisol-producing adrenocortical adenomas (CPAs). These mutations interfere with the formation of a stable holoenzyme, thus causing constitutive PKA activation. More recently, we identified additional mutations affecting PKA C in CPAs associated with overt Cushing syndrome: S213R+insIILR, 200_201insV, W197R, d244 248+E249Q, E32V. This study reports a functional characterization of those PKA Cmutations linked to CPAs of Cushing's patients. All analyzed mutations except for E32V showed a reduced interaction with at least one tested regulatory (R) subunit. Interestingly the results of the activity differed among the mutants and between the assays employed. For three mutants (L206R, 199_200insW, S213R+insIILR), the results showed enhanced translocation to the nucleus. This was also observed in CRISPR/Cas9 generated PRKACA L206R mutated HEK293T cells. The enhanced nuclear translocation of this mutants could be due to the lack of R subunit binding, but also other mechanisms could be at play. Additionally, I used an algorithm, which predicted an effect of the mutation on substrate specificity for four mutants (L206R, 199_200insW, 200_201insV, d244 248+E249Q). This was proven using phosphoproteomics for three mutants (L206R, 200_201insV, d244 248+E249Q). In PRKACA L206R mutated CPAs this change in substrate specificity also caused hyperphosphorylation of H1.4 on serine 36, which has been reported to be implicated in mitosis. Due to these observations, I hypothesized, that there are several mechanisms of action of PRKACA mutations leading to increased cortisol secretion and cell proliferation in adrenal cells: interference with the formation of a stable holoenzyme, altered subcellular localization and a change in substrate specificity. My data indicate that some PKA C mutants might act via just one, others by a combination of these mechanisms. Altogether, these findings indicate that several mechanisms contribute to the development of CPAs caused by PRKACA mutations. Moreover, these findings provide a highly illustrative example of how alterations in a protein kinase can cause a human disease.},
  subject      = {Proteinkinase A},
  language  = {en}
}
@article{BauerOpitzFilseretal.2019,
  author    = {Bauer, Maria and Opitz, Anne and Filser, J{\"o}rg and Jansen, Hendrik and Meffert, Rainer H. and Germer, Christoph T. and Roewer, Norbert and Muellenbach, Ralf M. and Kredel, Markus},
  title     = {Perioperative redistribution of regional ventilation and pulmonary function: a prospective observational study in two cohorts of patients at risk for postoperative pulmonary complications},
  series = {BMC Anesthesiology},
  volume    = {19},
  journal   = {BMC Anesthesiology},
  doi       = {10.1186/s12871-019-0805-8},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-200730},
  pages     = {132},
  year      = {2019},
  abstract  = {Background Postoperative pulmonary complications (PPCs) increase morbidity and mortality of surgical patients, duration of hospital stay and costs. Postoperative atelectasis of dorsal lung regions as a common PPC has been described before, but its clinical relevance is insufficiently examined. Pulmonary electrical impedance tomography (EIT) enables the bedside visualization of regional ventilation in real-time within a transversal section of the lung. Dorsal atelectasis or effusions might cause a ventral redistribution of ventilation. We hypothesized the existence of ventral redistribution in spontaneously breathing patients during their recovery from abdominal and peripheral surgery and that vital capacity is reduced if regional ventilation shifts to ventral lung regions. Methods This prospective observational study included 69 adult patients undergoing elective surgery with an expected intermediate or high risk for PPCs. Patients undergoing abdominal and peripheral surgery were recruited to obtain groups of equal size. Patients received general anesthesia with and without additional regional anesthesia. On the preoperative, the first and the third postoperative day, EIT was performed at rest and during spirometry (forced breathing). The center of ventilation in dorso-ventral direction (COVy) was calculated. Results Both groups received intraoperative low tidal volume ventilation. Postoperative ventral redistribution of ventilation (forced breathing COVy; preoperative: 16.5 (16.0-17.3); first day: 17.8 (16.9-18.2), p < 0.004; third day: 17.4 (16.2-18.2), p = 0.020) and decreased forced vital capacity in percentage of predicted values (FVC\%predicted) (median: 93, 58, 64\%, respectively) persisted after abdominal surgery. In addition, dorsal to ventral shift was associated with a decrease of the FVC\%predicted on the third postoperative day (r = - 0.66; p < 0.001). A redistribution of pulmonary ventilation was not observed after peripheral surgery. FVC\%predicted was only decreased on the first postoperative day (median FVC\%predicted on the preoperative, first and third day: 85, 81 and 88\%, respectively). In ten patients occurred pulmonary complications after abdominal surgery also in two patients after peripheral surgery. Conclusions After abdominal surgery ventral redistribution of ventilation persisted up to the third postoperative day and was associated with decreased vital capacity. The peripheral surgery group showed only minor changes in vital capacity, suggesting a role of the location of surgery for postoperative redistribution of pulmonary ventilation.},
  language  = {en}
}
@article{BaumhoerDietzKneiseletal.2019,
  author    = {Baumhoer, Celia A. and Dietz, Andreas J. and Kneisel, C. and Kuenzer, C.},
  title     = {Automated Extraction of Antarctic Glacier and Ice Shelf Fronts from Sentinel-1 Imagery Using Deep Learning},
  series = {Remote Sensing},
  volume    = {11},
  journal   = {Remote Sensing},
  number    = {21},
  issn      = {2072-4292},
  doi       = {10.3390/rs11212529},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193150},
  pages     = {2529},
  year      = {2019},
  abstract  = {Sea level rise contribution from the Antarctic ice sheet is influenced by changes in glacier and ice shelf front position. Still, little is known about seasonal glacier and ice shelf front fluctuations as the manual delineation of calving fronts from remote sensing imagery is very time-consuming. The major challenge of automatic calving front extraction is the low contrast between floating glacier and ice shelf fronts and the surrounding sea ice. Additionally, in previous decades, remote sensing imagery over the often cloud-covered Antarctic coastline was limited. Nowadays, an abundance of Sentinel-1 imagery over the Antarctic coastline exists and could be used for tracking glacier and ice shelf front movement. To exploit the available Sentinel-1 data, we developed a processing chain allowing automatic extraction of the Antarctic coastline from Seninel-1 imagery and the creation of dense time series to assess calving front change. The core of the proposed workflow is a modified version of the deep learning architecture U-Net. This convolutional neural network (CNN) performs a semantic segmentation on dual-pol Sentinel-1 data and the Antarctic TanDEM-X digital elevation model (DEM). The proposed method is tested for four training and test areas along the Antarctic coastline. The automatically extracted fronts deviate on average 78 m in training and 108 m test areas. Spatial and temporal transferability is demonstrated on an automatically extracted 15-month time series along the Getz Ice Shelf. Between May 2017 and July 2018, the fronts along the Getz Ice Shelf show mostly an advancing tendency with the fastest moving front of DeVicq Glacier with 726 ± 20 m/yr.},
  language  = {en}
}
@phdthesis{Baur2019,
  author    = {Baur, Florentin Philipp},
  title     = {Establishment of a 3D tumour model and targeted therapy of BRAF-mutant colorectal cancer},
  doi       = {10.25972/OPUS-17412},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-174129},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Cancer remains after cardiovascular diseases the leading cause of death worldwide and an estimated 8.2 million people died of it in 2012. By 2030, 13 million cancer deaths are expected due to the growth and ageing of the population. Hereof, colorectal cancer (CRC) is the third most common cancer in men and the second in women with a wide geographical variation across the world. Usually, CRC begins as a non-cancerous growth leading to an adenomatous polyp, or adenoma, arising from glandular cells. Since research has brought about better understanding of the mechanisms of cancer development, novel treatments such as targeted therapy have emerged in the past decades. Despite that, up to 95\% of anticancer drugs tested in clinical phase I trials do not attain a market authorisation and hence these high attrition rates remain a key challenge for the pharmaceutical industry, making drug development processes enormously costly and inefficient. Therefore, new preclinical in vitro models which can predict drug responses in vivo more precisely are urgently needed. Tissue engineering not only provides the possibility of creating artificial three-dimensional (3D) in vitro tissues, such as functional organs, but also enables the investigation of drug responses in pathological tissue models, that is, in 3D cancer models which are superior to conventional two-dimensional (2D) cell cultures on petri dishes and can overcome the limitations of animal models, thereby reducing the need for preclinical in vivo models. In this thesis, novel 3D CRC models on the basis of a decellularised intestinal matrix were established. In the first part, it could be shown that the cell line SW480 exhibited different characteristics when grown in a 3D environment from those in conventional 2D culture. While the cells showed a mesenchymal phenotype in 2D culture, they displayed a more pronounced epithelial character in the 3D model. By adding stromal cells (fibroblasts), the cancer cells changed their growth pattern and built tumour-like structures together with the fibroblasts, thereby remodelling the natural mucosal structures of the scaffold. Additionally, the established 3D tumour model was used as a test system for treatment with standard chemotherapeutic 5-fluorouracil (5-FU). The second part of the thesis focused on the establishment of a 3D in vitro test system for targeted therapy. The US Food and Drug Administration has already approved of a number of drugs for targeted therapy of specific types of cancer. For instance, the small molecule vemurafenib (PLX4032, Zelboraf™) which demonstrated impressive response rates of 50-80\% in melanoma patients with a mutation of the rapidly accelerated fibrosarcoma oncogene type B (BRAF) kinase which belongs to the mitogen active protein kinase (MAPK) signalling pathway. However, only 5\% of CRC patients harbouring the same BRAF mutation respond to treatment with vemurafenib. An explanation for this unresponsiveness could be a feedback activation of the upstream EGFR, reactivating the MAPK pathway which sustains a proliferative signalling. To test this hypothesis, the two early passage cell lines HROC24 and HROC87, both presenting the mutation BRAF V600E but differing in other mutations, were used and their drug response to vemurafenib and/or gefitinib was assessed in conventional 2D cell culture and compared to the more advanced 3D model. Under 3D culture conditions, both cell lines showed a reduction of the proliferation rate only in the combination therapy approach. Furthermore, no significant differences between the various treatment approaches and the untreated control regarding apoptosis rate and viability for both cell lines could be found in the 3D tumour model which conferred an enhanced chemoresistance to the cancer cells. Because of the observed unresponsiveness to BRAF inhibition by vemurafenib as can be seen in the clinic for patients with BRAF mutations in CRC, the cell line HROC87 was used for further xenografting experiments and analysis of activation changes in the MAPK signalling pathway. It could be shown that the cells presented a reactivation of Akt in the 3D model when treated with both inhibitors, suggesting an escape mechanism for apoptosis which was not present in cells cultured under conventional 2D conditions. Moreover, the cells exhibited an activation of the hepatocyte growth factor receptor (HGFR, c-Met) in 2D and 3D culture, but this was not detectable in the xenograft model. This shows the limitations of in vivo models. The results suggest another feedback activation loop than that to the EGFR which might not primarily be involved in the resistance mechanism. This reflects the before mentioned high attrition rates in the preclinical drug testing.},
  subject      = {Dickdarmtumor},
  language  = {en}
}
@phdthesis{Beck2019,
  author    = {Beck, Sebastian},
  title     = {Using optogenetics to influence the circadian clock of \(Drosophila\) \(melanogaster\)},
  doi       = {10.25972/OPUS-18495},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-184952},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Almost all life forms on earth have adapted to the most impactful and most predictable recurring change in environmental condition, the cycle of day and night, caused by the axial rotation of the planet. As a result many animals have evolved intricate endogenous clocks, which adapt and synchronize the organisms' physiology, metabolism and behaviour to the daily change in environmental conditions. The scientific field researching these endogenous clocks is called chronobiology and has steadily grown in size, scope and relevance since the works of the earliest pioneers in the 1960s. The number one model organism for the research of circadian clocks is the fruit fly, Drosophila melanogaster, whose clock serves as the entry point to understanding the basic inner workings of such an intricately constructed endogenous timekeeping system. In this thesis it was attempted to combine the research on the circadian clock with the techniques of optogenetics, a fairly new scientific field, launched by the discovery of Channelrhodopsin 2 just over 15 years ago. Channelrhodopsin 2 is a light-gated ion channel found in the green alga Chlamydomonas reinhardtii. In optogenetics, researches use these light-gated ion channels like Channelrhodopsin 2 by heterologously expressing them in cells and tissues of other organisms, which can then be stimulated by the application of light. This is most useful when studying neurons, as these channels provide an almost non-invasive tool to depolarize the neuronal plasma membranes at will. The goal of this thesis was to develop an optogenetic tool, which would be able to influence and phase shift the circadian clock of Drosophila melanogaster upon illumination. A phase shift is the adaptive response of the circadian clock to an outside stimulus that signals a change in the environmental light cycle. An optogenetic tool, able to influence and phase shift the circadian clock predictably and reliably, would open up many new ways and methods of researching the neuronal network of the clock and which neurons communicate to what extent, ultimately synchronizing the network. The first optogenetic tool to be tested in the circadian clock of Drosophila melanogaster was ChR2-XXL, a channelrhodopsin variant with dramatically increased expression levels and photocurrents combined with a prolonged open state. The specific expression of ChR2-XXL and of later constructs was facilitated by deploying the three different clock-specific GAL4-driver lines, clk856-gal4, pdf-gal4 and mai179-gal4. Although ChR2-XXL was shown to be highly effective at depolarizing neurons, these stimulations proved to be unable to significantly phase shift the circadian clock of Drosophila. The second series of experiments was conducted with the conceptually novel optogenetic tools Olf-bPAC and SthK-bPAC, which respectively combine a cyclic nucleotide-gated ion channel (Olf and SthK) with the light-activated adenylyl-cyclase bPAC. These tools proved to be quite useful when expressed in the motor neurons of instar-3 larvae of Drosophila, paralyzing the larvae upon illumination, as well as affecting body length. This way, these new tools could be precisely characterized, spawning a successfully published research paper, centered around their electrophysiological characterization and their applicability in model organisms like Drosophila. In the circadian clock however, these tools caused substantial damage, producing severe arrhythmicity and anomalies in neuronal development. Using a temperature-sensitive GAL80-line to delay the expression until after the flies had eclosed, yielded no positive results either. The last series of experiments saw the use of another new series of optogenetic tools, modelled after the Olf-bPAC, with bPAC swapped out for CyclOp, a membrane-bound guanylyl-cyclase, coupled with less potent versions of the Olf. This final attempt however also ended up being unsuccessful. While these tools could efficiently depolarize neuronal membranes upon illumination, they were ultimately unable to stimulate the circadian clock in way that would cause it to phase shift. Taken together, these mostly negative results indicate that an optogenetic manipulation of the circadian clock of Drosophila melanogaster is an extremely challenging subject. As light already constitutes the most impactful environmental factor on the circadian clock, the combination of chronobiology with optogenetics demands the parameters of the conducted experiments to be tuned with an extremely high degree of precision, if one hopes to receive positive results from these types of experiments at all.},
  subject      = {Chronobiologie},
  language  = {en}
}
@article{BeerSchenkHelfrichFoersteretal.2019,
  author    = {Beer, Katharina and Schenk, Mariela and Helfrich-F{\"o}rster, Charlotte and Holzschuh, Andrea},
  title     = {The circadian clock uses different environmental time cues to synchronize emergence and locomotion of the solitary bee Osmia bicornis},
  series = {Scientific Reports},
  volume    = {9},
  journal   = {Scientific Reports},
  doi       = {10.1038/s41598-019-54111-3},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-202721},
  pages     = {17748},
  year      = {2019},
  abstract  = {Life on earth adapted to the daily reoccurring changes in environment by evolving an endogenous circadian clock. Although the circadian clock has a crucial impact on survival and behavior of solitary bees, many aspects of solitary bee clock mechanisms remain unknown. Our study is the first to show that the circadian clock governs emergence in Osmia bicornis, a bee species which overwinters as adult inside its cocoon. Therefore, its eclosion from the pupal case is separated by an interjacent diapause from its emergence in spring. We show that this bee species synchronizes its emergence to the morning. The daily rhythms of emergence are triggered by temperature cycles but not by light cycles. In contrast to this, the bee's daily rhythms in locomotion are synchronized by light cycles. Thus, we show that the circadian clock of O. bicornis is set by either temperature or light, depending on what activity is timed. Light is a valuable cue for setting the circadian clock when bees have left the nest. However, for pre-emerged bees, temperature is the most important cue, which may represent an evolutionary adaptation of the circadian system to the cavity-nesting life style of O. bicornis.},
  language  = {en}
}
@article{BekesLoebHolzheuetal.2019,
  author    = {Bekes, Inga and L{\"o}b, Sanja and Holzheu, Iris and Janni, Wolfgang and Baumann, Lisa and W{\"o}ckel, Achim and Wulff, Christine},
  title     = {Nectin-2 in ovarian cancer: how is it expressed and what might be its functional role?},
  series = {Cancer Science},
  volume    = {110},
  journal   = {Cancer Science},
  number    = {6},
  doi       = {10.1111/cas.13992},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-202748},
  pages     = {1872- 1882},
  year      = {2019},
  abstract  = {Nectin-2 is an adhesion molecule that has been reported to play a role in tumor growth, metastasis and tumor angiogenesis. Herein, we investigated Nectin-2 in ovarian cancer patients and in cell culture. Tumor as well as peritoneal biopsies of 60 ovarian cancer patients and 22 controls were dual stained for Nectin-2 and CD31 using immunohistochemistry. Gene expression of Nectin-2 was quantified by real-time PCR and differences analyzed in relation to various tumor characteristics. In the serum of patients, vascular endothelial growth factor (VEGF) was quantified by ELISA. Effect of VEGF on Nectin-2 expression as well as permeability was investigated in HUVEC. In tumor biopsies, Nectin-2 protein was mainly localized in tumor cells, whereas in peritoneal biopsies, clear colocalization was found in the vasculature. T3 patients had a significantly higher percentage of positive lymph nodes and this correlated with survival. Nectin-2 was significantly upregulated in tumor biopsies in patients with lymph node metastasis and with residual tumor >1 cm after surgery. Nectin-2 expression was significantly suppressed in the peritoneal endothelium of patients associated with significantly increased VEGF serum levels. In cell culture, VEGF stimulation led to a significant downregulation of Nectin-2 which was reversed by VEGF-inhibition. In addition, Nectin-2 knockdown in endothelial cells was associated with significantly increased endothelial permeability. Nectin-2 expression in ovarian cancer may support tumor cell adhesion, leading to growth and lymph node metastasis. In addition, VEGF-induced Nectin-2 suppression in peritoneal endothelium may support an increase in vascular permeability leading to ascites production.},
