| 1. |
- Roelands, Marc, et al.
(författare)
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The diy smart experiences project
- 2011
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Ingår i: Architecting the Internet of Things. - Berlin, Heidelberg : Springer Berlin/Heidelberg. - 9783642191572 ; , s. 279-315
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Bokkapitel (övrigt vetenskapligt/konstnärligt)
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| 2. |
- Delsing, Jerker, 1957-
(författare)
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Evolutionary Architecture and Engineering Concepts for Very Large-scale Sensor-based Solutions (Invited Paper)
- 2019
-
Ingår i: IEEE SENSORS 2019. - : IEEE.
-
Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- The design and engineering of solutions based on sensor data is currently based on legacy low-level sensor communication. The transition to IoT-based sensors has started to provide IP-based sensor communication based on service concepts. This requires radically different solution architectures and the associated engineering process. Here, IoT sensors will provide services instead of a communication interface, as a means of integrating into application solutions. It is further anticipated that the size of the solution will reach well beyond that of the current legacy automation implementations.This paper addresses architectural concepts for very large-scale SoS- and IoT-based solutions. Architecture concepts and their associated engineering concepts are considered. IoT and SoS evolvability, run-time dynamics, scalability and segmentation, run-time engineering, self-engineering, self-mitigation, and machine-to-machine business are some examples of such concepts. These concepts must be coupled with the requirements such as the management of IoT/SoS solution functionality, security, safety, maintenance, and evolution.
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| 3. |
- Jain, Animesh, et al.
(författare)
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Concise Loads and Stores : The Case for an Asymmetric Compute-Memory Architecture for Approximation
- 2016
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Ingår i: 2016 49Th Annual IEEE/ACM International Symposium On Microarchitecture (MICRO). - 9781509035083
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Konferensbidrag (refereegranskat)abstract
- Cache capacity and memory bandwidth play critical roles in application performance, particularly for data-intensive applications from domains that include machine learning, numerical analysis, and data mining. Many of these applications are also tolerant to imprecise inputs and have loose constraints on the quality of output, making them ideal candidates for approximate computing. This paper introduces a novel approximate computing technique that decouples the format of data in the memory hierarchy from the format of data in the compute subsystem to significantly reduce the cost of storing and moving bits throughout the memory hierarchy and improve application performance. This asymmetric compute-memory extension to conventional architectures, ACME, adds two new instruction classes to the ISA - load-concise and store-concise - along with three small functional units to the micro-architecture to support these instructions. ACME does not affect exact execution of applications and comes into play only when concise memory operations are used. Through detailed experimentation we find that ACME is very effective at trading result accuracy for improved application performance. Our results show that ACME achieves a 1.3x speedup ( up to 1.8x) while maintaining 99% accuracy, or a 1.1x speedup while maintaining 99.999% accuracy. Moreover, our approach incurs negligible area and power overheads, adding just 0.005% area and 0.1% power to a conventional modern architecture.
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| 4. |
- Lundholm, Karin, et al.
(författare)
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Fate of Cu, Cr and As during combustion of impregnated wood with and without peat additive
- 2007
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Ingår i: Environmental Science and Technology. - : American Chemical Society. - 0013-936X .- 1520-5851. ; 41:18, s. 6534-6540
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Tidskriftsartikel (refereegranskat)abstract
- The EU Directive on incineration of waste regulates the harmful emissions of particles and twelve toxic elements, including copper, chromium, and arsenic. More information is critically needed on the speciation and behavior of these trace elements during combustion, including the effects of different process variables, as well as of different fuels and fuel mixtures. Using a 15 kW pellets-fueled grate burner, experiments were performed to determine the fate of copper, chromium, and arsenic during combustion of chromate copper arsenate (CCA) preservative wood. The effects of co-combustion of CCA-wood with peat were also studied since peat fuels previously have proved to generally reduce ash related problems. The fate and speciation of copper, chromium, and arsenic were determined from analysis of the flue gas particles and the bottom ash using SEM-EDS, XRD, XPS, and ICP-AES. In addition, chemical equilibrium model calculations were performed to interpret the experimental findings. The results revealed that about 5% copper, 15% chromium, and 60% arsenic were volatilized during combustion of pure CCA-wood, which is lower than predicted volatilization from the individual arsenic, chromium, and copper oxides. This is explained by the formation of more stable refractory complex oxide phases for which the stability trends and patterns are presented. When co-combusted with peat, an additional stabilization of these phases was obtained and thus a small but noteworthy decrease in volatilization of all three elements was observed. The major identified phases for all fuels were CuCrO2(s), (Fe,Mg,Cu)(Cr,Fe,Al)O4(s), Cr2O3(s), and Ca3(AsO4)2(s). Arsenic was also identified in the fine particles as KH2AsO4(s) and As2O3(s). A strong indication of hexavalent chromium in the form of K2CrO4 or as a solid solution between K3Na(CrO4)2 and K3Na(SO4)2 was found in the fine particles. Good qualitative agreement was observed between experimental data and chemical equilibrium model calculations.
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| 5. |
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| 6. |
- Vos, T., et al.
(författare)
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Global, regional, and national incidence, prevalence, and years lived with disability for 328 diseases and injuries for 195 countries, 1990-2016: a systematic analysis for the Global Burden of Disease Study 2016
- 2017
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Ingår i: Lancet. - : Elsevier. - 0140-6736 .- 1474-547X. ; 390:10100, s. 1211-1259
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Tidskriftsartikel (refereegranskat)abstract
- Background As mortality rates decline, life expectancy increases, and populations age, non-fatal outcomes of diseases and injuries are becoming a larger component of the global burden of disease. The Global Burden of Diseases, Injuries, and Risk Factors Study 2016 (GBD 2016) provides a comprehensive assessment of prevalence, incidence, and years lived with disability (YLDs) for 328 causes in 195 countries and territories from 1990 to 2016. Methods We estimated prevalence and incidence for 328 diseases and injuries and 2982 sequelae, their non-fatal consequences. We used DisMod-MR 2.1, a Bayesian meta-regression tool, as the main method of estimation, ensuring consistency between incidence, prevalence, remission, and cause of death rates for each condition. For some causes, we used alternative modelling strategies if incidence or prevalence needed to be derived from other data. YLDs were estimated as the product of prevalence and a disability weight for all mutually exclusive sequelae, corrected for comorbidity and aggregated to cause level. We updated the Socio-demographic Index (SDI), a summary indicator of income per capita, years of schooling, and total fertility rate. GBD 2016 complies with the Guidelines for Accurate and Transparent Health Estimates Reporting (GATHER). Findings Globally, low back pain, migraine, age-related and other hearing loss, iron-deficiency anaemia, and major depressive disorder were the five leading causes of YLDs in 2016, contributing 57.6 million (95% uncertainty interval [UI] 40.8-75.9 million [7.2%, 6.0-8.3]), 45.1 million (29.0-62.8 million [5.6%, 4.0-7.2]), 36.3 million (25.3-50.9 million [4.5%, 3.8-5.3]), 34.7 million (23.0-49.6 million [4.3%, 3.5-5.2]), and 34.1 million (23.5-46.0 million [4.2%, 3.2-5.3]) of total YLDs, respectively. Age-standardised rates of YLDs for all causes combined decreased between 1990 and 2016 by 2.7% (95% UI 2.3-3.1). Despite mostly stagnant age-standardised rates, the absolute number of YLDs from non-communicable diseases has been growing rapidly across all SDI quintiles, partly because of population growth, but also the ageing of populations. The largest absolute increases in total numbers of YLDs globally were between the ages of 40 and 69 years. Age-standardised YLD rates for all conditions combined were 10.4% (95% UI 9.0-11.8) higher in women than in men. Iron-deficiency anaemia, migraine, Alzheimer's disease and other dementias, major depressive disorder, anxiety, and all musculoskeletal disorders apart from gout were the main conditions contributing to higher YLD rates in women. Men had higher age-standardised rates of substance use disorders, diabetes, cardiovascular diseases, cancers, and all injuries apart from sexual violence. Globally, we noted much less geographical variation in disability than has been documented for premature mortality. In 2016, there was a less than two times difference in age-standardised YLD rates for all causes between the location with the lowest rate (China, 9201 YLDs per 100 000, 95% UI 6862-11943) and highest rate (Yemen, 14 774 YLDs per 100 000, 11 018-19 228). Interpretation The decrease in death rates since 1990 for most causes has not been matched by a similar decline in age-standardised YLD rates. For many large causes, YLD rates have either been stagnant or have increased for some causes, such as diabetes. As populations are ageing, and the prevalence of disabling disease generally increases steeply with age, health systems will face increasing demand for services that are generally costlier than the interventions that have led to declines in mortality in childhood or for the major causes of mortality in adults. Up-todate information about the trends of disease and how this varies between countries is essential to plan for an adequate health-system response. Copyright (C) The Author(s). Published by Elsevier Ltd. This is an Open Access article under the CC BY 4.0 license.
