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- Elsik, Christine G., et al.
(author)
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The Genome Sequence of Taurine Cattle : A Window to Ruminant Biology and Evolution
- 2009
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In: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 324:5926, s. 522-528
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Journal article (peer-reviewed)abstract
- To understand the biology and evolution of ruminants, the cattle genome was sequenced to about sevenfold coverage. The cattle genome contains a minimum of 22,000 genes, with a core set of 14,345 orthologs shared among seven mammalian species of which 1217 are absent or undetected in noneutherian (marsupial or monotreme) genomes. Cattle-specific evolutionary breakpoint regions in chromosomes have a higher density of segmental duplications, enrichment of repetitive elements, and species-specific variations in genes associated with lactation and immune responsiveness. Genes involved in metabolism are generally highly conserved, although five metabolic genes are deleted or extensively diverged from their human orthologs. The cattle genome sequence thus provides a resource for understanding mammalian evolution and accelerating livestock genetic improvement for milk and meat production.
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| 5. |
- Berglund, Ann-Charlotte, et al.
(author)
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Combining local and grid resources in scientific workflows (for Bioinformatics)
- 2009
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Conference paper (peer-reviewed)abstract
- We examine some issues that arise when using both local and Gridresources in scientific workflows. Our previous work addresses and illustratesthe benefits of a light-weight and generic workflow engine that manages andoptimizes Grid resource usage. Extending on this effort, we hereillustrate how a client tool for bioinformatics applications employs the engine tointerface with Grid resources. We also explore how to define data flowsthat transparently integrates local and Grid subworkflows. In addition, the benefits of parameter sweep workflows are examined and a means for describing this type of workflows in an abstract and concise manner is introduced. Finally, the above mechanisms are employed to perform an orthology detection analysis.
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| 6. |
- El-Daoushy, Farid, et al.
(author)
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Speciation Gamma-Spectrometry : the Fate of Environmental Radio-Nuclides in Hard-Water Lakes
- 2005
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In: Physica scripta. T. - 0281-1847. ; T118, s. 35-
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Journal article (peer-reviewed)abstract
- A sequential fractionation method for simultaneous and absolute measurement of environmental radio-nuclides, 241Am, 210Pb, 226Ra, 137Cs, 40K and 234Th/238U, by gamma-spectrometry was tested and applied to hard-water lake-sediments. The carbonate, fulvic, humic and mineral insoluble fractions were extracted from the sediments. Correction of self-absorption and geometrical effects, arising from the conditioning of bulk and fractionated sediments, were done using Monte Carlo simulations. This "non-destructive" fractionation procedure allows further analysis of other chemical species in the same fractions thus creating possibilities to study the dynamics of self-cleaning mechanism in lakes. The results demonstrate that the procedure is quantitative and suitable for the determination of environmental key radio-tracers in different fractions. Unlike other fresh-water sediments the major part of the environmental radio-nuclides is associated with "mineral" fractions. This speciation gamma-spectrometry procedure was supplemented by isotope-dilution alpha-spectrometry 210Po (210Pb), for determining the acid-soluble organic fractions in fresh-water lakes. The overall speciation procedure demonstrated that carbonate fractions, extracted from hard-water lake sediments, could be separated either free from, or associated with, fulvic-compounds. This speciation procedure can be applied to other aquatic deposits, however supplementary steps can be added if other data are required.
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| 7. |
- Elmroth, Erik, 1964-, et al.
(author)
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A light-weight Grid workflow execution service enabling client and middleware independence
- 2008
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In: Parallel Processing and Applied Mathematics. - Berlin, Heidelberg : Springer-Verlag. ; , s. 754-761
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Conference paper (peer-reviewed)abstract
- We present a generic and light-weight Grid workflow execution engine made available as a Grid service. A long-term goal is to facilitate the rapid development of application-oriented end-user workflow tools, while providing a high degree of Grid middleware-independence. The workflow engine is designed for workflow execution, independent of client tools for workflow definition. A flexible plugin-structure for middleware-integration provides a strict separation of the workflow execution and the processing of individual tasks, such as computational jobs or file transfers. The light-weight design is achieved by focusing on the generic workflow execution components and by leveraging state-of-the art Grid technology, e.g., for state management. The current prototype is implemented using the Globus Toolkit 4 (GT4) Java WS Core and has support for executing workflows produced by Karajan. It also includes plugins for task execution with GT4 as well as a high-level Grid job management framework.
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| 8. |
- Elmroth, Erik, 1964-, et al.
(author)
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Designing service-based resource management tools for a healthy grid ecosystem
- 2008
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In: Parallel processing and applied mathematics. - Berlin, Heidelberg : Springer-Verlag. ; , s. 259-270
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Conference paper (peer-reviewed)abstract
- We present an approach for development of Grid resource management tools, where we put into practice internationally established high-level views of future Grid architectures. The approach addresses fundamental Grid challenges and strives towards a future vision of the Grid where capabilities are made available as independent and dynamically assembled utilities, enabling run-time changes in the structure, behavior, and location of software. The presentation is made in terms of design heuristics, design patterns, and quality attributes, and is centered around the key concepts of co-existence, composability, adoptability, adaptability, changeability, and interoperability. The practical realization of the approach is illustrated by five case studies (recently developed Grid tools) high-lighting the most distinct aspects of these key concepts for each tool. The approach contributes to a healthy Grid ecosystem that promotes a natural selection of “surviving” components through competition, innovation, evolution, and diversity. In conclusion, this environment facilitates the use and composition of components on a per-component basis.
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| 10. |
- Oppenheimer, Federico, et al.
(author)
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Health-Related Quality of Life of Patients Receiving Low-toxicity Immunosuppressive Regimens:. A Substudy of the Symphony Study
- 2009
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In: Transplantation. - 1534-6080. ; 87:8, s. 1210-1213
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Journal article (peer-reviewed)abstract
- Objective. To evaluate health-related quality of life (HRQoL) in patients with different low-toxicity regimens post-transplantation. Methods. One hundred fifty-six patients were randomized to standard-dose cyclosporine A (CsA), mycophenolate mofetil, and corticosteroids or daclizumab induction, mycophenolate mofetil, and corticosteroids with a low dose of CsA, tacrolimus (Low-Tac), or sirolimus. SF-36 Health survey was completed at baseline, 3, 6, and 12 months. Results. There were no differences between groups in SF-36 at baseline or at month 12. Low-Tac showed higher scores at month 3 than standard-dose CsA and low dose of CsA. Patients with serum creatinine less than or equal to 1.5 mg/mL had better HRQoL at 6 and 12 months. Proportion of these patients was higher in Low-Tac at 6 months. Physical component summary of Patients increased during follow-up, but mental component summary did not. Patients with acute rejection showed lower mental component summary at 6 months. Conclusions. No HRQoL differences were identified among groups, but the low-dose Tac group showed the fastest improvement.
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