  language  = {en}
}
@article{BelaidiRauchZhangetal.2019,
  author    = {Belaidi, Houmam and Rauch, Florian and Zhang, Zuolun and Latouche, Camille and Boucekkine, Abdou and Marder, Todd B. and Halet, Jean-Francois},
  title     = {Insights into the optical properties of triarylboranes with strongly electron-accepting bis(fluoromesityl)boryl groups: when theory meets experiment},
  series = {ChemPhotoChem},
  volume    = {4},
  journal   = {ChemPhotoChem},
  number    = {3},
  doi       = {10.1002/cptc.201900256},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-205600},
  pages     = {173-180},
  year      = {2019},
  abstract  = {The photophysical properties (absorption, fluorescence and phosphorescence) of a series of triarylboranes of the form 4-D-C\(_6\)H\(_4\)-B(Ar)\(_2\) (D=\(^t\)Bu or NPh\(_2\); Ar=mesityl (Mes) or 2,4,6-tris(trifluoromethylphenyl (Fmes)) were analyzed theoretically using state-of-the-art DFT and TD-DFT methods. Simulated emission spectra and computed decay rate constants are in very good agreement with the experimental data. Unrestricted electronic computations including vibronic contributions explain the unusual optical behavior of 4-\(^t\)Bu-C\(_6\)H\(_4\)-B(Fmes)\(_2\) 2, which shows both fluorescence and phosphorescence at nearly identical energies (at 77 K in a frozen glass). Analysis of the main normal modes responsible for the phosphorescence vibrational fine structure indicates that the bulky tert-butyl group tethered to the phenyl ring is strongly involved. Interestingly, in THF solvent, the computed energies of the singlet and triplet excited states are very similar for compound 2 only, which may explain why 2 shows phosphorescence in contrast to the other members of the series.},
  language  = {en}
}
@article{BelicPageLazariotouetal.2019,
  author    = {Belic, Stanislav and Page, Lukas and Lazariotou, Maria and Waaga-Gasser, Ana Maria and Dragan, Mariola and Springer, Jan and Loeffler, Juergen and Morton, Charles Oliver and Einsele, Hermann and Ullmann, Andrew J. and Wurster, Sebastian},
  title     = {Comparative Analysis of Inflammatory Cytokine Release and Alveolar Epithelial Barrier Invasion in a Transwell® Bilayer Model of Mucormycosis},
  series = {Frontiers in Microbiology},
  volume    = {9},
  journal   = {Frontiers in Microbiology},
  doi       = {10.3389/fmicb.2018.03204},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-252477},
  year      = {2019},
  abstract  = {Understanding the mechanisms of early invasion and epithelial defense in opportunistic mold infections is crucial for the evaluation of diagnostic biomarkers and novel treatment strategies. Recent studies revealed unique characteristics of the immunopathology of mucormycoses. We therefore adapted an alveolar Transwell® A549/HPAEC bilayer model for the assessment of epithelial barrier integrity and cytokine response to Rhizopus arrhizus, Rhizomucor pusillus, and Cunninghamella bertholletiae. Hyphal penetration of the alveolar barrier was validated by 18S ribosomal DNA detection in the endothelial compartment. Addition of dendritic cells (moDCs) to the alveolar compartment led to reduced fungal invasion and strongly enhanced pro-inflammatory cytokine response, whereas epithelial CCL2 and CCL5 release was reduced. Despite their phenotypic heterogeneity, the studied Mucorales species elicited the release of similar cytokine patterns by epithelial and dendritic cells. There were significantly elevated lactate dehydrogenase concentrations in the alveolar compartment and epithelial barrier permeability for dextran blue of different molecular weights in Mucorales-infected samples compared to Aspergillus fumigatus infection. Addition of monocyte-derived dendritic cells further aggravated LDH release and epithelial barrier permeability, highlighting the influence of the inflammatory response in mucormycosis-associated tissue damage. An important focus of this study was the evaluation of the reproducibility of readout parameters in independent experimental runs. Our results revealed consistently low coefficients of variation for cytokine concentrations and transcriptional levels of cytokine genes and cell integrity markers. As additional means of model validation, we confirmed that our bilayer model captures key principles of Mucorales biology such as accelerated growth in a hyperglycemic or ketoacidotic environment or reduced epithelial barrier invasion upon epithelial growth factor receptor blockade by gefitinib. Our findings indicate that the Transwell® bilayer model provides a reliable and reproducible tool for assessing host response in mucormycosis.},
  language  = {en}
}
@article{BelkaNickelKurth2019,
  author    = {Belka, Janina and Nickel, Joachim and Kurth, Dirk G.},
  title     = {Growth on metallo-supramolecular coordination polyelectrolyte (MEPE) stimulates osteogenic differentiation of human osteosarcoma cells (MG63) and human bone marrow derived mesenchymal stem cells},
  series = {Polymers},
  volume    = {11},
  journal   = {Polymers},
  number    = {7},
  issn      = {2073-4360},
  doi       = {10.3390/polym11071090},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-197264},
  pages     = {1090},
  year      = {2019},
  abstract  = {Background: Culturing of cells is typically performed on standard tissue culture plates generating growth conditions, which in general do not reflect the native three-dimensional cellular environment. Recent investigations provide insights in parameters, which strongly affect the general cellular behavior triggering essential processes such as cell differentiation. The physical properties of the used material, such as stiffness, roughness, or topology, as well as the chemical composition of the cell-surface interface are shown to play a key role in the initiation of particular cellular responses. Methods: We extended our previous research, which identified thin films of metallo-supramolecular coordination polyelectrolytes (MEPEs) as substrate to trigger the differentiation of muscular precursor cells. Results: Here, we show that the same MEPEs similarly stimulate the osteogenic differentiation of pre-osteoblasts. Remarkably, MEPE modified surfaces also trigger the differentiation of primary bone derived mesenchymal stem cells (BMSCs) towards the osteogenic lineage. Conclusion: This result leads to the conclusion that these surfaces individually support the specification of cell differentiation toward lineages that correspond to the natural commitment of the particular cell types. We, therefore, propose that Fe-MEPEs may be used as scaffold for the treatment of defects at least in muscular or bone tissue.},
  language  = {en}
}
@phdthesis{Berninger2019,
  author    = {Berninger, Michael},
  title     = {Development of Novel Quinolone Amides Against the African Sleeping Sickness - A Fluorine Walk},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-176428},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {In recent years the transmission of the Human African Trypanosomiasis could be significantly reduced. The reported cases in 2016 reached a historic low level of 2184 cases and these achievements can be ascribed to intense control and surveillance programmes.118 However, most of the reported cases (>1000 in 2015) occurred in the Democratic Republic of the Congo and thus, need to be treated adequately. In particular, when the parasites have traversed the blood-brain barrier (BBB), treatment proved to be even more difficult. In addition, the number of cases always came in waves due to many reasons, e.g., development of resistances. Thus, it can be expected from experiences of the past that the number of cases will increase again. Hence, novel chemical entities are desperately needed in order to overcome the drawbacks which are associated with the current treatment options. Our drug discovery approach included an initial drug repurposing strategy combined with a phenotypic screening. S. Niedermeier found novel active compounds derived from commercial fluoroquinolones. The most promising hit compound was further developed by G. Hiltensperger resulting in the lead quinolone amide GHQ168 (IC50 = 0.047 µM). This doctoral thesis is about new insights into the SAR of the quinolone amides and the enhancement of the lead compound. Special consideration was given to the fluorine atom in the quinolone amides and how certain fluorine substitution patterns influence the antitrypanosomal activity, physicochemical properties and pharmacokinetics (i.e. 'fluorine walk'). Moreover, the ability of the compound class crossing the BBB should be investigated. This feature is inevitable necessary in order to potentially treat African sleeping sickness stage II. The Gould-Jacobs protocol was predominantly used for the synthesis of the quinolone core. Since former SAR studies mainly concentrated on the variation in positions 1, 3 and 7, quinolone scaffolds (2a-i) with diverse substitution patterns regarding positions 5, 6, 7 and 8 were synthesised in this thesis. The resulting quinolone amides were evaluated for their antitrypanosomal activity. Voluminous residues in position C-5 resulted in diminished activities (compounds 13, 16 and 18) and solely small-sized moieties were tolerated. In particular the fluorine atom in position 5 revealed beneficial trypanocidal effects as shown for compounds 6 (IC50 = 0.05 µM), 8 (IC50 = 0.04 µM), and 24 (IC50 = 0.02 µM). Furthermore, having fluorine only in position 5 of the quinolone core could considerably reduce the cytotoxic effects (CC50 >100 µM, SI = >2000 for 6). Hence, the 5-fluoro-substituted quinolone amides were considered superior to GHQ168. Regarding the C-6 position all other moieties (e.g., H in 9, OCH3 in 10, CF3 in 12) except of a fluorine atom decreased the activity against Trypanosoma brucei brucei. A double fluorination in C-6 and C-8 was not beneficial (IC50 = 0.06 µM for 7) and a single fluorine atom in C-8 even showed a negative effect (IC50 = 0.79 µM for 5). The logP value is considered a surrogate parameter for lipophlicity and thus, affecting permeability and solubility processes. In particular the fluorine atom influences the lipophilicity due to versatile effects: Lipophilicity is increased by additional fluorine atoms on aromatic rings (7, 23) and reduced by fluorine atoms at an alkyl chain (49), respectively. Additionally, the 5-fluoro-substituted quinolone amides (6, 8, and 24) could prove the contrary effect of decreasing lipophilicity when the aromatic fluorine substituent is in vicinity to a carbonyl group. For the most promising drug candidates 6, 23, and 24 the respective metabolites and the metabolic turnover were investigated by C. Erk. In comparison to GHQ168 the hydroxylation of the benzylamide was prevented by the para-fluorine atom. Hence, half-life was extended for compound 23 (t1/2 = 6.4 h) and N-desalkylation was the predominant pathway. Moreover, the respective fluorine substitution pattern of the quinolone core affected the metabolism of compound 6. The 5-fluoro-substituted quinolone amide was less prone for biotransformation (t1/2 = 7.2 h) and half-life could even be further prolonged for compound 24 (t1/2 = 7.7 h). Due to the most appropriate safety profile of compound 6, this particular drug candidate was considered for in vivo study. Its poor solubility made a direct intraperitoneal administration unfeasible. Thus, an amorphous solid dispersion of 6 was generated using the spray-drying method according to the previous protocol. Unfortunately, the required solubility for the predicted in vivo study was not achieved. Furthermore, the compound class of the quinolone amide was evaluated for its ability for brain penetration. The methanesulfonyl precursor 48 was synthesised and subsequently radiofluorinated in the group of Prof. Dr. Samnick (Department of Nuclear Medicine, University Hospital of W{\"u}rzburg). The labelled compound [18F]49 was administered to mice, and its distribution throughout the body was analysed using positron emission tomography and autoradiography, respectively. The autoradiography of the murine brains revealed medium to high concentrations of [18F]49. Therefore, the quinolone amides are generally suitable for treating Human African Trypanosomiasis stage II. A scaffold hopping approach was performed starting from the quinolone amides and concluding with the compound class of pyrazoloquinolin-3-ones. The intramolecular hydrogen bond between the sec. amide and the C-4 carbonyl moiety was replaced by a covalent bond. The two compound classes were comparable regarding the antitrypanosomal activity to some degree (IC50 = 7.9 µM (EK02) vs. 6.37 µM (53a)). However, a final evaluation of 59 was not possible due to poor solubility.},
  subject      = {Trypanosomiase},
  language  = {en}
}
@phdthesis{Bertlein2019,
  author    = {Bertlein, Sarah},
  title     = {Hydrogels as Biofunctional Coatings and Thiol-Ene Clickable Bioinks for Biofabrication},
  doi       = {10.25972/OPUS-17422},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-174225},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Ziel dieser Arbeit war die Entwicklung von funktionalisierbaren Hydrogel Beschichtungen f{\"u}r Schmelz-elektrogeschriebene PCL Ger{\"u}ste und von Bio-druckbaren Hydrogelen f{\"u}r die Biofabrikation. Hydrogel Beschichtungen von Schmelz-elektrogeschriebenen Konstrukten erm{\"o}glichten die Kontrolle der Oberfl{\"a}chen-Hydrophilie und damit Zell-Material Interaktionsstudien in minimal Protein-adh{\"a}siven Umgebungen. Zu diesem Zweck wurde ein hydrophiles sternf{\"o}rmiges vernetzbares Polymer verwendet und eine Optimierung der Beschichtungsbedingungen durchgef{\"u}hrt. Außerdem boten neu entwickelte photosensitive Konstrukte eine Zeit- und pH-unabh{\"a}ngige Biofunktionalisierung. Bio-druckbare Hydrogele f{\"u}r die Biofabrikation basierten auf der Allyl-Funktionalisierung von Gelatine (GelAGE) und modifizierten Hyalurons{\"a}ure-Produkten, die das Hydrogel-Vernetzen mittels Thiol-En Click Chemie erm{\"o}glichen. Die Optimierung der GelAGE Hydrogel-Eigenschaften wurde durch eine detaillierte Analyse der Syntheseparameter, variierender En:SH Verh{\"a}ltnisse, unterschiedlicher Vernetzungsmolek{\"u}le und Photoinitiatoren erreicht. Die Homogenit{\"a}t der Thiol-En Netzwerke wurde mit denen der freien radikalischen Polymerisation verglichen und die Verwendbarkeit von GelAGE als Bio-Tinte f{\"u}r den Extrusions-basierten Bio-Druck wurde untersucht. Es wurde angenommen, dass reine Hyalurons{\"a}ure-basierte Bio-Tinten eine Beibehaltung der mechanischen und rheologischen Eigenschaften, der Zellviabilit{\"a}t und der Prozessierbarkeit erm{\"o}glichen trotz geringerem Polymer- und Thiol-Anteil der Hydrogele. Hydrogel-Beschichtungen: Hoch definierte PCL Ger{\"u}ste wurden mittels MEW hergestellt und anschließend mit sechs armigen sternf{\"o}rmigen vernetzbaren Polymeren (sP(EO-stat-PO)) beschichtet. Die Vernetzung wird durch die w{\"a}ssrig-induzierte Hydrolyse reaktiver Isocyanatgruppen (NCO) von sP(EO-stat-PO) bedingt. Diese Beschichtung erh{\"o}hte die Oberfl{\"a}chen-Hydrophilie und stellte eine Plattform f{\"u}r weitere Biofunktionalisierungen, in minimal Protein-adh{\"a}siven Umgebungen, dar. Nicht nur das Beschichtungsprotokoll wurde hinsichtlich der sP(EO-stat-PO) Konzentrationen und der Beschichtungsdauern optimiert, sondern auch Vorbehandlungen der Ger{\"u}ste wurden entwickelt. Diese waren essentiell um die finale Hydrophilie von sP(EO-stat-PO) beschichteten Ger{\"u}ste so zu erh{\"o}hen, dass unspezifische Protein-Adh{\"a}sionen vollst{\"a}ndig unterbunden wurden. Die sP(EO-stat-PO) Schichtdicke, von ungef{\"a}hr 100 nm, erm{\"o}glicht generell in vitro Studien nicht nur in Abh{\"a}ngigkeit der Ger{\"u}st-Biofunktionalisierung, sondern auch in Abh{\"a}ngigkeit der Ger{\"u}st-Architektur durchzuf{\"u}hren. Das Ausmaß der Hydrogel-Beschichtung wurde mittels einer indirekten Quantifizierung der NCO-Hydrolyse-Produkte ermittelt. Kenntnis {\"u}ber die NCO-Hydrolyse-Kinetik erm{\"o}glichte ein Gleichgewicht zwischen ausreichend beschichteten Ger{\"u}sten und der Pr{\"a}senz der NCO-Gruppen herzustellen, welche f{\"u}r die anschließenden Biofunktionalisierungen genutzt wurden. Diese Zeit- und pH-abh{\"a}ngige Biofunktionalisierung war jedoch nur f{\"u}r kleine Biomolek{\"u}le m{\"o}glich. Um diese Beschr{\"a}nkung zu umgehen und auch hochmolekulare Biomolek{\"u}le kovalent anzubinden, wurde ein anderer Reaktionsweg entwickelt. Dieser basierte auf der Photolyse von Diazirin-Gruppen und erm{\"o}glichte eine Zeit- und pH-unabh{\"a}ngige Biofunktionalisierung der Ger{\"u}ste mit Streptavidin und Kollagen Typ I. Die Fibrillen bildende Eigenschaft von Kollagen wurde genutzt um auf den Ger{\"u}sten verschiedene Kollagen-Konformationen zu erhalten und eine erste in vitro Studie best{\"a}tigte die Anwendbarkeit f{\"u}r Zell-Material Interaktionsstudien. Die hier entwickelten Ger{\"u}ste k{\"o}nnten verwendet werden um tiefere Einblicke in die Grundlagen der zellul{\"a}ren Wahrnehmung zu erhalten. Insbesondere die Komplexit{\"a}t mit der Zellen z.B. Kollagen wahrnehmen bleibt weiterhin kl{\"a}rungsbed{\"u}rftig. Hierf{\"u}r k{\"o}nnten diverse Hierarchien von Kollagen-{\"a}hnlichen Konformationen an die Ger{\"u}ste gebunden werden, z.B. Gelatine oder Kollagen-abgeleitete Peptidsequenzen. Dann k{\"o}nnte die Aktivierung der DDR-Rezeptoren in Abh{\"a}ngigkeit der Komplexit{\"a}t der angebundenen Substanzen bestimmt werden. Aufgrund der starken Streptavidin-Biotin Bindung k{\"o}nnten Streptavidin funktionalisierte Ger{\"u}ste eine vielseitige Plattform f{\"u}r die Immobilisierung von jeglichen biotinylierten Molek{\"u}len darstellen. Gelatine-basierte Bio-Tinten: Zuerst wurden die GelAGE-Produkte hinsichtlich der Molekulargewichts-Verteilung und der Integrit{\"a}t der Aminos{\"a}uren-Zusammensetzung synthetisiert. Eine detailliert Studie, mit variierenden molaren Edukt-Verh{\"a}ltnissen und Synthese-Zeitspannen, wurde durchgef{\"u}hrt und implizierte, dass der Gelatine Abbau am deutlichsten f{\"u}r stark alkalische Synthesebedingungen mit langen Reaktionszeiten war. Gelatine beinhaltet mehrere funktionalisierbare Gruppen und anhand diverser Model-Substanzen und Analysen wurde die vorrangige Amingruppen-Funktionalisierung ermittelt. Die Homogenit{\"a}t des GelAGE-Polymernetzwerkes, im Vergleich zu frei radikalisch polymerisierten GelMA-Hydrogelen, wurde best{\"a}tigt. Eine ausf{\"u}hrliche Analyse der Hydrogel-Zusammensetzungen mit variierenden funktionellen Gruppen Verh{\"a}ltnissen und UV- oder Vis-Licht induzierbaren Photoinitiatoren wurde durchgef{\"u}hrt. Die UV-Initiator Konzentration ist aufgrund der Zell-Toxizit{\"a}t und der potenziellen zellul{\"a}ren DNA-Besch{\"a}digung durch UV-Bestrahlung eingeschr{\"a}nkt. Das Zell-kompatiblere Vis-Initiator System hingegen erm{\"o}glichte, durch die kontrollierte Photoinitiator-Konzentration bei konstanten En:SH Verh{\"a}ltnissen und Polymeranteilen, die Einstellung der mechanischen Eigenschaften {\"u}ber eine große Spanne hinweg. Die Flexibilit{\"a}t der GelAGE Bio-Tinte f{\"u}r unterschiedliche additive Fertigungstechniken konnte, durch Ausnutzung des temperaturabh{\"a}ngigen Gelierungsverhaltens unterschiedlich stark degradierter GelAGE Produkte, f{\"u}r Stereolithographie und Extrusions-basiertem Druck bewiesen werden. Außerdem wurde die Viabilit{\"a}t zellbeladener GelAGE Konstrukte bewiesen, die mittels Extrusions-basiertem Bio-Druck erhalten wurden. Die Verwendung diverser multifunktioneller und makromolekularer Thiol-Vernetzungsmolek{\"u}le erm{\"o}glichte eine Verbesserung der mechanischen und rheologischen Eigenschaften und ebenso der Prozessierbarkeit. Verglichen mit dem kleinen bis-Thiol-funktionellen Vernetzungsmolek{\"u}l waren geringere Thiol-Vernetzer-Konzentrationen notwendig um bessere mechanische Festigkeiten und physikochemische Eigenschaften der Hydrogele zu erhalten. Der Extrusions-basierte Bio-Druck unterschiedlicher eingekapselter Zellen verdeutlichte die Notwendigkeit der individuellen Optimierung von Zell-beladenen Hydrogel-Formulierungen. Nicht nur die Zellviabilit{\"a}t von eingekapselten Zellen in Extrusions-basierten biogedruckten Konstrukten sollte bewertet werden, sondern auch andere Parameter wie die Zellmorphologie oder die Kollagen- oder Glykosaminoglykan-Produktion, da diese einige der essentiellen Voraussetzungen f{\"u}r die Verwendung in Knorpel Tissue Engineering Konzepten darstellen. Außerdem sollten diese Studien auf die stereolithographischen Ans{\"a}tze erweitert werden und letztlich w{\"a}re die Flexibilit{\"a}t und Zellkompatibilit{\"a}t der Formulierungen mit makromolekularen Vernetzern von Interesse. Makromolekulare Vernetzer erm{\"o}glichten die Reduktion des Polymeranteils und des Thiol-Gehalts und k{\"o}nnen, insbesondere in Kombination mit dem Zell-kompatibleren Vis-Initiator-System, voraussichtlich zu einer gesteigerten Zellkompatibilit{\"a}t beitragen, was zu kl{\"a}ren bleibt. Hyalurons{\"a}ure-basierte Bio-Tinten: Unterschiedliche Hyalurons{\"a}ure-Produkte (HA) wurden synthetisiert, sodass diese En- (HAPA) oder Thiol-Funktionalit{\"a}ten (LHASH) beinhalteten, um reine HA Thiol-En vernetzte Hydrogele zu erhalten. In Abh{\"a}ngigkeit des Molekulargewichts der HA-Produkte, der Polymeranteile und des En:SH Verh{\"a}ltnisses, konnte eine große Spanne an mechanischen Festigkeiten abgedeckt werden. Aufgrund der hohen Viskosit{\"a}t war allerdings im Falle von hochmolekularen HA (HHAPA) Produkt-L{\"o}sungen (HHAPA + LHASH) die Handhabbarkeit auf 5.0 wt.-\% beschr{\"a}nkt. Die Verwendung der gleichen HA Thiol-Komponenten (LHASH) erm{\"o}glichte Hybrid-Hydrogele, mit HA und GelAGE, mit reinen HA-Hydrogelen zu vergleichen. Obwohl der Polymeranteil von HHAPA + LHASH Hydrogelen signifikant geringer war, als im Vergleich zu Hybrid-Hydrogelen (GelAGE + LHASH), wurden f{\"u}r gleiche En:SH Verh{\"a}ltnisse {\"a}hnliche mechanische und physikochemische Eigenschaften reiner HA-Hydrogele bestimmt. Aufgrund der geringen Viskosit{\"a}t niedermolekularer HA L{\"o}sungen (LHAPA + LHASH) konnten diese nicht f{\"u}r den Extrusions-basierten Druck verwendet werden. Das nicht temperaturabh{\"a}ngige HHAPA + LHASH System hingegen konnte mit nur einem Viertel des Polymeranteils der Hybrid Formulierungen gedruckt werden. Im Vergleich zu der Hybrid Bio-Tinte wurde angenommen, dass das hoch viskose Verhalten von HHAPA + LHASH L{\"o}sungen, der geringere Polymeranteil, der geringere Druck f{\"u}r das Drucken und eine demzufolge geringere Scherspannung, maßgeblich zu der hohen Zellviabilit{\"a}t in Extrusions-basiert-biogedruckten Konstrukten beisteuerten. Die niedrigmolekulare HA Formulierung (LHAPA + LHASH) konnte zwar nicht f{\"u}r den Extrusions-basierten Druck verwendet werden, allerdings besitzt dieses System Potential f{\"u}r andere additive Fertigungstechniken wie z.B. der Stereolithographie. Um dieses System weiterzuentwickeln w{\"a}re, analog zu dem GelAGE System, eine detailliertere Studie zu den Funktionen eingekapselter Zellen hilfreich. Außerdem sollte die Initiierung dieses Systems mit dem Vis-Initiator untersucht werden.},
