On the Asymptotic Relative Efficiency of the Mantel-Haenszel Test

The Mantel-Haenszel test is optimal when the odds ratio is constant. This paper investigates the effects of departures from the assumption of a constant odds ratio on the behavior of the Mantel-Haenzel test. A simple approximation is proposed for the non-null distribution of the test statistic. Based on this approximation, the asymptotic relative efficiency of the Mantel-Haenszel test, compared to the overall χ² test for no partial association, is calculated. For the case of 2 strata, it is shown that the Mantel-Haenszel test is efficient as long as the logarithms of the odds ratios are of the same sign and their absolute values exceed 1.     

A protocol for analysing thermal stress in insects using infrared thermography

The study of insect responses to thermal stress has involved a variety of protocols and methodologies that hamper the ability to compare results between studies. For that reason, the development of a protocol to standardize thermal assays is necessary. In this sense, infrared thermography solves some of the problems allowing us to take continuous temperature measurements without handling the individuals, an important fact in cold-blooded organisms like insects. Here, we present a working protocol based on infrared thermography to estimate both cold and heat thermal stress in insects. We analyse both the change in the body temperature of individuals and their behavioural response. In addition, we used partial least squares regression for the statistical analysis of our data, a technique that solves the problem of having a large number of variables and few individuals, allowing us to work with rare or endemic species. To test our protocol, we chose two species of congeneric, narrowly distributed dung beetles that are endemic to the southeastern part of the Iberian Peninsula. With our protocol we have obtained five variables in the response to cold and twelve in the response to heat. With this methodology we discriminate between the two flightless species of Jekelius through their thermal response. In response to cold, Jekelius hernandezi showed a higher rate of cooling and reached higher temperatures of stupor and haemolymph freezing than Jekelius punctatolineatus. Both species displayed similar thermoregulation ranges before reaching lethal body temperature with heat stress. Overall, we have demonstrated that infrared thermography is a suitable method to assess insect thermal responses with a high degree of sensitivity, allowing for the discrimination between closely related species.     

Partial Distributional Canonical Discriminant Analysis

A canonical discriminant technique is proposed which is unrelated to particular distributional assumptions. This approach allows for a data generated choice between ordered, partially ordered and unordered outcomes and remains identifiable in each dimension of the canonical model. The concepts of allocatability and distinguishability of categories are investigated. Maximum likelihood parameter estimation is conducted and inferential tests for the assessment of the dimensionality of the canonical model are derived. The model is applied to the perioperative prediction of risk of death from peritonitis, using real data.     

Cytophotometric analysis of alkaline phosphatase and 5'-nucleotidase activity in regenerating rat liver after partial hepatectomy

Alkaline phosphatase and 5'-nucleotidase activities were analysed cytophotometrically in cryostat sections of female rat liver after partial hepatectomy. Alkaline phosphatase activity increased rapidly after operation up to a maximum seven-fold rise at 24 h in comparison with sham operated or control rats. There was no indication of preferential localization of alkaline phosphatase activity in either periportal or pericentral areas at any time point in control rats, sham operated rats or hepatectomized rats. Microscopical observation revealed that (a) all alkaline phosphatase activity was present at the bile canalicular surface of hepatocytes and (b) hepatocytes in mitosis did not show any increase in activity. These findings indicate that the high alkaline phosphatase activity after partial hepatectomy is not involved primarily in proliferation processes because cell division mainly takes place periportally. It may be needed for enhanced bile secretion by conversion of intracellular phosphorylcholine into choline which can be transported into the bile. The intracellular phosphorylcholine level is high after operation due to changes in phospholipid metabolism. 5'-Nucleotidase appeared to be three times higher pericentrally than periportally under normal conditions. Partial hepatectomy caused a 40 per cent decrease in activity in pericentral areas and only a small decrease periportally. It has been suggested that 5'-nucleotidase plays a role in breakdown of messenger RNA and its activity in control liver could be considerably lower periportally because plasma protein synthesis mainly takes place in this area.(ABSTRACT TRUNCATED AT 250 WORDS)     

Partial AUC maximization for essential gene prediction using genetic algorithms

Identifying genes indispensable for an organism‘s life and their characteristics is one of the central questions in current biological research, and hence it would be helpful to develop computational approaches towards the prediction of essential genes. The performance of a predictor is usually measured by the area under the receiver operating characteristic curve (AUC). We propose a novel method by implementing genetic algorithms to maximize the partial AUC that is restricted to a specific interval of lower false positive rate (FPR), the region relevant to follow-up experimental validation. Our predictor uses various features based on sequence information, proteinprotein interaction network topology, and gene expression profiles. A feature selection wrapper was developed to alleviate the over-fitting problem and to weigh each feature’s relevance to prediction. We evaluated our method using the proteome of budding yeast. Our implementation of genetic algorithms maximizing the partial AUC below 0.05 or 0.10 of FPR outperformed other popular classification methods. [BMB Reports 2013; 46(1): 41-46]     

Soil recovery after removal of the N2-fixing invasive Acacia longifolia: consequences for ecosystem restoration

Invasion by Acacia longifolia alters soil characteristics and processes. The present study was conducted to determine if the changes in soil C and N pools and processes induced by A. longifolia persist after its removal, at the São Jacinto Dunes Nature Reserve (Portugal). Some areas had been invaded for a long time (>20 years) and others more recently (<10 years). For each type of invasion, (i.e., long-invaded and recently invaded), three treatments were used: (1) A. longifolia left intact; (2) A. longifolia was removed; and (3) both A. longifolia and litter layer were removed. Soil samples were collected once a year for four and half years and analysed for chemical and microbial properties. In general, microbial parameters responded faster than C and N pools. In long-invaded areas, two and half years after removal of plants and litter, basal respiration and microbial biomass had already decreased >30%, β-glucosaminidase activity (N mineralization index) >60% and potential nitrification >95%. Removal of plants and litter resulted in a >35% decrease in C and N content after four and half years. In recently invaded areas, β-glucosaminidase activity and potential nitrification showed a marked decrease (>54% and >95%, respectively) after removal of both A. longifolia and litter. Our results suggest that after removal of an N₂-fixing invasive tree that changes ecosystem-level processes, it takes several years before soil nutrients and processes return to pre-invasion levels, but this legacy slowly diminish, suggesting that the susceptibility of native areas to (re)invasion is a function of the time elapsed since removal. Removal of the N-rich litter layer facilitates ecosystem recovery.     

Augmented Partial Diallel Cross Based on Circulant Sample

At present, the parents are included in the experimental material for judging the performance of crosses over parents and for calculation of heterosis but they are ignored for combining ability analysis of Partial Diallel Crosses due to the non-availability of the method of analysis for such designs. To satisfy the practical need of the breeders on one hand and to remove the statistical objections on the other hand, a method of analysis of Partial Diallel Crosses based on circulant sample including parents has been presented in this paper. A numerical example is given for llustration of technique.