@article{RothLoehmannsroebenKelzetal.2008, author = {Roth, Martin M. and L{\"o}hmannsr{\"o}ben, Hans-Gerd and Kelz, A. and Kumke, Michael Uwe}, title = {innoFSPEC : fiber optical spectroscopy and sensing}, isbn = {978-0-819-47228-1}, year = {2008}, language = {en} } @misc{VoltmerKieschkeSchwappachetal.2008, author = {Voltmer, Edgar and Kieschke, Ulf and Schwappach, David L.B. and Wirsching, Michael and Spahn, Claudia}, title = {Psychosocial health risk factors and resources of medical students and physicians}, series = {Postprints der Universit{\"a}t Potsdam : Humanwissenschaftliche Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Humanwissenschaftliche Reihe}, number = {641}, issn = {1866-8364}, doi = {10.25932/publishup-43121}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-431211}, pages = {11}, year = {2008}, abstract = {Background Epidemiological data indicate elevated psychosocial health risks for physicians, e.g., burnout, depression, marital disturbances, alcohol and substance abuse, and suicide. The purpose of this study was to identify psychosocial health resources and risk factors in profession-related behaviour and experience patterns of medical students and physicians that may serve as a basis for appropriate health promoting interventions. Methods The questionnaire -Related Behaviour and Experience "Work administered in cross-sectional surveys to students in the first (n = 475) and in the fifth year of studies (n = 355) in required courses at three German universities and to physicians in early professional life in the vicinity of these universities (n = 381). Results Scores reflecting a healthy behaviour pattern were less likely in physicians (16.7\%) compared to 5th year (26.0\%) and 1st year students (35.1\%) while scores representing unambitious and resigned patterns were more common among physicians (43.4\% vs. 24.4\% vs. 41.0\% and 27.3\% vs. 17.2\% vs. 23.3 respectively). Female and male responders differed in the domains professional commitment, resistance to stress and emotional well-being. Female physicians on average scored higher in the dimensions resignation tendencies, satisfaction with life and experience of social support, and lower in career ambition. Conclusion The results show distinct psychosocial stress patterns among medical students and physicians. Health promotion and prevention of psychosocial symptoms and impairments should be integrated as a required part of the medical curriculum and be considered an important issue during the further training of physicians.}, language = {en} } @misc{ArvidssonKwasniewskiRianoPachonetal.2008, author = {Arvidsson, Samuel Janne and Kwasniewski, Miroslaw and Ria{\~n}o- Pach{\´o}n, Diego Mauricio and Mueller-Roeber, Bernd}, title = {QuantPrime}, series = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Mathematisch-Naturwissenschaftliche Reihe}, number = {943}, issn = {1866-8372}, doi = {10.25932/publishup-43153}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-431531}, pages = {17}, year = {2008}, abstract = {Background Medium- to large-scale expression profiling using quantitative polymerase chain reaction (qPCR) assays are becoming increasingly important in genomics research. A major bottleneck in experiment preparation is the design of specific primer pairs, where researchers have to make several informed choices, often outside their area of expertise. Using currently available primer design tools, several interactive decisions have to be made, resulting in lengthy design processes with varying qualities of the assays. Results Here we present QuantPrime, an intuitive and user-friendly, fully automated tool for primer pair design in small- to large-scale qPCR analyses. QuantPrime can be used online through the internet http://www.quantprime.de/ or on a local computer after download; it offers design and specificity checking with highly customizable parameters and is ready to use with many publicly available transcriptomes of important higher eukaryotic model organisms and plant crops (currently 295 species in total), while benefiting from exon-intron border and alternative splice variant information in available genome annotations. Experimental results with the model plant Arabidopsis thaliana, the crop Hordeum vulgare and the model green alga Chlamydomonas reinhardtii show success rates of designed primer pairs exceeding 96\%. Conclusion QuantPrime constitutes a flexible, fully automated web application for reliable primer design for use in larger qPCR experiments, as proven by experimental data. The flexible framework is also open for simple use in other quantification applications, such as hydrolyzation probe design for qPCR and oligonucleotide probe design for quantitative in situ hybridization. Future suggestions made by users can be easily implemented, thus allowing QuantPrime to be developed into a broad-range platform for the design of RNA expression assays.