  subject      = {Biomaterial},
  language  = {en}
}
@article{BeykanFaniJensenetal.2019,
  author    = {Beykan, Seval and Fani, Melpomeni and Jensen, Svend Borup and Nicolas, Guillaume and Wild, Damian and Kaufmann, Jens and Lassmann, Michael},
  title     = {In vivo biokinetics of \(^{177}\)Lu-OPS201 in Mice and Pigs as a Model for Predicting Human Dosimetry},
  series = {Contrast Media \& Molecular Imaging},
  volume    = {2019},
  journal   = {Contrast Media \& Molecular Imaging},
  doi       = {10.1155/2019/6438196},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-177382},
  pages     = {6438196},
  year      = {2019},
  abstract  = {Introduction. \(^{177}\)Lu-OPS201 is a high-affinity somatostatin receptor subtype 2 antagonist for PRRT in patients with neuroendocrine tumors. The aim is to find the optimal scaling for dosimetry and to compare the biokinetics of \(^{177}\)Lu-OPS201 in animals and humans. Methods. Data on biokinetics of \(^{177}\)Lu-OPS201 were analyzed in athymic nude Foxn1\(^{nu}\) mice (28 F, weight: 26 ± 1 g), Danish Landrace pigs (3 F-1 M, weight: 28 ± 2 kg), and patients (3 F-1 M, weight: 61 ± 17 kg) with administered activities of 0.19-0.27 MBq (mice), 97-113 MBq (pigs), and 850-1086 MBq (patients). After euthanizing mice (up to 168 h), the organ-specific activity contents (including blood) were measured. Multiple planar and SPECT/CT scans were performed until 250 h (pigs) and 72 h (patients) to quantify the uptake in the kidneys and liver. Blood samples were taken up to 23 h (patients) and 300 h (pigs). In pigs and patients, kidney protection was applied. Time-dependent uptake data sets were created for each species and organ/tissue. Biexponential fits were applied to compare the biokinetics in the kidneys, liver, and blood of each species. The time-integrated activity coefficients (TIACs) were calculated by using NUKFIT. To determine the optimal scaling, several methods (relative mass scaling, time scaling, combined mass and time scaling, and allometric scaling) were compared. Results. A fast blood clearance of the compound was observed in the first phase (<56 h) for all species. In comparison with patients, pigs showed higher liver retention. Based on the direct comparison of the TIACs, an underestimation in mice (liver and kidneys) and an overestimation in pigs' kidneys compared to the patient data (kidney TIAC: mice = 1.4 h, pigs = 7.7 h, and patients = 5.8 h; liver TIAC: mice = 0.7 h, pigs = 4.1 h, and patients = 5.3 h) were observed. Most similar TIACs were obtained by applying time scaling (mice) and combined scaling (pigs) (kidney TIAC: mice = 3.9 h, pigs = 4.8 h, and patients = 5.8 h; liver TIAC: mice = 0.9 h, pigs = 4.7 h, and patients = 5.3 h). Conclusion. If the organ mass ratios between the species are high, the combined mass and time scaling method is optimal to minimize the interspecies differences. The analysis of the fit functions and the TIACs shows that pigs are better mimicking human biokinetics.},
  language  = {en}
}
@incollection{Bezan2019,
  author    = {Bezan, Sarah},
  title     = {A Darwinism of the Muck and Mire: Decomposing the Eco- and Zoopoetics of Stephen Collis' and Jordan Scott's decomp},
  series = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  booktitle = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  publisher = {Rombach Druck- und Verlagshaus},
  address   = {Freiburg i. Br.},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-178074},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {241-251},
  year      = {2019},
  abstract  = {No abstract available.},
  language  = {en}
}
@phdthesis{Blocka2019,
  author    = {Blocka, Joanna},
  title     = {Molecular mechanisms underlying Woodhouse-Sakati syndrome: characterization of DCAF17 with specific, polyclonal antibodies},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-174766},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Woodhouse-Sakati syndrome (WSS) is a rare multisystemic, autosomal recessive disease. The underlying cause of WSS are mutations of C2orf37 gene, which result in a truncated protein. Little is known about the function of C2orf37 (DDB1-CUL4A-associated factor 17, DCAF17) apart from it being part of the DDB1-CUL4-ROC1 E3 ubiquitin ligase complex, specifically binding directly to DDB1 and serving as a substrate recruiter for E3. There are two major isoforms of DCAF17: beta (65 kDa, 520 amino acids) and alpha (27 kDa, 240 amino acids), which is a C-terminal part of beta. The intracellular localization of the WSS protein is thought to be primarily the nucleolus. A murine ortholog protein was found to be expressed in all tissues with a relatively higher expression in the brain, liver, and skin.The aim of this work was to investigate DCAF17 in HeLa cells in more detail, in particular the redistribution of both WSS isoforms on the subcellular and -nuclear level as well as their chemical features. For these experiments, I developed, through recombinant expression and affinity purification, a specific polyclonal antibody against a WSS-epitope 493-520. Furthermore, three other specific polyclonal antibodies were obtained through affinity purification with help of commercially produced high-affinity epitope peptides.By means of these antibodies, I determined- through immunofluorescence and subcellular protein fractionation- that, apart from the redistribution of the WSS protein within the non-soluble = chromatin-bound nuclear fraction, a significant amount of both WSS isoforms is present in the soluble nuclear fraction. Indeed, treatment of purified nuclear envelopes with an increasing concentration of NaCl as well as urea confirmed a non-covalent binding of the WSS protein to the nuclear envelope with the detachment ofbeta-WSS at a lower NaCl concentration than alpha-WSS. In regard to the chromatin-bound WSS protein, I performed hydrolysis of nuclear and nucleolar extract with DNase and RNase. The results indicate that the WSS protein is bound to DNA but not RNA, with alpha-WSS being possibly located more abundantly in the nucleolus, whereas beta-WSS within other subnuclear departments. Furthermore, in all the above-mentioned experiments, a presence of an 80-kDa protein, which specifically reacted with the polyclonal high-affinity antibodies and showed similar redistribution and chemical features as alpha- and beta-WSS, was observed. In order to investigate whether this protein is a posttranslationally modified WSS isoform, I performed deglycosylation and dephosphorylation of nuclear extract, which showed no disappearance or change in abundance of the 80-kDa band on Western blot. While other ways of poststranslational modification cannot be excluded as the cause of occurrence of the 80-kDa protein, an existence of a third, yet undescribed, major isoform is also conceivable. Summarizing, this work contributed to a deeper characterization of the WSS protein, which can help future investigators in developing new experimental ideas to better understand the pathology of WSS.},
  subject      = {Humangenetik},
  language  = {en}
}
@article{BluemelZinkKlopockietal.2019,
  author    = {Bl{\"u}mel, Rabea and Zink, Miriam and Klopocki, Eva and Liedtke, Daniel},
  title     = {On the traces of tcf12: Investigation of the gene expression pattern during development and cranial suture patterning in zebrafish (Danio rerio)},
  series = {PLoS ONE},
  volume    = {14},
  journal   = {PLoS ONE},
  number    = {6},
  doi       = {10.1371/journal.pone.0218286},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-201428},
  pages     = {e0218286},
  year      = {2019},
  abstract  = {The transcription factor 12 (tcf12) is a basic Helix-Loop-Helix protein (bHLH) of the E-protein family, proven to play an important role in developmental processes like neurogenesis, mesoderm formation, and cranial vault development. In humans, mutations in TCF12 lead to craniosynostosis, a congenital birth disorder characterized by the premature fusion of one or several of the cranial sutures. Current research has been primarily focused on functional studies of TCF12, hence the cellular expression profile of this gene during embryonic development and early stages of ossification remains poorly understood. Here we present the establishment and detailed analysis of two transgenic tcf12:EGFP fluorescent zebrafish (Danio rerio) reporter lines. Using these transgenic lines, we analyzed the general spatiotemporal expression pattern of tcf12 during different developmental stages and put emphasis on skeletal development and cranial suture patterning. We identified robust tcf12 promoter-driven EGFP expression in the central nervous system (CNS), the heart, the pronephros, and the somites of zebrafish embryos. Additionally, expression was observed inside the muscles and bones of the viscerocranium in juvenile and adult fish. During cranial vault development, the transgenic fish show a high amount of tcf12 expressing cells at the growth fronts of the ossifying frontal and parietal bones and inside the emerging cranial sutures. Subsequently, we tested the transcriptional activity of three evolutionary conserved non-coding elements (CNEs) located in the tcf12 locus by transient transgenic assays and compared their in vivo activity to the expression pattern determined in the transgenic tcf12:EGFP lines. We could validate two of them as tcf12 enhancer elements driving specific gene expression in the CNS during embryogenesis. Our newly established transgenic lines enhance the understanding of tcf12 gene regulation and open up the possibilities for further functional investigation of these novel tcf12 enhancer elements in zebrafish.},
  language  = {en}
}
@article{BochSpiessHeinzetal.2019,
  author    = {Boch, Tobias and Spiess, Birgit and Heinz, Werner and Cornely, Oliver A. and Schwerdtfeger, Rainer and Hahn, Joachim and Krause, Stefan W. and Duerken, Matthias and Bertz, Hartmut and Reuter, Stefan and Kiehl, Michael and Claus, Bernd and Deckert, Peter Markus and Hofmann, Wolf-Karsten and Buchheidt, Dieter and Reinwald, Mark},
  title     = {Aspergillus specific nested PCR from the site of infection is superior to testing concurrent blood samples in immunocompromised patients with suspected invasive aspergillosis},
  series = {Mycoses},
  volume    = {62},
  journal   = {Mycoses},
  number    = {11},
  doi       = {10.1111/myc.12983},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-214065},
  pages     = {1035 -- 1042},
  year      = {2019},
  abstract  = {Invasive aspergillosis (IA) is a severe complication in immunocompromised patients. Early diagnosis is crucial to decrease its high mortality, yet the diagnostic gold standard (histopathology and culture) is time-consuming and cannot offer early confirmation of IA. Detection of IA by polymerase chain reaction (PCR) shows promising potential. Various studies have analysed its diagnostic performance in different clinical settings, especially addressing optimal specimen selection. However, direct comparison of different types of specimens in individual patients though essential, is rarely reported. We systematically assessed the diagnostic performance of an Aspergillus-specific nested PCR by investigating specimens from the site of infection and comparing it with concurrent blood samples in individual patients (pts) with IA. In a retrospective multicenter analysis PCR was performed on clinical specimens (n = 138) of immunocompromised high-risk pts (n = 133) from the site of infection together with concurrent blood samples. 38 pts were classified as proven/probable, 67 as possible and 28 as no IA according to 2008 European Organization for Research and Treatment of Cancer/Mycoses Study Group consensus definitions. A considerably superior performance of PCR from the site of infection was observed particularly in pts during antifungal prophylaxis (AFP)/antifungal therapy (AFT). Besides a specificity of 85\%, sensitivity varied markedly in BAL (64\%), CSF (100\%), tissue samples (67\%) as opposed to concurrent blood samples (8\%). Our results further emphasise the need for investigating clinical samples from the site of infection in case of suspected IA to further establish or rule out the diagnosis.},
  language  = {en}
}
@article{BoetzlKonleKrauss2019,
  author    = {Boetzl, Fabian A. and Konle, Antonia and Krauss, Jochen},
  title     = {Aphid cards - useful model for assessing predation rates or bias prone nonsense?},
  series = {Journal of Applied Entomology},
  volume    = {144},
  journal   = {Journal of Applied Entomology},
  number    = {1-2},
  doi       = {10.1111/jen.12692},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-204798},
  pages     = {74-80},
  year      = {2019},
  abstract  = {Predation on pest organisms is an essential ecosystem function supporting yields in modern agriculture. However, assessing predation rates is intricate, and they can rarely be linked directly to predator densities or functions. We tested whether sentinel prey aphid cards are useful tools to assess predation rates in the field. Therefore, we looked at aphid cards of different sizes on the ground level as well as within the vegetation. Additionally, by trapping ground-dwelling predators, we examined whether obtained predation rates could be linked to predator densities and traits. Predation rates recorded with aphid cards were independent of aphid card size. However, predation rates on the ground level were three times higher than within the vegetation. We found both predatory carabid activity densities as well as community weighted mean body size to be good predictors for predation rates. Predation rates obtained from aphid cards are stable over card type and related to predator assemblages. Aphid cards, therefore, are a useful, efficient method for rapidly assessing the ecosystem function predation. Their use might especially be recommended for assessments on the ground level and when time and resource limitations rule out more elaborate sentinel prey methods using exclosures with living prey animals.},
  language  = {en}
}
@article{BonigKuciKucietal.2019,
  author    = {Bonig, Halvard and Ku{\c{c}}i, Zyrafete and Ku{\c{c}}i, Selim and Bakhtiar, Shahrzad and Basu, Oliver and Bug, Gesine and Dennis, Mike and Greil, Johann and Barta, Aniko and K{\´a}llay, Kriszti{\´a}n M. and Lang, Peter and Lucchini, Giovanna and Pol, Raj and Schulz, Ansgar and Sykora, Karl-Walter and Teichert von Luettichau, Irene and Herter-Sprie, Grit and Ashab Uddin, Mohammad and Jenkin, Phil and Alsultan, Abdulrahman and Buechner, Jochen and Stein, Jerry and Kelemen, Agnes and Jarisch, Andrea and Soerensen, Jan and Salzmann-Manrique, Emilia and Hutter, Martin and Sch{\"a}fer, Richard and Seifried, Erhard and Paneesha, Shankara and Novitzky-Basso, Igor and Gefen, Aharon and Nevo, Neta and Beutel, Gernot and Schlegel, Paul-Gerhardt and Klingebiel, Thomas and Bader, Peter},
  title     = {Children and adults with Refractory acute Graft-versus-Host Disease respond to treatment with the Mesenchymal Stromal cell preparation "MSC-FFM"—Outcome report of 92 patients},
  series = {Cells},
  volume    = {8},
  journal   = {Cells},
  number    = {12},
  issn      = {2073-4409},
  doi       = {10.3390/cells8121577},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193878},
  pages     = {1577},
  year      = {2019},
  abstract  = {(1) Background: Refractory acute graft-versus-host disease (R-aGvHD) remains a leading cause of death after allogeneic stem cell transplantation. Survival rates of 15\% after four years are currently achieved; deaths are only in part due to aGvHD itself, but mostly due to adverse effects of R-aGvHD treatment with immunosuppressive agents as these predispose patients to opportunistic infections and loss of graft-versus-leukemia surveillance resulting in relapse. Mesenchymal stromal cells (MSC) from different tissues and those generated by various protocols have been proposed as a remedy for R-aGvHD but the enthusiasm raised by initial reports has not been ubiquitously reproduced. (2) Methods: We previously reported on a unique MSC product, which was generated from pooled bone marrow mononuclear cells of multiple third-party donors. The products showed dose-to-dose equipotency and greater immunosuppressive capacity than individually expanded MSCs from the same donors. This product, MSC-FFM, has entered clinical routine in Germany where it is licensed with a national hospital exemption authorization. We previously reported satisfying initial clinical outcomes, which we are now updating. The data were collected in our post-approval pharmacovigilance program, i.e., this is not a clinical study and the data is high-level and non-monitored. (3) Results: Follow-up for 92 recipients of MSC-FFM was reported, 88 with GvHD ≥°III, one-third only steroid-refractory and two-thirds therapy resistant (refractory to steroids plus ≥2 additional lines of treatment). A median of three doses of MSC-FFM was administered without apparent toxicity. Overall response rates were 82\% and 81\% at the first and last evaluation, respectively. At six months, the estimated overall survival was 64\%, while the cumulative incidence of death from underlying disease was 3\%. (4) Conclusions: MSC-FFM promises to be a safe and efficient treatment for severe R-aGvHD.},
  language  = {en}
}
@incollection{Borgards2019,
  author    = {Borgards, Roland},
  title     = {The Beetle Is in the Eye of the Beholder: Animal Ecologies, Situated Poetics and the Poetry of Annette von Droste-H{\"u}lshoff},
  series = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  booktitle = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  publisher = {Rombach Druck- und Verlagshaus},
  address   = {Freiburg i. Br.},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-177957},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {99-109},
  year      = {2019},
  abstract  = {No abstract available.},
  language  = {en}
}
@article{BotheDeubelHesseetal.2019,
  author    = {Bothe, Friederike and Deubel, Anne-Kathrin and Hesse, Eliane and Lotz, Benedict and Groll, J{\"u}rgen and Werner, Carsten and Richter, Wiltrud and Hagmann, Sebastien},
  title     = {Treatment of focal cartilage defects in minipigs with zonal chondrocyte/mesenchymal progenitor cell constructs},
  series = {International Journal of Molecular Sciences},
  volume    = {20},
  journal   = {International Journal of Molecular Sciences},
  number    = {3},
  issn      = {1422-0067},
  doi       = {10.3390/ijms20030653},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-285118},
  year      = {2019},
  abstract  = {Despite advances in cartilage repair strategies, treatment of focal chondral lesions remains an important challenge to prevent osteoarthritis. Articular cartilage is organized into several layers and lack of zonal organization of current grafts is held responsible for insufficient biomechanical and biochemical quality of repair-tissue. The aim was to develop a zonal approach for cartilage regeneration to determine whether the outcome can be improved compared to a non-zonal strategy. Hydrogel-filled polycaprolactone (PCL)-constructs with a chondrocyte-seeded upper-layer deemed to induce hyaline cartilage and a mesenchymal stromal cell (MSC)-containing bottom-layer deemed to induce calcified cartilage were compared to chondrocyte-based non-zonal grafts in a minipig model. Grafts showed comparable hardness at implantation and did not cause visible signs of inflammation. After 6 months, X-ray microtomography (µCT)-analysis revealed significant bone-loss in both treatment groups compared to empty controls. PCL-enforcement and some hydrogel-remnants were retained in all defects, but most implants were pressed into the subchondral bone. Despite important heterogeneities, both treatments reached a significantly lower modified O'Driscoll-score compared to empty controls. Thus, PCL may have induced bone-erosion during joint loading and misplacement of grafts in vivo precluding adequate permanent orientation of zones compared to surrounding native cartilage.},
