@misc{ShawGafosHooleetal.2011, author = {Shaw, Jason A. and Gafos, Adamantios I. and Hoole, Philip and Zeroual, Chakir}, title = {Dynamic invariance in the phonetic expression of syllable structure}, series = {Postprints der Universit{\"a}t Potsdam : Humanwissenschaftliche Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Humanwissenschaftliche Reihe}, number = {516}, issn = {1866-8364}, doi = {10.25932/publishup-41247}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-412479}, pages = {455 -- 490}, year = {2011}, abstract = {We asked whether invariant phonetic indices for syllable structure can be identified in a language where word-initial consonant clusters, regardless of their sonority profile, are claimed to be parsed heterosyllabically. Four speakers of Moroccan Arabic were recorded, using Electromagnetic Articulography. Pursuing previous work, we employed temporal diagnostics for syllable structure, consisting of static correspondences between any given phonological organisation and its presumed phonetic indices. We show that such correspondences offer only a partial understanding of the relation between syllabic organisation and continuous indices of that organisation. We analyse the failure of the diagnostics and put forth a new approach in which different phonological organisations prescribe different ways in which phonetic indices change as phonetic parameters are scaled. The main finding is that invariance is found in these patterns of change, rather than in static correspondences between phonological constructs and fixed values for their phonetic indices.}, language = {en} } @misc{Wels2011, author = {Wels, Volkhard}, title = {Dichtung als Argumentationstechnik}, series = {Postprints der Universit{\"a}t Potsdam : Philosophische Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Philosophische Reihe}, number = {96}, issn = {1866-8380}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-87693}, pages = {25}, year = {2011}, abstract = {Der Aufsatz zeigt, dass es sich bei der averroischen Bearbeitung der aristotelischen ‚Poetik' um eine in sich konsistente Theorie der Dichtung handelt, die allerdings mit der aristotelischen Konzeption der Dichtung nur wenig zu tun hat. Ausgehend von der {\"U}bersetzung von ‚Trag{\"o}die' und ‚Kom{\"o}die' mit ‚Lob' und ‚Tadel' entwickelt Averroes einen Begriff von Dichtung als moralphilosophisches Argument zum Lob der Tugend und zum Tadel des Lasters. Im Mittelpunkt steht die Interpretation des aristotelischen Begriffs der mimesis als similitudo, das heißt als Gleichnis. Als gleichnishaftes Argument ist Dichtung nur graduell von anderen argumentativen Formen wie der demonstrativen Logik und der Rhetorik unterschieden.}, language = {de} } @misc{Wels2011, author = {Wels, Volkhard}, title = {Die Poetik als Teil des aristotelischen Organon}, series = {Postprints der Universit{\"a}t Potsdam : Philosophische Reihe}, journal = {Postprints der Universit{\"a}t Potsdam : Philosophische Reihe}, number = {97}, issn = {1866-8380}, url = {http://nbn-resolving.de/urn:nbn:de:kobv:517-opus4-88666}, pages = {17}, year = {2011}, abstract = {Der Aufsatz umreißt die Wirkung von Averroes' Bearbeitung der aristotelischen ‚Poetik' als argumentativer Disziplin. Beginnend mit Al-Farabi und Al-Gazali im zehnten Jahrhundert wird die ‚Poetik' den logischen Disziplinen des ‚Organon' zugerechnet. W{\"a}hrend die Theorie eines ‚poetischen Syllogismus' nicht rezipiert worden ist, wurde der argumentative Status der Dichtung vom zw{\"o}lften Jahrhundert an auch im lateinischen Westen bekannt. Mit unterschiedlichen Begr{\"u}ndungen {\"u}bernahmen Dominicus Gundissalinus, Vincenz von Beauvais, Albertus Magnus, Roger Bacon und Thomas von Aquin die Klassifizierung der Poetik als argumentative Disziplin. Am Ende des Aufsatzes steht ein Ausblick auf Coluccio Salutatis ‚De laboribus Herculis' und die humanistische Rezeption dieser Tradition.}, language = {de} } @article{MunzOswaldSchmidt2011, author = {Munz, Matthias and Oswald, Sascha and Schmidt, C.}, title = {Sand box experiments to evaluate the influence of subsurface temperature probe design on temperature based water flux calculation}, series = {Hydrology and earth system sciences : HESS}, volume = {15}, journal = {Hydrology and earth system sciences : HESS}, number = {11}, publisher = {Copernicus}, address = {G{\"o}ttingen}, issn = {1027-5606}, doi = {10.5194/hess-15-3495-2011}, pages = {3495 -- 3510}, year = {2011}, abstract = {Quantification of subsurface water fluxes based on the one dimensional solution to the heat transport equation depends on the accuracy of measured subsurface temperatures. The influence of temperature probe setup on the accuracy of vertical water flux calculation was systematically evaluated in this experimental study. Four temperature probe setups were installed into