REEF: searching REgionally Enriched Features in genomes

BACKGROUND: In Eukaryotic genomes, different features including genes are not uniformly distributed. The integration of annotation information and genomic position of functional DNA elements in the Eukaryotic genomes opened the way to test novel hypotheses of higher order genome organization and regulation of expression. RESULTS: REEF is a new tool, aimed at identifying genomic regions enriched in specific features, such as a class or group of genes homogeneous for expression and/or functional characteristics. The method for the calculation of local feature enrichment uses test statistic based on the Hypergeometric Distribution applied genome-wide by using a sliding window approach and adopting the False Discovery Rate for controlling multiplicity. REEF software, source code and documentation are freely available at . CONCLUSION: REEF can aid to shed light on the role of organization of specific genomic regions in the determination of their functional role

A multipurpose leguminous plant for the mediterranean countries: Leucaena leucocephala as an alternative protein source: a review

SIMPLE SUMMARY: The need to address the shortage of protein ingredients linked to both territoriality and growing demand pushes research to focus attention on alternative protein sources, both vegetable and animal (insects). This review describes the characteristics, uses, strengths, and weaknesses of Leucaena leucocephala, a legume that can be used in the zootechnical field as an alternative to traditional protein sources for feed formulation. ABSTRACT: In tropical and subtropical regions, as well as in the internal and/or marginal Mediterranean areas, one of the most important problems related to animal production is represented by the inadequate nutritional supplies. The low productivity of the animals, often connected to reduced annual growth, is, in fact, not infrequently attributable to the low nitrogen content and the high fiber content of the local plant species and crop residues that constitute the base ingredients of the rations commonly adopted by farmers. The use of the supplementation with arboreal and shrub fodder, although often containing anti-nutritional factors and toxins that limit its use, could be a profitable way to alleviate the nutritional deficiencies of the basic diets. Leucaena leucocephala (Lam.) De Wit is native to Central America and widely naturalized in the majority of Latin American countries. It is a legume suitable for tropical and subtropical environments including the countries of the Mediterranean area. Moreover, its spread is desirable if we consider the multiple uses to which it is suitable, the considerable amount of biomass produced, and its role in preserving the environment. The aim of this work was to highlight the characteristics of Leucaena that can justify its wide diffusion. A structured analysis of strengths and weaknesses was performed accordingly. Being a good protein source for feeding livestock, it could be a species to be introduced in the inland areas of the Mediterranean countries as an alternative protein source; the limit represented by the presence of anti-nutritional factors could be overcome by feed processing and by launching targeted research programs

particle size evaluation of total mixed rations in intensive beef production systems

AbstractSamples of total mixed ration (TMR) were collected periodically in 15 beef cattle farms and submitted to a nutritional and particle size evaluation. Samples of faeces were taken and analysed for pH, consistency, colour and visually ranked for corn residues (Corn Residue Index) from 4 (totally digested) to 0 (very high presence of maize residues). Dry matter (DM), crude protein (CP), and ash content of TMR for Limousine were higher than that for Charolaise while an opposite situation was observed for crude fiber (CF). Particle size analysis of TMR showed an higher content of small ( 19.0 mm) particles in Charolaise than in Limousine TMR. From May to September a general increase of larger fractions and a reduction of the smaller ones were observed, as a consequence of empirical practices of TMR formulation during summer. Faeces characteristics did not show any difference between breeds (overall mean pH: 6.00 vs 6.13; Corn Residue Index: 2.90 vs 3.24, respectively for Charolaise a..

Towards a time-reversal mirror for quantum systems

The reversion of the time evolution of a quantum state can be achieved by changing the sign of the Hamiltonian as in the polarization echo experiment in NMR. In this work we describe an alternative mechanism inspired by the acoustic time reversal mirror. By solving the inverse time problem in a discrete space we develop a new procedure, the perfect inverse filter. It achieves the exact time reversion in a given region by reinjecting a prescribed wave function at its periphery.Comment: 6 pages, 4 figures. Introduction modified, references added, one figure added to improve the discussio

Electric Field Controlled Magnetic Anisotropy in a Single Molecule

We have measured quantum transport through an individual Fe$_4$ single-molecule magnet embedded in a three-terminal device geometry. The characteristic zero-field splittings of adjacent charge states and their magnetic field evolution are observed in inelastic tunneling spectroscopy. We demonstrate that the molecule retains its magnetic properties, and moreover, that the magnetic anisotropy is significantly enhanced by reversible electron addition / subtraction controlled with the gate voltage. Single-molecule magnetism can thus be electrically controlled