  language  = {en}
}
@article{BratengeierHolubyevWegener2019,
  author    = {Bratengeier, Klaus and Holubyev, Kostyantyn and Wegener, Sonja},
  title     = {Steeper dose gradients resulting from reduced source to target distance—a planning system independent study},
  series = {Journal of Applied Clinical Medical Physics},
  volume    = {20},
  journal   = {Journal of Applied Clinical Medical Physics},
  number    = {1},
  doi       = {10.1002/acm2.12490},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-177424},
  pages     = {89-100},
  year      = {2019},
  abstract  = {Purpose: To quantify the contribution of penumbra in the improvement of healthy tissue sparing at reduced source-to-axis distance (SAD) for simple spherical target and different prescription isodoses (PI). Method: A TPS-independent method was used to estimate three-dimensional (3D) dose distribution for stereotactic treatment of spherical targets of 0.5 cm radius based on single beam two-dimensional (2D) film dosimetry measurements. 1 cm target constitutes the worst case for the conformation with standard Multi-Leaf Collimator (MLC) with 0.5 cm leaf width. The measured 2D transverse dose cross-sections and the profiles in leaf and jaw directions were used to calculate radial dose distribution from isotropic beam arrangement, for both quadratic and circular beam openings, respectively. The results were compared for standard (100 cm) and reduced SAD 70 and 55 cm for different PI. Results: For practical reduction of SAD using quadratic openings, the improvement of healthy tissue sparing (HTS) at distances up to 3 times the PTV radius was at least 6\%-12\%; gradient indices (GI) were reduced by 3-39\% for PI between 40\% and 90\%. Except for PI of 80\% and 90\%, quadratic apertures at SAD 70 cm improved the HTS by up to 20\% compared to circular openings at 100 cm or were at least equivalent; GI were 3\%-33\% lower for reduced SAD in the PI range 40\%-70\%. For PI = 80\% and 90\% the results depend on the circular collimator model. Conclusion: Stereotactic treatments of spherical targets delivered at reduced SAD of 70 or 55 cm using MLC spare healthy tissue around the target at least as good as treatments at SAD 100 cm using circular collimators. The steeper beam penumbra at reduced SAD seems to be as important as perfect target conformity. The authors argue therefore that the beam penumbra width should be addressed in the stereotactic studies.},
  language  = {en}
}
@phdthesis{Breitenbach2019,
  author    = {Breitenbach, Tim},
  title     = {A mathematical optimal control based approach to pharmacological modulation with regulatory networks and external stimuli},
  doi       = {10.25972/OPUS-17436},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-174368},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {In this work models for molecular networks consisting of ordinary differential equations are extended by terms that include the interaction of the corresponding molecular network with the environment that the molecular network is embedded in. These terms model the effects of the external stimuli on the molecular network. The usability of this extension is demonstrated with a model of a circadian clock that is extended with certain terms and reproduces data from several experiments at the same time. Once the model including external stimuli is set up, a framework is developed in order to calculate external stimuli that have a predefined desired effect on the molecular network. For this purpose the task of finding appropriate external stimuli is formulated as a mathematical optimal control problem for which in order to solve it a lot of mathematical methods are available. Several methods are discussed and worked out in order to calculate a solution for the corresponding optimal control problem. The application of the framework to find pharmacological intervention points or effective drug combinations is pointed out and discussed. Furthermore the framework is related to existing network analysis tools and their combination for network analysis in order to find dedicated external stimuli is discussed. The total framework is verified with biological examples by comparing the calculated results with data from literature. For this purpose platelet aggregation is investigated based on a corresponding gene regulatory network and associated receptors are detected. Furthermore a transition from one to another type of T-helper cell is analyzed in a tumor setting where missing agents are calculated to induce the corresponding switch in vitro. Next a gene regulatory network of a myocardiocyte is investigated where it is shown how the presented framework can be used to compare different treatment strategies with respect to their beneficial effects and side effects quantitatively. Moreover a constitutively activated signaling pathway, which thus causes maleficent effects, is modeled and intervention points with corresponding treatment strategies are determined that steer the gene regulatory network from a pathological expression pattern to physiological one again.},
  subject      = {Bioinformatik},
  language  = {en}
}
@phdthesis{Breitenbach2019,
  author    = {Breitenbach, Tim},
  title     = {A sequential quadratic Hamiltonian scheme for solving optimal control problems with non-smooth cost functionals},
  doi       = {10.25972/OPUS-18217},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-182170},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {This thesis deals with a new so-called sequential quadratic Hamiltonian (SQH) iterative scheme to solve optimal control problems with differential models and cost functionals ranging from smooth to discontinuous and non-convex. This scheme is based on the Pontryagin maximum principle (PMP) that provides necessary optimality conditions for an optimal solution. In this framework, a Hamiltonian function is defined that attains its minimum pointwise at the optimal solution of the corresponding optimal control problem. In the SQH scheme, this Hamiltonian function is augmented by a quadratic penalty term consisting of the current control function and the control function from the previous iteration. The heart of the SQH scheme is to minimize this augmented Hamiltonian function pointwise in order to determine a control update. Since the PMP does not require any differ- entiability with respect to the control argument, the SQH scheme can be used to solve optimal control problems with both smooth and non-convex or even discontinuous cost functionals. The main achievement of the thesis is the formulation of a robust and efficient SQH scheme and a framework in which the convergence analysis of the SQH scheme can be carried out. In this framework, convergence of the scheme means that the calculated solution fulfills the PMP condition. The governing differential models of the considered optimal control problems are ordinary differential equations (ODEs) and partial differential equations (PDEs). In the PDE case, elliptic and parabolic equations as well as the Fokker-Planck (FP) equation are considered. For both the ODE and the PDE cases, assumptions are formulated for which it can be proved that a solution to an optimal control problem has to fulfill the PMP. The obtained results are essential for the discussion of the convergence analysis of the SQH scheme. This analysis has two parts. The first one is the well-posedness of the scheme which means that all steps of the scheme can be carried out and provide a result in finite time. The second part part is the PMP consistency of the solution. This means that the solution of the SQH scheme fulfills the PMP conditions. In the ODE case, the following results are obtained that state well-posedness of the SQH scheme and the PMP consistency of the corresponding solution. Lemma 7 states the existence of a pointwise minimum of the augmented Hamiltonian. Lemma 11 proves the existence of a weight of the quadratic penalty term such that the minimization of the corresponding augmented Hamiltonian results in a control updated that reduces the value of the cost functional. Lemma 12 states that the SQH scheme stops if an iterate is PMP optimal. Theorem 13 proves the cost functional reducing properties of the SQH control updates. The main result is given in Theorem 14, which states the pointwise convergence of the SQH scheme towards a PMP consistent solution. In this ODE framework, the SQH method is applied to two optimal control problems. The first one is an optimal quantum control problem where it is shown that the SQH method converges much faster to an optimal solution than a globalized Newton method. The second optimal control problem is an optimal tumor treatment problem with a system of coupled highly non-linear state equations that describe the tumor growth. It is shown that the framework in which the convergence of the SQH scheme is proved is applicable for this highly non-linear case. Next, the case of PDE control problems is considered. First a general framework is discussed in which a solution to the corresponding optimal control problem fulfills the PMP conditions. In this case, many theoretical estimates are presented in Theorem 59 and Theorem 64 to prove in particular the essential boundedness of the state and adjoint variables. The steps for the convergence analysis of the SQH scheme are analogous to that of the ODE case and result in Theorem 27 that states the PMP consistency of the solution obtained with the SQH scheme. This framework is applied to different elliptic and parabolic optimal control problems, including linear and bilinear control mechanisms, as well as non-linear state equations. Moreover, the SQH method is discussed for solving a state-constrained optimal control problem in an augmented formulation. In this case, it is shown in Theorem 30 that for increasing the weight of the augmentation term, which penalizes the violation of the state constraint, the measure of this state constraint violation by the corresponding solution converges to zero. Furthermore, an optimal control problem with a non-smooth L\(^1\)-tracking term and a non-smooth state equation is investigated. For this purpose, an adjoint equation is defined and the SQH method is used to solve the corresponding optimal control problem. The final part of this thesis is devoted to a class of FP models related to specific stochastic processes. The discussion starts with a focus on random walks where also jumps are included. This framework allows a derivation of a discrete FP model corresponding to a continuous FP model with jumps and boundary conditions ranging from absorbing to totally reflecting. This discussion allows the consideration of the drift-control resulting from an anisotropic probability of the steps of the random walk. Thereafter, in the PMP framework, two drift-diffusion processes and the corresponding FP models with two different control strategies for an optimal control problem with an expectation functional are considered. In the first strategy, the controls depend on time and in the second one, the controls depend on space and time. In both cases a solution to the corresponding optimal control problem is characterized with the PMP conditions, stated in Theorem 48 and Theorem 49. The well-posedness of the SQH scheme is shown in both cases and further conditions are discussed that ensure the convergence of the SQH scheme to a PMP consistent solution. The case of a space and time dependent control strategy results in a special structure of the corresponding PMP conditions that is exploited in another solution method, the so-called direct Hamiltonian (DH) method.},
  subject      = {Optimale Kontrolle},
  language  = {en}
}
@misc{Breitenbach2019,
  author    = {Breitenbach, Tim},
  title     = {Codes of examples for SQH method},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-178588},
  year      = {2019},
  abstract  = {Code examples for the paper "On the SQH Scheme to Solve Nonsmooth PDE Optimal Control Problems" by Tim Breitenbach and Alfio Borz{\`i} published in the journal "Numerical Functional Analysis and Optimization", in 2019, DOI: 10.1080/01630563.2019.1599911},
  language  = {en}
}
@unpublished{BreitenbachBorzi2019,
  author    = {Breitenbach, Tim and Borz{\`i}, Alfio},
  title     = {On the SQH scheme to solve non-smooth PDE optimal control problems},
  series = {Numerical Functional Analysis and Optimization},
  journal   = {Numerical Functional Analysis and Optimization},
  doi       = {10.1080/01630563.2019.1599911},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-180936},
  year      = {2019},
  abstract  = {A sequential quadratic Hamiltonian (SQH) scheme for solving different classes of non-smooth and non-convex PDE optimal control problems is investigated considering seven different benchmark problems with increasing difficulty. These problems include linear and nonlinear PDEs with linear and bilinear control mechanisms, non-convex and discontinuous costs of the controls, L\(^1\) tracking terms, and the case of state constraints. The SQH method is based on the characterisation of optimality of PDE optimal control problems by the Pontryagin's maximum principle (PMP). For each problem, a theoretical discussion of the PMP optimality condition is given and results of numerical experiments are presented that demonstrate the large range of applicability of the SQH scheme.},
  language  = {en}
}
@article{BreitenbachLorenzDandekar2019,
  author    = {Breitenbach, Tim and Lorenz, Kristina and Dandekar, Thomas},
  title     = {How to steer and control ERK and the ERK signaling cascade exemplified by looking at cardiac insufficiency},
  series = {International Journal of Molecular Sciences},
  volume    = {20},
  journal   = {International Journal of Molecular Sciences},
  number    = {9},
  issn      = {1422-0067},
  doi       = {10.3390/ijms20092179},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-285164},
  year      = {2019},
  abstract  = {Mathematical optimization framework allows the identification of certain nodes within a signaling network. In this work, we analyzed the complex extracellular-signal-regulated kinase 1 and 2 (ERK1/2) cascade in cardiomyocytes using the framework to find efficient adjustment screws for this cascade that is important for cardiomyocyte survival and maladaptive heart muscle growth. We modeled optimal pharmacological intervention points that are beneficial for the heart, but avoid the occurrence of a maladaptive ERK1/2 modification, the autophosphorylation of ERK at threonine 188 (ERK\(^{Thr188}\) phosphorylation), which causes cardiac hypertrophy. For this purpose, a network of a cardiomyocyte that was fitted to experimental data was equipped with external stimuli that model the pharmacological intervention points. Specifically, two situations were considered. In the first one, the cardiomyocyte was driven to a desired expression level with different treatment strategies. These strategies were quantified with respect to beneficial effects and maleficent side effects and then which one is the best treatment strategy was evaluated. In the second situation, it was shown how to model constitutively activated pathways and how to identify drug targets to obtain a desired activity level that is associated with a healthy state and in contrast to the maleficent expression pattern caused by the constitutively activated pathway. An implementation of the algorithms used for the calculations is also presented in this paper, which simplifies the application of the presented framework for drug targeting, optimal drug combinations and the systematic and automatic search for pharmacological intervention points. The codes were designed such that they can be combined with any mathematical model given by ordinary differential equations.},
  language  = {en}
}
@article{BreunMonoranuKessleretal.2019,
  author    = {Breun, Maria and Monoranu, Camelia M. and Kessler, Almuth F. and Matthies, Cordula and L{\"o}hr, Mario and Hagemann, Carsten and Schirbel, Andreas and Rowe, Steven P. and Pomper, Martin G. and Buck, Andreas K. and Wester, Hans-J{\"u}rgen and Ernestus, Ralf-Ingo and Lapa, Constantin},
  title     = {[\(^{68}\)Ga]-Pentixafor PET/CT for CXCR4-mediated imaging of vestibular schwannomas},
  series = {Frontiers in Oncology},
  volume    = {9},
  journal   = {Frontiers in Oncology},
  number    = {503},
  doi       = {10.3389/fonc.2019.00503},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-201863},
  year      = {2019},
  abstract  = {We have recently demonstrated CXCR4 overexpression in vestibular schwannomas (VS). This study investigated the feasibility of CXCR4-directed positron emission tomography/computed tomography (PET/CT) imaging of VS using the radiolabeled chemokine ligand [\(^{68}\)Ga]Pentixafor. Methods: 4 patients with 6 primarily diagnosed or pre-treated/observed VS were enrolled. All subjects underwent [\(^{68}\)Ga]Pentixafor PET/CT prior to surgical resection. Images were analyzed visually and semi-quantitatively for CXCR4 expression including calculation of tumor-to-background ratios (TBR). Immunohistochemistry served as standard of reference in three patients. Results: [\(^{68}\)Ga]Pentixafor PET/CT was visually positive in all cases. SUV\(_{mean}\) and SUV\(_{max}\) were 3.0 ± 0.3 and 3.8 ± 0.4 and TBR\(_{mean}\) and TBR\(_{max}\) were 4.0 ± 1.4 and 5.0 ± 1.7, respectively. Histological analysis confirmed CXCR4 expression in tumors. Conclusion: Non-invasive imaging of CXCR4 expression using [\(^{68}\)Ga]Pentixafor PET/CT of VS is feasible and could prove useful for in vivo assessment of CXCR4 expression.},
  language  = {en}
}
@article{BriegelGreuelStrothetal.2019,
  author    = {Briegel, Wolfgang and Greuel, Jan and Stroth, Sanna and Heinrichs, Nina},
  title     = {Parents' perception of their 2-10-year-old children's contribution to the dyadic parent-child relationship in terms of positive and negative behaviors},
  series = {International Journal of Environmental Research and Public Health},
  volume    = {16},
  journal   = {International Journal of Environmental Research and Public Health},
  number    = {7},
  issn      = {1660-4601},
  doi       = {10.3390/ijerph16071123},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-197411},
  year      = {2019},
  abstract  = {Parent-child relationship is developed and changed through reciprocal interactions between a child and his/her parent, and these interactions can strongly influence the child's development across domains (e.g., emotional, physical, and intellectual). However, little is known about the parental perception of the child's contribution to the dyadic parent-child relationship in terms of positive and negative behaviors. We therefore aimed to develop and validate an economical parent-report instrument to assess these important aspects. The validation study included 1642 mothers (M\(_{age}\) = 37.1) and 1068 fathers (M\(_{age}\) = 40.4) of 1712 children aged 2-10 years (M\(_{age}\) = 6.6) who completed the new instrument, the Child Relationship Behavior Inventory (CRBI). Statistical results indicated that the CRBI is a reliable and valid measure. Mothers reported more positive child behaviors towards them, whereas fathers perceived fewer problems with problematic relationship behavior than mothers. In their parents' perception, girls showed more positive and less problematic relationship behaviors than boys. The frequency of problematic child relationship behavior significantly decreased with increasing child age while positive relationship behavior did not show any correlation with the child's age. To assess both positive and negative child relationship behaviors could be helpful to better understand the relevance of these different aspects for the development of the parent-child relationship.},
  language  = {en}
}
@phdthesis{Brill2019,
  author    = {Brill, Michael},
  title     = {Spontaneous eye blinks as an alternative measure for spatial presence experiences},
  edition   = {1. Auflage},
  publisher = {W{\"u}rzburg University Press},
  address   = {W{\"u}rzburg},
  isbn      = {978-3-95826-094-8},
  doi       = {10.25972/WUP-978-3-95826-095-5},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-167898},
  school      = {W{\"u}rzburg University Press},
  pages     = {xvi, 265},
  year      = {2019},
