Is Bagging Effective in the Classification of Small-Sample Genomic and Proteomic Data?

There has been considerable interest recently in the application of bagging in the classification of both gene-expression data and protein-abundance mass spectrometry data. The approach is often justified by the improvement it produces on the performance of unstable, overfitting classification rules under small-sample situations. However, the question of real practical interest is whether the ensemble scheme will improve performance of those classifiers sufficiently to beat the performance of single stable, nonoverfitting classifiers, in the case of small-sample genomic and proteomic data sets. To investigate that question, we conducted a detailed empirical study, using publicly-available data sets from published genomic and proteomic studies. We observed that, under t-test and RELIEF filter-based feature selection, bagging generally does a good job of improving the performance of unstable, overfitting classifiers, such as CART decision trees and neural networks, but that improvement was not sufficient to beat the performance of single stable, nonoverfitting classifiers, such as diagonal and plain linear discriminant analysis, or 3-nearest neighbors. Furthermore, as expected, the ensemble method did not improve the performance of these classifiers significantly. Representative experimental results are presented and discussed in this work.     

Release from native root herbivores and biotic resistance by soil pathogens in a new habitat both affect the alien <Emphasis Type="Italic">Ammophila arenaria</Emphasis> in South Africa

Many native communities contain exotic plants that pose a major threat to indigenous vegetation and ecosystem functioning. Therefore the enemy release hypothesis (ERH) and biotic resistance hypothesis (BRH) were examined in relation to the invasiveness of the introduced dune grass Ammophila arenaria in South Africa. To compare plant–soil feedback from the native habitat in Europe and the new habitat in South Africa, plants were grown in their own soil from both Europe and South Africa, as well as in sterilised and non-sterilised soils from a number of indigenous South African foredune plant species. While the soil feedback of most plant species supports the ERH, the feedback from Sporobolus virginicus soil demonstrates that this plant species may contribute to biotic resistance against the introduced A. arenaria, through negative feedback from the soil community. Not only the local plant species diversity, but also the type of plant species present seemed to be important in determining the potential for biotic resistance. As a result, biotic resistance against invasive plant species may depend not only on plant competition, but also on the presence of plant species that are hosts of potential soil pathogens that may negatively affect the invaders. In conclusion, exotic plant species such as A. arenaria in South Africa that do not become highly invasive, may experience the ERH and BRH simultaneously, with the balance between enemy escape versus biotic resistance determining the invasiveness of a species in a new habitat.Plant nomenclature follows Arnold and De Wet (1993)     

Effects of carbon dioxide exposure on early brain development in rats

The developing brain is vulnerable to environmental factors. We investigated the effects of air that contained 0.05, 0.1 and 0.3% CO₂ on the hippocampus, prefrontal cortex (PFC) and amygdala. We focused on the circuitry involved in the neurobiology of anxiety, spatial learning, memory, and on insulin-like growth factor-1 (IGF-1), which is known to play a role in early brain development in rats. Spatial learning and memory were impaired by exposure to 0.3% CO₂ air, while exposure to 0.1 and 0.3% CO₂ air elevated blood corticosterone levels, intensified anxiety behavior, increased superoxide dismutase (SOD) enzyme activity and MDA levels in hippocampus and PFC; glutathione peroxidase (GPx) enzyme activity decreased in the PFC with no associated change in the hippocampus. IGF-1 levels were decreased in the blood, PFC and hippocampus by exposure to both 0.1 and 0.3% CO₂. In addition, apoptosis was increased, while cell numbers were decreased in the CA1 regions of hippocampus and PFC after 0.3% CO₂ air exposure in adolescent rats. A positive correlation was found between the blood IGF-1 level and apoptosis in the PFC. We found that chronic exposure to 0.3% CO₂ air decreased IGF-1 levels in the serum, hippocampus and PFC, and increased oxidative stress. These findings were associated with increased anxiety behavior, and impaired memory and learning.     

