Augmented annotation and orthologue analysis for Oryctolagus cuniculus: Better Bunny

Abstract Background The rabbit is an important model organism used in a wide range of biomedical research. However, the rabbit genome is still sparsely annotated, thus prohibiting extensive functional analysis of gene sets derived from whole-genome experiments. We developed a web-based application that provides augmented annotation and orthologue analysis for rabbit genes. Importantly, the application allows comprehensive functional analysis through the use of orthologous relationships. Results Using data extracted from several public bioinformatics repositories we created Better Bunny, a database and query tool that extensively augments the available functional annotation for rabbit genes. Using the complete set of target genes from a commercial rabbit gene expression microarray as our benchmark, we are able to obtain functional information for 88 % of the genes on the microarray. Previously, functional information was available for fewer than 10 % of the rabbit genes. Conclusions We have developed a freely available, web-accessible bioinformatics tool that enables investigators to quickly and easily perform extensive functional analysis of rabbit genes (http://cptweb.cpt.wayne.edu). The software application fills a critical void for a wide range of biomedical research that relies on the rabbit model and requires characterization of biological function for large sets of genes

Evaluation of the accuracy, precision and validity of hydrophylic vinyl polysiloxane impression material for bite mark analysis

The present study was undertaken to assess the accuracy, precision and validity of hydrophilic Vinyl Poly Siloxane [VPS] impression material for bite mark documentation and analysis. Medium body VPS impressions of maxillary and mandibular anterior teeth among thirty subjects were taken and dental stone casts prepared. Hollow volume overlays were made and metric analysis was done using advanced imaging software like Adobe Photoshop - 9 and Image J. These values were compared to the measurements taken from bite mark impressions of the same 30 individuals on wax wafers using light body VPS material. The mean differences in the parameters measured by the different techniques were compared using Intra Class Correlation Coefficients [ICCC]. Additionally validity parameters such as sensitivity, specificity, positive and negative predictive value were computed

Magnetic and Low Temperature Conductivity Studies in Oxidized Nano Ni Films

A set of single layered nanostructured Ni films of thickness, t = 25 nm, 50 nm, 75 nm and 100 nm have been deposited using electron beam gun evaporation technique at 473 K under high vacuum condition. From the grazing incidence X-ray diffraction (GIXRD) studies, NiO phase formation has been noted. Grain sizes of the films were determined. The microstructure was examined by scanning electron microscope (SEM) studies. Average surface roughness was determined by atomic force microscope (AFM). The room temperature magnetization has been measured using the vibrating sample magnetometer (VSM). The coercive field was observed to be increasing with increasing t and became maximum for t = 75 nm and decreases for further increase in t. The behavior of coercive field with t indicated softness of the films. Low temperature electrical conductivity in the range from 5 K to 300 K has been measured. Temperature dependence of electrical conductivity showed semiconducting behavior. At temperatures above θD/2 (θD is the Debye temperature), the conductivity behavior has been understood in the light of Mott’s small polaron hopping model and activation energies were determined. An attempt has been made to understand conductivity variation below θD/2 using variable range hopping models due to Mott and Greaves. When you are citing the document, use the following link http://essuir.sumdu.edu.ua/handle/123456789/2371

Two-photon calcium imaging during fictive navigation in virtual environments

A full understanding of nervous system function requires recording from large populations of neurons during naturalistic behaviors. Here we enable paralyzed larval zebrafish to fictively navigate two-dimensional virtual environments while we record optically from many neurons with two-photon imaging. Electrical recordings from motor nerves in the tail are decoded into intended forward swims and turns, which are used to update a virtual environment displayed underneath the fish. Several behavioral features—such as turning responses to whole-field motion and dark avoidance—are well-replicated in this virtual setting. We readily observed neuronal populations in the hindbrain with laterally selective responses that correlated with right or left optomotor behavior. We also observed neurons in the habenula, pallium, and midbrain with response properties specific to environmental features. Beyond single-cell correlations, the classification of network activity in such virtual settings promises to reveal principles of brainwide neural dynamics during behavior

Antioxidative Metabolism in the Seedlings of Pigeonpea in Response to Lead and Cadmium Stress

Effects of Pb and Cd stress on antioxidative systems were studied in pigeonpea (Cajanus cajan (L.) Millspaugh) cultivars T21 and LRG30. The seeds were grown under different concentrations of Pb and Cd for 8-days and activities of enzymes including superoxide dismutase, peroxidase, catalase, glutathione reductase, malate dehydrogenase were assayed. In addition, quantitative estimations of ascorbic acid and glutathione were also carried out in control and Pb and Cd treatments of pigeonpea seedlings. The activities of antioxidative enzymes showed a marked increase in response to heavy metal stress. However the ascorbic acid and glutathione content were decreased by increasing heavy metal concentrations. This study revealed that varietal differences play an important role in the plant response to heavy metals.Key words: Antioxidants, cadmium, heavy metal stress, lead, pigeonpea.B. Sujatha and B. Priyadarshini. Antioxidative Metabolism in the Seedlings of Pigeonpea in Response to Lead and Cadmium Stress J Phytol 3/5 (2011) 41-50

Variable host-pathogen compatibility in Mycobacterium tuberculosis.

Mycobacterium tuberculosis remains a major cause of morbidity and mortality worldwide. Studies have reported human pathogens to have geographically structured population genetics, some of which have been linked to ancient human migrations. However, no study has addressed the potential evolutionary consequences of such longstanding human–pathogen associations. Here, we demonstrate that the global population structure of M. tuberculosis is defined by six phylogeographical lineages, each associated with specific, sympatric human populations. In an urban cosmopolitan environment, mycobacterial lineages were much more likely to spread in sympatric than in allopatric patient populations. Tuberculosis cases that did occur in allopatric hosts disproportionately involved high-risk individuals with impaired host resistance. These observations suggest that mycobacterial lineages are adapted to particular human populations. If confirmed, our findings have important implications for tuberculosis control and vaccine development

Fine grained medical image fusion using type-2 fuzzy logic

In recent years, many fast-growing technologies coupled with wide volume of medical data for the digitalization of that data. Thus, researchers have shown their immense interest on Multi-sensor image fusion technologies which convey image information based on data from various sensor modalities into a single image. The image fusion technique is a widespread technique for the diagnosis of medical instrumentation and measurement. Therefore, in this paper we have introduced a novel multimodal sensor medical image fusion method based on type-2 fuzzy logic is proposed using Sugeno model. Moreover, a Gaussian smoothen filter is introduced to extract the detailed information of an image using sharp feature points.Type-2 fuzzy algorithm is used to achieve highly efficient feature points from both the b images to provide high visually classified resultant image. The experimental results demonstrate that the proposed method can achieve better performance than the state-of-the- art methods in terms of visual quality and objective evaluation

Improved control strategy of DFIG-based wind turbines using direct torque and direct power control techniques

This paper presents different control strategies for a variable-speed wind energy conversion system (WECS), based on a doubly fed induction generator. Direct Torque Control (DTC) with Space-Vector Modulation is used on the rotor side converter. This control method is known to reduce the fluctuations of the torque and flux at low speeds in contrast to the classical DTC, where the frequency of switching is uncontrollable. The reference for torque is obtained from the maximum power point tracking technique of the wind turbine. For the grid-side converter, a fuzzy direct power control is proposed for the control of the instantaneous active and reactive power. Simulation results of the WECS are presented to compare the performance of the proposed and classical control approaches.Peer reviewedFinal Accepted Versio