  abstract  = {Spatial presence, a state in which media users temporarily overlook the mediated nature of their media use experience, is frequently assessed by means of post-session self-report scales. However, such methods have methodical limitations, for example concerning measurement of dynamic fluctuations in presence during media use. Consequently, researchers have tested several approaches that try to infer subjective experiences of spatial presence from objectively measurable indicators. The present doctoral thesis examines aspects of temporal structure in spontaneous eye-blink behavior. Cognitive processes—and especially attention—are seen as essential antecedents of presence experiences. Because such cognitive processes influence timing of spontaneous eye-blinks, it is tested if the degree of stimulus-dependent structure in spontaneous eye-blink behavior is related to presence self-report scores. To address this research question, the thesis first establishes a theoretical framework, including theorizing and empirical findings on presence, on related media use phenomena, spontaneous eye-blink behavior, and subjective and objective approaches for presence assessment. Then, three experiments are presented that examine the relation between self-reported presence, and amount of stimulus-dependent structure in blinking behavior. Three different methods for quantification of stimulus-dependent structure are tested in different media environments, and are related to an established presence scale. Discussion of the experimental findings leads, on the one hand, to fundamental questions on the presence concept and on the understanding of stimulus-dependent structure in spontaneous eye-blink behavior. On the other hand, interpretation of the results emphasizes the necessity for methods with appropriate temporal resolution, that consider both media events and user behavior.},
  subject      = {Lidschlag},
  language  = {en}
}
@article{BrillSchwab2019,
  author    = {Brill, Michael and Schwab, Frank},
  title     = {A mixed-methods approach using self-report, observational time series data, and content analysis for process analysis of a media reception phenomenon},
  series = {Frontiers in Psychology},
  volume    = {10},
  journal   = {Frontiers in Psychology},
  doi       = {10.3389/fpsyg.2019.01666},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-201380},
  pages     = {1666},
  year      = {2019},
  abstract  = {Due to the complexityof research objects, theoretical concepts, and stimuli in media research, researchers in psychology and communications presumably need sophisticated measures beyond self-report scales to answer research questions on media use processes. The present study evaluates stimulus-dependent structure in spontaneous eye-blink behavior as an objective, corroborative measure for the media use phenomenon of spatial presence. To this end, a mixed methods approach is used in an experimental setting to collect, combine, analyze, and interpret data from standardized participant self-report, observation of participant behavior, and content analysis of the media stimulus. T-pattern detection is used to analyze stimulus-dependent blinking behavior, and this structural data is then contrasted with self-report data. The combined results show that behavioral indicators yield the predicted results, while self-report data shows unpredicted results that are not predicted by the underlying theory. The use of a mixed methods approach offered insights that support further theory development and theory testing beyond a traditional, mono-method experimental approach.},
  language  = {en}
}
@article{BrodehlPourHakimiStanasiuketal.2019,
  author    = {Brodehl, Andreas and Pour Hakimi, Seyed Ahmad and Stanasiuk, Caroline and Ratnavadivel, Sandra and Hendig, Doris and Gaertner, Anna and Gerull, Brenda and Gummert, Jan and Paluszkiewicz, Lech and Milting, Hendrik},
  title     = {Restrictive cardiomyopathy is caused by a novel homozygous desmin (DES) mutation p.Y122H leading to a severe filament assembly defect},
  series = {Genes},
  volume    = {10},
  journal   = {Genes},
  number    = {11},
  issn      = {2073-4425},
  doi       = {10.3390/genes10110918},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193121},
  year      = {2019},
  abstract  = {Here, we present a small Iranian family, where the index patient received a diagnosis of restrictive cardiomyopathy (RCM) in combination with atrioventricular (AV) block. Genetic analysis revealed a novel homozygous missense mutation in the DES gene (c.364T > C; p.Y122H), which is absent in human population databases. The mutation is localized in the highly conserved coil-1 desmin subdomain. In silico, prediction tools indicate a deleterious effect of the desmin (DES) mutation p.Y122H. Consequently, we generated an expression plasmid encoding the mutant and wildtype desmin formed, and analyzed the filament formation in vitro in cardiomyocytes derived from induced pluripotent stem cells and HT-1080 cells. Confocal microscopy revealed a severe filament assembly defect of mutant desmin supporting the pathogenicity of the DES mutation, p.Y122H, whereas the wildtype desmin formed regular intermediate filaments. According to the guidelines of the American College of Medical Genetics and Genomics, we classified this mutation, therefore, as a novel pathogenic mutation. Our report could point to a recessive inheritance of the DES mutation, p.Y122H, which is important for the genetic counseling of similar families with restrictive cardiomyopathy caused by DES mutations.},
  language  = {en}
}
@article{BrosgeLorenzHeltenetal.2019,
  author    = {Brosge, Felix and Lorenz, Thomas and Helten, Holger and Bolm, Carsten},
  title     = {BN- and BO-Doped Inorganic-Organic Hybrid Polymers with Sulfoximine Core Units},
  series = {Chemistry - A European Journal},
  volume    = {25},
  journal   = {Chemistry - A European Journal},
  number    = {55},
  doi       = {10.1002/chem.201903289},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-206194},
  pages     = {12708-12711},
  year      = {2019},
  abstract  = {While polysulfones constitute a class of well-established, highly valuable applied materials, knowledge about polymers based on the related sulfoximine group is very limited. We have employed functionalized diaryl sulfoximines and a p -phenylene bisborane as building blocks for unprecedented BN- and BO-doped alternating inorganic-organic hybrid copolymers. While the former were accessed by a facile silicon/boron exchange protocol, the synthesis of polymers with main-chain B-O linkages was achieved by salt elimination.},
  language  = {en}
}
@article{BrumbergBlazhenetsSchroeteretal.2019,
  author    = {Brumberg, Joachim and Blazhenets, Ganna and Schr{\"o}ter, Nils and Frings, Lars and Jost, Wolfgang H. and Lapa, Constantin and Meyer, Philipp T.},
  title     = {Imaging cardiac sympathetic innervation with MIBG: linear conversion of the heart-to-mediastinum ratio between different collimators},
  series = {EJNMMI Physics},
  volume    = {6},
  journal   = {EJNMMI Physics},
  doi       = {10.1186/s40658-019-0250-2},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-221675},
  year      = {2019},
  abstract  = {Background The heart-to-mediastinum (H/M) ratio is a commonly used parameter to measure cardiac I-123 metaiodobenzylguanidine (MIBG) uptake. Since the H/M ratio is substantially influenced by the collimator type, we investigated whether an empirical linear conversion of H/M ratios between camera systems with low-energy (LE) and medium-energy (ME) collimator is possible. Methods We included 18 patients with parkinsonism who were referred to one of the two participating molecular imaging facilities for the evaluation of cardiac sympathetic innervation by MIBG scintigraphy. Two consecutive planar image datasets were acquired with LE and ME collimators at 4 h after MIBG administration. Linear regression analyses were performed to describe the association between the H/M ratios gained with both collimator settings, and the accuracy of a linear transfer of the H/M ratio between collimators and across centers was assessed using a leave-one-out procedure. Results H/M ratios acquired with LE and ME collimators showed a strong linear relationship both within each imaging facility (R\(^2\) = 0.99, p < 0.001 and R\(^2\) = 0.90, p < 0.001) and across centers (H/M-LE = 0.41 × H/M-ME + 0.63, R\(^2\) = 0.97, p < 0.001). A linear conversion of H/M ratios between collimators and across centers was estimated to be very accurate (mean absolute error 0.05 ± 0.04; mean relative absolute error 3.2 ± 2.6\%). Conclusions The present study demonstrates that a simple linear conversion of H/M ratios acquired with different collimators is possible with high accuracy. This should greatly facilitate the exchange of normative data between settings and pooling of data from different institutions.},
  language  = {en}
}
@phdthesis{BruecknergebChristel2019,
  author    = {Br{\"u}ckner [geb. Christel], Theresa},
  title     = {Novel application forms and setting mechanisms of mineral bone cements},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-157045},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Calcium phosphate cements (CPC) represent valuable synthetic bone grafts, as they are self-setting, biocompatible, osteoconductive and in their composition similar to the inorganic phase of human bone. Due to their long shelf-life, neutral setting and since water is sufficient for setting, hydroxyapatite (HA) forming cements are processed in different paste formulations. Those comprise dual setting, Ca2+ binding and premixed cement systems. With dual setting formulations, both dissolution and precipitation of the cement raw powder occur simultaneously to the polymerization of water-soluble monomers to form a hydrogel. Chelating agents are able to form complexes with Ca2+ released from the raw powder. Premixed systems mostly contain the raw powder of the cement and a non-aqueous binder liquid which delays the setting reaction until application in the moist physiological environment. In the present work, two of those reaction mechanisms allowed the development of HA based cement applications. Drillable cements are of high clinical interest, as the quality of screw and plate osteosynthesis techniques can be improved by cement augmentation. A drillable, dual setting composite from HA and a poly(2-hydroxyethyl methacrylate) hydrogel was analyzed with respect to the influence of monomer content and powder-to-liquid ratio on setting kinetics and mechanical outcome. While the conversion to HA and crystal growth were constantly confined with increased monomer amount, a minimum concentration of 50 \% was required to see impressive ameliorations including a low bending modulus and high fracture energy at improved bending strength. Increasing the liquid amount enabled injection of the paste as well as drilling after 10 min of pre-setting. While classic bone wax formulations have drawbacks such as infection, inflammation, hindered osteogenesis and a lack of biodegradability, the as-presented premixed formulation is believed to exhibit outmatching properties. It consisted of HA raw powders and a non-aqueous, but water-miscible carrier liquid from poly(ethylene glycol) (PEG). The bone wax was proved to be cohesive and malleable, it withstood blood pressure conditions and among deposition in an aqueous environment, PEG was exchanged such that porous, nanocrystalline HA was formed. Incorporation of a model antibiotic proved the suitability of the novel bone wax formulation for drug release purposes. Prefabricated laminates from premixed carbonated apatite forming cement and poly(ε-caprolactone) fiber mats with defined pore architecture were presented as a potential approach for the treatment of 2-dimensional, curved cranial defects. They are flexible until application and were produced in a layer-by-layer approach from both components such that the polymer scaffold prevents the cement from flowing. It was demonstrated that solution electrospinning with a patterned collector for the fabrication of perforated fiber mats was suitable, as high fiber volume contents in combination with an appropriate interface enabled the successful fabrication of mechanically reinforced laminates. Mild immersion of the scaffolds under alkaline conditions additionally improved the interphase followed by an increase in bending-strength. Since few years, magnesium phosphate cements (MPC) have attracted increasing attention for bone replacement. Compared to CPC, MPC exhibit a higher degradation potential and high early strength and they release biologically valuable Mg2+. However, common systems offer some challenges while using them in non-classic cement formulations such as the need for foreign ion supply, the potential acidity of the reaction or the fast setting kinetics. Here, it was possible to develop a chelate-setting MPC paste with a broad spectrum of potential applications. The general mechanism of the novel setting principle was tested in a proof-of-principle manner. The cement paste consisted of farringtonite with differently concentrated phytic acid solution for chelate formation with Mg2+ from the raw powder. Adjusting the phytic acid content and adding a magnesium oxide as setting regulator to compensate its retarding effect resulted in drillable formulations. Additionally, there is a strong clinical demand for well working bone adhesives especially in a moist environment. Mostly the existing formulations are non-biodegradable. Ex vivo adhesion of the above presented MPC under wet conditions on bone demonstrated over a course of 7 d shear strengths of 0.8 MPa. Further, the hardened cement specimens showed a mass loss of 2 wt.\% within 24 d in an aqueous environment and released about 0.17 mg/g of osteogenic Mg2+ per day. Together with the demonstrated cytocompatibility towards human fetal osteoblasts, this cement system showed promising characteristics in terms of degradable biocements with special application purposes.},
  subject      = {Knochenzement},
  language  = {en}
}
@article{BruecknerMeiningerGrolletal.2019,
  author    = {Br{\"u}ckner, Theresa and Meininger, Markus and Groll, J{\"u}rgen and K{\"u}bler, Alexander C. and Gbureck, Uwe},
  title     = {Magnesium Phosphate Cement as Mineral Bone Adhesive},
  series = {Materials},
  volume    = {12},
  journal   = {Materials},
  number    = {23},
  issn      = {1996-1944},
  doi       = {10.3390/ma12233819},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193052},
  year      = {2019},
  abstract  = {Mineral bone cements were actually not developed for their application as bone-bonding agents, but as bone void fillers. In particular, calcium phosphate cements (CPC) are considered to be unsuitable for that application, particularly under moist conditions. Here, we showed the ex vivo ability of different magnesium phosphate cements (MPC) to adhere on bovine cortical bone substrates. The cements were obtained from a mixture of farringtonite (Mg\(_3\)(PO\(_4\))\(_2\)) with different amounts of phytic acid (C\(_6\)H\(_{18}\)O\(_{24}\)P\(_6\), inositol hexaphosphate, IP6), whereas cement setting occurred by a chelation reaction between Mg\(^{2+}\) ions and IP6. We were able to show that cements with 25\% IP6 and a powder-to-liquid ratio (PLR) of 2.0 g/mL resulted in shear strengths of 0.81 ± 0.12 MPa on bone even after 7 d storage in aqueous conditions. The samples showed a mixed adhesive-cohesive failure with cement residues on the bone surface as indicated by scanning electron microscopy and energy-dispersive X-ray analysis. The presented material demonstrated appropriate bonding characteristics, which could enable a broadening of the mineral bone cements' application field to bone adhesives},
  language  = {en}
}
@unpublished{BruecknerArrowsmithHessetal.2019,
  author    = {Br{\"u}ckner, Tobias and Arrowsmith, Merle and Heß, Merlin and Hammond, Kai and M{\"u}ller, Marcel and Braunschweig, Holger},
  title     = {Synthesis of fused B,N-heterocycles by alkyne cleavage, NHC ring-expansion and C-H activation at a diboryne},
  series = {Chemical Communications},
  journal   = {Chemical Communications},
  doi       = {10.1039/C9CC02657F},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-184899},
  year      = {2019},
  abstract  = {The addition of alkynes to a staturated N-heterocyclic carbene (NHC)-supported diboryne results in spontaneous cycloaddition, with complete B≡B and C≡C triple bond cleavage, NHC ring- expansion and activation of a variety of C-H bonds, leading to the formation of complex mixtures of fused B,N-heterocycles.},
  language  = {en}
}
@article{BruecknerDewhurstDellermannetal.2019,
  author    = {Br{\"u}ckner, Tobias and Dewhurst, Rian D. and Dellermann, Theresa and M{\"u}ller, Marcel and Braunschweig, Holger},
  title     = {Mild synthesis of diboryldiborenes by diboration of B-B triple bonds},
  series = {Chemical Science},
  volume    = {10},
  journal   = {Chemical Science},
  doi       = {10.1039/C9SC02544H},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-186306},
  pages     = {7375-7378},
  year      = {2019},
  abstract  = {A set of diboryldiborenes are prepared by the mild, catalyst-free, room-temperature diboration of the B-B triple bonds of doubly base-stabilized diborynes. Two of the product diboryldiborenes are found to be air- and water-stable in the solid state, an effect that is attributed to their high crystallinity and extreme insolubility in a wide range of solvents.},
  language  = {en}
}
@unpublished{BruecknerStennettHessetal.2019,
  author    = {Br{\"u}ckner, Tobias and Stennett, Tom E. and Heß, Merlin and Braunschweig, Holger},
  title     = {Single and Double Hydroboration of B-B Triple Bonds and Conver- gent Routes to a Cationic Tetraborane},
  series = {Journal of the American Chemical Society},
  journal   = {Journal of the American Chemical Society},
  doi       = {10.1021/jacs.9b07991},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-188632},
  year      = {2019},
  abstract  = {A compound with a boron-boron triple bond is shown to undergo stepwise hydroboration reactions with catecholborane to yield an unsymmetrical hydro(boryl)diborene and a 2,3-dihydrotetraborane. Abstraction of H- from the latter compound produces an unusual cationic, planar tetraborane with a hydrogen atom bridging the central B2 moiety. Spectroscopic and crystallographic data and DFT calculations support a 'protonated diborene' structure for this compound, which can also be accessed via direct protonation of the corresponding diborene.},
  language  = {en}
}
@article{BudimanFriedrichRadiusetal.2019,
  author    = {Budiman, Yudha P. and Friedrich, Alexandra and Radius, Udo and Marder, Todd B.},
  title     = {Copper-catalysed Suzuki-Miyaura cross-coupling of highly fluorinated aryl boronate esters with aryl iodides and bromides and fluoroarene-arene π-stacking interactions in the products},
  series = {ChemCatChem},
  volume    = {11},
  journal   = {ChemCatChem},
  number    = {21},
  doi       = {10.1002/cctc.201901220},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-204839},
  pages     = {5387-5396},
  year      = {2019},
  abstract  = {A combination of copper iodide and phenanthroline as the ligand is an efficient catalyst for Suzuki-Miyaura cross-coupling of highly fluorinated boronate esters (aryl-Bpin) with aryl iodides and bromides to generate fluorinated biaryls in good to excellent yields. This method represents a nice alternative to traditional cross-coupling methods which require palladium catalysts and stoichiometric amounts of silver oxide. We note that π⋅⋅⋅π stacking interactions dominate the molecular packing in the partly fluorinated biaryl crystals investigated herein. They are present either between the arene and perfluoroarene, or solely between arenes or perfluoroarenes, respectively.},
  language  = {en}
}
@article{BulittaJiaoLandersdorferetal.2019,
  author    = {Bulitta, J{\"u}rgen B. and Jiao, Yuanyuan and Landersdorfer, Cornelia B. and Sutaria, Dhruvitkumar S. and Tao, Xun and Shin, Eunjeong and H{\"o}hl, Rainer and Holzgrabe, Ulrike and Stephan, Ulrich and S{\"o}rgel, Fritz},
  title     = {Comparable Bioavailability and Disposition of Pefloxacin in Patients with Cystic Fibrosis and Healthy Volunteers Assessed via Population Pharmacokinetics},
  series = {Pharmaceutics},
  volume    = {11},
  journal   = {Pharmaceutics},
  number    = {7},
  issn      = {1999-4923},
  doi       = {10.3390/pharmaceutics11070323},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-197221},
  pages     = {323},
  year      = {2019},
  abstract  = {Quinolone antibiotics present an attractive oral treatment option in patients with cystic fibrosis (CF). Prior studies have reported comparable clearances and volumes of distribution in patients with CF and healthy volunteers for primarily renally cleared quinolones. We aimed to provide the first pharmacokinetic comparison for pefloxacin as a predominantly nonrenally cleared quinolone and its two metabolites between both subject groups. Eight patients with CF (fat-free mass [FFM]: 36.3 ± 6.9 kg, average ± SD) and ten healthy volunteers (FFM: 51.7 ± 9.9 kg) received 400 mg pefloxacin as a 30 min intravenous infusion and orally in a randomized, two-way crossover study. All plasma and urine data were simultaneously modelled. Bioavailability was complete in both subject groups. Pefloxacin excretion into urine was approximately 74\% higher in patients with CF compared to that in healthy volunteers, whereas the urinary excretion of metabolites was only slightly higher in patients with CF. After accounting for body size and composition via allometric scaling by FFM, pharmacokinetic parameter estimates in patients with CF divided by those in healthy volunteers were 0.912 for total clearance, 0.861 for nonrenal clearance, 1.53 for renal clearance, and 0.916 for volume of distribution. Nonrenal clearance accounted for approximately 90\% of total pefloxacin clearance. Overall, bioavailability and disposition were comparable between both subject groups.},