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| 7. |
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| 8. |
- Andersson, Jan, et al.
(författare)
-
Collaborative memory : how is our ability to remember affected by interaction with others?
- 2007
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Ingår i: Everyday memory. - Hove : Psychology Press. - 9781841695792 ; , s. 135-156
-
Bokkapitel (övrigt vetenskapligt/konstnärligt)abstract
- Socialization with relatives, friends and colleagues is often regarded as one of the main ingredients of life. Our thoughts, beliefs and ways of life ar affected by socialization. The question to be discussed in this chapter is how social interaction affects our mental processes, especially our memory processes.
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| 9. |
- Andersson, Viktor, 1995, et al.
(författare)
-
Controlled Decent Training
- 2023
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Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)abstract
- In this work, a novel and model-based artificial neural network (ANN) training method is developed supported by optimal control theory. The method augments training labels in order to robustly guarantee training loss convergence and improve training convergence rate. Dynamic label augmentation is proposed within the framework of gradient descent training where the convergence of training loss is controlled. First, we capture the training behavior with the help of empirical Neural Tangent Kernels (NTK) and borrow tools from systems and control theory to analyze both the local and global training dynamics (e.g. stability, reachability). Second, we propose to dynamically alter the gradient descent training mechanism via fictitious labels as control inputs and an optimal state feedback policy. In this way, we enforce locally H2 optimal and convergent training behavior. The novel algorithm, Controlled Descent Training (CDT), guarantees local convergence. CDT unleashes new potentials in the analysis, interpretation, and design of ANN architectures. The applicability of the method is demonstrated on standard regression and classification problems.
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| 10. |
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| 11. |
- Barranco, Oriol, et al.
(författare)
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La PAH y la emergencia habitacional
- 2018
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Ingår i: Movimientos sociales y derecho a la ciudad. - Barcelona : Icaria. - 9788498888683 ; , s. 54-70
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Bokkapitel (refereegranskat)
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| 12. |
- Björk, Martina
(författare)
-
Välsignad är du bland kvinnor
- 2015
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Ingår i: Kyrkokörjournalen. - 1101-9670. ; 26:6, s. 15-15
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Tidskriftsartikel (populärvet., debatt m.m.)
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| 13. |
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| 14. |
- Buchholt, Kristina, et al.
(författare)
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Step-flow growth of nanolaminate Ti3SiC2 epitaxial layers on 4H-SiC(0 0 0 1)
- 2011
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Ingår i: SCRIPTA MATERIALIA. - : Elsevier Science B.V., Amsterdam.. - 1359-6462. ; 64:12, s. 1141-1144
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Tidskriftsartikel (refereegranskat)abstract
- Epitaxial Ti3SiC2(0 0 0 1) films were deposited on 4 degrees off-cut 4H-SiC(0 0 0 1) wafers using magnetron sputtering. A lateral step-flow growth mechanism of the Ti3SiC2 was discovered by X-ray diffraction, elastic recoil detection analysis, atomic force microscopy and electron microscopy. Helium ion microscopy revealed contrast variations on the Ti3SiC2 terraces, suggesting a mixed Si and Ti(C) termination. Si-rich growth conditions results in Ti3SiC2 layers with pronounced {1 1 (2) over bar 0) faceting and off-oriented TiSi2 crystallites, while stoichiometric growth yields truncated {1 (1) over bar 0 0) terrace edges.
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| 15. |
- Buchholtz, Christiane, et al.
(författare)
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Profiling of acylated homoserine lactones of Vibrio anguillarum in vitro and in vivo : Influence of growth conditions and serotype.
- 2006
-
Ingår i: Syst Appl Microbiol. - 0723-2020. ; 29:6, s. 433-45
-
Tidskriftsartikel (refereegranskat)abstract
- Vibrio anguillarum produces several interlinked acylated homoserine lactone (AHL) signal molecules which may influence expression of its virulence factors such as exoprotease production and biofilm formation. Using both thin layer chromatography and HPLC-high resolution mass spectrometry (HPLC-HRMS), we demonstrate in this study that the same types of AHLs are produced by many serotypes of V. anguillarum and that altering in vitro growth conditions (salinity, temperature and iron concentration) has little influence on the AHL-profile. Most strains produced N-(3-oxodecanoyl)-l-homoserine lactone (3-oxo-C10-HSL) and N-(3-hydroxy-hexanoyl)-l-homoserine lactone (3-hydroxy-C6-HSL) as the dominant molecules. Also, two spots with AHL activity appeared on TLC plates, which could not be identified as AHL structures. Trace amounts of N-(3-hydroxy-octanoyl)-l-homoserine lactone, N-(3-hydroxy-decanoyl)-l-homoserine lactone and N-(3-hydroxy-dodecanoyl)-l-homoserine lactone (3-hydroxy-C8-HSL, 3-hydroxy-C10-HSL and 3-oxo-C12-HSL, respectively) were also detected by HPLC-HRMS analysis from in vitro cultures. Most studies of quorum sensing (QS) systems have been conducted in vitro, the purpose of our study was to determine if the same acylated homoserine lactones were produced in vivo during infection. Extracts from infected fish were purified using several solid phase extraction strategies to allow chromatographic detection and separation by both TLC and HLPC-HRMS. 3-oxo-C10-HSL and 3-hydroxy-C6-HSL were detected in organs from fish dying from vibriosis, however, compared to in vitro culturing where 3-oxo-C10-HSL is the dominant molecule, 3-hydroxy-C6-HSL was prominent in the infected fish tissues. Hence, the balance between the QS systems may be different during infection compared to in vitro cultures. For future studies of QS systems and the possible specific interference with expression of virulence factors, in vitro cultures should be optimised to reflect the in vivo situation.
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| 16. |
- Buchholz, Andrea C., et al.
