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- Grüning, Björn, et al.
(författare)
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Bioconda: A sustainable and comprehensive software distribution for the life sciences
- 2017
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Annan publikation (övrigt vetenskapligt/konstnärligt)abstract
- We present Bioconda (https://bioconda.github.io), a distribution of bioinformatics software for the lightweight, multi-platform and language-agnostic package manager Conda. Currently, Bioconda offers a collection of over 3000 software packages, which is continuously maintained, updated, and extended by a growing global community of more than 200 contributors. Bioconda improves analysis reproducibility by allowing users to define isolated environments with defined software versions, all of which are easily installed and managed without administrative privileges.
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- Lim, Hyeong Uk, et al.
(författare)
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A surrogate model to describe uncertainties in wood floor modal frequencies
- 2019
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Ingår i: Advances in Engineering Materials, Structures and Systems : Innovations, Mechanics and Applications - Proceedings of the 7th International Conference on Structural Engineering, Mechanics and Computation, 2019 - Innovations, Mechanics and Applications - Proceedings of the 7th International Conference on Structural Engineering, Mechanics and Computation, 2019. - : CRC Press. - 9781138386969 - 9780429426506 ; , s. 121-126
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Konferensbidrag (refereegranskat)abstract
- Wooden multi-story buildings have increased their market share in Europe over the last decades, mainly due to their relatively small carbon footprint and rapid onsite construction. Compared to more conventional heavy concrete buildings, wooden buildings are more sensitive to dynamic loads at low frequencies. Moreover, the dynamic response is generally more difficult to predict. This is, for example, due to the variability in the material properties of wood. Since wood is a natural material, local variations in performance occur, even if selected members are taken from the same batch. Also, the cut and treatment of individual members have an impact, and material properties can vary with time due to changing moisture content and aging effects. In this study, we investigate the effect of variability in material properties of joists on the dynamic modal characteristics of wood floors with the help of surrogate models, constructed using polynomial chaos expansion (PCE). These surrogate models are based on computations that use a dynamic reduced-order finite-element (FE) model, calibrated to produce modal outputs consistent with floor vibration experiments. Uncertainty in modal frequencies of the wood floor systems based on the PCE surrogate models is consistent with that found using the FE model in Monte Carlo simulations, which serve to define the “truth” model. However, PCE surrogate models offer significant reduction in computation time compared to FE models, when uncertainty in dynamic behavior needs to be quantified.
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| 7. |
- Lim, Hyeong Uk, et al.
(författare)
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Uncertainty quantification of wood floor system modal frequencies resulting from variable densities in members
- 2023
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Ingår i: Structures. - 2352-0124. ; 53, s. 1425-1434
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Tidskriftsartikel (refereegranskat)abstract
- Low-frequency vibration in a multi-story wood building is of concern because failure in mitigation of such vibration may lead to occupant discomfort. Ultimately, it may cause damage to their health. Variability in material properties of the members of a wooden floor system significantly influences vibration response characteristics such as eigenfrequencies and mode shapes. In this study, we investigate the uncertainty in low-frequency characteristics of a selected wood floor system, resulting from uncertainty in the members’ material properties. We use a surrogate model developed using polynomial chaos expansion, based on a few training samples computed using a finite element model of an experimental-scale structure comprised of seven load-bearing joists of spruce. We estimate the hyperparameters needed for accurate surrogate model development and, with these, we predict probability distributions for each of the floor-system modal frequencies. Also, we perform local and global sensitivity analyses to assess how material property variation affects the modal frequencies. Results confirm the accuracy and efficiency of the developed surrogate models in prediction of the modal frequencies, resulting from uncertainty in wood material properties. The accuracy of the results is comparable to those based on more expensive Monte Carlo simulation.
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- Lindblad-Toh, Kerstin, et al.
(författare)
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Genome sequence, comparative analysis and haplotype structure of the domestic dog.
- 2005
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 438:7069, s. 803-19
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Tidskriftsartikel (refereegranskat)abstract
- Here we report a high-quality draft genome sequence of the domestic dog (Canis familiaris), together with a dense map of single nucleotide polymorphisms (SNPs) across breeds. The dog is of particular interest because it provides important evolutionary information and because existing breeds show great phenotypic diversity for morphological, physiological and behavioural traits. We use sequence comparison with the primate and rodent lineages to shed light on the structure and evolution of genomes and genes. Notably, the majority of the most highly conserved non-coding sequences in mammalian genomes are clustered near a small subset of genes with important roles in development. Analysis of SNPs reveals long-range haplotypes across the entire dog genome, and defines the nature of genetic diversity within and across breeds. The current SNP map now makes it possible for genome-wide association studies to identify genes responsible for diseases and traits, with important consequences for human and companion animal health.
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- Mikkelsen, Tarjei S, et al.
(författare)
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Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
- 2007
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 447:7141, s. 167-177
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Tidskriftsartikel (refereegranskat)abstract
- We report a high-quality draft of the genome sequence of the grey, short-tailed opossum (Monodelphis domestica). As the first metatherian ('marsupial') species to be sequenced, the opossum provides a unique perspective on the organization and evolution of mammalian genomes. Distinctive features of the opossum chromosomes provide support for recent theories about genome evolution and function, including a strong influence of biased gene conversion on nucleotide sequence composition, and a relationship between chromosomal characteristics and X chromosome inactivation. Comparison of opossum and eutherian genomes also reveals a sharp difference in evolutionary innovation between protein-coding and non-coding functional elements. True innovation in protein-coding genes seems to be relatively rare, with lineage-specific differences being largely due to diversification and rapid turnover in gene families involved in environmental interactions. In contrast, about 20% of eutherian conserved non-coding elements (CNEs) are recent inventions that postdate the divergence of Eutheria and Metatheria. A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation.
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