| 1. |
- Holgersson, G., et al.
(författare)
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Molecular profiling using tissue microarrays as a tool to identify predictive biomarkers in laryngeal cancer treated with radiotherapy
- 2010
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Ingår i: Cancer Genomics & Proteomics. - 1109-6535 .- 1790-6245. ; 7:1, s. 1-7
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Tidskriftsartikel (refereegranskat)abstract
- Aim: To explore the usefulness of the expression of five potential cancer biomarkers in predicting outcome in patients with laryngeal cancer. Materials and Methods: In the present study, the Swedish National Cancer Registry databases were used to identify patients with laryngeal cancer diagnosed during the years 1978-2004 in the Uppsala-Örebro region and treated with radiotherapy. The expression of Ki-67, MutS homolog 2, (MSH2), p53, B-cell CLL/lymphoma 2 (Bcl-2) and cyclin D1 in the cancer cells was assessed immunohistochemically using tissue microarrays (TMAs) and its predictve value on survival and relapse was analyzed using Cox regression models. Results: A total of 39 patients were included in the present study. Nuclear MSH2 staining was statistically significantly correlated to Ki-67 expression (p=0.022). However, univariate and multivariate Cox analyses showed no statistically significant association between the expression of the investigated biomarkers and overall survival or relapse. Conclusion: The present exploratory study does not show any significant predictive value of the biomarkers examined with respect to survival or relapse. However, with larger patient cohorts, we believe that protein profiling using TMAs and immunohistochemistry is a feasible strategy for prognostic and predictive biomarker screening in laryngeal cancer.
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| 2. |
- Liu, X., et al.
(författare)
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Toward a minimal representation of aerosols in climate models : description and evaluation in the Community Atmosphere Model CAM5
- 2012
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Ingår i: Geoscientific Model Development. - : Copernicus GmbH. - 1991-959X .- 1991-9603. ; 5:3, s. 709-739
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Tidskriftsartikel (refereegranskat)abstract
- A modal aerosol module (MAM) has been developed for the Community Atmosphere Model version 5 (CAM5), the atmospheric component of the Community Earth System Model version 1 (CESM1). MAM is capable of simulating the aerosol size distribution and both internal and external mixing between aerosol components, treating numerous complicated aerosol processes and aerosol physical, chemical and optical properties in a physically-based manner. Two MAM versions were developed: a more complete version with seven lognormal modes (MAM7), and a version with three lognormal modes (MAM3) for the purpose of long-term (decades to centuries) simulations. In this paper a description and evaluation of the aerosol module and its two representations are provided. Sensitivity of the aerosol lifecycle to simplifications in the representation of aerosol is discussed. Simulated sulfate and secondary organic aerosol (SOA) mass concentrations are remarkably similar between MAM3 and MAM7. Differences in primary organic matter (POM) and black carbon (BC) concentrations between MAM3 and MAM7 are also small (mostly within 10 %). The mineral dust global burden differs by 10 % and sea salt burden by 30-40 % between MAM3 and MAM7, mainly due to the different size ranges for dust and sea salt modes and different standard deviations of the log-normal size distribution for sea salt modes between MAM3 and MAM7. The model is able to qualitatively capture the observed geographical and temporal variations of aerosol mass and number concentrations, size distributions, and aerosol optical properties. However, there are noticeable biases; e.g., simulated BC concentrations are significantly lower than measurements in the Arctic. There is a low bias in modeled aerosol optical depth on the global scale, especially in the developing countries. These biases in aerosol simulations clearly indicate the need for improvements of aerosol processes (e.g., emission fluxes of anthropogenic aerosols and precursor gases in developing countries, boundary layer nucleation) and properties (e.g., primary aerosol emission size, POM hygroscopicity). In addition, the critical role of cloud properties (e. g., liquid water content, cloud fraction) responsible for the wet scavenging of aerosol is highlighted.
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| 3. |
- Wesslén, Cevilia, et al.
