TY - GEN A1 - Schrön, Martin A1 - Köhli, Markus A1 - Scheiffele, Lena A1 - Iwema, Joost A1 - Bogena, Heye R. A1 - Lv, Ling A1 - Martini, Edoardo A1 - Baroni, Gabriele A1 - Rosolem, Rafael A1 - Weimar, Jannis A1 - Mai, Juliane A1 - Cuntz, Matthias A1 - Rebmann, Corinna A1 - Oswald, Sascha A1 - Dietrich, Peter A1 - Schmidt, Ulrich A1 - Zacharias, Steffen T1 - Improving calibration and validation of cosmic-ray neutron sensors in the light of spatial sensitivity T2 - Postprints der Universität Potsdam : Mathematisch Naturwissenschaftliche Reihe N2 - In the last few years the method of cosmic-ray neutron sensing (CRNS) has gained popularity among hydrologists, physicists, and land-surface modelers. The sensor provides continuous soil moisture data, averaged over several hectares and tens of decimeters in depth. However, the signal still may contain unidentified features of hydrological processes, and many calibration datasets are often required in order to find reliable relations between neutron intensity and water dynamics. Recent insights into environmental neutrons accurately described the spatial sensitivity of the sensor and thus allowed one to quantify the contribution of individual sample locations to the CRNS signal. Consequently, data points of calibration and validation datasets are suggested to be averaged using a more physically based weighting approach. In this work, a revised sensitivity function is used to calculate weighted averages of point data. The function is different from the simple exponential convention by the extraordinary sensitivity to the first few meters around the probe, and by dependencies on air pressure, air humidity, soil moisture, and vegetation. The approach is extensively tested at six distinct monitoring sites: two sites with multiple calibration datasets and four sites with continuous time series datasets. In all cases, the revised averaging method improved the performance of the CRNS products. The revised approach further helped to reveal hidden hydrological processes which otherwise remained unexplained in the data or were lost in the process of overcalibration. The presented weighting approach increases the overall accuracy of CRNS products and will have an impact on all their applications in agriculture, hydrology, and modeling. T3 - Zweitveröffentlichungen der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe - 636 KW - forested headwater catchment KW - moisture observing system KW - soil-water content KW - parameterization methods KW - scale KW - field KW - dynamics KW - observatories KW - networks Y1 - 2019 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-419134 IS - 636 SP - 5009 EP - 5030 ER - TY - JOUR A1 - Schrön, Martin A1 - Köhli, Markus A1 - Scheiffele, Lena A1 - Iwema, Joost A1 - Bogena, Heye R. A1 - Lv, Ling A1 - Martini, Edoardo A1 - Baroni, Gabriele A1 - Rosolem, Rafael A1 - Weimar, Jannis A1 - Mai, Juliane A1 - Cuntz, Matthias A1 - Rebmann, Corinna A1 - Oswald, Sascha A1 - Dietrich, Peter A1 - Schmidt, Ulrich A1 - Zacharias, Steffen T1 - Improving calibration and validation of cosmic-ray neutron sensors in the light of spatial sensitivity JF - Hydrology and earth system sciences : HESS N2 - In the last few years the method of cosmic-ray neutron sensing (CRNS) has gained popularity among hydrologists, physicists, and land-surface modelers. The sensor provides continuous soil moisture data, averaged over several hectares and tens of decimeters in depth. However, the signal still may contain unidentified features of hydrological processes, and many calibration datasets are often required in order to find reliable relations between neutron intensity and water dynamics. Recent insights into environmental neutrons accurately described the spatial sensitivity of the sensor and thus allowed one to quantify the contribution of individual sample locations to the CRNS signal. Consequently, data points of calibration and validation datasets are suggested to be averaged using a more physically based weighting approach. In this work, a revised sensitivity function is used to calculate weighted averages of point data. The function is different from the simple exponential convention by the extraordinary sensitivity to the first few meters around the probe, and by dependencies on air pressure, air humidity, soil moisture, and vegetation. The approach is extensively tested at six distinct