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Downstream Applications (downstream + application)
Selected AbstractsAutomatic CAD model topology generationINTERNATIONAL JOURNAL FOR NUMERICAL METHODS IN FLUIDS, Issue 8 2006Paresh S. Patel Abstract Computer aided design (CAD) models often need to be processed due to the data translation issues and requirements of the downstream applications like computational field simulation, rapid prototyping, computer graphics, computational manufacturing, and real-time rendering before they can be used. Automatic CAD model processing tools can significantly reduce the amount of time and cost associated with the manual processing. The topology generation algorithm, commonly known as CAD repairing/healing, is presented to detect commonly found geometrical and topological issues like cracks, gaps, overlaps, intersections, T-connections, and no/invalid topology in the model, process them and build correct topological information. The present algorithm is based on the iterative vertex pair contraction and expansion operations called stitching and filling, respectively, to process the model accurately. Moreover, the topology generation algorithm can process manifold as well as non-manifold models, which makes the procedure more general and flexible. In addition, a spatial data structure is used for searching and neighbour finding to process large models efficiently. In this way, the combination of generality, accuracy, and efficiency of this algorithm seems to be a significant improvement over existing techniques. Results are presented showing the effectiveness of the algorithm to process two- and three-dimensional configurations. Copyright © 2006 John Wiley & Sons, Ltd. [source] Protein disaggregation and refolding using high hydrostatic pressureJOURNAL OF CHEMICAL TECHNOLOGY & BIOTECHNOLOGY, Issue 7 2007David J Phelps Abstract Production of recombinant proteins often leads to aggregate formation. These aggregates may make it impossible to solubilize the protein for downstream applications such as assay development or structural studies by X-ray crystallography or nuclear magnetic resonance spectroscopy. High hydrostatic pressure technology has been developed which offers significant advantages over traditional methods of protein disaggregation and refolding. Pressure induced disruption of protein aggregates and subsequent refolding can take place at high concentrations in a single process step, without the need for high concentrations of chaotropic agents. Copyright © 2007 Society of Chemical Industry [source] Mining temporal rules for software maintenanceJOURNAL OF SOFTWARE MAINTENANCE AND EVOLUTION: RESEARCH AND PRACTICE, Issue 4 2008David Lo Abstract Software evolution incurs difficulties in program comprehension and software verification, and hence it increases the cost of software maintenance. In this study, we propose a novel technique to mine from program execution traces a sound and complete set of statistically significant temporal rules of arbitrary lengths. The extracted temporal rules reveal invariants that the program observes, and will consequently guide developers to understand the program behaviors, and facilitate all downstream applications such as verification and debugging. Different from previous studies that were restricted to mining two-event rules (e.g., ,lock,,,unlock,), our algorithm discovers rules of arbitrary lengths. In order to facilitate downstream applications, we represent the mined rules as temporal logic expressions, so that existing model checkers or other formal analysis toolkit can readily consume our mining results. Performance studies on benchmark data sets and a case study on an industrial system have been performed to show the scalability and utility of our approach. We performed case studies on JBoss application server and a buggy concurrent versions system application, and the result clearly demonstrates the usefulness of our technique in recovering underlying program designs and detecting bugs. Copyright © 2008 John Wiley & Sons, Ltd. [source] DNA extraction method for PCR in mycorrhizal fungiLETTERS IN APPLIED MICROBIOLOGY, Issue 4 2001S. Manian Aims: To develop a simple and rapid DNA extraction protocol for PCR in mycorrhizal fungi. Methods and Results: The protocol combines the application of rapid freezing and boiling cycles and passage of the extracts through DNA purification columns. PCR amplifiable DNA was obtained from a number of endo- and ecto-mycorrhizal fungi using minute quantities of spores and mycelium, respectively. Conclusions: DNA extracted following the method, was used to successfully amplify regions of interest from high as well as low copy number genes. The amplicons were suitable for further downstream applications such as sequencing and PCR-RFLPs. Significance and Impact of the Study: The protocol described is simple, short and facilitates rapid isolation of PCR amplifiable genomic DNA from a large number of fungal isolates in a single day. The method requires only minute quantities of starting material and is suitable for mycorrhizal fungi as well as a range of other fungi. [source] Application of Laser-Assisted Microdissection for Gene Expression Analysis of Mammalian Germ CellsANATOMIA, HISTOLOGIA, EMBRYOLOGIA, Issue 3 2010R. Kenngott With 1 figure and 2 tables Summary Laser-assisted microdissection (LAM) is an important method to provide new significant insights into many embryological processes. To understand these processes, it is important to obtain specific populations of cells from complex tissue in an efficient and precise manner and to combine with many different molecular biological methods. During the last few years, the sophistication of the techniques of LAM has increased significantly and made the procedure easy to use. New micro-extraction protocols for DNA, RNA and proteins now allow broad downstream applications in the fields of genomics, transcriptomics and proteomics. In this review, we give a short overview of the application of LAM in combination with quantitative qPCR for the analysis of gene expression in mammalian germ cells. [source] Capacity of robot handling for Epstein-Barr virus transformationCELL PROLIFERATION, Issue 1 2009I.-C. Chang Objectives:, Epstein-Barr virus (EBV) transformation has been described as a routine method to establish human B lymphoblastoid cell lines. Each established lymphoblastoid cell line represents one unique genetic information carrier and can produce unlimited quantities of DNA materials available for downstream applications and research. Undoubtedly, it is of great value to human clinical and experimental genetic studies. However, the current process of EBV transformation requires much manpower in the routine renewal of medium, which is time-consuming. This situation can become a serious problem especially when establishing a human B lymphoblastoid cell bank. A modified and cost-effective protocol for EBV transformation should be considered. Materials and methods:, In the present study, process in EBV transformation was modified to fit the requirements of robot handling. Results:, 1 mL of whole blood was demonstrated to be sufficient to perform EBV transformation. Additionally, EBV transformation can performed in 96-deep-well plates that are directly and widely used with automatic work platforms. Conclusions:, Based on these facts, a process of EBV transformation can be modified to fit the requirements of robot handling. [source] | ||||||||||