(författare)
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The Arctic summer atmosphere : an evaluation of reanalyses using ASCOS data
- 2014
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Ingår i: Atmospheric Chemistry And Physics. - : Copernicus GmbH. - 1680-7316 .- 1680-7324. ; 14:5, s. 2605-2624
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Tidskriftsartikel (refereegranskat)abstract
- The Arctic has experienced large climate changes over recent decades, the largest for any region on Earth. To understand the underlying reasons for this climate sensitivity, reanalysis is an invaluable tool. The Arctic System Reanalysis (ASR) is a regional reanalysis, forced by ERA-Interim at the lateral boundaries and incorporating model physics adapted to Arctic conditions, developed to serve as a state-of-the-art, high-resolution synthesis tool for assessing Arctic climate variability and monitoring Arctic climate change. We use data from Arctic Summer Cloud-Ocean Study (ASCOS) to evaluate the performance of ASR and ERAInterim for the Arctic Ocean. The ASCOS field experiment was deployed on the Swedish icebreaker Oden north of 87 degrees N in the Atlantic sector of the Arctic during August and early September 2008. Data were collected during the transits from and to Longyearbyen and the 3-week ice drift with Oden moored to a drifting multiyear ice floe. These data are independent and detailed enough to evaluate process descriptions. The reanalyses captures basic meteorological variations coupled to the synoptic-scale systems, but have difficulties in estimating clouds and atmospheric moisture. While ERAInterim has a systematic warm bias in the lowest troposphere, ASR has a cold bias of about the same magnitude on average. The results also indicate that more sophisticated descriptions of cloud microphysics in ASR did not significantly improve the modeling of cloud properties compared to ERA-Interim. This has consequences for the radiation balance, and hence the surface temperature, and illustrate how a modeling problem in one aspect of the atmosphere, here the clouds, feeds back to other parameters, especially near the surface and in the boundary layer.
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| 4. |
- Johansson, Ulf S., 1970-, et al.
(författare)
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A complete multilocus species phylogeny of the tits and chickadees (Aves:Paridae)
- 2013
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Ingår i: Molecular Phylogenetics and Evolution. - : Elsevier BV. - 1055-7903 .- 1095-9513. ; 69:3, s. 852-860
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Tidskriftsartikel (refereegranskat)abstract
- The avian family Paridae (tits and chickadees) contains c. 55 species distributed in the Palearctic, Nearctic, Afrotropics and Indomalaya. The group includes some of the most well-known and extensively studied avian species, and the evolutionary history, in particular the post-glacial colonization of the northern latitudes, has been comparably well-studied for several species. Yet a comprehensive phylogeny of the whole clade is lacking. Here, we present the first complete species phylogeny for the group based on sequence data front two nuclear introns and one mitochondrial gene for 67 taxa of parids. Our results strongly support the inclusion of the Fire-capped Tit (Cephalopyrus flammiceps), currently placed in the Remizidae, as the most basal member of the Paridae. The Yellow-browed Tit (Sylviparus modestus) and the Sultan Tit (Melanochlora sultanea) constitute the next two sequential branches whereas the remaining tits fall into two large clades, one of which contains the seed hoarding and nest excavating species. The indicated clades within these two groups are largely congruent with recent classifications, but with several unforeseen relationships, such as non-monophyly of the Sombre Tit (Poecile lugubris) and the Marsh Tit (Poecile palustris), as well as non-monophyly of both the African gray and the African black tits. Further, our results support a close relationship between the White-fronted Tit (Parus semilarvatus) and the varied Tit (Poecile varius) as well as a close relationship between the White-naped Tit (Parus nuchalis) and the Yellow-cheeked and Black-bred tits (Parus spilonotus and P. xanthogenys). Finally, Hume's Ground-tit (Pseudopodoces humilis) is found to be closely related to the Green-backed Tit (Parus monticolus) and the Great Tit (Parus major). We propose a new classification that is in accordance with this phylogeny.
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| 5. |
- Rudolph, Dirk, et al.