}, language = {en} } @misc{NeigenfindGyetvaiBasekowetal.2008, author = {Neigenfind, Jost and Gyetvai, Gabor and Basekow, Rico and Diehl, Svenja and Achenbach, Ute and Gebhardt, Christiane and Selbig, Joachim and Kersten, Birgit}, title = {Haplotype inference from unphased SNP data in heterozygous polyploids based on SAT}, series = {Postprints der Universit{\"a}t Potsdam : Mathematisch Naturwissenschaftliche Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Mathematisch Naturwissenschaftliche Reihe}, number = {883}, issn = {1866-8372}, doi = {10.25932/publishup-43501}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-435011}, pages = {28}, year = {2008}, abstract = {Background: Haplotype inference based on unphased SNP markers is an important task in population genetics. Although there are different approaches to the inference of haplotypes in diploid species, the existing software is not suitable for inferring haplotypes from unphased SNP data in polyploid species, such as the cultivated potato (Solanum tuberosum). Potato species are tetraploid and highly heterozygous. Results: Here we present the software SATlotyper which is able to handle polyploid and polyallelic data. SATlo-typer uses the Boolean satisfiability problem to formulate Haplotype Inference by Pure Parsimony. The software excludes existing haplotype inferences, thus allowing for calculation of alternative inferences. As it is not known which of the multiple haplotype inferences are best supported by the given unphased data set, we use a bootstrapping procedure that allows for scoring of alternative inferences. Finally, by means of the bootstrapping scores, it is possible to optimise the phased genotypes belonging to a given haplotype inference. The program is evaluated with simulated and experimental SNP data generated for heterozygous tetraploid populations of potato. We show that, instead of taking the first haplotype inference reported by the program, we can significantly improve the quality of the final result by applying additional methods that include scoring of the alternative haplotype inferences and genotype optimisation. For a sub-population of nineteen individuals, the predicted results computed by SATlotyper were directly compared with results obtained by experimental haplotype inference via sequencing of cloned amplicons. Prediction and experiment gave similar results regarding the inferred haplotypes and phased genotypes. Conclusion: Our results suggest that Haplotype Inference by Pure Parsimony can be solved efficiently by the SAT approach, even for data sets of unphased SNP from heterozygous polyploids. SATlotyper is freeware and is distributed as a Java JAR file. The software can be downloaded from the webpage of the GABI Primary Database at http://www.gabipd.org/projects/satlotyper/. The application of SATlotyper will provide haplotype information, which can be used in haplotype association mapping studies of polyploid plants.}, language = {en} } @phdthesis{Mueller2008, author = {M{\"u}ller, Melanie J. I.}, title = {Bidirectional transport by molecular motors}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus-18715}, school = {Universit{\"a}t Potsdam}, year = {2008}, abstract = {In biological cells, the long-range intracellular traffic is powered by molecular motors which transport various cargos along microtubule filaments. The microtubules possess an intrinsic direction, having a 'plus' and a 'minus' end. Some molecular motors such as cytoplasmic dynein walk to the minus end, while others such as conventional kinesin walk to the plus end. Cells typically have an isopolar microtubule network. This is most pronounced in neuronal axons or fungal hyphae. In these long and thin tubular protrusions, the microtubules are arranged parallel to the tube axis with the minus ends pointing to the cell body and the plus ends pointing to the tip. In such a tubular compartment, transport by only one motor type leads to 'motor traffic jams'. Kinesin-driven cargos accumulate at the tip, while dynein-driven cargos accumulate near