Search results for " Tools"
showing 10 items of 331 documents
On the origin of European sheep as revealed by the diversity of the Balkan breeds and by optimizing population-genetic analysis tools
2020
Background In the Neolithic, domestic sheep migrated into Europe and subsequently spread in westerly and northwesterly directions. Reconstruction of these migrations and subsequent genetic events requires a more detailed characterization of the current phylogeographic differentiation. Results We collected 50 K single nucleotide polymorphism (SNP) profiles of Balkan sheep that are currently found near the major Neolithic point of entry into Europe, and combined these data with published genotypes from southwest-Asian, Mediterranean, central-European and north-European sheep and from Asian and European mouflons. We detected clines, ancestral components and admixture by using variants of commo…
Seamless integration of MetaEdit+ and eclipse to combine modeling and coding
2012
Tool integration tries to help users by automating processes in software development. In literature integration is mostly shown from technical point of view leaving user related issues outside. In this paper tool integration is looked also from the perspective of software engineering process and the user involved in the process. Another aspect will be integrating design models and code. A case of tool integration will be presented. The first tool is MetaEdit+ which is a Domain-Specific Modeling environment. The other tool is Eclipse which is used for traditional software engineering. The integration aims to combine the modeling and coding activities which together support metamodelers and m…
Increase in gut microbiota after immune suppression in baculovirus-infected larvae.
2013
Spodoptera exigua microarray was used to determine genes differentially expressed in S. exigua cells challenged with the species-specific baculovirus SeMNPV as well as with a generalist baculovirus, AcMNPV. Microarray results revealed that, in contrast to the host transcriptional shut-off that is expected during baculovirus infection, S. exigua cells showed a balanced number of up- and down-regulated genes during the first 36 hours following the infection. Many immune-related genes, including pattern recognition proteins, genes involved in signalling and immune pathways as well as immune effectors and genes coding for proteins involved in the melanization cascade were found to be down-regul…
Analyzing Illumina Gene Expression Microarray Data from Different Tissues: Methodological Aspects of Data Analysis in the MetaXpress Consortium
2012
Microarray profiling of gene expression is widely applied in molecular biology and functional genomics. Experimental and technical variations make meta-analysis of different studies challenging. In a total of 3358 samples, all from German population-based cohorts, we investigated the effect of data preprocessing and the variability due to sample processing in whole blood cell and blood monocyte gene expression data, measured on the Illumina HumanHT-12 v3 BeadChip array. Gene expression signal intensities were similar after applying the log(2) or the variance-stabilizing transformation. In all cohorts, the first principal component (PC) explained more than 95% of the total variation. Technic…
Listeria monocytogenes Differential Transcriptome Analysis Reveals Temperature-Dependent Agr Regulation and Suggests Overlaps with Other Regulons
2012
Listeria monocytogenes is a ubiquitous, opportunistic pathogenic organism. Environmental adaptation requires constant regulation of gene expression. Among transcriptional regulators, AgrA is part of an auto-induction system. Temperature is an environmental cue critical for in vivo adaptation. In order to investigate how temperature may affect AgrA-dependent transcription, we compared the transcriptomes of the parental strain L. monocytogenes EGD-e and its Delta agrA mutant at the saprophytic temperature of 25 degrees C and in vivo temperature of 37 degrees C. Variations of transcriptome were higher at 37 degrees C than at 25 degrees C. Results suggested that AgrA may be involved in the regu…
Changing commuters’ mobility behaviors of university campuses: environmental and energy comparisons
2021
Governments are required to take proper measures to promote the use of electric and hybrid vehicles and, more generally, to push people towards sweeter modalities including walking and biking. To reach such tight and challenging goals, local institutions should be deeply involved, and universities among them. The promotion of sustainable mobility practices among commuter students must be considered indeed an effective contribution to facilitating the transition towards greener cities. On purpose, students of the University of Palermo that daily commute from their residences to the campus are considered here. These commuters, in fact, mainly adopt traditional polluting transportation means. …
Extracellular Vesicle-Mediated Cell–Cell Communication in the Nervous System: Focus on Neurological Diseases
2019
Extracellular vesicles (EVs), including exosomes, are membranous particles released by cells into the extracellular space. They are involved in cell differentiation, tissue homeostasis, and organ remodelling in virtually all tissues, including the central nervous system (CNS). They are secreted by a range of cell types and via blood reaching other cells whose functioning they can modify because they transport and deliver active molecules, such as proteins of various types and functions, lipids, DNA, and miRNAs. Since they are relatively easy to isolate, exosomes can be characterized, and their composition elucidated and manipulated by bioengineering techniques. Consequently, exosomes appear…
Nanomaterial-based electrochemical immunosensors as advanced diagnostic tools
2014
A literature survey has been made of recent advances in the use of new nanomaterials for the biosensing of different biomolecules, which have opened new horizons in identifying and quantifying biomolecules, for possible early diagnosis of disease. Nanomaterials show similar dimensions to biomolecules like proteins (enzymes, antigens and antibodies) and DNA. The integration of nanomaterials with biomaterials results in novel hybrid nanobiomaterials with synergetic properties and functions. In this review, we will discuss recent progress in the field, describing the basic concepts of nanomaterial-based platforms for development and expansion of immunosensors and nanosensors. We present an ove…
Data Blinding for the nEDM Experiment at PSI
2020
Psychological bias towards, or away from, prior measurements or theory predictions is an intrinsic threat to any data analysis. While various methods can be used to try to avoid such a bias, e.g. actively avoiding looking at the result, only data blinding is a traceable and trustworthy method that can circumvent the bias and convince a public audience that there is not even an accidental psychological bias. Data blinding is nowadays a standard practice in particle physics, but it is particularly difficult for experiments searching for the neutron electric dipole moment (nEDM), as several cross measurements, in particular of the magnetic field, create a self-consistent network into which it …
Materials and Tools across Volcanoes: Exploitation of Georesources in Piano dei Cardoni (Ustica, Italy) during Prehistory.
2021
The paper aims at merging the first results from the analyses of the georesources exploited in the site of Piano dei Cardoni (Ustica island, Italy) during the Neolithic phases of its occupation (Middle-Late Neolithic, 4.7-4.2 ka cal BC). Grinding tools consist of a very varied typology of local volcanic rocks, easy to collect and available very close to the investigated site. A selection of shapes and lithology is applied to reach the best performance of the tools. The elevated number of grinders, pestles, mortars testify to an intense activity of food/plant processing in the site. The absence of chert or obsidian resources on the island pushed the human communities to import such raw ma…