(författare)
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Isospin and Deformation Studies in the Odd-odd N = Z Nucleus 54Co
- 2010
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Ingår i: Physical Review C (Nuclear Physics). - 0556-2813. ; 82:5
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Tidskriftsartikel (refereegranskat)abstract
- High-spin states in the odd-odd N = Z nucleus Co-54 have been investigated by the fusion-evaporation reaction Si-28(S-32,1 alpha 1p1n)Co-54. Gamma-ray information gathered with the Ge detector array Gammasphere was correlated with evaporated particles detected in the charged particle detector system Microball and a 1 pi neutron detector array. A significantly extended excitation scheme of Co-54 is presented, which includes a candidate for the isospin T = 1, 6(+) state of the 1f(7/2)(-2) multiplet. The results are compared to large-scale shell-model calculations in the fp shell. Effective interactions with and without isospin-breaking terms have been used to probe isospin symmetry and isospin mixing. A quest for deformed high-spin rotational cascades proved negative. This feature is discussed by means of cranking calculations.
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| 6. |
- Rudolph, Dirk, et al.
(författare)
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Rotational Bands in the Semi-magic Nucleus 57Ni
- 2010
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Ingår i: Journal of Physics G: Nuclear and Particle Physics. - : IOP Publishing. - 0954-3899 .- 1361-6471. ; 37:7
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Tidskriftsartikel (refereegranskat)abstract
- Two rotational bands have been identified and characterized in the proton-magic N = Z + 1 nucleus Ni-57. These bands complete the systematics of well-and superdeformed rotational bands in the light nickel isotopes starting from doubly magic Ni-56 to Ni-60. High-spin states in Ni-57 have been produced in the fusion-evaporation reaction Si-28(S-32, 2p1n)Ni-57 and studied with the gamma-ray detection array GAMMASPHERE operated in conjunction with detectors for evaporated light charged particles and neutrons. The features of the rotational bands in Ni-57 are compared to those of neighbouring isotopes and interpreted by means of configuration-dependent cranked Nilsson-Strutinsky calculations. The two observed high-spin bands are considered signature partners and assigned to configurations with one 1g(9/2) proton and one 1g(9/2) neutron, resulting in an unambiguous understanding of the energetically favoured signature alpha = -1/2 band but a somewhat less satisfactory description of the signature alpha = +1/2 band.
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| 7. |
- Palice, Zdenek, et al.
(författare)
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Taxonomy of the genus Myrionora, with a second species from South America
- 2013
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Ingår i: The Lichenologist. - 0024-2829 .- 1096-1135. ; 45:2, s. 159-167
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Tidskriftsartikel (refereegranskat)abstract
- A taxonomic and biogeographic overview of the genus Myrionora is provided. Two species are recognized, M. albidula (Willey) R. C. Harris and M. pseudocyphellariae (Etayo) S. Ekman & Palice comb. nov. The genus is characterized by polysporous asci, the presence of crystals in the hymenium and proper exciple that partly consist of lobaric acid, and a photobiont with large cells (mostly in the range 12-20 mu m). Myrionora albidula is currently known from Germany, Norway, Sweden, the Russian Federation (Altayskiy Kray, Chelyabinskaya Oblast', Khabarovskiy Kray and Zabaykal'skiy Kray), and the United States (Alaska, Connecticut, Maine and Massachusetts). It inhabits bark of deciduous trees and shrubs and conifers over a wide range of latitudes. Myrionora pseudocyphellariae is known from Chile and Ecuador, where it has been encountered on lichens and decaying bark. Based on morphological characteristics, we conclude that Myrionora belongs in the Ramalinaceae.
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| 8. |
- Acosta Navarro, Juan Camilo, et al.