the cell body. We identify the relevant length scales and characterize the jamming behaviour in these tube geometries by using both Monte Carlo simulations and analytical calculations. A possible solution to this jamming problem is to transport cargos with a team of plus and a team of minus motors simultaneously, so that they can travel bidirectionally, as observed in cells. The presumably simplest mechanism for such bidirectional transport is provided by a 'tug-of-war' between the two motor teams which is governed by mechanical motor interactions only. We develop a stochastic tug-of-war model and study it with numerical and analytical calculations. We find a surprisingly complex cooperative motility behaviour. We compare our results to the available experimental data, which we reproduce qualitatively and quantitatively.}, language = {en} } @phdthesis{Kuhlicke2008, author = {Kuhlicke, Christian}, title = {Ignorance and Vulnerability : the 2002 mulde flood in the city of Eilenburg (Saxony, Germany)}, address = {Potsdam}, pages = {207 S.: Ill., garph. Darst.}, year = {2008}, language = {en} } @phdthesis{Kuhlicke2008, author = {Kuhlicke, Christian}, title = {Ignorance and Vulnerability - The 2002 Flood in the City of Eilenburg (Saxony, Germany)}, address = {Potsdam}, pages = {207 S., : graph. Darst.}, year = {2008}, language = {en} } @article{FargesdeWispelaereRossanoetal.2008, author = {Farges, Francois and de Wispelaere, S. and Rossano, Stephanie and Munoz, Manuel and Wilke, Max and Flank, Anne-Marie and Lagarde, Pierre}, title = {Local structures around Si, Al, and Na in hydrated silicate glasses}, year = {2008}, language = {en} } @phdthesis{Sharma2008, author = {Sharma, Reeta}, title = {Molecular genetic analysis of Bengal tiger (Panthera tigris tigres) population and its implication in conservation and wildlife forensics}, address = {Potsdam}, pages = {101 Bl. : gtaph. Darst. Kt.}, year = {2008}, language = {en} } @phdthesis{Tran2008, author = {Tran, Thi Thai Ha}, title = {E-Learning in schools : development, implementation, evaluation and perspective}, publisher = {Der Andere Verlag}, address = {T{\"o}nning}, isbn = {978-3-89959-693-9}, pages = {XVII, 237 S.. : Ill., graph. Darst. ; 210 mm x 150 mm}, year = {2008}, language = {en} } @article{SteinbrueckRaschKumke2008, author = {Steinbr{\"u}ck, D{\"o}rte and Rasch, Claudia and Kumke, Michael Uwe}, title = {Photophysics of Ochratoxin A in aqueous solution}, year = {2008}, language = {en} } @phdthesis{Gharib2008, author = {Gharib, Mona}, title = {Incremental answer set programming}, address = {Potsdam}, pages = {184 S. : graph. Darst.}, year = {2008}, language = {en} } @phdthesis{Mahlstedt2008, author = {Mahlstedt, Amelie}, title = {The acquisition of case marking information as a cue to argument interpretation in German : an electrophysiological investigation with pre-school children}, series = {MPI series in human cognitive and brain sciences}, volume = {99}, journal = {MPI series in human cognitive and brain sciences}, publisher = {MPI for Human Cognitive and Brain Sciences}, address = {Leipzig}, isbn = {978-3-936816-73-0}, pages = {i, 176 S. : graph. Darst.}, year = {2008}, language = {en} } @article{KoechyMathajJeltschetal.2008, author = {K{\"o}chy, Martin and Mathaj, Martin and Jeltsch, Florian and Malkinson, Dan}, title = {Resilience of stocking capacity to changing climate in arid to Mediterranean landscapes}, doi = {10.1007/s10113-008-0048-6}, year = {2008}, abstract = {Small livestock is an important resource for rural human populations in dry climates. How strongly will climate change affect the capacity of the rangeland? We used hierarchical modelling to scale quantitatively the growth of shrubs and annual plants, the main food of sheep and goats, to the landscape extent in the eastern Mediterranean region. Without grazing, productivity increased in a sigmoid way with mean annual precipitation. Grazing reduced productivity more strongly the drier the landscape. At a point just under the stocking capacity of the vegetation, productivity declined precipitously with more intense grazing due to a lack of seed production of annuals. We repeated simulations with precipitation patterns projected by two contrasting IPCC scenarios. Compared to results based on historic patterns, productivity and stocking capacity did not differ in most cases. Thus, grazing intensity remains the stronger impact on landscape productivity in this dry region even in the future.