a sand box experiment to measure temporal highly resolved vertical temperature profiles under controlled water fluxes in the range of +/- 1.3 md(-1). Pass band filtering provided amplitude differences and phase shifts of the diurnal temperature signal varying with depth depending on water flux. Amplitude ratios of setups directly installed into the saturated sediment significantly varied with sand box hydraulic gradients. Amplitude ratios provided an accurate basis for the analytical calculation of water flow velocities, which matched measured flow velocities. Calculated flow velocities were sensitive to thermal properties of saturated sediment and to temperature sensor spacing, but insensitive to thermal dispersivity equal to solute dispersivity. Amplitude ratios of temperature probe setups indirectly installed into piezometer pipes were influenced by thermal exchange processes within the pipes and significantly varied with water flux direction only. Temperature time lags of small sensor distances of all setups were found to be insensitive to vertical water flux.}, language = {en} } @article{RiveraVillarreyesBaroniOswald2011, author = {Rivera Villarreyes, C. A. and Baroni, Gabriele and Oswald, Sascha}, title = {Integral quantification of seasonal soil moisture changes in farmland by cosmic-ray neutrons}, series = {Hydrology and earth system sciences : HESS}, volume = {15}, journal = {Hydrology and earth system sciences : HESS}, number = {12}, publisher = {Copernicus}, address = {G{\"o}ttingen}, issn = {1027-5606}, doi = {10.5194/hess-15-3843-2011}, pages = {3843 -- 3859}, year = {2011}, abstract = {Soil moisture at the plot or hill-slope scale is an important link between local vadose zone hydrology and catchment hydrology. However, so far only a few methods are on the way to close this gap between point measurements and remote sensing. One new measurement methodology that could determine integral soil moisture at this scale is the aboveground sensing of cosmic-ray neutrons, more precisely of ground albedo neutrons. The present study performed ground albedo neutron sensing (GANS) at an agricultural field in northern Germany. To test the method it was accompanied by other soil moisture measurements for a summer period with corn crops growing on the field and a later autumn-winter period without crops and a longer period of snow cover. Additionally, meteorological data and aboveground crop biomass were included in the evaluation. Hourly values of ground albedo neutron sensing showed a high statistical variability. Six-hourly values corresponded well with classical soil moisture measurements, after calibration based on one reference dry period and three wet periods of a few days each. Crop biomass seemed to influence the measurements only to minor degree, opposed to snow cover which has a more substantial impact on the measurements. The latter could be quantitatively related to a newly introduced field neutron ratio estimated from neutron counting rates of two energy ranges. Overall, our study outlines a procedure to apply the ground albedo neutron sensing method based on devices now commercially available, without the need for accompanying numerical simulations and suited for longer monitoring periods after initial calibration.}, language = {en} } @article{HempelKoseskaNikoloskietal.2011, author = {Hempel, Sabrina and Koseska, Aneta and Nikoloski, Zoran and Kurths, J{\"u}rgen}, title = {Unraveling gene regulatory networks from time-resolved gene expression data - a measures comparison study}, series = {BMC bioinformatics}, volume = {12}, journal = {BMC bioinformatics}, number = {1}, publisher = {BioMed Central}, address = {London}, issn = {1471-2105}, doi = {10.1186/1471-2105-12-292}, pages = {26}, year = {2011}, abstract = {Background: Inferring regulatory interactions between genes from transcriptomics time-resolved data, yielding reverse engineered gene regulatory networks, is of paramount importance to systems biology and bioinformatics studies. Accurate methods to address this problem can ultimately provide a deeper insight into the complexity, behavior, and functions of the underlying biological systems. However, the large number of interacting genes coupled with short and often noisy time-resolved read-outs of the system renders the reverse engineering a challenging task. Therefore, the development and assessment of methods which are computationally efficient, robust against noise, applicable to short time series data, and preferably capable of reconstructing the directionality of the regulatory interactions remains a pressing research problem with valuable applications. Results: Here we perform the largest systematic analysis of a set of similarity measures and scoring schemes within the scope of the relevance network approach which are commonly used