monitoring sites: two sites with multiple calibration datasets and four sites with continuous time series datasets. In all cases, the revised averaging method improved the performance of the CRNS products. The revised approach further helped to reveal hidden hydrological processes which otherwise remained unexplained in the data or were lost in the process of overcalibration. The presented weighting approach increases the overall accuracy of CRNS products and will have an impact on all their applications in agriculture, hydrology, and modeling. Y1 - 2017 U6 - https://doi.org/10.5194/hess-21-5009-2017 SN - 1027-5606 SN - 1607-7938 VL - 21 SP - 5009 EP - 5030 PB - Copernicus CY - Göttingen ER - TY - JOUR A1 - Sebold, Miriam A1 - Nebe, Stephan A1 - Garbusow, Maria A1 - Guggenmos, Matthias A1 - Schad, Daniel A1 - Beck, Anne A1 - Kuitunen-Paul, Sören A1 - Sommer, Christian A1 - Frank, Robin A1 - Neu, Peter A1 - Zimmermann, Ulrich S. A1 - Rapp, Michael A. A1 - Smolka, Michael N. A1 - Huys, Quentin J. M. A1 - Schlagenhauf, Florian A1 - Heinz, Andreas T1 - When Habits Are Dangerous: Alcohol Expectancies and Habitual Decision Making Predict Relapse in Alcohol Dependence JF - Biological psychiatry : a journal of psychiatric neuroscience and therapeutics ; a publication of the Society of Biological Psychiatry N2 - BACKGROUND: Addiction is supposedly characterized by a shift from goal-directed to habitual decision making, thus facilitating automatic drug intake. The two-step task allows distinguishing between these mechanisms by computationally modeling goal-directed and habitual behavior as model-based and model-free control. In addicted patients, decision making may also strongly depend upon drug-associated expectations. Therefore, we investigated model-based versus model-free decision making and its neural correlates as well as alcohol expectancies in alcohol-dependent patients and healthy controls and assessed treatment outcome in patients. METHODS: Ninety detoxified, medication-free, alcohol-dependent patients and 96 age-and gender-matched control subjects underwent functional magnetic resonance imaging during the two-step task. Alcohol expectancies were measured with the Alcohol Expectancy Questionnaire. Over a follow-up period of 48 weeks, 37 patients remained abstinent and 53 patients relapsed as indicated by the Alcohol Timeline Followback method. RESULTS: Patients who relapsed displayed reduced medial prefrontal cortex activation during model-based decision making. Furthermore, high alcohol expectancies were associated with low model-based control in relapsers, while the opposite was observed in abstainers and healthy control subjects. However, reduced model-based control per se was not associated with subsequent relapse. CONCLUSIONS: These findings suggest that poor treatment outcome in alcohol dependence does not simply result from a shift from model-based to model-free control but is instead dependent on the interaction between high drug expectancies and low model-based decision making. Reduced model-based medial prefrontal cortex signatures in those who relapse point to a neural correlate of relapse risk. These observations suggest that therapeutic interventions should target subjective alcohol expectancies. KW - Alcohol dependence KW - Alcohol expectancy KW - Goal-directed control KW - Medial prefrontal cortex KW - Reinforcement learning KW - Treatment outcome Y1 - 2017 U6 - https://doi.org/10.1016/j.biopsych.2017.04.019 SN - 0006-3223 SN - 1873-2402 VL - 82 SP - 847 EP - 856 PB - Elsevier CY - New York ER - TY - JOUR A1 - Borchert, Florian A1 - Mock, Andreas A1 - Tomczak, Aurelie A1 - Hügel, Jonas A1 - Alkarkoukly, Samer A1 - Knurr, Alexander A1 - Volckmar, Anna-Lena A1 - Stenzinger, Albrecht A1 - Schirmacher, Peter A1 - Debus, Jürgen A1 - Jäger, Dirk A1 - Longerich, Thomas A1 - Fröhling, Stefan A1 - Eils, Roland A1 - Bougatf, Nina A1 - Sax, Ulrich A1 - Schapranow, Matthieu-Patrick T1 - Knowledge bases and software support for variant interpretation in precision oncology JF - Briefings in bioinformatics N2 - Precision oncology is a rapidly evolving interdisciplinary medical specialty. Comprehensive cancer panels are becoming increasingly available at pathology departments worldwide, creating the urgent need for scalable cancer variant annotation and molecularly informed treatment recommendations. A wealth of mainly academia-driven