Comparation Between Pulsed Nd: Yag Laser Superficial Treatment and Ceramic Coating in Creep Test of Ti-6aAl-4V Alloy

The objective of this work was evaluating the creep resistance of the Ti-6Al-4V alloy with superficial treatment of pulsed Nd:YAG laser and ceramic coating in creep test of Ti-6Al-4V alloy. It was used Ti-6Al-4V alloy as cylindrical bars under forged and annealing of 190oC by 6 hours condition and cooled by air. The Ti-6Al-4V alloy after the superficial treatment of pulsed Nd:YAG laser and ceramic coating was submitted to creep tests at 600°C and 125 at 319 MPa, under constant load mode. In the Nd:YAG pulsed laser treatment was used an environment of 40 % N and 60 % Ar, with 2.1 W of power and 10 m/s of speed. Yttria (8 wt.%) stabilized zirconia (YSZ) with a CoNiCrAlY bond coat was atmospherically plasma sprayed on Ti-6Al-4V substrates by Sulzer Metco Type 9 MB. The obtained results suggest the laser treatment on Ti-6Al-4V alloy improved its creep resistance

Role of combined DWIBS/3D-CE-T1w whole-body MRI in tumor staging: Comparison with PET-CT

Objectives: To assess the diagnostic performance of whole-body magnetic resonance imaging (WB-MRI) by diffusion-weighted whole-body imaging with background body signal suppression (DWIBS) in malignant tumor detection and the potential diagnostic advantages in generating fused DWIBS/3D-contrast enhanced T1w (3D-CE-T1w) images. Methods: 45 cancer patients underwent 18F-FDG PET-CT and WB-MRI for staging purpose. Fused DWIBS/3D-CE T1w images were generated off-line. 3D-CE-T1w, DWIBS images alone and fused with 3D-CE T1w were compared by two readers groups for detection of primary diseases and local/distant metastases. Diagnostic performance between the three WB-MRI data sets was assessed using receiver operating characteristic (ROC) curve analysis. Imaging exams and histopathological results were used as standard of references. Results: Areas under the ROC curves of DWIBS vs. 3D-CE-T1w vs. both sequences in fused fashion were 0.97, 0.978, and 1.00, respectively. The diagnostic performance in tumor detection of fused DWIBS/3DCE- T1w images were statistically superior to DWIBS (p < 0.001) and 3D-CE-T1w (p ≤ 0.002); while the difference between DWIBS and 3D-CE-T1w did not show statistical significance difference. Detection rates of malignancy did not differ between WB-MRI with DWIBS and 18F-FDG PET-CT. Conclusion: WB-MRI with DWIBS is to be considered as alternative tool to conventional whole-body methods for tumor staging and during follow-up in cancer patients

Role of PET/CT in the detection of liver metastases from colorectal cancer

The aim of this study was to compare the diagnostic accuracy of 2-[fluorine-18] fluoro-2-deoxy-D-glucose positron emission tomography (F-18-FDG-PET) and computed tomography (CT) with PET/CT in the detection of liver metastases during tumour staging in patients suffering from colorectal carcinoma for the purposes of correct surgical planning and follow-up. A total of 467 patients underwent a PET/CT scan using an iodinated contrast medium. We compared images obtained by the single PET scan, the single CT scan and by the fusion of the two procedures (PET/CT). The final diagnosis was obtained by histological examination and/or by the follow-up of all patients, including those who did not undergo surgery or biopsy. The PET scan had 94.05% sensitivity, 91.60% specificity and 93.36% accuracy; the CT scan had 91.07% sensitivity, 95.42% specificity and 92.29% accuracy. The combined procedures (PET/CT) had the following values: sensitivity 97.92%, specificity 97.71% and accuracy 97.86%. This study indicates that PET/CT is very useful in staging and restaging patients suffering from colorectal cancer. It was particularly useful when recurrences could not be visualised either clinically or by imaging despite increasing tumour markers, as it guaranteed an earlier diagnosis. PET/CT not only provides high diagnostic performance in terms of sensitivity and specificity, enabling modification of patient treatment, but it is also a unique, high-profile procedure that can produce cost savings