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Routine Tool (routine + tool)
Selected AbstractsThe Application of Geographic Information Systems and Global Positioning Systems in Humanitarian Emergencies: Lessons Learned, Programme Implications and Future ResearchDISASTERS, Issue 2 2003Reinhard Kaiser Geographic information systems (GIS), global positioning systems and remote sensing have been increasingly used in public health settings since the 1990s, but application of these methods in humanitarian emergencies has been less documented. Recent areas of application of GIS methods in humanitarian emergencies include hazard, vulnerability, and risk assessments; rapid assessment and survey methods; disease distribution and outbreak investigations; planning and implementation of health information systems; data and programme integration; and programme monitoring and evaluation. The main use of GIS in these areas is to provide maps for decision-making and advocacy, which allow overlaying types of information that may not normally be linked. GIS is also used to improve data collection in the field (for example, for rapid health assessments or mortality surveys). Development of GIS methods requires further research. Although GIS methods may save resources and reduce error, initial investment in equipment and capacity building may be substantial. Especially in humanitarian emergencies, equipment and methodologies must be practical and appropriate for field use. Add-on software to process GIS data needs to be developed and modified. As equipment becomes more user-friendly and costs decrease, GIS will become more of a routine tool for humanitarian aid organisations in humanitarian emergencies, and new and innovative uses will evolve. [source] A simple polyacrylamide gel electrophoresis procedure for separation of polyamidoamine dendrimersELECTROPHORESIS, Issue 16 2003Ajit Sharma Abstract A simple, inexpensive, and rapid electrophoresis technique was developed for use as a routine tool for evaluating purity of polyamidoamine (PAMAM) dendrimers. A variety of factors influencing migration of generations 0,7 dendrimers on nongradient polyacrylamide gels were evaluated. The low generation dendrimers were found to be very sensitive to diffusion during or after electrophoresis. The proposed method incorporates steps that minimize diffusion, in order to obtain improved resolution and sensitivity, especially for the lower-molecular-weight dendrimers. This was accomplished by inclusion of a dendrimer fixation step with glutaraldehyde and performing the electrophoresis separation, fixation, staining, and destaining at 4°C. PAMAM dendrimer separation was studied under basic and acidic conditions. Electrophoresis under acidic conditions gave increased resolution and sensitivity over separation at alkaline pH. Oligomers and trailing generations could be clearly separated and visualized under these conditions. The smallest PAMAM dendrimer, generation 0, was visible at 1.5 ,g under the optimized acidic conditions. With slight modifications, this technique should be applicable to separation of other water-soluble dendrimers. [source] Single-crystal structure validation with the program PLATONJOURNAL OF APPLIED CRYSTALLOGRAPHY, Issue 1 2003A. L. Spek The results of a single-crystal structure determination when in CIF format can now be validated routinely by automatic procedures. In this way, many errors in published papers can be avoided. The validation software generates a set of ALERTS detailing issues to be addressed by the experimenter, author, referee and publication journal. Validation was pioneered by the IUCr journal Acta Crystallographica Section C and is currently standard procedure for structures submitted for publication in all IUCr journals. The implementation of validation procedures by other journals is in progress. This paper describes the concepts of validation and the classes of checks that are carried out by the program PLATON as part of the IUCr checkCIF facility. PLATON validation can be run at any stage of the structure refinement, independent of the structure determination package used, and is recommended for use as a routine tool during or at least at the completion of every structure determination. Two examples are discussed where proper validation procedures could have avoided the publication of incorrect structures that had serious consequences for the chemistry involved. [source] Transcription-mediated amplification linked to line probe assay as a routine tool for HCV typing in clinical laboratories,JOURNAL OF CLINICAL LABORATORY ANALYSIS, Issue 5 2007R.S. Ross Abstract Typing of hepatitis C virus (HCV) isolates is currently a prerequisite for adequate tailoring of antiviral combination therapy. In many diagnostic laboratories, there seems to be a tendency toward convenient and time-saving procedures utilizing amplification products, which are already available from preceding qualitative or quantitative HCV ribonucleic acid (RNA) assays. In