(författare)
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Global emissions of terpenoid VOCs from terrestrial vegetation in the last millennium
- 2014
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Ingår i: Journal of Geophysical Research - Atmospheres. - : Wiley-Blackwell. - 2169-897X .- 2169-8996. ; 119:11, s. 6867-6885
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Tidskriftsartikel (refereegranskat)abstract
- We investigated the millennial variability (1000 A.D.-2000 A.D.) of global biogenic volatile organic compound (BVOC) emissions by using two independent numerical models: The Model of Emissions of Gases and Aerosols from Nature (MEGAN), for isoprene, monoterpene, and sesquiterpene, and Lund-Potsdam-Jena-General Ecosystem Simulator (LPJ-GUESS), for isoprene and monoterpenes. We found the millennial trends of global isoprene emissions to be mostly affected by land cover and atmospheric carbon dioxide changes, whereas monoterpene and sesquiterpene emission trends were dominated by temperature change. Isoprene emissions declined substantially in regions with large and rapid land cover change. In addition, isoprene emission sensitivity to drought proved to have significant short-term global effects. By the end of the past millennium MEGAN isoprene emissions were 634 TgC yr-1 (13% and 19% less than during 1750-1850 and 1000-1200, respectively), and LPJ-GUESS emissions were 323 TgC yr-1(15% and 20% less than during 1750-1850 and 1000-1200, respectively). Monoterpene emissions were 89 TgC yr-1(10% and 6% higher than during 1750-1850 and 1000-1200, respectively) in MEGAN, and 24 TgC yr-1 (2% higher and 5% less than during 1750-1850 and 1000-1200, respectively) in LPJ-GUESS. MEGAN sesquiterpene emissions were 36 TgC yr-1(10% and 4% higher than during 1750-1850 and 1000-1200, respectively). Although both models capture similar emission trends, the magnitude of the emissions are different. This highlights the importance of building better constraints on VOC emissions from terrestrial vegetation.
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| 9. |
- Ekman, M., et al.
(författare)
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Tool qualification for safety related systems
- 2014
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Ingår i: Ada User Journal. - 1381-6551. ; 35, s. 47-54
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Tidskriftsartikel (refereegranskat)abstract
- Tools used in the development of safety related software applications need to be qualified as safe. That is, the tools cannot be allowed to introduce hazardous faults into the application, e.g., a compiler shall not generate dangerous code due to failure of the compiler. In many cases laws and regulations require the product development of safety related applications to comply with industry sector specific safety standards. Examples of such standards include EN50129/50128 for railway applications, ISO/EN13849 for machines with moving parts, DO-178B/C for avionics, or IS026262 for cars. These standards require the use of a rigorous development and maintenance process. The standards are also mainly intended to be used when developing systems from scratch. However, most development and test tools are not developed from scratch according to the rigorous processes of these standards. In order to address this issue, some of the standards provide means for qualifying existing tools as a more lightweight and pragmatic alternative to a regular certification process. In this paper we analyze the concept of these qualification approaches. The result of the analysis in our contribution includes a set of approaches that can be applied individually or as a combination in order to reduce the effort needed for qualifying tools. As a running example we use one of the most flexible but at the same time dangerous, even prohibited, maintenance techniques available: dynamic instrumentation of executing code. With this example, we describe how exceptions in these standards can be utilized in order to qualify a dynamic instrumentation tool with a minimal effort, without following the process of tool certification as defined by the standards.
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| 10. |
- Holst, Anders, et al.
(författare)
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Statistical anomaly detection for train fleets
- 2013
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Ingår i: The AI Magazine. - : Wiley. - 0738-4602 .- 2371-9621. ; 34:1, s. 33-42
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Tidskriftsartikel (refereegranskat)abstract
- We have developed a method for statistical anomaly detection that has been deployed in a tool for condition monitoring of train fleets. The tool is currently used by several railway operators across the world to inspect and visualize the occurrence of "event messages" generated on the trains. The anomaly detection component helps the operators quickly to find significant deviations from normal behavior and to detect early indications for possible problems. The method used is based on Bayesian principal anomaly, which is a framework for parametric anomaly detection using Bayesian statistics. The savings in maintenance costs of using the tool comes mainly from avoiding costly breakdowns and have been estimated to be several million Euros per year for the tool. In the long run, it is expected that maintenance costs can be reduced by between 5 and 10 percent with the help of the tool.
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