  language  = {en}
}
@phdthesis{Buschmann2019,
  author    = {Buschmann, Rachel Abigail},
  title     = {Synthesis of annulated pi-systems based on a tribenzotriquinacene core},
  doi       = {10.25972/OPUS-19349},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193491},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {The aim of this work was the selective functionalisation of tribenzotriquinacene (TBTQ) in order to extend the aromatic system and tune the electronic properties. The synthesised molecules could be starting materials for a model system of a defective graphene fragment. The "triple cyclisation pathway" by Hopf et al. was adapted and fluorinated tribenzotriquinacenes were synthesised for the first time. Phenanthrene groups were also introduced in other model systems and the crystal structures of phenanthrene functionalised TBTQs were compared with the parent molecules. In addition, the arrangement of TBTQ and centro methyl functionalised TBTQ was investigated on a Ag(111) surface for the first time using scanning transmission microscopy (STM). Different arrangements were observed, depending on the coverage of the surface. The insights gained about the interaction between TBTQs as well as their synthesis provide a foundation for further work and potential applications as components in organic electronic devices.},
  subject      = {Triquinacenderivate},
  language  = {en}
}
@article{Belanger‐ChabotBraunschweig2019,
  author    = {B{\´e}langer-Chabot, Guillaume and Braunschweig, Holger},
  title     = {Hexahalodiborate Dianions: A New Family of Binary Boron Halides},
  series = {Angewandte Chemie International Edition},
  volume    = {58},
  journal   = {Angewandte Chemie International Edition},
  number    = {40},
  doi       = {10.1002/anie.201906666},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-219688},
  pages     = {14270-14274},
  year      = {2019},
  abstract  = {The electron-precise binary boron subhalide species [B\(_2\)X\(_6\)]\(^{2-}\) X=F, Br, I) were synthesized and their structures confirmed by X-ray crystallography. The existence of the previously claimed [B\(_2\)Cl\(_6\)]\(^{2-}\), which had been questioned, was also confirmed by X-ray crystallography. The dianions are isoelectronic to hexahaloethanes, are subhalide analogues of the well-known tetrahaloborate anions (BX\(_4\)\(^-\)), and are rare examples of molecular electron-precise binary boron species beyond B\(_2\)X\(_4\), BX\(_3\), and [BX\(_4\)]\(^-\).},
  language  = {en}
}
@article{BoertleinSchumacherKleuseretal.2019,
  author    = {B{\"o}rtlein, Charlene and Schumacher, Fabian and Kleuser, Burkhard and D{\"o}lken, Lars and Avota, Elita},
  title     = {Role of neutral sphingomyelinase-2 (NSM 2) in the control of T cell plasma membrane lipid composition and cholesterol homeostasis},
  series = {Frontiers in Cell and Developmental Biology},
  volume    = {7},
  journal   = {Frontiers in Cell and Developmental Biology},
  number    = {226},
  issn      = {2296-634X},
  doi       = {10.3389/fcell.2019.00226},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-190596},
  year      = {2019},
  abstract  = {The activity of neutral sphingomyelinase-2 (NSM2) to catalyze the conversion of sphingomyelin (SM) to ceramide and phosphocholine at the cytosolic leaflet of plasma membrane (PM) is important in T cell receptor (TCR) signaling. We recently identified PKCζ as a major NSM2 downstream effector which regulates microtubular polarization. It remained, however, unclear to what extent NSM2 activity affected overall composition of PM lipids and downstream effector lipids in antigen stimulated T cells. Here, we provide a detailed lipidomics analyses on PM fractions isolated from TCR stimulated wild type and NSM2 deficient (ΔNSM) Jurkat T cells. This revealed that in addition to that of sphingolipids, NSM2 depletion also affected concentrations of many other lipids. In particular, NSM2 ablation resulted in increase of lyso-phosphatidylcholine (LPC) and lyso-phosphatidylethanolamine (LPE) which both govern PM biophysical properties. Crucially, TCR dependent upregulation of the important T cell signaling lipid diacylglycerol (DAG), which is fundamental for activation of conventional and novel PKCs, was abolished in ΔNSM cells. Moreover, NSM2 activity was found to play an important role in PM cholesterol transport to the endoplasmic reticulum (ER) and production of cholesteryl esters (CE) there. Most importantly, CE accumulation was essential to sustain human T cell proliferation. Accordingly, inhibition of CE generating enzymes, the cholesterol acetyltransferases ACAT1/SOAT1 and ACAT2/SOAT2, impaired TCR driven expansion of both CD4\(^+\) and CD8\(^+\) T cells. In summary, our study reveals an important role of NSM2 in regulating T cell functions by its multiple effects on PM lipids and cholesterol homeostasis.},
  language  = {en}
}
@incollection{Buehler2019,
  author    = {B{\"u}hler, Benjamin},
  title     = {Other Environments: Ecocriticism and Science Fiction (Lem, Ballard, Dath)},
  series = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  booktitle = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  publisher = {Rombach Druck- und Verlagshaus},
  address   = {Freiburg i. Br.},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-177973},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {127-138},
  year      = {2019},
  abstract  = {No abstract available.},
  language  = {en}
}
@incollection{CazabanMazerolles2019,
  author    = {Cazaban-Mazerolles, Marie},
  title     = {Narrating le vivant: the Zoe-Poetical Hypothesis},
  series = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  booktitle = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  publisher = {Rombach Druck- und Verlagshaus},
  address   = {Freiburg i. Br.},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-177818},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {71-81},
  year      = {2019},
  abstract  = {No abstract available.},
  language  = {en}
}
@incollection{CazajousAuge2019,
  author    = {Cazajous-Aug{\´e}, Claire},
  title     = {The Traces Animals Leave: A Zoopoetic Study of Rick Bass' "Antlers"},
  series = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  booktitle = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  publisher = {Rombach Druck- und Verlagshaus},
  address   = {Freiburg i. Br.},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-178097},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {269-278},
  year      = {2019},
  abstract  = {No abstract available.},
  language  = {en}
}
@article{CecilGentschevAdelfingeretal.2019,
  author    = {Cecil, Alexander and Gentschev, Ivaylo and Adelfinger, Marion and Dandekar, Thomas and Szalay, Aladar A.},
  title     = {Vaccinia virus injected human tumors: oncolytic virus efficiency predicted by antigen profiling analysis fitted boolean models},
  series = {Bioengineered},
  volume    = {10},
  journal   = {Bioengineered},
  number    = {1},
  doi       = {10.1080/21655979.2019.1622220},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-200507},
  pages     = {190-196},
  year      = {2019},
  abstract  = {Virotherapy on the basis of oncolytic vaccinia virus (VACV) strains is a promising approach for cancer therapy. Recently, we showed that the oncolytic vaccinia virus GLV-1h68 has a therapeutic potential in treating human prostate and hepatocellular carcinomas in xenografted mice. In this study, we describe the use of dynamic boolean modeling for tumor growth prediction of vaccinia virus-injected human tumors. Antigen profiling data of vaccinia virus GLV-1h68-injected human xenografted mice were obtained, analyzed and used to calculate differences in the tumor growth signaling network by tumor type and gender. Our model combines networks for apoptosis, MAPK, p53, WNT, Hedgehog, the T-killer cell mediated cell death, Interferon and Interleukin signaling networks. The in silico findings conform very well with in vivo findings of tumor growth. Similar to a previously published analysis of vaccinia virus-injected canine tumors, we were able to confirm the suitability of our boolean modeling for prediction of human tumor growth after virus infection in the current study as well. In summary, these findings indicate that our boolean models could be a useful tool for testing of the efficacy of VACV-mediated cancer therapy already before its use in human patients.},
  language  = {en}
}
@article{ClausHubertBecheretal.2019,
  author    = {Claus, Heike and Hubert, Kerstin and Becher, D{\"o}rte and Otto, Andreas and Pawlik, Marie-Christin and Lappann, Ines and Strobel, Lea and Vogel, Ulrich and Johswich, Kay},
  title     = {A homopolymeric adenosine tract in the promoter region of nspA influences factor H-mediated serum resistance in Neisseria meningitidis},
  series = {Scientific Reports},
  volume    = {9},
  journal   = {Scientific Reports},
  doi       = {10.1038/s41598-019-39231-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-200956},
  pages     = {2736},
  year      = {2019},
  abstract  = {Although usually asymptomatically colonizing the human nasopharynx, the Gram-negative bacterium Neisseria meningitidis (meningococcus) can spread to the blood stream and cause invasive disease. For survival in blood, N. meningitidis evades the complement system by expression of a polysaccharide capsule and surface proteins sequestering the complement regulator factor H (fH). Meningococcal strains belonging to the sequence type (ST-) 41/44 clonal complex (cc41/44) cause a major proportion of serogroup B meningococcal disease worldwide, but they are also common in asymptomatic carriers. Proteome analysis comparing cc41/44 isolates from invasive disease versus carriage revealed differential expression levels of the outer membrane protein NspA, which binds fH. Deletion of nspA reduced serum resistance and NspA expression correlated with fH sequestration. Expression levels of NspA depended on the length of a homopolymeric tract in the nspA promoter: A 5-adenosine tract dictated low NspA expression, whereas a 6-adenosine motif guided high NspA expression. Screening German cc41/44 strain collections revealed the 6-adenosine motif in 39\% of disease isolates, but only in 3.4\% of carriage isolates. Thus, high NspA expression is associated with disease, but not strictly required. The 6-adenosine nspA promoter is most common to the cc41/44, but is also found in other hypervirulent clonal complexes.},
  language  = {en}
}
@article{CoelhoAlvesMonteiroetal.2019,
  author    = {Coelho, Luis Pedro and Alves, Renato and Monteiro, Paulo and Huerta-Cepas, Jaime and Freitas, Ana Teresa and Bork, Peer},
  title     = {NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language},
  series = {Microbiome},
  volume    = {7},
  journal   = {Microbiome},
  number    = {84},
  doi       = {10.1186/s40168-019-0684-8},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-223161},
  year      = {2019},
  abstract  = {Background Shotgun metagenomes contain a sample of all the genomic material in an environment, allowing for the characterization of a microbial community. In order to understand these communities, bioinformatics methods are crucial. A common first step in processing metagenomes is to compute abundance estimates of different taxonomic or functional groups from the raw sequencing data. Given the breadth of the field, computational solutions need to be flexible and extensible, enabling the combination of different tools into a larger pipeline. Results We present NGLess and NG-meta-profiler. NGLess is a domain specific language for describing next-generation sequence processing pipelines. It was developed with the goal of enabling user-friendly computational reproducibility. It provides built-in support for many common operations on sequencing data and is extensible with external tools with configuration files. Using this framework, we developed NG-meta-profiler, a fast profiler for metagenomes which performs sequence preprocessing, mapping to bundled databases, filtering of the mapping results, and profiling (taxonomic and functional). It is significantly faster than either MOCAT2 or htseq-count and (as it builds on NGLess) its results are perfectly reproducible. Conclusions NG-meta-profiler is a high-performance solution for metagenomics processing built on NGLess. It can be used as-is to execute standard analyses or serve as the starting point for customization in a perfectly reproducible fashion. NGLess and NG-meta-profiler are open source software (under the liberal MIT license) and can be downloaded from https://ngless.embl.de or installed through bioconda.},
  language  = {en}
}
@techreport{ConradMorperBuschNetzbandetal.2019,
  type      = {Working Paper},
  author    = {Conrad, Christopher and Morper-Busch, Lucia and Netzband, Maik and Teucher, Mike and Sch{\"o}nbrodt-Stitt, Sarah and Schorcht, Gunther and Dukhovny, Viktor},
  title     = {WUEMoCA Water Use Efficiency Monitor in Central Asia Informed Decision-Making in Land and Water Resources Management},
  doi       = {10.25972/OPUS-19193},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-191934},
  pages     = {1-12},
  year      = {2019},
  abstract  = {WUEMoCA is an operational scientific webmapping tool for the regional monitoring of land and water use efficiency in the irrigated croplands of the transboundary Aral Sea Basin that is shared by Kazakhstan, Kyrgyzstan, Tajikistan, Turkmenistan, Uzbekistan, and Afghanistan. Satellite data on land use, crop pro-duction and water consumption is integrated with hydrological and economic information to provide of a set indicators. The tool is useful for large-scale decisions on water distribution or land use, and may be seen as demonstrator for numerous applications in practice, that require independent area-wide spatial information.},
  subject      = {Zentralasien},
  language  = {en}
}
@article{DaViaSolimandoGaritanoTrojaolaetal.2019,
  author    = {Da Vi{\`a}, Matteo Claudio and Solimando, Antonio Giovanni and Garitano-Trojaola, Andoni and Barrio, Santiago and Munawar, Umair and Strifler, Susanne and Haertle, Larissa and Rhodes, Nadine and Vogt, Cornelia and Lapa, Constantin and Beilhack, Andreas and Rasche, Leo and Einsele, Hermann and Kort{\"u}m, K. Martin},
  title     = {CIC Mutation as a Molecular Mechanism of Acquired Resistance to Combined BRAF-MEK Inhibition in Extramedullary Multiple Myeloma with Central Nervous System Involvement},
  series = {The Oncologist},
  volume    = {25},
  journal   = {The Oncologist},
  number    = {2},
  doi       = {10.1634/theoncologist.2019-0356},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-219549},
  pages     = {112-118},
  year      = {2019},
  abstract  = {Combined MEK-BRAF inhibition is a well-established treatment strategy in BRAF-mutated cancer, most prominently in malignant melanoma with durable responses being achieved through this targeted therapy. However, a subset of patients face primary unresponsiveness despite presence of the activating mutation at position V600E, and others acquire resistance under treatment. Underlying resistance mechanisms are largely unknown, and diagnostic tests to predict tumor response to BRAF-MEK inhibitor treatment are unavailable. Multiple myeloma represents the second most common hematologic malignancy, and point mutations in BRAF are detectable in about 10\% of patients. Targeted inhibition has been successfully applied, with mixed responses observed in a substantial subset of patients mirroring the widespread spatial heterogeneity in this genomically complex disease. Central nervous system (CNS) involvement is an extremely rare, extramedullary form of multiple myeloma that can be diagnosed in less than 1\% of patients. It is considered an ultimate high-risk feature, associated with unfavorable cytogenetics, and, even with intense treatment applied, survival is short, reaching less than 12 months in most cases. Here we not only describe the first patient with an extramedullary CNS relapse responding to targeted dabrafenib and trametinib treatment, we furthermore provide evidence that a point mutation within the capicua transcriptional repressor (CIC) gene mediated the acquired resistance in this patient.},
  language  = {en}
}
@article{DammertBraegelmannOlsenetal.2019,
  author    = {Dammert, Marcel A. and Br{\"a}gelmann, Johannes and Olsen, Rachelle R. and B{\"o}hm, Stefanie and Monhasery, Niloufar and Whitney, Christopher P. and Chalishazar, Milind D. and Tumbrink, Hannah L. and Guthrie, Matthew R. and Klein, Sebastian and Ireland, Abbie S. and Ryan, Jeremy and Schmitt, Anna and Marx, Annika and Ozretić, Luka and Castiglione, Roberta and Lorenz, Carina and Jachimowicz, Ron D. and Wolf, Elmar and Thomas, Roman K. and Poirier, John T. and B{\"u}ttner, Reinhard and Sen, Triparna and Byers, Lauren A. and Reinhardt, H. Christian and Letai, Anthony and Oliver, Trudy G. and Sos, Martin L.},
  title     = {MYC paralog-dependent apoptotic priming orchestrates a spectrum of vulnerabilities in small cell lung cancer},
  series = {Nature Communications},
  volume    = {10},
  journal   = {Nature Communications},
  doi       = {10.1038/s41467-019-11371-x},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-223569},
  year      = {2019},
  abstract  = {MYC paralogs are frequently activated in small cell lung cancer (SCLC) but represent poor drug targets. Thus, a detailed mapping of MYC-paralog-specific vulnerabilities may help to develop effective therapies for SCLC patients. Using a unique cellular CRISPR activation model, we uncover that, in contrast to MYCN and MYCL, MYC represses BCL2 transcription via interaction with MIZ1 and DNMT3a. The resulting lack of BCL2 expression promotes sensitivity to cell cycle control inhibition and dependency on MCL1. Furthermore, MYC activation leads to heightened apoptotic priming, intrinsic genotoxic stress and susceptibility to DNA damage checkpoint inhibitors. Finally, combined AURK and CHK1 inhibition substantially prolongs the survival of mice bearing MYC-driven SCLC beyond that of combination chemotherapy. These analyses uncover MYC-paralog-specific regulation of the apoptotic machinery with implications for genotype-based selection of targeted therapeutics in SCLC patients.},
  language  = {en}
}
@unpublished{Dandekar2019,
  author    = {Dandekar, Thomas},
  title     = {Biological heuristics applied to cosmology suggests a condensation nucleus as start of our universe and inflation cosmology replaced by a period of rapid Weiss domain-like crystal growth},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-183945},
  pages     = {24},
  year      = {2019},
  abstract  = {Cosmology often uses intricate formulas and mathematics to derive new theories and concepts. We do something different in this paper: We look at biological processes and derive from these heuristics so that the revised cosmology agrees with astronomical observations but does also agree with standard biological observations. We show that we then have to replace any type of singularity at the start of the universe by a condensation nucleus and that the very early period of the universe usually assumed to be inflation has to be replaced by a period of rapid crystal growth as in Weiss magnetization domains. Impressively, these minor modifications agree well with astronomical observations including removing the strong inflation perturbations which were never observed in the recent BICEP2 experiments. Furthermore, looking at biological principles suggests that such a new theory with a condensation nucleus at start and a first rapid phase of magnetization-like growth of the ordered, physical laws obeying lattice we live in is in fact the only convincing theory of the early phases of our universe that also is compatible with current observations. We show in detail in the following that such a process of crystal creation, breaking of new crystal seeds and ultimate evaporation of the present crystal readily leads over several generations to an evolution and selection of better, more stable and more self-organizing crystals. Moreover, this explains the "fine-tuning" question why our universe is fine-tuned to favor life: Our Universe is so self-organizing to have enough offspring and the detailed physics involved is at the same time highly favorable for all self-organizing processes including life. This biological theory contrasts with current standard inflation cosmologies. The latter do not perform well in explaining any phenomena of sophisticated structure creation or self-organization. As proteins can only thermodynamically fold by increasing the entropy in the solution around them we suggest for cosmology a condensation nucleus for a universe can form only in a "chaotic ocean" of string-soup or quantum foam if the entropy outside of the nucleus rapidly increases. We derive an interaction potential for 1 to n-dimensional strings or quantum-foams and show that they allow only 1D, 2D, 4D or octonion interactions. The latter is the richest structure and agrees to the E8 symmetry fundamental to particle physics and also compatible with the ten dimensional string theory E8 which is part of the M-theory. Interestingly, any other interactions of other dimensionality can be ruled out using Hurwitz compositional theorem. Crystallization explains also extremely well why we have only one macroscopic reality and where the worldlines of alternative trajectories exist: They are in other planes of the crystal and for energy reasons they crystallize mostly at the same time, yielding a beautiful and stable crystal. This explains decoherence and allows to determine the size of Planck´s quantum h (very small as separation of crystal layers by energy is extremely strong). Ultimate dissolution of real crystals suggests an explanation for dark energy agreeing with estimates for the "big rip". The halo distribution of dark matter favoring galaxy formation is readily explained by a crystal seed starting with unit cells made of normal and dark matter. That we have only matter and not antimatter can be explained as there may be right handed mattercrystals and left-handed antimatter crystals. Similarly, real crystals are never perfect and we argue that exactly such irregularities allow formation of galaxies, clusters and superclusters. Finally, heuristics from genetics suggest to look for a systems perspective to derive correct vacuum and Higgs Boson energies.},