(författare)
-
Simulation in Learning and Using the Nutrition Care Process/Terminology : Experiences and Perceptions of Dietitians in Canada
- 2020
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Ingår i: Canadian journal of dietetic practice and research. - : Dietitians of Canada. - 2292-9592 .- 1486-3847. ; 81:3, s. 150-153
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Tidskriftsartikel (refereegranskat)abstract
- Purpose: To investigate experiences with, and perceptions of, simulation in learning and using the Nutrition Care Process/Terminology (NCP/T) of dietitians in Canada.Methods: In February–March 2017, a convenience sample of 382 dietitians in Canada (71.8% in clinical practice) completed an online survey regarding the type(s), setting(s), and perceptions of the simulations in which they engaged in learning and using the NCP/T.Results: A majority (76.7%) of respondents had engaged in NCP/T-related simulation, most commonly case studies (85.3%) and role-play (42.0%), as part of workplace/volunteer training (51.4%) and undergraduate internship/stage/practicum (34.2%). Nearly half (49.5%) of respondents learned all 4 NCP components via simulation, with Nutrition Diagnosis being the most common individual component (57%). Over three-quarters of respondents agreed/strongly agreed that simulation helped them better understand/use the NCP/T and that NCP/T-related knowledge/skills gained through simulation are transferable to the clinical setting/dietetic practice.Conclusions: Dietitians in Canada perceive simulation to have helped them learn and use the NCP/T. Resources should be directed at further developing simulation for teaching the NCP/T in dietetics education and training. Research investigating characteristics, barriers, and facilitators of effective NCP/T-simulation, using objective (vs. perceived) learning outcome measures is needed.
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| 17. |
- Buchholz, Angela, et al.
(författare)
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Deconvolution of FIGAERO-CIMS thermal desorption profiles using positive matrix factorisation to identify chemical and physical processes during particle evaporation
- 2020
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Ingår i: Atmospheric Chemistry And Physics. - : Copernicus GmbH. - 1680-7316 .- 1680-7324. ; 20:13, s. 7693-7716
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Tidskriftsartikel (refereegranskat)abstract
- The measurements of aerosol particles with a filter inlet for gases and aerosols (FIGAERO) together with a chemical ionisation mass spectrometer (CIMS) yield the overall chemical composition of the particle phase. In addition, the thermal desorption profiles obtained for each detected ion composition contain information about the volatility of the detected compounds, which is an important property for understanding many physical properties like gas-particle partitioning. We coupled this thermal desorption method with isothermal evaporation prior to the sample collection to investigate the chemical composition changes during isothermal particle evaporation and particulate-water-driven chemical reactions in alpha-pinene secondary organic aerosol (SOA) of three different oxidative states. The thermal desorption profiles of all detected elemental compositions were then analysed with positive matrix factorisation (PMF) to identify the drivers of the chemical composition changes observed during isothermal evaporation. The keys to this analysis were to use the error matrix as a tool to weight the parts of the data carrying most information (i.e. the peak area of each thermogram) and to run PMF on a combined data set of multiple thermograms from different experiments to enable a direct comparison of the individual factors between separate measurements. The PMF was able to identify instrument background factors and separate them from the part of the data containing particle desorption information. Additionally, PMF allowed us to separate the direct desorption of compounds detected at a specific elemental composition from other signals with the same composition that stem from the thermal decomposition of thermally instable compounds with lower volatility. For each SOA type, 7-9 factors were needed to explain the observed thermogram behaviour. The contribution of the factors depended on the prior isothermal evaporation. Decreased contributions from the factors with the lowest desorption temperatures were observed with increasing isothermal evaporation time. Thus, the factors identified by PMF could be interpreted as volatility classes. The composition changes in the particles due to isothermal evaporation could be attributed to the removal of volatile factors with very little change in the desorption profiles of the individual factors (i.e. in the respective temperatures of peak desorption, T-max). When aqueous-phase reactions took place, PMF was able to identify a new factor that directly identified the ions affected by the chemical processes. We conducted a PMF analysis of the FIGAERO-CIMS thermal desorption data for the first time using laboratory-generated SOA particles. But this method can be applied to, for example, ambient FIGAERO-CIMS measurements as well. There, the PMF analysis of the thermal desorption data identifies organic aerosol (OA) sources (such as biomass burning or oxidation of different precursors) and types, e.g. hydrocarbon-like (HOA) or oxygenated organic aerosol (OOA). This information could also be obtained with the traditional approach, namely the PMF analysis of the mass spectra data integrated for each thermogram. But only our method can also obtain the volatility information for each OA source and type. Additionally, we can identify the contribution of thermal decomposition to the overall signal.
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| 18. |
- Chen, Bolin, et al.
(författare)
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Throughput and Delay Analysis of LWA With Bursty Traffic and Randomized Flow Splitting
- 2019
-
Ingår i: IEEE Access. - : IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC. - 2169-3536. ; 7, s. 24667-24678
-
Tidskriftsartikel (refereegranskat)abstract
- We investigate the effect of bursty traffic in a long term evolution (LTE) and Wi-Fi aggregation (LWA)-enabled network. The LTE base station routes packets of the same IP flow through the LIE and Wi-Fi links independently. We motivate the use of superposition coding at the LWA-mode Wi-Fi access point (AP) so that it can serve LWA users and Wi-Fi users simultaneously. A random access protocol is applied in such system, which allows the native-mode AP to access the channel with probabilities that depend on the queue size of the LWA-mode AP to avoid impeding the performance of the LWA-enabled network. We analyze the throughput of the native Wi-Fi network and the delay experienced by the LWA users, accounting for the native-mode AP access probability, the traffic flow splitting between LTE and Wi-Fi, and the operating mode of the LWA user with both LIE and Wi-Fi interfaces. Our results show some fundamental tradeoffs in the throughput and delay behavior of LWA-enabled networks, which provide meaningful insight into the operation of such aggregated systems.
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| 19. |
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| 20. |
- Elgåker, Hanna
(författare)
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The new equine sector and its influence on multifunctional land use in peri-urban areas
- 2011
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Ingår i: GeoJournal. - : Springer Science and Business Media LLC. - 0343-2521 .- 1572-9893. ; 77, s. 591-613
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Tidskriftsartikel (refereegranskat)abstract
- The equine sector is increasingly influencing land use, especially in peri-urban areas where the demand for land is already high. The sector not only influences traditional farming and land use, but also social, legal and economic development, and thus demands new interpretations of rural and urban. However, there is currently a lack of information on the consequences of this sector at landscape, social and economic level. This study examines the influence of the equine sector on the development of multifunctional land use in peri-urban areas, using data and examples from Sweden. It also examines specific features of the associated growing area of research and the positioning of the issue within the broader context of land use and planning. The methods used were a case study of a municipality, together with interviews and analyses of statistical material at regional level in the context of multifunctional land use, planning and sustainable development. It was found that the structure of the equine sector varies at both national and local level due to local conditions, but that there are also common features that need to be further studied using a broad interdisciplinary starting point
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| 21. |
- Engdahl, Barbro, et al.
(författare)
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Is the population level link between drinking and harm similar for women and men? : a time series analysis with focus on gender-specific drinking and alcohol-related hospitalizations in Sweden
- 2011
-
Ingår i: European Journal of Public Health. - : Oxford University Press (OUP). - 1101-1262 .- 1464-360X. ; 21:4, s. 432-437
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Tidskriftsartikel (refereegranskat)abstract
- Background: A question that has not been addressed in the literature is whether the population level association between alcohol and harm differs between men and women. The main aim of this article is to fill this gap by analysing recently collected time series data of male and female self-reported drinking in relation to gender-specific harm indicators in Sweden. Methods: Male and female per capita and risk consumption was estimated on the basis of self-reported data from monthly alcohol surveys for the period 2002-07. Overall per capita consumption including recorded sales and estimates of unrecorded consumption were also collected for the same period. Alcohol-related hospitalizations were used as indicators of alcohol-related harm. Data were aggregated into quarterly observations and analysed by means of time series analyses (ARIMA-modelling). Results: Overall per capita consumption was significantly related to both male and female alcohol-related hospitalizations. Male per capita consumption and risk consumption were also significantly related to alcohol-related hospitalizations among men. Female per capita consumption and risk consumption had also a positive association with alcohol-related hospitalizations but statistical significance was only reached for alcohol poisonings where the association was even stronger than for men. Conclusions: Changes in alcohol consumption in Sweden was associated with changes in male and female alcohol-related hospitalizations also in analyses based on gender-specific consumption measures. There was no clear evidence that the population level association between alcohol and harm differed between men and women.