for gene regulatory network reconstruction from time series data. In addition, we define and analyze several novel measures and schemes which are particularly suitable for short transcriptomics time series. We also compare the considered 21 measures and 6 scoring schemes according to their ability to correctly reconstruct such networks from short time series data by calculating summary statistics based on the corresponding specificity and sensitivity. Our results demonstrate that rank and symbol based measures have the highest performance in inferring regulatory interactions. In addition, the proposed scoring scheme by asymmetric weighting has shown to be valuable in reducing the number of false positive interactions. On the other hand, Granger causality as well as information-theoretic measures, frequently used in inference of regulatory networks, show low performance on the short time series analyzed in this study. Conclusions: Our study is intended to serve as a guide for choosing a particular combination of similarity measures and scoring schemes suitable for reconstruction of gene regulatory networks from short time series data. We show that further improvement of algorithms for reverse engineering can be obtained if one considers measures that are rooted in the study of symbolic dynamics or ranks, in contrast to the application of common similarity measures which do not consider the temporal character of the employed data. Moreover, we establish that the asymmetric weighting scoring scheme together with symbol based measures (for low noise level) and rank based measures (for high noise level) are the most suitable choices.}, language = {en} } @article{RuprechtMutwilSaxeetal.2011, author = {Ruprecht, Colin and Mutwil, Marek and Saxe, Friederike and Eder, Michaela and Nikoloski, Zoran and Persson, Staffan}, title = {Large-scale co-expression approach to dissect secondary cell wall formation across plant species}, series = {Frontiers in plant science}, volume = {2}, journal = {Frontiers in plant science}, publisher = {Frontiers Research Foundation}, address = {Lausanne}, issn = {1664-462X}, doi = {10.3389/fpls.2011.00023}, pages = {13}, year = {2011}, abstract = {Plant cell walls are complex composites largely consisting of carbohydrate-based polymers, and are generally divided into primary and secondary walls based on content and characteristics. Cellulose microfibrils constitute a major component of both primary and secondary cell walls and are synthesized at the plasma membrane by cellulose synthase (CESA) complexes. Several studies in Arabidopsis have demonstrated the power of co-expression analyses to identify new genes associated with secondary wall cellulose biosynthesis. However, across-species comparative co-expression analyses remain largely unexplored. Here, we compared co-expressed gene vicinity networks of primary and secondary wall CESAsin Arabidopsis, barley, rice, poplar, soybean, Medicago, and wheat, and identified gene families that are consistently co-regulated with cellulose biosynthesis. In addition to the expected polysaccharide acting enzymes, we also found many gene families associated with cytoskeleton, signaling, transcriptional regulation, oxidation, and protein degradation. Based on these analyses, we selected and biochemically analyzed T-DNA insertion lines corresponding to approximately twenty genes from gene families that re-occur in the co-expressed gene vicinity networks of secondary wall CESAs across the seven species. We developed a statistical pipeline using principal component analysis and optimal clustering based on silhouette width to analyze sugar profiles. One of the mutants, corresponding to a pinoresinol reductase gene, displayed disturbed xylem morphology and held lower levels of lignin molecules. We propose that this type of large-scale co-expression approach, coupled with statistical analysis of the cell wall contents, will be useful to facilitate rapid knowledge transfer across plant species.}, language = {en} } @article{DongesDonnerRehfeldetal.2011, author = {Donges, Jonathan and Donner, Reik Volker and Rehfeld, Kira and Marwan, Norbert and Trauth, Martin H. and Kurths, J{\"u}rgen}, title = {Identification of dynamical transitions in marine palaeoclimate records by recurrence network analysis}, series = {Nonlinear processes in geophysics}, volume = {18}, journal = {Nonlinear processes in geophysics}, number = {5}, publisher = {Copernicus}, address = {G{\"o}ttingen}, issn = {1023-5809}, doi = {10.5194/npg-18-545-2011}, pages = {545 -- 562}, year = {2011}, abstract = {The analysis of palaeoclimate time series is usually affected by severe methodological problems, resulting primarily from non-equidistant sampling and uncertain age models. As an alternative to existing methods of time series analysis, in this