  language  = {en}
}
@article{DasariKoleciShopovaetal.2019,
  author    = {Dasari, Prasad and Koleci, Naile and Shopova, Iordana A. and Wartenberg, Dirk and Beyersdorf, Niklas and Dietrich, Stefanie and Sahag{\´u}n-Ruiz, Alfredo and Figge, Marc Thilo and Skerka, Christine and Brakhage, Axel A. and Zipfel, Peter F.},
  title     = {Enolase from Aspergillus fumigatus is a moonlighting protein that binds the human plasma complement proteins factor H, FHL-1, C4BP, and plasminogen},
  series = {Frontiers in Immunology},
  volume    = {10},
  journal   = {Frontiers in Immunology},
  issn      = {1664-3224},
  doi       = {10.3389/fimmu.2019.02573},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-195612},
  year      = {2019},
  abstract  = {The opportunistic fungal pathogen Aspergillus fumigatus can cause severe infections, particularly in immunocompromised individuals. Upon infection, A. fumigatus faces the powerful and directly acting immune defense of the human host. The mechanisms on how A. fumigatus evades innate immune attack and complement are still poorly understood. Here, we identify A. fumigatus enolase, AfEno1, which was also characterized as fungal allergen, as a surface ligand for human plasma complement regulators. AfEno1 binds factor H, factor-H-like protein 1 (FHL-1), C4b binding protein (C4BP), and plasminogen. Factor H attaches to AfEno1 via two regions, via short conserved repeats (SCRs) 6-7 and 19-20, and FHL-1 contacts AfEno1 via SCRs 6-7. Both regulators when bound to AfEno1 retain cofactor activity and assist in C3b inactivation. Similarly, the classical pathway regulator C4BP binds to AfEno1 and bound to AfEno1; C4BP assists in C4b inactivation. Plasminogen which binds to AfEno1 via lysine residues is accessible for the tissue-type plasminogen activator (tPA), and active plasmin cleaves the chromogenic substrate S2251, degrades fibrinogen, and inactivates C3 and C3b. Plasmin attached to swollen A. fumigatus conidia damages human A549 lung epithelial cells, reduces the cellular metabolic activity, and induces cell retraction, which results in exposure of the extracellular matrix. Thus, A. fumigatus AfEno1 is a moonlighting protein and virulence factor which recruits several human regulators. The attached human regulators allow the fungal pathogen to control complement at the level of C3 and to damage endothelial cell layers and tissue components.},
  language  = {en}
}
@article{deNijsChoeSteinbuschetal.2019,
  author    = {de Nijs, Laurence and Choe, Kyonghwan and Steinbusch, Hellen and Schijns, Olaf E. M. G. and Dings, Jim and van den Hove, Daniel L. A. and Rutten, Bart P. F. and Hoogland, Govert},
  title     = {DNA methyltransferase isoforms expression in the temporal lobe of epilepsy patients with a history of febrile seizures},
  series = {Clinical Epigenetics},
  volume    = {11},
  journal   = {Clinical Epigenetics},
  doi       = {10.1186/s13148-019-0721-2},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-223636},
  year      = {2019},
  abstract  = {Background Temporal lobe epilepsy (TLE) with hippocampal sclerosis (HS) is a common pharmaco-resistant epilepsy referred for adult epilepsy surgery. Though associated with prolonged febrile seizures (FS) in childhood, the neurobiological basis for this relationship is not fully understood and currently no preventive or curative therapies are available. DNA methylation, an epigenetic mechanism catalyzed by DNA methyltransferases (DNMTs), potentially plays a pivotal role in epileptogenesis associated with FS. In an attempt to start exploring this notion, the present cross-sectional pilot study investigated whether global DNA methylation levels (5-mC and 5-hmC markers) and DNMT isoforms (DNMT1, DNMT3a1, and DNMT3a2) expression would be different in hippocampal and neocortical tissues between controls and TLE patients with or without a history of FS. Results We found that global DNA methylation levels and DNMT3a2 isoform expression were lower in the hippocampus for all TLE groups when compared to control patients, with a more significant decrease amongst the TLE groups with a history of FS. Interestingly, we showed that DNMT3a1 expression was severely diminished in the hippocampus of TLE patients with a history of FS in comparison with control and other TLE groups. In the neocortex, we found a higher expression of DNMT1 and DNMT3a1 as well as increased levels of global DNA methylation for all TLE patients compared to controls. Conclusion Together, the findings of this descriptive cross-sectional pilot study demonstrated brain region-specific changes in DNMT1 and DNMT3a isoform expression as well as global DNA methylation levels in human TLE with or without a history of FS. They highlighted a specific implication of DNMT3a isoforms in TLE after FS. Therefore, longitudinal studies that aim at targeting DNMT3a isoforms to evaluate the potential causal relationship between FS and TLE or treatment of FS-induced epileptogenesis seem warranted.},
  language  = {en}
}
@article{DeakPopZimtaetal.2019,
  author    = {Deak, Dalma and Pop, Cristina and Zimta, Alina-Andreea and Jurj, Ancuta and Ghiaur, Alexandra and Pasca, Sergiu and Teodorescu, Patric and Dascalescu, Angela and Antohe, Ion and Ionescu, Bogdan and Constantinescu, Catalin and Onaciu, Anca and Munteanu, Raluca and Berindan-Neagoe, Ioana and Petrushev, Bobe and Turcas, Cristina and Iluta, Sabina and Selicean, Cristina and Zdrenghea, Mihnea and Tanase, Alina and Danaila, Catalin and Colita, Anca and Colita, Andrei and Dima, Delia and Coriu, Daniel and Einsele, Hermann and Tomuleasa, Ciprian},
  title     = {Let's Talk About BiTEs and Other Drugs in the Real-Life Setting for B-Cell Acute Lymphoblastic Leukemia},
  series = {Frontiers in Immunology},
  volume    = {10},
  journal   = {Frontiers in Immunology},
  number    = {2856},
  issn      = {1664-3224},
  doi       = {10.3389/fimmu.2019.02856},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-193921},
  year      = {2019},
  abstract  = {Background: Therapy for acute lymphoblastic leukemia (ALL) are currently initially efficient, but even if a high percentage of patients have an initial complete remission (CR), most of them relapse. Recent data shows that immunotherapy with either bispecific T-cell engagers (BiTEs) of chimeric antigen receptor (CAR) T cells can eliminate residual chemotherapy-resistant B-ALL cells. Objective: The objective of the manuscript is to present improvements in the clinical outcome for chemotherapy-resistant ALL in the real-life setting, by describing Romania's experience with bispecific antibodies for B-cell ALL. Methods: We present the role of novel therapies for relapsed B-cell ALL, including the drugs under investigation in phase I-III clinical trials, as a potential bridge to transplant. Blinatumomab is presented in a critical review, presenting both the advantages of this drug, as well as its limitations. Results: Bispecific antibodies are discussed, describing the clinical trials that resulted in its approval by the FDA and EMA. The real-life setting for relapsed B-cell ALL is described and we present the patients treated with blinatumomab in Romania. Conclusion: In the current manuscript, we present blinatumomab as a therapeutic alternative in the bridge-to-transplant setting for refractory or relapsed ALL, to gain a better understanding of the available therapies and evidence-based data for these patients in 2019.},
  language  = {en}
}
@article{DechaudVolffSchartletal.2019,
  author    = {Dechaud, Corentin and Volff, Jean-Nicolas and Schartl, Manfred and Naville, Magali},
  title     = {Sex and the TEs: transposable elements in sexual development and function in animals},
  series = {Mobile DNA},
  volume    = {10},
  journal   = {Mobile DNA},
  doi       = {10.1186/s13100-019-0185-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-202510},
  pages     = {42},
  year      = {2019},
  abstract  = {Transposable elements are endogenous DNA sequences able to integrate into and multiply within genomes. They constitute a major source of genetic innovations, as they can not only rearrange genomes but also spread ready-to-use regulatory sequences able to modify host gene expression, and even can give birth to new host genes. As their evolutionary success depends on their vertical transmission, transposable elements are intrinsically linked to reproduction. In organisms with sexual reproduction, this implies that transposable elements have to manifest their transpositional activity in germ cells or their progenitors. The control of sexual development and function can be very versatile, and several studies have demonstrated the implication of transposable elements in the evolution of sex. In this review, we report the functional and evolutionary relationships between transposable elements and sexual reproduction in animals. In particular, we highlight how transposable elements can influence expression of sexual development genes, and how, reciprocally, they are tightly controlled in gonads. We also review how transposable elements contribute to the organization, expression and evolution of sexual development genes and sex chromosomes. This underscores the intricate co-evolution between host functions and transposable elements, which regularly shift from a parasitic to a domesticated status useful to the host.},
  language  = {en}
}
@article{DekkerDiekstraPulitetal.2019,
  author    = {Dekker, Annelot M. and Diekstra, Frank P. and Pulit, Sara L. and Tazelaar, Gijs H. P. and van der Spek, Rick A. and van Rheenen, Wouter and van Eijk, Kristel R. and Calvo, Andrea and Brunetti, Maura and Van Damme, Philip and Robberecht, Wim and Hardiman, Orla and McLaughlin, Russell and Chi{\`o}, Adriano and Sendtner, Michael and Ludolph, Albert C. and Weishaupt, Jochen H. and Pardina, Jesus S. Mora and van den Berg, Leonard H. and Veldink, Jan H.},
  title     = {Exome array analysis of rare and low frequency variants in amyotrophic lateral sclerosis},
  series = {Scientific Reports},
  volume    = {9},
  journal   = {Scientific Reports},
  doi       = {10.1038/s41598-019-42091-3},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-223686},
  year      = {2019},
  abstract  = {Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease that affects 1 in ~350 individuals. Genetic association studies have established ALS as a multifactorial disease with heritability estimated at ~61\%, and recent studies show a prominent role for rare variation in its genetic architecture. To identify rare variants associated with disease onset we performed exome array genotyping in 4,244 cases and 3,106 controls from European cohorts. In this largest exome-wide study of rare variants in ALS to date, we performed single-variant association testing, gene-based burden, and exome-wide individual set-unique burden (ISUB) testing to identify single or aggregated rare variation that modifies disease risk. In single-variant testing no variants reached exome-wide significance, likely due to limited statistical power. Gene-based burden testing of rare non-synonymous and loss-of-function variants showed NEK1 as the top associated gene. ISUB analysis did not show an increased exome-wide burden of deleterious variants in patients, possibly suggesting a more region-specific role for rare variation. Complete summary statistics are released publicly. This study did not implicate new risk loci, emphasizing the immediate need for future large-scale collaborations in ALS that will expand available sample sizes, increase genome coverage, and improve our ability to detect rare variants associated to ALS.},
  language  = {en}
}
@phdthesis{delOlmoToledo2019,
  author    = {del Olmo Toledo, Valentina},
  title     = {Evolution of DNA binding preferences in a family of eukaryotic transcription regulators},
  doi       = {10.25972/OPUS-18789},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-187890},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {Regulation of gene expression by the control of transcription is essential for any cell to adapt to the environment and survive. Transcription regulators, i.e. sequence-specific DNA binding proteins that regulate gene expression, are central elements within the gene networks of most organisms. Transcription regulators are grouped into distinct families based on structural features that determine, to a large extent, the DNA sequence(s) that they can recognise and bind. Less is known, however, about how the DNA binding preferences can diversify within transcription regulator families during evolutionary timescales, and how such diversification can affect the biology of the organism. In this dissertation I study the SREBP (sterol regulatory element binding protein) family of transcriptional regulators in yeasts, and in Candida albicans in particular, as an experimental system to address these questions. The SREBPs are conserved from fungi to humans and represent a subgroup of basic helix-loop-helix DNA binding proteins. Early chromatin immunoprecipitation experiments with SREBPs from humans and yeasts showed that these proteins bound in vivo to the canonical DNA sequence, termed E-box, most basic helix-loop-helix proteins bind to. By contrast, most recent analysis carried out with less-studied fungal SREBPs revealed a non-canonical DNA motif to be the most overrepresented sequence in the bound regions. This study aims to establish the intrinsic DNA binding preferences of key branches of this family and to determine how the divergence in DNA binding affinities originated. To this end, I combined phylogenetic and ancestral reconstruction with extensive biochemical characterisation of key SREBP proteins. The results indicated that while the most-studied SREBPs (in mammals) indeed show preference for the E-box, a second branch of the family preferentially binds the non-E-box, and a third one is able to bind both sequences with similar affinity. The preference for one or the other DNA sequence is an intrinsic property of each protein because their purified DNA binding domain was sufficient to recapitulate their in vivo binding preference. The ancestor that gave rise to these two different types of SREBPs (the branch that binds E-box and the one that binds non-E-box DNA) appears to be a protein with a broader DNA binding capability that had a slight preference for the non-canonical motif. Thus, the results imply these two branches originated by either enhancing the original ancestral preference for non-E-box or tilting it towards the E-box DNA and flipping the preference for this sequence. The main function associated with members of the SREBP family in most eukaryotes is the control of lipid biosynthesis. I have further studied the function of these proteins in the lineage that encompasses the human associated yeast C. albicans. Strikingly, the three SREBPs present in the fungus' genome contribute to the colonisation of the mammalian gut by regulating cellular processes unrelated to lipid metabolism. Here I describe that two of the three C. albicans SREBPs form a regulatory cascade that regulates morphology and cell wall modifications under anaerobic conditions, whereas the third SREBP has been shown to be involved in the regulation of glycolysis genes. Therefore, I posit that the described diversification in DNA binding specificity in these proteins and the concomitant expansion of targets of regulation were key in enabling this fungal lineage to associate with animals.},
  subject      = {Candida albicans},
  language  = {en}
}
@incollection{Demello2019,
  author    = {Demello, Margo},
  title     = {The Rabbits of Okunoshima: How Feral Rabbits Alter Space, Create Relationships, and Communicate with People and Each Other},
  series = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  booktitle = {Texts, Animals, Environments: Zoopoetics and Ecopoetics},
  publisher = {Rombach Druck- und Verlagshaus},
  address   = {Freiburg i. Br.},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-178064},
  publisher      = {Universit{\"a}t W{\"u}rzburg},
  pages     = {231-239},
  year      = {2019},
  abstract  = {No abstract available.},
  language  = {en}
}
@phdthesis{Demmer2019,
  author    = {Demmer, Claudia},
  title     = {Merger-specific Efficiency Gains},
  doi       = {10.25972/OPUS-18392},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-183928},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {The present thesis analyzes whether and - if so - under which conditions mergers result in merger-specific efficiency gains. The analysis concentrates on manufacturing firms in Europe that participate in horizontal mergers as either buyer or target in the years 2005 to 2014. The result of the present study is that mergers are idiosyncratic processes. Thus, the possibilities to define general conditions that predict merger-specific efficiency gains are limited. However, the results of the present study indicate that efficiency gains are possible as a direct consequence of a merger. Efficiency changes can be measured by a Total Factor Productivity (TFP) approach. Significant merger-specific efficiency gains are more likely for targets than for buyers. Moreover, mergers of firms that mainly operate in the same segment are likely to generate efficiency losses. Efficiency gains most likely result from reductions in material and labor costs, especially on a short- and mid-term perspective. The analysis of conditions that predict efficiency gains indicates that firm that announce the merger themselves are capable to generate efficiency gains in a short- and mid-term perspective. Furthermore, buyers that are mid-sized firms are more likely to generate efficiency gains than small or large buyers. Results also indicate that capital intense firms are likely to generate efficiency gains after a merger. The present study is structured as follows. Chapter 1 motivates the analysis of merger-specific efficiency gains. The definition of conditions that reasonably likely predict when and to which extent mergers will result in merger-specific efficiency gains, would improve the merger approval or denial process. Chapter 2 gives a literature review of some relevant empirical studies that analyzed merger-specific efficiency gains. None of the empirical studies have analyzed horizontal mergers of European firms in the manufacturing sector in the years 2005 to 2014. Thus, the present study contributes to the existing literature by analyzing efficiency gains from those mergers. Chapter 3 focuses on the identification of mergers. The merger term is defined according to the EC Merger Regulation and the Horizontal Merger Guidelines. The definition and the requirements of mergers according to legislation provides the framework of merger identification. Chapter 4 concentrates on the efficiency measurement methodology. Most empirical studies apply a Total Factor Productivity (TFP) approach to estimate efficiency. The TFP approach uses linear regression in combination with a control function approach. The estimation of coefficients is done by a General Method of Moments approach. The resulting efficiency estimates are used in the analysis of merger-specific efficiency gains in chapter 5. This analysis is done separately for buyers and targets by applying a Difference-In-Difference (DID) approach. Chapter 6 concentrates on an alternative approach to estimate efficiency, that is a Stochastic Frontier Analysis (SFA) approach. Comparable to the TFP approach, the SFA approach is a stochastic efficiency estimation methodology. In contrast to TFP, SFA estimates the production function as a frontier function instead of an average function. The frontier function allows to estimate efficiency in percent. Chapter 7 analyses the impact of different merger- and firm-specific characteristics on efficiency changes of buyers and targets. The analysis is based on a multiple regression, which is applied for short-, mid- and long-term efficiency changes of buyers and targets. Chapter 8 concludes.},
  subject      = {Verarbeitende Industrie},
  language  = {en}
}
@article{DeolLorenzStrieter2019,
  author    = {Deol, Kirandeep K. and Lorenz, Sonja and Strieter, Eric R.},