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| 22. |
- Enqvist, Per
(författare)
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A homotopy approach to rational covariance extension with degree constraint
- 2001
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Ingår i: International journal of mathematics and computer science. - 1641-876X. ; 11:5, s. 1173-1201
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Tidskriftsartikel (refereegranskat)abstract
- The solutions to the Rational Covariance Extension Problem (RCEP) are parameterized by the spectral zeros. The rational filter with a specied numerator solving the RCEP can be determined from a known convex optimization problem. However, this optimization problem may become ill-conditioned for some parameter values. A modication of the optimization problem to avoid the illconditioning is proposed and the modified problem is solved effciently by a continuation method.
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| 23. |
- Enqvist, Per, et al.
(författare)
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A Marginal Allocation Approach to Resource Management for a System of Multiclass Multiserver Queues Using Abandonment and CVaR QoS Measures
- 2019
-
Ingår i: 7th International Conference on Operations Research and Enterprise Systems, ICORES 2018. - Cham : Springer Verlag. ; , s. 119-133
-
Konferensbidrag (refereegranskat)abstract
- A class of resource allocation problems is considered where some quality of service measure is set against the agent related costs. Three multiobjective minimization problems are posed, one for a system of Erlang-C queues and two for systems of Erlang-A queues. In the case of the Erlang-C systems we introduce a quality of service measure based on the Conditional Value-at-Risk with waiting time as the loss function. This is a risk coherent measure and is well established in the field of finance. An algebraic proof ensures that this quality of service measure is integer convex in the number of servers. In the case of the Erlang-A systems we introduce two different quality of service measures. The first is a weighted sum of fractions of abandoning customers and the second is Conditional Value-at-Risk, with the waiting time in queue for a customer conditioned on eventually receiving service. Finally, numerical experiments on the two system types with the given quality of service measures, are presented and the optimal solutions are compared.
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| 24. |
- Enqvist, Per, et al.
(författare)
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A state dependent chat system model
- 2019
-
Ingår i: ICORES 2019 - Proceedings of the 8th International Conference on Operations Research and Enterprise Systems. - : SciTePress. ; , s. 121-132
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Konferensbidrag (refereegranskat)abstract
- The main purpose of this paper is to introduce a model of a chat based communication system, as well as developing the necessary tools to enable resource optimization with regards to a measure of the service quality. The system is modeled by a Markov process in continuous time and with a countable state space. The construction of the intensity matrix corresponding to this system is outlined and proofs of a stationary state distribution and an efficient way of calculating it are introduced. A numerical example for system optimization when the service measure is the average sojourn time is included as well as a heuristic algorithm for quicker solution generation.
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| 25. |
- Enqvist, Per, et al.
(författare)
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Multi-server marginal allocation With CVaR and abandonment based QoS measures
- 2018
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Ingår i: ICORES 2018 - Proceedings of the 7th International Conference on Operations Research and Enterprise Systems. - : SciTePress. - 9789897582851 ; , s. 297-303
-
Konferensbidrag (refereegranskat)abstract
- Two multi-objective minimization problems are posed, one for Erlang-C queues and one for Erlang-A queues. The objectives are to minimize the cost of added agents while also trying to optimize a quality of service measure. For the Erlang-C system we propose using the Conditional Value-at-Risk measure with waiting time as the loss function. We prove that this quality of service measure is integer convex in the number of servers. For the Erlang-A system we use the fraction of abandoning customers and some rate based weighting function as the service measure. Finally, a numerical comparison of the two system types is performed. The numerical results show the similarities between the two systems in terms of optimal points.
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| 26. |
- Hamdan, Mohammed, et al.
(författare)
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Carbon dioxide stimulates lake primary production
- 2018
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Ingår i: Scientific Reports. - : Nature Publishing Group. - 2045-2322. ; 8
-
Tidskriftsartikel (refereegranskat)abstract
- Gross primary production (GPP) is a fundamental ecosystem process that sequesters carbon dioxide (CO2) and forms the resource base for higher trophic levels. Still, the relative contribution of different controls on GPP at the whole-ecosystem scale is far from resolved. Here we show, by manipulating CO2 concentrations in large-scale experimental pond ecosystems, that CO2 availability is a key driver of whole-ecosystem GPP. This result suggests we need to reformulate past conceptual models describing controls of lake ecosystem productivity and include our findings when developing models used to predict future lake ecosystem responses to environmental change.
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| 27. |
- Hamdan, Sadeque, et al.
(författare)
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Air traffic flow management under emission policies : Analyzing the impact of sustainable aviation fuel and different carbon prices
- 2022
-
Ingår i: Transportation Research Part A. - : Pergamon-Elsevier Science Ltd. - 0965-8564 .- 1879-2375. ; 166, s. 14-40
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Tidskriftsartikel (refereegranskat)abstract
- As part of the global efforts to make aviation activities more environmentally friendly, the worldwide goal is to achieve a 50% reduction in the 2005 emissions by 2050. In this context, aviation emissions represent a critical challenge to aviation activities, especially with the increasing travel demand up to the beginning of the COVID-19 crisis, starting in 2020. One of the potential drivers that would help the aviation industry reduce its emissions is the use of sustainable aviation fuel (SAF). In this study, we analyzed the impact of SAF from an air traffic flow management (ATFM) perspective, considering delay and re-routing costs. We developed an optimization model that considers, in addition to the traditional ATFM costs, fuel costs and carbon dioxide emissions. We investigated the impact of accounting for these two new aspects, that is, fuel costs and emissions, on ATFM performance, and we compared SAF with conventional fuel. The analysis of a real case study revealed that, in addition to delay and re-routing costs, fuel cost should be included in the ATFM model so that the resulting solution becomes economically and environmentally realistic for airlines. The increase in the fuel cost and network delays when using SAF requires setting an appropriate carbon price under an emission policy, such as the carbon offsetting and reduction scheme for international flights policy, to make SAF more attractive. Furthermore, flexible re-routing programs for flights operated using SAF make it advantageous from an ATFM perspective.
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| 28. |
- Hamdan, Sadeque, et al.
(författare)
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Central Authority-Controlled Air Traffic Flow Management: An Optimization Approach
- 2022
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Ingår i: Transportation Science. - : INFORMS. - 0041-1655 .- 1526-5447. ; 56:2, s. 299-321
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Tidskriftsartikel (refereegranskat)abstract
- Despite various planning efforts, airspace capacity can sometimes be exceeded, typically because of disruptive events. Air traffic flow management (ATFM) is the process of managing flights in this situation. In this paper, we present an ATFM model that accounts for different rerouting options (path rerouting and diversion) and preexisting en route flights. The model proposes having a central authority to control all decisions, which is then compared with current practice. We also consider interflight and interairline fairness measures in the network. We use an exact approach to solve small- to medium-sized instances, and we propose a modified fix-and-relax heuristic to solve large-sized instances. Allowing a central authority to control all decisions increases network efficiency compared with the case where the ATFM authority and airlines control decisions independently. Our experiments show that including different rerouting options in ATFM can help reduce delays by up to 8% and cancellations by up to 23%. Moreover, ground delay cost has much more impact on network decisions than air delay cost, and network decisions are insensitive to changes in diversion cost. Furthermore, the analysis of the tradeoff between total network cost and overtaking cost shows that adding costs for overtaking can significantly improve fairness at only a small increase in total system cost. A balanced total cost per flight among airlines can be achieved at a small increase in the network cost (0.2%-3.0%) when imposing airline fairness. In conclusion, the comprehensiveness of the model makes it useful for analyzing a wide range of alternatives for efficient ATFM.