paper we argue that the statistical properties of recurrence networks - a recently developed approach - are promising candidates for characterising the system's nonlinear dynamics and quantifying structural changes in its reconstructed phase space as time evolves. In a first order approximation, the results of recurrence network analysis are invariant to changes in the age model and are not directly affected by non-equidistant sampling of the data. Specifically, we investigate the behaviour of recurrence network measures for both paradigmatic model systems with non-stationary parameters and four marine records of long-term palaeoclimate variations. We show that the obtained results are qualitatively robust under changes of the relevant parameters of our method, including detrending, size of the running window used for analysis, and embedding delay. We demonstrate that recurrence network analysis is able to detect relevant regime shifts in synthetic data as well as in problematic geoscientific time series. This suggests its application as a general exploratory tool of time series analysis complementing existing methods.}, language = {en} } @article{ShaydukNavirianLeitenbergeretal.2011, author = {Shayduk, Roman and Navirian, Hengameh and Leitenberger, Wolfram and Goldshteyn, Jevgenij and Vrejoiu, Ionela and Weinelt, Martin and Gaal, Peter and Herzog, Marc and von Korff Schmising, Clemens and Bargheer, Matias}, title = {Nanoscale heat transport studied by high-resolution time-resolved x-ray diffraction}, series = {New journal of physics : the open-access journal for physics}, volume = {13}, journal = {New journal of physics : the open-access journal for physics}, number = {11}, publisher = {IOP Publ. Ltd.}, address = {Bristol}, issn = {1367-2630}, doi = {10.1088/1367-2630/13/9/093032}, pages = {11}, year = {2011}, abstract = {We report on synchrotron-based high-repetition rate ultrafast x-ray diffraction (UXRD) experiments monitoring the transport of heat from an epitaxial La(0.7)Sr(0.3)MnO(3)/SrTiO(3) superlattice (SL) into the substrate on timescales from 100 ps to 4 mu s. Transient thermal lattice expansion was determined with an accuracy of 10(-7), corresponding to a sensitivity to temperature changes down to 0.01 K. We follow the heat flow within the SL and into the substrate after the impulsive laser heating leads to a small temperature rise of Delta T = 6 K. The transient lattice temperature can be simulated very well using the bulk heat conductivities. This contradicts the interpretation of previous UXRD measurements, which predicted a long-lasting expansion of SrRuO(3) for more than 200 ps. The disagreement could be resolved by assuming that the heat conductivity changes in the first hundred picoseconds.}, language = {en} } @misc{MayerScharhagRosenbergerCarlsohnetal.2011, author = {Mayer, Frank and Scharhag-Rosenberger, Friederike and Carlsohn, Anja and Cassel, Michael and M{\"u}ller, Steffen and Scharhag, J{\"u}rgen}, title = {The intensity and effects of strength training in the elderly}, series = {Deutsches {\"A}rzteblatt international : a weekly online journal of clinical medicine and public health}, volume = {108}, journal = {Deutsches {\"A}rzteblatt international : a weekly online journal of clinical medicine and public health}, number = {21}, publisher = {Dt. {\"A}rzte-Verl.}, address = {Cologne}, issn = {1866-0452}, doi = {10.3238/arztebl.2011.0359}, pages = {359 -- U30}, year = {2011}, abstract = {Background: The elderly need strength training more and more as they grow older to stay mobile for their everyday activities. The goal of training is to reduce the loss of muscle mass and the resulting loss of motor function. The dose-response relationship of training intensity to training effect has not yet been fully elucidated. Methods: PubMed was selectively searched for articles that appeared in the past 5 years about the effects and dose-response relationship of strength training in the elderly. Results: Strength training in the elderly (> 60 years) increases muscle strength by increasing muscle mass, and by improving the recruitment of motor units, and increasing their firing rate. Muscle mass can be increased through training at an intensity corresponding to 60\% to 85\% of the individual maximum voluntary strength. Improving the rate of force development requires training at a higher intensity (above 85\%), in the elderly just as in younger persons. It is now recommended that healthy old people should train 3 or 4 times weekly for the best results; persons with poor performance at the outset can achieve improvement even with less frequent training. Side effects are rare. Conclusion: Progressive strength training in the elderly is efficient, even with higher intensities, to reduce sarcopenia, and to retain motor function.}, language = {en} }