}, language = {en} } @book{HuaJunFengWeiAn2008, author = {Hua, Chen and Jun-Feng, Li and Wei-An, Liu}, title = {Behavior of the Solution to a Chemotaxis Model with Reproduction term}, series = {Preprint / Universit{\"a}t Potsdam, Institut f{\"u}r Mathematik, Arbeitsgruppe Partiell}, journal = {Preprint / Universit{\"a}t Potsdam, Institut f{\"u}r Mathematik, Arbeitsgruppe Partiell}, publisher = {Univ.}, address = {Potsdam}, issn = {1437-739X}, pages = {23 S.}, year = {2008}, language = {en} } @article{KoechyBrakenhielm2008, author = {Koechy, Martin and Brakenhielm, Sven}, title = {Separation of effects of moderate N deposition from natural change in ground vegetation of forests and bogs}, doi = {10.1016/j.foreco.2007.11.039}, year = {2008}, abstract = {The effect of moderate rates of nitrogen deposition on ground floor vegetation is poorly predicted by uncontrolled surveys or fertilization experiments using high rates of nitrogen (N) addition. We compared the temporal trends of ground floor vegetation in permanent plots with moderate (7-13 kg/ha/yr) and lower bulk N deposition (4-6 kg/ha/yr) in southern Sweden during 1982-1998. We examined whether trends differed between growth forms (vascular plants and bryophytes) and vegetation types (three types of coniferous forest, deciduous forest, and bog). Trends of site-standardized cover and richness varied among growth forms, vegetation types, and deposition regions. Cover in spruce forests decreased at the same rate with both moderate and low deposition. In pine forests cover decreased faster with moderate deposition and in bogs cover decreased faster with low deposition. Cover of bryophytes in spruce forests increased at the same rate with both moderate and low deposition. In pine forests cover decreased faster with moderate deposition and in bogs and deciduous forests there was a strong non-linear increase with moderate deposition. The trend of number of vascular plants was constant with moderate and decreased with low deposition. We found no trend in the number of bryophyte species. We propose that the decrease of cover and number with low deposition was related to normal ecosystem development (increased shading), suggesting that N deposition maintained or increased the competitiveness of some species in the moderate-deposition region. Deposition had no consistent negative effect on vegetation suggesting that it is less important than normal successional processes.}, language = {en} } @article{ThielRomanoKurthsetal.2008, author = {Thiel, Marco and Romano, Maria Carmen and Kurths, J{\"u}rgen and Rolfs, Martin and Kliegl, Reinhold}, title = {Generating surrogates from recurrences}, issn = {1364-503X}, year = {2008}, abstract = {In this paper, we present an approach to recover the dynamics from recurrences of a system and then generate (multivariate) twin surrogate (TS) trajectories. In contrast to other approaches, such as the linear-like surrogates, this technique produces surrogates which correspond to an independent copy of the underlying system, i.e. they induce a trajectory of the underlying system visiting the attractor in a different way. We show that these surrogates are well suited to test for complex synchronization, which makes it possible to systematically assess the reliability of synchronization analyses. We then apply the TS to study binocular fixational movements and find strong indications that the fixational movements of the left and right eye are phase synchronized. This result indicates that there might be only one centre in the brain that produces the fixational movements in both eyes or a close link between the two centres.}, language = {en} } @phdthesis{Kahlau2008, author = {Kahlau, Sabine}, title = {Analysis of plastid gene expression in tomato: from the genome to the translatome}, address = {Potsdam}, pages = {V, 105 Bl. : Ill., graph. Darst.}, year = {2008}, language = {en} } @article{KupkeLattemann2008, author = {Kupke, S{\"o}ren and Lattemann, Christoph}, title = {Alliance Capability : Exploration of its Path Dependent Development}, year = {2008}, language = {en} } @article{Tarkhanov2008, author = {Tarkhanov, Nikolai Nikolaevich}, title = {Cancellation of a Publication}, series = {Preprint / Universit{\"a}t Potsdam, Institut f{\"u}r Mathematik, Arbeitsgruppe Partiell}, journal = {Preprint / Universit{\"a}t Potsdam, Institut f{\"u}r Mathematik, Arbeitsgruppe Partiell}, publisher = {Univ.}, address = {Potsdam}, issn = {1437-739X}, pages = {2 S.}, year = {2008}, language = {en} }