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| 29. |
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| 30. |
- Herías, M V, et al.
(författare)
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Escherichia coli K5 capsule expression enhances colonization of the large intestine in the gnotobiotic rat.
- 1997
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Ingår i: Infection and immunity. - : American Society for Microbiology. - 0019-9567 .- 1098-5522. ; 65:2, s. 531-6
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Tidskriftsartikel (refereegranskat)abstract
- The role of capsule expression in the capacity of Escherichia coli to colonize in the large intestinal environment was studied in a gnotobiotic rat model. The rats were given perorally a mixture of two mutant strains differing in K5 expression. After 2 weeks, the rats were sacrificed, and subsequently intestinal contents, intestinal mucosae, and mesenteric lymph nodes were homogenized and bacterial numbers were quantified. Two E. coli mutant pairs were used, the first pair (972-998) lacking the O-specific side chain and the second pair (973-997) carrying the O75 lipopolysaccharide. The K5+ mutants established themselves at a higher level than the K5- mutants (10(9) versus 10(6) CFU/g [P < 0.001] for the first pair and 10(9) versus 10(8) CFU/g [P < 0.01] for the second pair, respectively). The results were confirmed by serology showing a K5+ phenotype for practically all isolates. The bacterial population associated with the mucosa was similar to that in the luminal contents with respect to the proportions of the respective mutants, and translocation occurred in numbers proportional to the intestinal population densities of the respective mutants. All mutants were able to express type 1 as well as P fimbriae. After colonization, the expression of P fimbriae remained high whereas only a minority of the isolates expressed type 1 fimbriae. The results suggest that capsule expression and P fimbriae enhance intestinal colonization by E. coli and that these virulence factors, by increasing bacterial densities in the intestine, secondarily increase translocation.
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| 31. |
- Herías, M V, et al.
(författare)
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Immunomodulatory effects of Lactobacillus plantarum colonizing the intestine of gnotobiotic rats.
- 1999
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Ingår i: Clinical and experimental immunology. - : Oxford University Press (OUP). - 0009-9104 .- 1365-2249. ; 116:2, s. 283-90
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Tidskriftsartikel (refereegranskat)abstract
- We have studied the effect of the probiotic strain Lactobacillus plantarum 299v on the immune functions of gnotobiotic rats. One group of germ-free rats was colonized with the type 1-fimbriated Escherichia coli O6:K13:H1 and another group with the same E. coli strain together with L. plantarum 299v. One and 5 weeks after colonization, bacterial numbers were determined in the contents of the small intestine, caecum and mesenteric lymph nodes. Small intestinal sections were examined for CD8+, CD4+, CD25+ (IL-2R alpha-chain), IgA+ and MHC class II+ cells and mitogen-induced spleen cell proliferation was determined. Immunoglobulin levels and E. coli-specific antibodies were measured in serum. Rats given L. plantarum in addition to E. coli showed lower counts of E. coli in the small intestine and caecum 1 week after colonization compared with the group colonized with E. coli alone, but similar levels after 5 weeks. Rats colonized with L. plantarum + E. coli had significantly higher total serum IgA levels and marginally higher IgM and IgA antibody levels against E. coli than those colonized with E. coli alone. They also showed a significantly increased density of CD25+ cells in the lamina propria and displayed a decreased proliferative spleen cell response after stimulation with concanavalin A or E. coli 1 week after colonization. The results indicate that L. plantarum colonization competes with E. coli for intestinal colonization and can influence intestinal and systemic immunity.
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| 32. |
- Herías, M V, et al.
(författare)
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Increased antibody production against gut-colonizing Escherichia coli in the presence of the anaerobic bacterium Peptostreptococcus.
- 1998
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Ingår i: Scandinavian journal of immunology. - : Wiley. - 0300-9475 .- 1365-3083. ; 48:3, s. 277-82
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Tidskriftsartikel (refereegranskat)abstract
- Germ-free rats were colonized with E. coli alone, or with E. coli plus Lactobacillus acidophilus and a strain of the obligate anaerobic gram-positive species, Peptostreptococcus. The presence of Peptostreptococcus reduced translocation of E. coli, but increased the serum antibody response to E. coli antigen. Whereas the immunoglobulin G (IgG) anti-E. coli antibodies largely represented cross-reactive antibodies, those of the immunoglobulin M (IgM) isotype represented true anti-E. coli antibodies because they could not be absorbed by L. acidophilus or Peptostreptococcus but could with E. coli. We suggest that peptostreptococci prime the gut immune system to other bacterial antigens and that this could be a mechanism behind the reduced translocation of facultative anaerobes in the presence of obligate anaerobes.
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| 33. |
- Herías, M V, et al.
(författare)
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Role of Escherichia coli P fimbriae in intestinal colonization in gnotobiotic rats.
- 1995
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Ingår i: Infection and immunity. - : American Society for Microbiology. - 0019-9567 .- 1098-5522. ; 63:12, s. 4781-9
-
Tidskriftsartikel (refereegranskat)abstract
- Adherence via P fimbriae is associated with long-term persistence of Escherichia coli in the human large intestine, but a causal relationship has not been proven. In the present study, germfree rats were colonized with a mixture of two isogenic E. coli strains, one P fimbriated and the other type 1 fimbriated. Both types of fimbriae conferred adherence to rat colonic epithelial cells. With two mutant strains from a pyelonephritogenic isolate of serotype O75:K5:H-, the P-fimbriated strain 824 attained much higher numbers than its type 1-fimbriated counterpart when colonized in vivo for 2 weeks (10(10) versus 10(6) bacteria per g, respectively; P < 0.0001). The expression of P fimbriae by 824 was also retained during colonization. With transformant isogenic strains obtained from a normal fecal isolate incapable of phase variation, no benefit of P fimbriae was seen and most bacteria lost their plasmids during in vivo colonization. When the pyelonephritogenic mutant and fecal transformant strains were combined, the former colonized at high levels while the latter were suppressed. In contrast, no suppression was seen when the transformant E. coli strains colonized in combination with Lactobacillus acidophilus or Peptostreptococcus sp. The results indicate that P fimbriae, but also other bacterial traits linked to uropathogeneicity, could play an important role for persistence in the gut normal microbiota. Neither P nor type 1 fimbriae seemed to contribute to the ability to translocate to the mesenteric lymph nodes.
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| 34. |
- Heriksson, Greger, et al.
(författare)
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A Day at the School of Opera : Less Travel through Distance Education?
- 2013
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Ingår i: Nachhaltigkeit in der Wirtschaftskommunikation. - Wisbaden : Springer. - 9783658034511 - 9783658034528 ; , s. 191-214
-
Bokkapitel (refereegranskat)abstract
- Teaching opera places high demands on audio-visual and physical aspects of the teaching situation and represents a small but internationally widespread and travel-dependent labour and education market. The aim of this study was to evaluate the potential for establishing a video option and thereby reducing travel. A trial with opera master classes at a distance was carried out between Stockholm and Helsinki and the reactions of students and teachers were charted. The trial showed satisfactory lesson quality and keen interest among participants in gaining continuous access to this kind of distance education, mainly because of a strong mutual demand for renowned teachers and talented students. The study also investigated teaching under normal conditions (without an option for teaching at a distance). It was found that under both normal and trial conditions, the personal motivation of participants to participate in master classes was characterized by elements of desire and necessity. The desire component was linked to the aesthetic, creative and cooperative aspects of the art form and learning context, while the necessity component related to livelihood and career paths. A survey of the travel habits of some teachers and students indicated a relatively high frequency of travel by air or car to other regions and countries to participate in teaching etc., especially for the teachers. In light of these findings, introduction of technology for master classes and other similar teaching at a distance, e.g. between two or more Nordic opera colleges, could partially replace travel for teaching, but could also lead to more teaching of this kind, since it is in such a high demand. Overall positive environmental effects as well as positive effects on the quality of education could be expected by supplementing face-to-face with video-mediated teaching.