this context, we evaluated the performance characteristics of a combination of techniques, i.e., transcription-mediated amplification-line probe assay (TMA-LiPA), which links highly sensitive TMA of HCV RNA to the VERSANT HCV Genotype Assay (version 1). A total of 100 clinical samples were genotyped by TMA-LiPA. The obtained results were compared to those recorded by the original, nested reverse transcription (RT)-polymerase chain reaction (PCR)-based VERSANT assay, the core-related GEN-ETI-K DEIA, and phylogenetic analyses of partial sequences from the HCV core and NS5B regions. TMA-LiPA assigned the correct genotype to all 100 HCV isolates. For subtyping of genotype 1 and 2 isolates, TMA-LiPA only showed discriminatory powers of 82% and 53%, respectively. Thus, TMA-LiPA in our hands turned out as a convenient and time-saving routine procedure for HCV typing which currently provides sufficient information for clinical purposes. Like all 5,untranslated region (UTR)-based assays, the technique is limited, however, in its potentials to resolve the complexity of existing HCV subtypes. J. Clin. Lab. Anal. 21:340,347, 2007. © 2007 Wiley-Liss, Inc. [source] Relativistic energy-consistent pseudopotentials,Recent developmentsJOURNAL OF COMPUTATIONAL CHEMISTRY, Issue 8 2002Hermann Stoll Abstract The direct adjustment of two-component pseudopotentials (scalar-relativistic + spin-orbit potentials), to atomic total energy valence spectra derived from four-component multiconfiguration Dirac,Hartree,Fock all-electron calculations based on the Dirac,Coulomb,Breit Hamiltonian, has been made a routine tool for an efficient treatment of heavy main-group elements. Both large-core (nsp valence shell) and small-core ((n , 1)spd nsp valence shell) potentials have been generated for all the post- d elements of groups 13,17. At the example of lead and bismuth compounds (PbHal, BiH, BiO, BiHal (Hal = F, Cl, Br, I)), we show how small-core and large-core potentials can be combined in accurate, yet computationally economic, spin-free-state-shifted relativistic electronic structure calculations of molecular ground and excited states. © 2002 Wiley Periodicals, Inc. J Comput Chem 23: 767,778, 2002 [source] Staining methods for magnetic resonance microscopy of the rat fetusJOURNAL OF MAGNETIC RESONANCE IMAGING, Issue 6 2007Alexandra Petiet MS Abstract Purpose To develop a magnetic resonance histology (MRH) staining and fixation method by immersion to enhance the signal-to-noise ratio (SNR) with a paramagnetic contrast agent permitting microscopic acquisition within a 3-hour scan time. Materials and Methods Methods were optimized for embryonic day 18.5 (E18.5) rat fetuses and imaging at 9.4T with an RF refocused spin-echo pulse sequence (TR/TE = 75 msec/5.2 msec). Fixation/staining was performed by immersion in Bouin's fixative containing varied concentrations of ProHance (from 10:1 to 500:1 Bouin's:ProHance) and for varied immersion durations (up to 24 hours). Results The results showed a significant change in T1 and T2 relaxation times as a function of concentration of contrast agent and immersion duration. As the contrast agent penetrated the tissues, T1 was reduced as desired (typically by 10×), but at the same time T2 was profoundly reduced (typically by 3×) due to both protein cross-linking from the fixative and the high concentration of contrast agent. A systematic assessment of this staining protocol showed an increased SNR (by 5×) over that in unstained specimens. Conclusion This staining protocol reduced scan time for very-high-resolution images (19.5 ,m) to only 3 hours, making MRH a routine tool for evaluating fetal development. J. Magn. Reson. Imaging 2007;25:1192,1198. © 2007 Wiley-Liss, Inc. [source] Application of protein engineering to enhance crystallizability and improve crystal propertiesACTA CRYSTALLOGRAPHICA SECTION D, Issue 5 2010Zygmunt S. Derewenda Until recently, protein crystallization has mostly been regarded as a stochastic event over which the investigator has little or no control. With the dramatic technological advances in synchrotron-radiation sources and detectors and the equally impressive progress in crystallographic software, including automated model building and validation, crystallization has increasingly become the rate-limiting step in X-ray diffraction studies of macromolecules. However, with the advent of recombinant methods it has also become possible to engineer target proteins and their complexes for higher propensity to form crystals with desirable X-ray diffraction qualities. As most proteins that are under investigation today are obtained by heterologous overexpression, these techniques hold the promise of becoming routine tools with the potential to transform classical crystallization screening into a more rational high-success-rate approach. This article presents an overview of protein-engineering methods designed to enhance crystallizability and discusses a number of examples of their successful application. [source] | |||||||||||||