  title     = {Enzymatic logic of ubiquitin chain assembly},
  series = {Frontiers in Physiology},
  volume    = {10},
  journal   = {Frontiers in Physiology},
  number    = {835},
  doi       = {10.3389/fphys.2019.00835},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-201731},
  year      = {2019},
  abstract  = {Protein ubiquitination impacts virtually every biochemical pathway in eukaryotic cells. The fate of a ubiquitinated protein is largely dictated by the type of ubiquitin modification with which it is decorated, including a large variety of polymeric chains. As a result, there have been intense efforts over the last two decades to dissect the molecular details underlying the synthesis of ubiquitin chains by ubiquitin-conjugating (E2) enzymes and ubiquitin ligases (E3s). In this review, we highlight these advances. We discuss the evidence in support of the alternative models of transferring one ubiquitin at a time to a growing substrate-linked chain (sequential addition model) versus transferring a pre-assembled ubiquitin chain (en bloc model) to a substrate. Against this backdrop, we outline emerging principles of chain assembly: multisite interactions, distinct mechanisms of chain initiation and elongation, optimal positioning of ubiquitin molecules that are ultimately conjugated to each other, and substrate-assisted catalysis. Understanding the enzymatic logic of ubiquitin chain assembly has important biomedical implications, as the misregulation of many E2s and E3s and associated perturbations in ubiquitin chain formation contribute to human disease. The resurgent interest in bifunctional small molecules targeting pathogenic proteins to specific E3s for polyubiquitination and subsequent degradation provides an additional incentive to define the mechanisms responsible for efficient and specific chain synthesis and harness them for therapeutic benefit.},
  language  = {en}
}
@phdthesis{Derakhshani2019,
  author    = {Derakhshani, Shaghayegh},
  title     = {Measles virus infection enhances dendritic cell migration in a 3D environment},
  doi       = {10.25972/OPUS-18918},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-189182},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {The respiratory system is amongst the most important compartments in the human body. Due to its connection to the external environment, it is one of the most common portals of pathogen entry. Airborne pathogens like measles virus (MV) carried in liquid droplets exhaled from the infected individuals via a cough or sneeze enter the body from the upper respiratory tract and travel down to the lower respiratory tract and reach the alveoli. There, pathogens are captured by the resident dendritic cells (DCs) or macrophages and brought to the lymph node where immune responses or, as in case of MV, dissemination via the hematopoietic cell compartment are initiated. Basic mechanisms governing MV exit from the respiratory tract, especially virus transmission from infected immune cells to the epithelial cells have not been fully addressed before. Considering the importance of these factors in the viral spread, a complex close-to-in-vivo 3D human respiratory tract model was generated. This model was established using de-cellularized porcine intestine tissue as a biological scaffold and H358 cells as targets for infection. The scaffold was embedded with fibroblast cells, and later on, an endothelial cell layer seeded at the basolateral side. This provided an environment resembling the respiratory tract where MV infected DCs had to transmigrate through the collagen scaffold and transmit the virus to epithelial cells in a Nectin-4 dependent manner. For viral transmission, the access of infected DCs to the recipient epithelial cells is an essential prerequisite and therefore, this important factor which is reflected by cell migration was analyzed in this 3D system. The enhanced motility of specifically MV-infected DCs in the 3D models was observed, which occurred independently of factors released from the other cell types in the models. Enhanced motility of infected DCs in 3D collagen matrices suggested infection-induced cytoskeletal remodeling, as also verified by detection of cytoskeletal polarization, uropod formation. This enforced migration was sensitive to ROCK inhibition revealing that MV infection induces an amoeboid migration mode in DCs. In support of this, the formation of podosome structures and filopodia, as well as their activity, were reduced in infected DCs and retained in their uninfected siblings. Differential migration modes of uninfected and infected DCs did not cause differential maturation, which was found to be identical for both populations. As an underlying mechanism driving this enforced migration, the role of sphingosine kinase (SphK) and sphingosine-1-phosphate (S1P) was studied in MV-exposed cultures. It was shown in this thesis that MV-infection increased S1P production, and this was identified as a contributing factor as inhibition sphingosine kinase activity abolished enforced migration of MV-infected DCs. These findings revealed that MV infection induces a fast push-and-squeeze amoeboid mode of migration, which is supported by SphK/S1P axis. However, this push-and-squeeze amoeboid migration mode did not prevent the transendothelial migration of MV-infected DCs. Altogether, this 3D system has been proven to be a suitable model to study specific parameters of mechanisms involved in infections in an in vivo-like conditions.},
  subject      = {Dendritische Zelle},
  language  = {en}
}
@article{DerakhshaniKurzJaptoketal.2019,
  author    = {Derakhshani, Shaghayegh and Kurz, Andreas and Japtok, Lukasz and Schumacher, Fabian and Pilgram, Lisa and Steinke, Maria and Kleuser, Burkhard and Sauer, Markus and Schneider-Schaulies, Sibylle and Avota, Elita},
  title     = {Measles virus infection fosters dendritic cell motility in a 3D environment to enhance transmission to target cells in the respiratory epithelium},
  series = {Frontiers in Immunology},
  volume    = {10},
  journal   = {Frontiers in Immunology},
  number    = {1294},
  doi       = {10.3389/fimmu.2019.01294},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-201818},
  year      = {2019},
  abstract  = {Transmission of measles virus (MV) from dendritic to airway epithelial cells is considered as crucial to viral spread late in infection. Therefore, pathways and effectors governing this process are promising targets for intervention. To identify these, we established a 3D respiratory tract model where MV transmission by infected dendritic cells (DCs) relied on the presence of nectin-4 on H358 lung epithelial cells. Access to recipient cells is an important prerequisite for transmission, and we therefore analyzed migration of MV-exposed DC cultures within the model. Surprisingly, enhanced motility toward the epithelial layer was observed for MV-infected DCs as compared to their uninfected siblings. This occurred independently of factors released from H358 cells indicating that MV infection triggered cytoskeletal remodeling associated with DC polarization enforced velocity. Accordingly, the latter was also observed for MV-infected DCs in collagen matrices and was particularly sensitive to ROCK inhibition indicating infected DCs preferentially employed the amoeboid migration mode. This was also implicated by loss of podosomes and reduced filopodial activity both of which were retained in MV-exposed uninfected DCs. Evidently, sphingosine kinase (SphK) and sphingosine-1-phosphate (S1P) as produced in response to virus-infection in DCs contributed to enhanced velocity because this was abrogated upon inhibition of sphingosine kinase activity. These findings indicate that MV infection promotes a push-and-squeeze fast amoeboid migration mode via the SphK/S1P system characterized by loss of filopodia and podosome dissolution. Consequently, this enables rapid trafficking of virus toward epithelial cells during viral exit.},
  language  = {en}
}
@article{DiehlSchmidLicataGoldhardtetal.2019,
  author    = {Diehl-Schmid, Janine and Licata, Abigail and Goldhardt, Oliver and F{\"o}rstl, Hans and Yakushew, Igor and Otto, Markus and Anderl-Straub, Sarah and Beer, Ambros and Ludolph, Albert Christian and Landwehrmeyer, Georg Bernhard and Levin, Johannes and Danek, Adrian and Fliessbach, Klaus and Spottke, Annika and Fassbender, Klaus and Lyros, Epameinondas and Prudlo, Johannes and Krause, Bernd Joachim and Volk, Alexander and Edbauer, Dieter and Schroeter, Matthias Leopold and Drzezga, Alexander and Kornhuber, Johannes and Lauer, Martin and Grimmer, Timo},
  title     = {FDG-PET underscores the key role of the thalamus in frontotemporal lobar degeneration caused by C9ORF72 mutations},
  series = {Translational Psychiatry},
  volume    = {9},
  journal   = {Translational Psychiatry},
  organization    = {FTLDc Study Group},
  doi       = {10.1038/s41398-019-0381-1},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-225308},
  year      = {2019},
  abstract  = {C9ORF72 mutations are the most common cause of familial frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). MRI studies have investigated structural changes in C9ORF72-associated FTLD (C9FTLD) and provided first insights about a prominent involvement of the thalamus and the cerebellum. Our multicenter, 18F-fluorodeoxyglucose positron-emission tomography study of 22 mutation carriers with FTLD, 22 matched non-carriers with FTLD, and 23 cognitively healthy controls provided valuable insights into functional changes in C9FTLD: compared to non-carriers, mutation carriers showed a significant reduction of glucose metabolism in both thalami, underscoring the key role of the thalamus in C9FTLD. Thalamic metabolism did not correlate with disease severity, duration of disease, or the presence of psychotic symptoms. Against our expectations we could not demonstrate a cerebellar hypometabolism in carriers or non-carriers. Future imaging and neuropathological studies in large patient cohorts are required to further elucidate the central role of the thalamus in C9FTLD.},
  language  = {en}
}
@article{DiersWagnerBaumetal.2019,
  author    = {Diers, J. and Wagner, J. and Baum, P. and Lichthardt, S. and Kastner, C. and Matthes, N. and L{\"o}b, S. and Matthes, H. and Germer, C.-T. and Wiegering, A.},
  title     = {Nationwide in-hospital mortality following colonic cancer resection according to hospital volume in Germany},
  series = {BJS Open},
  volume    = {3},
  journal   = {BJS Open},
  number    = {5},
  doi       = {10.1002/bjs5.50173},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-204385},
  pages     = {672-677},
  year      = {2019},
  abstract  = {Background: Colonic cancer is the most common cancer of the gastrointestinal tract. The aim of this study was to determine mortality rates following colonic cancer resection and the effect of hospital caseload on in-hospital mortality in Germany. Methods: Patients admitted with a diagnosis of colonic cancer undergoing colonic resection from 2012 to 2015 were identifed from a nationwide registry using procedure codes. The outcome measure was in-hospital mortality. Hospitals were ranked according to their caseload for colonic cancer resection, and patients were categorized into five subgroups on the basis of hospital volume. Results: Some 129 196 colonic cancer resections were reviewed. The overall in-house mortality rate was 5⋅8 per cent, ranging from 6⋅9 per cent (1775 of 25 657 patients) in very low-volume hospitals to 4⋅8 per cent (1239 of 25 825) in very high-volume centres (P < 0⋅001). In multivariable logistic regression analysis the risk-adjusted odds ratio for in-house mortality was 0⋅75 (95 per cent c.i. 0⋅66 to 0⋅84) in very high-volume hospitals performing a mean of 85⋅0 interventions per year, compared with that in very low-volume hospitals performing a mean of only 12⋅7 interventions annually, after adjustment for sex, age, co-morbidity, emergency procedures, prolonged mechanical ventilation and transfusion. Conclusion: In Germany, patients undergoing colonic cancer resections in high-volume hospitals had with improved outcomes compared with patients treated in low-volume hospitals},
  language  = {en}
}
@phdthesis{Dietrich2019,
  author    = {Dietrich, Georg},
  title     = {Ad Hoc Information Extraction in a Clinical Data Warehouse with Case Studies for Data Exploration and Consistency Checks},
  doi       = {10.25972/OPUS-18464},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-184642},
  school      = {Universit{\"a}t W{\"u}rzburg},
  year      = {2019},
  abstract  = {The importance of Clinical Data Warehouses (CDW) has increased significantly in recent years as they support or enable many applications such as clinical trials, data mining, and decision making. CDWs integrate Electronic Health Records which still contain a large amount of text data, such as discharge letters or reports on diagnostic findings in addition to structured and coded data like ICD-codes of diagnoses. Existing CDWs hardly support features to gain information covered in texts. Information extraction methods offer a solution for this problem but they have a high and long development effort, which can only be carried out by computer scientists. Moreover, such systems only exist for a few medical domains. This paper presents a method empowering clinicians to extract information from texts on their own. Medical concepts can be extracted ad hoc from e.g. discharge letters, thus physicians can work promptly and autonomously. The proposed system achieves these improvements by efficient data storage, preprocessing, and with powerful query features. Negations in texts are recognized and automatically excluded, as well as the context of information is determined and undesired facts are filtered, such as historical events or references to other persons (family history). Context-sensitive queries ensure the semantic integrity of the concepts to be extracted. A new feature not available in other CDWs is to query numerical concepts in texts and even filter them (e.g. BMI > 25). The retrieved values can be extracted and exported for further analysis. This technique is implemented within the efficient architecture of the PaDaWaN CDW and evaluated with comprehensive and complex tests. The results outperform similar approaches reported in the literature. Ad hoc IE determines the results in a few (milli-) seconds and a user friendly GUI enables interactive working, allowing flexible adaptation of the extraction. In addition, the applicability of this system is demonstrated in three real-world applications at the W{\"u}rzburg University Hospital (UKW). Several drug trend studies are replicated: Findings of five studies on high blood pressure, atrial fibrillation and chronic renal failure can be partially or completely confirmed in the UKW. Another case study evaluates the prevalence of heart failure in inpatient hospitals using an algorithm that extracts information with ad hoc IE from discharge letters and echocardiogram report (e.g. LVEF < 45 ) and other sources of the hospital information system. This study reveals that the use of ICD codes leads to a significant underestimation (31\%) of the true prevalence of heart failure. The third case study evaluates the consistency of diagnoses by comparing structured ICD-10-coded diagnoses with the diagnoses described in the diagnostic section of the discharge letter. These diagnoses are extracted from texts with ad hoc IE, using synonyms generated with a novel method. The developed approach can extract diagnoses from the discharge letter with a high accuracy and furthermore it can prove the degree of consistency between the coded and reported diagnoses.},
  subject      = {Information Extraction},
  language  = {en}
}
@article{DietrichKrebsLimanetal.2019,
  author    = {Dietrich, Georg and Krebs, Jonathan and Liman, Leon and Fette, Georg and Ertl, Maximilian and Kaspar, Mathias and St{\"o}rk, Stefan and Puppe, Frank},
  title     = {Replicating medication trend studies using ad hoc information extraction in a clinical data warehouse},
  series = {BMC Medical Informatics and Decision Making},
  volume    = {19},
  journal   = {BMC Medical Informatics and Decision Making},
  doi       = {10.1186/s12911-018-0729-0},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-200409},
  pages     = {15},
  year      = {2019},
  abstract  = {Background Medication trend studies show the changes of medication over the years and may be replicated using a clinical Data Warehouse (CDW). Even nowadays, a lot of the patient information, like medication data, in the EHR is stored in the format of free text. As the conventional approach of information extraction (IE) demands a high developmental effort, we used ad hoc IE instead. This technique queries information and extracts it on the fly from texts contained in the CDW. Methods We present a generalizable approach of ad hoc IE for pharmacotherapy (medications and their daily dosage) presented in hospital discharge letters. We added import and query features to the CDW system, like error tolerant queries to deal with misspellings and proximity search for the extraction of the daily dosage. During the data integration process in the CDW, negated, historical and non-patient context data are filtered. For the replication studies, we used a drug list grouped by ATC (Anatomical Therapeutic Chemical Classification System) codes as input for queries to the CDW. Results We achieve an F1 score of 0.983 (precision 0.997, recall 0.970) for extracting medication from discharge letters and an F1 score of 0.974 (precision 0.977, recall 0.972) for extracting the dosage. We replicated three published medical trend studies for hypertension, atrial fibrillation and chronic kidney disease. Overall, 93\% of the main findings could be replicated, 68\% of sub-findings, and 75\% of all findings. One study could be completely replicated with all main and sub-findings. Conclusion A novel approach for ad hoc IE is presented. It is very suitable for basic medical texts like discharge letters and finding reports. Ad hoc IE is by definition more limited than conventional IE and does not claim to replace it, but it substantially exceeds the search capabilities of many CDWs and it is convenient to conduct replication studies fast and with high quality.},
  language  = {en}
}
@article{DietrichMeisterDietrichetal.2019,
  author    = {Dietrich, Laura and Meister, Julia and Dietrich, Oliver and Notroff, Jens and Kiep, Janika and Heeb, Julia and Beuger, Andr{\´e} and Sch{\"u}tt, Brigitta},
  title     = {Cereal processing at Early Neolithic G{\"o}bekli Tepe, southeastern Turkey},
  series = {PLoS ONE},
  volume    = {14},
  journal   = {PLoS ONE},
  number    = {5},
  doi       = {10.1371/journal.pone.0215214},
  url       = {http://nbn-resolving.de/urn:nbn:de:bvb:20-opus-201504},
  pages     = {e0215214},
  year      = {2019},
  abstract  = {We analyze the processing of cereals and its role at Early Neolithic G{\"o}bekli Tepe, southeastern Anatolia (10th / 9th millennium BC), a site that has aroused much debate in archaeological discourse. To date, only zooarchaeological evidence has been discussed in regard to the subsistence of its builders. G{\"o}bekli Tepe consists of monumental round to oval buildings, erected in an earlier phase, and smaller rectangular buildings, built around them in a partially contemporaneous and later phase. The monumental buildings are best known as they were in the focus of research. They are around 20 m in diameter and have stone pillars that are up to 5.5 m high and often richly decorated. The rectangular buildings are smaller and-in some cases-have up to 2 m high, mostly undecorated, pillars. Especially striking is the number of tools related to food processing, including grinding slabs/bowls, handstones, pestles, and mortars, which have not been studied before. We analyzed more than 7000 artifacts for the present contribution. The high frequency of artifacts is unusual for contemporary sites in the region. Using an integrated approach of formal, experimental, and macro- / microscopical use-wear analyses we show that Neolithic people at G{\"o}bekli Tepe have produced standardized and efficient grinding tools, most of which have been used for the processing of cereals. Additional phytolith analysis confirms the massive presence of cereals at the site, filling the gap left by the weakly preserved charred macro-rests. The organization of work and food supply has always been a central question of research into G{\"o}bekli Tepe, as the construction and maintenance of the monumental architecture would have necessitated a considerable work force. Contextual analyses of the distribution of the elements of the grinding kit on site highlight a clear link between plant food preparation and the rectangular buildings and indicate clear delimitations of working areas for food production on the terraces the structures lie on, surrounding the circular buildings. There is evidence for extensive plant food processing and archaeozoological data hint at large-scale hunting of gazelle between midsummer and autumn. As no large storage facilities have been identified, we argue for a production of food for immediate use and interpret these seasonal peaks in activity at the site as evidence for the organization of large work feasts.},
  language  = {en}
}