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| 35. |
- Hering, Alessa, et al.
(författare)
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Learn2Reg: comprehensive multi-task medical image registration challenge, dataset and evaluation in the era of deep learning
- 2023
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Ingår i: IEEE Transactions on Medical Imaging. - : Institute of Electrical and Electronics Engineers (IEEE). - 0278-0062 .- 1558-254X. ; 42:3, s. 697-712
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Tidskriftsartikel (refereegranskat)abstract
- Image registration is a fundamental medical image analysis task, and a wide variety of approaches have been proposed. However, only a few studies have comprehensively compared medical image registration approaches on a wide range of clinically relevant tasks. This limits the development of registration methods, the adoption of research advances into practice, and a fair benchmark across competing approaches. The Learn2Reg challenge addresses these limitations by providing a multi-task medical image registration data set for comprehensive characterisation of deformable registration algorithms. A continuous evaluation will be possible at https:// learn2reg.grand-challenge.org. Learn2Reg covers a wide range of anatomies (brain, abdomen, and thorax), modalities (ultrasound, CT, MR), availability of annotations, as well as intra- and inter-patient registration evaluation. We established an easily accessible framework for training and validation of 3D registration methods, which enabled the compilation of results of over 65 individual method submissions from more than 20 unique teams. We used a complementary set of metrics, including robustness, accuracy, plausibility, and runtime, enabling unique insight into the current state-of-the-art of medical image registration. This paper describes datasets, tasks, evaluation methods and results of the challenge, as well as results of further analysis of transferability to new datasets, the importance of label supervision, and resulting bias. While no single approach worked best across all tasks, many methodological aspects could be identified that push the performance of medical image registration to new state-of-the-art performance. Furthermore, we demystified the common belief that conventional registration methods have to be much slower than deep-learning-based methods.
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| 36. |
- Hering, Bernhard J., et al.
(författare)
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Phase 3 Trial of Transplantation of Human Islets in Type 1 Diabetes Complicated by Severe Hypoglycemia
- 2016
-
Ingår i: Diabetes Care. - : American Diabetes Association. - 0149-5992 .- 1935-5548. ; 39:7, s. 1230-1240
-
Tidskriftsartikel (refereegranskat)abstract
- OBJECTIVE Impaired awareness of hypoglycemia (IAH) and severe hypoglycemic events (SHEs) cause substantial morbidity and mortality in patients with type 1 diabetes (T1D). Current therapies are effective in preventing SHEs in 50-80% of patients with IAH and SHEs, leaving a substantial number of patients at risk. We evaluated the effectiveness and safety of a standardized human pancreatic islet product in subjects in whom IAH and SHEs persisted despite medical treatment. RESEARCH DESIGN AND METHODS This multicenter, single-arm, phase 3 study of the investigational product purified human pancreatic islets (PHPI) was conducted at eight centers in North America. Forty-eight adults with T1D for >5 years, absent stimulated C-peptide, and documented IAH and SHEs despite expert care were enrolled. Each received immunosuppression and one or more transplants of PHPI, manufactured on-site under good manufacturing practice conditions using a common batch record and standardized lot release criteria and test methods. The primary end point was the achievement of HbA(1c) <7.0% (53 mmol/mol) at day 365 and freedom from SHEs from day 28 to day 365 after the first transplant. RESULTS The primary end point was successfully met by 87.5% of subjects at 1 year and by 71% at 2 years. The median HbA(1c) level was 5.6% (38 mmol/mol) at both 1 and 2 years. Hypoglycemia awareness was restored, with highly significant improvements in Clarke and HYPO scores (P > 0.0001). No study-related deaths or disabilities occurred. Five of the enrollees (10.4%) experienced bleeds requiring transfusions (corresponding to 5 of 75 procedures), and two enrollees (4.1%) had infections attributed to immunosuppression. Glomerular filtration rate decreased significantly on immunosuppression, and donor-specific antibodies developed in two patients. CONCLUSIONS Transplanted PHPI provided glycemic control, restoration of hypoglycemia awareness, and protection from SHEs in subjects with intractable IAH and SHEs. Safety events occurred related to the infusion procedure and immunosuppression, including bleeding and decreased renal function. Islet transplantation should be considered for patients with T1D and IAH in whom other, less invasive current treatments have been ineffective in preventing SHEs.
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| 37. |
- Hering, Bernhard J., et al.
(författare)
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Prolonged diabetes reversal after intraportal xenotransplantation of wild-type porcine islets in immunosuppressed nonhuman primates
- 2006
-
Ingår i: Nature Medicine. - : Nature Publishing Group. - 1078-8956 .- 1546-170X. ; 12:3, s. 301-303
-
Tidskriftsartikel (refereegranskat)abstract
- Cell-based diabetes therapy requires an abundant cell source. Here, we report reversal of diabetes for more than 100 d in cynomolgus macaques after intraportal transplantation of cultured islets from genetically unmodified pigs without Gal-specific antibody manipulation. Immunotherapy with CD25-specific and CD154-specific monoclonal antibodies, FTY720 (or tacrolimus), everolimus and leflunomide suppressed indirect activation of T cells, elicitation of non-Gal pig-specific IgG antibody, intragraft expression of proinflammatory cytokines and invasion of infiltrating mononuclear cells into islets.
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| 38. |
- Hering, Jenny, et al.
(författare)
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Exploring the Active Site of the Antibacterial Target MraY by Modified Tunicamycins.
- 2020
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Ingår i: ACS chemical biology. - : American Chemical Society (ACS). - 1554-8937 .- 1554-8929. ; 15:11, s. 2885-2895
-
Tidskriftsartikel (refereegranskat)abstract
- The alarming growth of antibiotic resistance that is currently ongoing is a serious threat to human health. One of the most promising novel antibiotic targets is MraY (phospho-MurNAc-pentapeptide-transferase), an essential enzyme in bacterial cell wall synthesis. Through recent advances in biochemical research, there is now structural information available for MraY, and for its human homologue GPT (GlcNAc-1-P-transferase), that opens up exciting possibilities for structure-based drug design. The antibiotic compound tunicamycin is a natural product inhibitor of MraY that is also toxic to eukaryotes through its binding to GPT. In this work, we have used tunicamycin and modified versions of tunicamycin as tool compounds to explore the active site of MraY and to gain further insight into what determines inhibitor potency. We have investigated tunicamycin variants where the following motifs have been modified: the length and branching of the tunicamycin fatty acyl chain, the saturation of the fatty acyl chain, the 6″-hydroxyl group of the GlcNAc ring, and the ring structure of the uracil motif. The compounds are analyzed in terms of how potently they bind to MraY, inhibit the activity of the enzyme, and affect the protein thermal stability. Finally, we rationalize these results in the context of the protein structures of MraY and GPT.
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| 39. |
- Hering, Jenny, et al.