Reliability of the calculated maximal lactate steady state in amateur cyclists

Complex performance diagnostics in sports medicine should contain maximal aerobic and maximal anaerobic performance. The requirements on appropriate stress protocols are high. To validate a test protocol quality criteria like objectivity and reliability are necessary. Therefore, the present study was performed in intention to analyze the reliability of maximal lactate production rate (V.L_amax) by using a sprint test, maximum oxygen consumption (V.O_2max) by using a ramp test and, based on these data, resulting power in calculated maximum lactate-steady-state (PMLSS) especially for amateur cyclists. All subjects (n = 23, age 26 ± 4 years) were leisure cyclists. At three different days they completed first a sprint test to approximate V.La_max. After 60 min of recreation time a ramp test to assess V.O_2max was performed. The results of V.La_max-test and V.O_2max-test and the body weight were used to calculate PMLSS for all subjects. The intra class correlation (ICC) for V.La_max and V.O_2max was 0.904 and 0.987, respectively, coefficient of variation (CV) was 6.3% and 2.1%, respectively. Between the measurements the reliable change index of 0.11 mmol·l ^-1s ^-1 for V.La_max and 3.3 mlkg ^-1min ^-1 for V.O_2max achieved significance. The mean of the calculated PMLSS was 237 ± 72 W with an RCI of 9 W and reached with ICC = 0.985 a very high reliability. Both metabolic performance tests and the calculated PMLSS are reliable for leisure cyclists.     

Mitteilung über Augenexstirpation und Augenregeneration bei Triton taeniatus

Ohne Zusammenfassung     

The European acamprosate trials: Conclusions for research and therapy

In an excellent methodological approach, the European acamprosate study project showed that acamprosate increases sobriety times. In one randomized prospective study (n = 260) comparing acamprosate and placebo, with a 1-year treatment phase and 1-year follow-up phase, the authors found that acamprosate is effective only in Lesch type I and type II patients. To investigate the possible influence of diagnostic subgrouping, we applied the Lesch typology in a co-work with the main researchers of the UK study. The UK results concerning acamprosate's effects in the types do not mirror the Vienna results, but the numbers of type I and type II patients, retrospectively found as included in the UK centers, were too small for any conclusions. The distribution of the types points to the fact that too many type III and IV patients had been included to give acamprosate the chance to be effective. Following our typology and also these studies, we developed special treatment approaches. For relapse prevention studies, the cumulative abstinence duration together with the Lesch typology seems to be promising.     

Ueber eine auf Juist gestrandete Sthenoteuthis caroli (Furtado)

Ohne ZusammenfassungMit 8 Abbildungen im Text.     

Indigenous and Ammophila arenaria-dominated dune vegetation on the South African Cape coast

Abstract. Communities formed by the potentially invasive European Ammophila arenaria (marram grass) are compared with those dominated by indigenous dune plant species in coastal dune systems. Sampling of communities was carried out along the Cape coast for species richness, species diversity, importance values and species associations. The influence of soil and other environmental factors on vegetation were also compared. While species richness values in A. arenaria communities appear similar to those of indigenous dune plant communities, diversity indices are significantly lower. However, on the basis of importance values of individual species, A. arenaria does not show extreme dominance to the exclusion of other species, as it does on the North American Pacific coast, where it has also been introduced. Because of its growth in dense tufts, A. arenaria is accompanied mostly by small chamaephytes and therophytes, while indigenous stands support more phanerophytes. Moreover, A. arenaria forms weaker species associations than dominant indigenous dune plant species. The alien status of A. arenaria in South Africa is confirmed by applying classification and ordination analyses which failed to differentiate A. arenaria communities according to their geographical origin as achieved with indigenous communities. This may be attributed to the lack of vigorous indigenous plants in A. arenaria communities, which accounts for the low variety in species composition of A. arenaria communities along the coastline. With regard to environmental factors, A. arenaria communities were observed to be less sensitive to extrinsic factors, such as climate, than indigenous dune plant communities. Results confirm that A. arenaria is an alien plant species in South Africa, but do not imply its invasiveness in the present or near future.