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ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models
ModelTest-NG is a reimplementation from scratch of jModelTest and ProtTest, two popular tools for selecting the best-fit nucleotide and amino acid substitution models, respectively. ModelTest-NG is one to two orders of magnitude faster than jModelTest and ProtTest but equally accurate and introduces several new features, such as ascertainment bias correction, mixture, and free-rate models, or the automatic processing of single partitions. ModelTest-NG is available under a GNU GPL3 license at https://github.com/ddarriba/modeltest, last accessed September 2, 2019.
Journal Article
Current trends in supercritical fluid chromatography
Supercritical fluid chromatography (SFC), which employs pressurized carbon dioxide as the major component of the mobile phase, has been known for several decades but has faced a significant resurgence of interest in the recent years, thanks to the development of modern instruments to comply with current expectations in terms of robustness and sensitivity. This review is focused on the recent literature, specifically since the introduction of modern systems but in relation to older literature, to identify the changing trends in application domains. Typically, natural products, bioanalysis, food science, and environmental analyses are all strongly increasing. Together with reduced extra-column volumes in the instruments, the advent of sub-2-μm particles and superficially porous particles in the stationary phases is favoring ultra-high-performance SFC (UHPSFC) allowing for improved resolution and faster analyses, but without the constraints of viscous liquids encountered in ultra-high-performance liquid chromatography (UHPLC). Hyphenation to mass spectrometry is also more frequent and opened the way to new application domains, and raises different issues from liquid chromatography mobile phases, especially due to decompression of carbon dioxide. It is also shown that the frontiers between SFC and HPLC are fading, as switching from one method to the other, even within the course of a single analysis, is facilitated my modern instruments. The present review is not intended to be exhaustive but rather giving a snapshot of recent trends in supercritical fluid chromatography, based on the observation of about 500 papers published in English-written peer-reviewed journals from 2014 to 2018.
Journal Article
Running applications on Oracle Exadata : tuning tips & techniques
\"Best practices for peak OLTP performance\"--Page 1 of cover.
Book
Materials for Production of High and Ultra-High Performance Concrete: Review and Perspective of Possible Novel Materials
This review article proposes the identification and basic concepts of materials that might be used for the production of high-performance concrete (HPC) and ultra-high-performance concrete (UHPC). Although other reviews have addressed this topic, the present work differs by presenting relevant aspects on possible materials applied in the production of HPC and UHPC. The main innovation of this review article is to identify the perspectives for new materials that can be considered in the production of novel special concretes. After consulting different bibliographic databases, some information related to ordinary Portland cement (OPC), mineral additions, aggregates, and chemical additives used for the production of HPC and UHPC were highlighted. Relevant information on the application of synthetic and natural fibers is also highlighted in association with a cement matrix of HPC and UHPC, forming composites with properties superior to conventional concrete used in civil construction. The article also presents some relevant characteristics for the application of HPC and UHPC produced with alkali-activated cement, an alternative binder to OPC produced through the reaction between two essential components: precursors and activators. Some information about the main types of precursors, subdivided into materials rich in aluminosilicates and rich in calcium, were also highlighted. Finally, suggestions for future work related to the application of HPC and UHPC are highlighted, guiding future research on this topic.
Journal Article
Fame
Passions will be tested and young hearts will be broken. Ultimately, talent, dedication and hard work will triumph. Centers around a group of dancers, singers, musicians and actors at the New York City High School of Performing Arts, and their spirited drive to live out their dreams of stardom. In an incredibly competitive atmosphere, each student must shine amidst the tumult of school work, deep friendships, budding romance and self-discovery.
DVD
Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research
Ultra-high-performance liquid chromatography high-resolution mass spectrometry (UHPLC–HRMS) variants currently represent the best tools to tackle the challenges of complexity and lack of comprehensive coverage of the metabolome. UHPLC offers flexible and efficient separation coupled with high-sensitivity detection via HRMS, allowing for the detection and identification of a broad range of metabolites. Here we discuss current common strategies for UHPLC–HRMS-based metabolomics, with a focus on expanding metabolome coverage.This Review surveys ultra-high-performance liquid chromatography high-resolution mass spectrometry (UHPLC–HRMS), a highly sensitive, high-throughput technique that is used for analyzing a broad range of metabolites.
Journal Article
Development of a plasma pseudotargeted metabolomics method based on ultra-high-performance liquid chromatography–mass spectrometry
Untargeted methods are typically used in the detection and discovery of small organic compounds in metabolomics research, and ultra-high-performance liquid chromatography–high-resolution mass spectrometry (UHPLC-HRMS) is one of the most commonly used platforms for untargeted metabolomics. Although they are non-biased and have high coverage, untargeted approaches suffer from unsatisfying repeatability and a requirement for complex data processing. Targeted metabolomics based on triple-quadrupole mass spectrometry (TQMS) could be a complementary tool because of its high sensitivity, high specificity and excellent quantification ability. However, it is usually applicable to known compounds: compounds whose identities are known and/or are expected to be present in the analyzed samples. Pseudotargeted metabolomics merges the advantages of untargeted and targeted metabolomics and can act as an alternative to the untargeted method. Here, we describe a detailed protocol of pseudotargeted metabolomics using UHPLC-TQMS. An in-depth, untargeted metabolomics experiment involving multiple UHPLC-HRMS runs with MS at different collision energies (both positive and negative) is performed using a mixture obtained using small amounts of the analyzed samples. XCMS, CAMERA and Multiple Reaction Monitoring (MRM)-Ion Pair Finder are used to find and annotate peaks and choose transitions that will be used to analyze the real samples. A set of internal standards is used to correct for variations in retention time. High coverage and high-performance quantitative analysis can be realized. The entire protocol takes ~5 d to complete and enables the simultaneously semiquantitative analysis of 800–1,300 metabolites.
In pseudotargeted metabolomics, transitions used for multiple-reaction monitoring are chosen from mass spectrometry data obtained using mixtures of real samples. Semiquantitative information is obtained without knowing the identity of the compounds.
Journal Article
Selection of the HPLC method in chemical analysis
This title serves as a practical guide to users of high performance liquid chromatography, providing exacting criteria for method selection, development, and validation. High performance liquid chromatography is the most common analytical technique currently practiced in chemistry. However, the process of finding the appropriate information for a particular analytical project requires significant effort and pre-existent knowledge in the field. Further, sorting through the wealth of published data and literature takes both time and effort away from the critical aspects of HPLC method selection. This book, for the first time, presents a systematic approach for sorting through the available information, also providing a critical analysis of the progress in HPLC for selecting a specific analysis.
eBook