(författare)
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Structural basis for selective inhibition of antibacterial target MraY, a membrane-bound enzyme involved in peptidoglycan synthesis
- 2018
-
Ingår i: Drug Discovery Today. - : Elsevier BV. - 1359-6446 .- 1878-5832. ; 23:7, s. 1426-1435
-
Forskningsöversikt (refereegranskat)abstract
- The rapid growth of antibiotic-resistant bacterial infections is of major concern for human health. Therefore, it is of great importance to characterize novel targets for the development of antibacterial drugs. One promising protein target is MraY (UDP-N-acetylmuramyl-pentapeptide: undecaprenyl phosphate N-acetylmuramyl-pentapeptide-1-phosphate transferase or MurNAc-1-P-transferase), which is essential for bacterial cell wall synthesis. Here, we summarize recent breakthroughs in structural studies of bacterial MraYs and the closely related human GPT (UDP-N-acetylglucosamine: dolichyl phosphate N-acetylglucosamine-1-phosphate transferase or GlcNAc-1-P-transferase). We present a detailed comparison of interaction modes with the natural product inhibitors tunicamycin and muraymycin D2. Finally, we speculate on possible routes to design an antibacterial agent in the form of a potent and selective inhibitor against MraY.
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| 40. |
- Hernández Suárez, Francisco Javier, 1973-
(författare)
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Optimisation of environmental gamma spectrometry using Monte Carlo methods
- 2002
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Doktorsavhandling (övrigt vetenskapligt/konstnärligt)abstract
- Dissertation in Environmental Physics to be publicly examined in Häggsalen (Ångström Laboratory), Uppsala University, on Friday, November 8, 2002 at 10:00 am for the degree of doctor of philosophy in Physics. The examination will be conducted in English.Gamma spectrometry is one of the tools commonly used for the measurement of various environmental radionuclides. Simultaneous determination of the absolute activity of gamma emitting radiotracers in a wide range of environmental matrices and fractions necessitates proper and accurate evaluation of the sample-to-detector efficiency. Several radiotracers require, in addition, the use of sub-routines for self-absorption corrections.Gamma spectrometry is an important and elegant tool for assessing environmental changes. Optimisation of ultra low-level gamma spectrometry for reliable assessment of such changes requires harmonisation of laboratory needs with sampling and site conditions.Different aspects of the calculation of sample-to-detector efficiencies using empirical and Monte Carlo approaches are discussed here, including the uncertainties related to the simulation of the performance of different HPGe detectors and the effects of the incomplete collection of charges in Ge-crystals. Various simulation codes for the computation of peak efficiencies in planar and well Ge-detectors have been developed from scratch. The results of the simulations have been tested against experimental data and compared to other simulation results obtained with the Monte Carlo N-Particle code (MCNP). The construction of calibration sources with improved absorption and collimation characteristics have been, also, described in this work. These sources have been especially designed for the efficiency calibration of Ge-detectors at energies below 100 keV.Flexible, fully tested and prototype approaches for the evaluation of self-absorption corrections, based on Monte Carlo simulations, are described. Special consideration is given to the problems related to the sample's variability in size, density and composition. Several examples of the absolute and simultaneous determination of environmental multitracers which benefited from self-absorption corrections and the optimised efficiency calibration algorithms are, also, presented and discussed. These examples include, among other things, a comprehensive analysis of the gamma spectrometry of 234Th in a wide range of matrices and the speciation of several radionuclides in sediments from a hard-water lake.
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| 41. |
- Isenberg, D. A., et al.
(författare)
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An assessment of disease flare in patients with systemic lupus erythematosus: a comparison of BILAG 2004 and the flare version of SELENA
- 2011
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Ingår i: Annals of the Rheumatic Diseases. - : BMJ. - 1468-2060 .- 0003-4967. ; 70:1, s. 54-59
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Tidskriftsartikel (refereegranskat)abstract
- Aims To compare the British Isles Lupus Assessment Group (BILAG) 2004, the Safety of Estrogens in Lupus Erythematosus National Assessment (SELENA) flare index (SFI) and physician's global assessment (PGA) in assessing flares of disease activity in patients with systemic lupus erythematosus (SLE). Methods Sixteen patients with active SLE were assessed by a panel of 16 rheumatologists. The order in which the patients were seen was randomised using a 4x4 Latin square design. Each patient's flare status was determined at each assessment using the BILAG 2004 activity index; the SFI and a PGA. A group of five specialists designated each patient into severe, moderate, mild or no flare categories. Results The rate of complete agreement (95% CI) of the four individual examining physicians for any flare versus no flare was 81% (55% to 94%), 75% (49% to 90%) and 75% (49% to 90%) for the BILAG 2004 index, SELENA flare instrument and PGA, respectively. The overall agreement between flare defined by BILAG 2004 and the SFI was 81% and when type of flare was considered was 52%. Intraclass correlation coefficients (95% CI), as a measure of internal reliability, were 0.54 (0.32 to 0.78) for BILAG 2004 flare compared with 0.21 (0.08 to 0.48) for SELENA flare and 0.18 (0.06 to 0.45) for PGA. Severe flare was associated with good agreement between the indices but mild/moderate flare was much less consistent. Conclusions The assessment of flare in patients with SLE is challenging. No flare and severe flare are identifiable but further work is needed to optimise the accurate 'capture' of mild and moderate flares.
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| 42. |
- Jaffe, David B., et al.
(författare)
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Whole-Genome Sequence Assembly for Mammalian Genomes: Arachne 2
- 2003
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Ingår i: Genome Research. - : Cold Spring Harbor Laboratory. - 1088-9051 .- 1549-5469. ; 13:1, s. 91-96
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Tidskriftsartikel (refereegranskat)abstract
- We previously described the whole-genome assembly program Arachne, presenting assemblies of simulated data for small to mid-sized genomes. Here we describe algorithmic adaptations to the program, allowing for assembly of mammalian-size genomes, and also improving the assembly of smaller genomes. Three principal changes were simultaneously made and applied to the assembly of the mouse genome, during a six-month period of development: (1) Supercontigs (scaffolds) were iteratively broken and rejoined using several criteria, yielding a 64-fold increase in length (N50), and apparent elimination of all global misjoins; (2) gaps between contigs in supercontigs were filled (partially or completely) by insertion of reads, as suggested by pairing within the supercontig, increasing the N50 contig length by 50%; (3) memory usage was reduced fourfold. The outcome of this mouse assembly and its analysis are described in (Mouse Genome Sequencing Consortium 2002).
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| 43. |
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| 44. |
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| 45. |
- Jurga, Juliane, et al.
(författare)
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Does Coronary Angiography and Percutaneous Coronary Intervention Affect Cognitive Function?
- 2016
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Ingår i: American Journal of Cardiology. - : Elsevier. - 0002-9149 .- 1879-1913. ; 118:10, s. 1437-1441
-
Tidskriftsartikel (refereegranskat)abstract
- Cerebral microemboli are frequently observed during coronary angiography (CA) and percutaneous coronary intervention (PCI), and their numbers have been related to the vascular access site used. Although cerebral microemboli can cause silent cerebral lesions, their clinical impact is debated. To study this, 93 patients referred for CA or PCI underwent serial cognitive testing using the Montreal Cognitive Assessment (MoCA) test to detect postprocedural cognitive impairment. Patients were randomized to radial or femoral access. In a subgroup of 35 patients, the number of cerebral microemboli was monitored with transcranial Doppler technique. We found the median precatheterization result of the MoCA test to be 27, and it did not change significantly 4 and 31 days, respectively, after the procedure. There was no significant correlation between the number of cerebral microemboli and the difference between preprocedural and postprocedural MoCA tests. The test results did not differ between vascular access sites. One-third of the patients had a precatheterization median MoCA test result <26 corresponding to mild cognitive impairment. In conclusion, using the MoCA test, we could not detect any cognitive impairment after CA or PCI, and no significant correlations were found between the results of the MoCA test and cerebral microemboli or vascular access site, respectively. In patients with suspected coronary heart disease, mild cognitive impairment was common.