knowledge bases calls for software tools supporting the multi-step diagnostic process. We derive a comprehensive list of knowledge bases relevant for variant interpretation by a review of existing literature followed by a survey among medical experts from university hospitals in Germany. In addition, we review cancer variant interpretation tools, which integrate multiple knowledge bases. We categorize the knowledge bases along the diagnostic process in precision oncology and analyze programmatic access options as well as the integration of knowledge bases into software tools. The most commonly used knowledge bases provide good programmatic access options and have been integrated into a range of software tools. For the wider set of knowledge bases, access options vary across different parts of the diagnostic process. Programmatic access is limited for information regarding clinical classifications of variants and for therapy recommendations. The main issue for databases used for biological classification of pathogenic variants and pathway context information is the lack of standardized interfaces. There is no single cancer variant interpretation tool that integrates all identified knowledge bases. Specialized tools are available and need to be further developed for different steps in the diagnostic process. KW - HiGHmed KW - personalized medicine KW - molecular tumor board KW - data integration KW - cancer therapy Y1 - 2021 U6 - https://doi.org/10.1093/bib/bbab134 SN - 1467-5463 SN - 1477-4054 VL - 22 IS - 6 PB - Oxford Univ. Press CY - Oxford ER - TY - JOUR A1 - Numberger, Daniela A1 - Riedel, Thomas A1 - McEwen, Gayle A1 - Nübel, Ulrich A1 - Frentrup, Martinique A1 - Schober, Isabel A1 - Bunk, Boyke A1 - Spröer, Cathrin A1 - Overmann, Jörg A1 - Grossart, Hans-Peter A1 - Greenwood, Alex D. T1 - Genomic analysis of three Clostridioides difficile isolates from urban water sources JF - Anaerobe N2 - We investigated inflow of a wastewater treatment plant and sediment of an urban lake for the presence of Clostridioides difficile by cultivation and PCR. Among seven colonies we sequenced the complete genomes of three: two non-toxigenic isolates from wastewater and one toxigenic isolate from the urban lake. For all obtained isolates, a close genomic relationship with human-derived isolates was observed. (C) 2019 Elsevier Ltd. All rights reserved. KW - Clostridioides difficile KW - Genomes KW - Sediment KW - Wastewater Y1 - 2019 U6 - https://doi.org/10.1016/j.anaerobe.2019.01.002 SN - 1075-9964 SN - 1095-8274 VL - 56 SP - 22 EP - 26 PB - Elsevier CY - Oxford ER - TY - BOOK A1 - Schmidt, Thorsten Ingo A1 - Ulrich, Peter A1 - Büchner, Christiane A1 - Franzke, Jochen A1 - Jann, Werner A1 - Bauer, Hartmut A1 - Wagner, Dieter A1 - Brüning, Christoph A1 - Bickenbach, Christian A1 - Kuhlmann, Sabine A1 - Peters, Niklas A1 - Reichard, Christoph A1 - Tessmann, Jens A1 - Maaß, Christian A1 - Kern, Kristine A1 - Kochskämper, Elisa A1 - Gailing, Ludger A1 - Krzymuski, Marcin ED - Schmidt, Thorsten Ingo ED - Bickenbach, Christian ED - Gronewold, Ulfert ED - Kuhlmann, Sabine ED - Ulrich, Peter T1 - Kommunalwissenschaften an der Universität Potsdam BT - Rück- und Ausblick zum 30-jährigen Bestehen des Kommunalwissenschaftlichen Instituts (KWI) T3 - KWI-Schriften N2 - Zum dreißigjährigen Bestehen des Kommunalwissenschaftlichen Instituts an der Universität Potsdam vereint dieser Jubiläumsband kurze Aufsätze von ehemaligen und aktuellen Vorstandsmitgliedern, von Ehrenmitgliedern des Vorstands, langjährigen wissenschaftlichen Mitarbeitern des Instituts und aktuellen wissenschaftlichen Kooperationspartnern. Die insgesamt zwölf Beiträge befassen sich mit den Kommunalwissenschaften und der Geschichte des Kommunalwissenschaftlichen Instituts, mit aktuellen kommunalwissenschaftlichen Fragestellungen und wissenschaftlichen Kooperationen des KWI. Der vom KWI-Vorstand herausgegebene Band soll einen breiten Blick auf 30 Jahre Kommunalwissenschaften in Brandenburg und an der Universität Potsdam werfen und einen Ausblick auf zukünftige kommunalwissenschaftliche Forschung geben. T3 - KWI-Schriften - 15 KW - Kommunalwissenschaft KW - Institut KW - Brandenburg KW - Potsdam KW - Universität Y1 - 2024 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus4-636180 SN - 978-3-86956-581-1 SN - 1867-951X SN - 1867-9528 IS - 15 PB - Universitätsverlag Potsdam CY - Potsdam ER -