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| 46. |
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| 47. |
- Karlsson Potter, Hanna, et al.
(författare)
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A systems analysis of biodiesel production from wheat straw using oleaginous yeast : process design, mass and energy balances
- 2016
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Ingår i: Biotechnology for Biofuels. - : Springer Science and Business Media LLC. - 1754-6834. ; 9:1, s. 1-13
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Tidskriftsartikel (refereegranskat)abstract
- Background: Biodiesel is the main liquid biofuel in the EU and is currently mainly produced from vegetable oils. Alternative feedstocks are lignocellulosic materials, which provide several benefits compared with many existing feedstocks. This study examined a technical process and its mass and energy balances to gain a systems perspective of combined biodiesel (FAME) and biogas production from straw using oleaginous yeasts. Important process parameters with a determining impact on overall mass and energy balances were identified and evaluated. Results: In the base case, 41% of energy in the biomass was converted to energy products, primary fossil fuel use was 0.37 MJprim/MJ produced and 5.74 MJ fossil fuels could be replaced per kg straw dry matter. The electricity and heat produced from burning the lignin were sufficient for process demands except in scenarios where the yeast was dried for lipid extraction. Using the residual yeast cell mass for biogas production greatly increased the energy yield, with biogas contributing 38% of total energy products. Conclusions: In extraction methods without drying the yeast, increasing lipid yield and decreasing the residence time for lipid accumulation are important for the energy and mass balance. Changing the lipid extraction method from wet to dry makes the greatest change to the mass and energy balance. Bioreactor agitation and aeration for lipid accumulation and yeast propagation is energy demanding. Changes in sugar concentration in the hydrolysate and residence times for lipid accumulation greatly affect electricity demand, but have relatively small impacts on fossil energy use (NER) and energy yield (EE). The impact would probably be greater if externally produced electricity were used.
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| 48. |
- Kauwe, John S K, et al.
(författare)
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Fine mapping of genetic variants in BIN1, CLU, CR1 and PICALM for association with cerebrospinal fluid biomarkers for Alzheimer's disease.
- 2011
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Ingår i: PloS one. - : Public Library of Science (PLoS). - 1932-6203. ; 6:2
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Tidskriftsartikel (refereegranskat)abstract
- Recent genome-wide association studies of Alzheimer's disease (AD) have identified variants in BIN1, CLU, CR1 and PICALM that show replicable association with risk for disease. We have thoroughly sampled common variation in these genes, genotyping 355 variants in over 600 individuals for whom measurements of two AD biomarkers, cerebrospinal fluid (CSF) 42 amino acid amyloid beta fragments (Aβ(42)) and tau phosphorylated at threonine 181 (ptau(181)), have been obtained. Association analyses were performed to determine whether variants in BIN1, CLU, CR1 or PICALM are associated with changes in the CSF levels of these biomarkers. Despite adequate power to detect effects as small as a 1.05 fold difference, we have failed to detect evidence for association between SNPs in these genes and CSF Aβ(42) or ptau(181) levels in our sample. Our results suggest that these variants do not affect risk via a mechanism that results in a strong additive effect on CSF levels of Aβ(42) or ptau(181).
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| 49. |
- Kaußner, Yvonne, et al.
(författare)
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Reducing antibiotic use in uncomplicated urinary tract infections in adult women : a systematic review and individual participant data meta-analysis
- 2022
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Ingår i: Clinical Microbiology and Infection. - : Elsevier. - 1198-743X .- 1469-0691. ; 28:12, s. 1558-1566
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Forskningsöversikt (refereegranskat)abstract
- Background: Randomised controlled trials (RCTs) investigated analgesics, herbal formulations, delayed prescription of antibiotics, and placebo to prevent overprescription of antibiotics in women with uncomplicated urinary tract infections (uUTI).Objectives: To estimate the effect of these strategies and to identify symptoms, signs, or other factors that indicate a benefit from these strategies.Data sources: MEDLINE, EMBASE, Web of Science, LILACS, Cochrane Database of Systematic Reviews and of Controlled Trials, and ClinicalTrials.Study eligibility criteria, participants and interventions: RCTs investigating any strategies to reduce antibiotics vs. immediate antibiotics in adult women with uUTI in primary care.Methods: We extracted individual participant data (IPD) if available, otherwise aggregate data (AD). Bayesian random-effects meta-analysis of the AD was used for pairwise comparisons. Candidate moderators and prognostic indicators of treatment effects were investigated using generalised linear mixed models based on IPD.Results: We analysed IPD of 3524 patients from eight RCTs and AD of 78 patients. Non-antibiotic strategies increased the rates of incomplete recovery (OR 3.0; 95% credible interval (CrI), 1.7–5.5; Bayesian p-value (pB) = 0.0017; τ = 0.6), subsequent antibiotic treatment (OR 3.5; 95% CrI, 2.1–5.8; pB = 0.0003) and pyelonephritis (OR 5.6; 95% CrI, 2.3–13.9; pB = 0.0003). Conversely, they decreased overall antibiotic use by 63%.Patients positive for urinary erythrocytes and urine culture were at increased risk for incomplete recovery (OR 4.7; 95% CrI, 2.1–10.8; pB = 0.0010), but no difference was apparent where both were negative (OR 0.8; 95% CrI, 0.3–2.0; pB = 0.667). In patients treated using non-antibiotic strategies, urinary erythrocytes and positive urine culture were independent prognostic indicators for subsequent antibiotic treatment and pyelonephritis.Conclusions: Compared to immediate antibiotics, non-antibiotic strategies reduce overall antibiotic use but result in poorer clinical outcomes. The presence of erythrocytes and tests to confirm bacteria in urine could be used to target antibiotic prescribing.
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- Khalil, Michael, et al.
(författare)
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Neurofilaments as biomarkers in neurological disorders - towards clinical application.
- 2024
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Ingår i: Nature Reviews Neurology. - 1759-4758 .- 1759-4766. ; 20:5, s. 269-287
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Tidskriftsartikel (refereegranskat)abstract
- Neurofilament proteins have been validated as specific body fluid biomarkers of neuro-axonal injury. The advent of highly sensitive analytical platforms that enable reliable quantification of neurofilaments in blood samples and simplify longitudinal follow-up has paved the way for the development of neurofilaments as a biomarker in clinical practice. Potential applications include assessment of disease activity, monitoring of treatment responses, and determining prognosis in many acute and chronic neurological disorders as well as their use as an outcome measure in trials of novel therapies. Progress has now moved the measurement of neurofilaments to the doorstep of routine clinical practice for the evaluation of individuals. In this Review, we first outline current knowledge on the structure and function of neurofilaments. We then discuss analytical and statistical approaches and challenges in determining neurofilament levels in different clinical contexts and assess the implications of neurofilament light chain (NfL) levels in normal ageing and the confounding factors that need to be considered when interpreting NfL measures. In addition, we summarize the current value and potential clinical applications of neurofilaments as a biomarker of neuro-axonal damage in a range of neurological disorders, including multiple sclerosis, Alzheimer disease, frontotemporal dementia, amyotrophic lateral sclerosis, stroke and cerebrovascular disease, traumatic brain injury, and Parkinson disease. We also consider the steps needed to complete the translation of neurofilaments from the laboratory to the management of neurological diseases in clinical practice.
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