| 1. |
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| 2. |
- Beal, Jacob, et al.
(författare)
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Robust estimation of bacterial cell count from optical density
- 2020
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
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Tidskriftsartikel (refereegranskat)abstract
- Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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| 3. |
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| 4. |
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| 5. |
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| 6. |
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| 7. |
- Glasbey, JC, et al.
(författare)
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- 2021
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swepub:Mat__t
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| 8. |
- Bravo, L, et al.
(författare)
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- 2021
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swepub:Mat__t
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| 9. |
- Tabiri, S, et al.
(författare)
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- 2021
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swepub:Mat__t
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| 10. |
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| 11. |
- Campbell, PJ, et al.
(författare)
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Pan-cancer analysis of whole genomes
- 2020
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 578:7793, s. 82-
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Tidskriftsartikel (refereegranskat)abstract
- Cancer is driven by genetic change, and the advent of massively parallel sequencing has enabled systematic documentation of this variation at the whole-genome scale1–3. Here we report the integrative analysis of 2,658 whole-cancer genomes and their matching normal tissues across 38 tumour types from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). We describe the generation of the PCAWG resource, facilitated by international data sharing using compute clouds. On average, cancer genomes contained 4–5 driver mutations when combining coding and non-coding genomic elements; however, in around 5% of cases no drivers were identified, suggesting that cancer driver discovery is not yet complete. Chromothripsis, in which many clustered structural variants arise in a single catastrophic event, is frequently an early event in tumour evolution; in acral melanoma, for example, these events precede most somatic point mutations and affect several cancer-associated genes simultaneously. Cancers with abnormal telomere maintenance often originate from tissues with low replicative activity and show several mechanisms of preventing telomere attrition to critical levels. Common and rare germline variants affect patterns of somatic mutation, including point mutations, structural variants and somatic retrotransposition. A collection of papers from the PCAWG Consortium describes non-coding mutations that drive cancer beyond those in the TERT promoter4; identifies new signatures of mutational processes that cause base substitutions, small insertions and deletions and structural variation5,6; analyses timings and patterns of tumour evolution7; describes the diverse transcriptional consequences of somatic mutation on splicing, expression levels, fusion genes and promoter activity8,9; and evaluates a range of more-specialized features of cancer genomes8,10–18.
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| 12. |
- Hyde, K. D., et al.
(författare)
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Global consortium for the classification of fungi and fungus-like taxa
- 2023
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Ingår i: MYCOSPHERE. - : Mushroom Research Foundation. - 2077-7000 .- 2077-7019. ; 14:1, s. 1960-2012
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Tidskriftsartikel (refereegranskat)abstract
- The Global Consortium for the Classification of Fungi and fungus-like taxa is an international initiative of more than 550 mycologists to develop an electronic structure for the classification of these organisms. The members of the Consortium originate from 55 countries/regions worldwide, from a wide range of disciplines, and include senior, mid-career and early-career mycologists and plant pathologists. The Consortium will publish a biannual update of the Outline of Fungi and fungus-like taxa, to act as an international scheme for other scientists. Notes on all newly published taxa at or above the level of species will be prepared and published online on the Outline of Fungi website (https://www.outlineoffungi.org/), and these will be finally published in the biannual edition of the Outline of Fungi and fungus-like taxa. Comments on recent important taxonomic opinions on controversial topics will be included in the biannual outline. For example, 'to promote a more stable taxonomy in Fusarium given the divergences over its generic delimitation', or 'are there too many genera in the Boletales?' and even more importantly, 'what should be done with the tremendously diverse 'dark fungal taxa?' There are undeniable differences in mycologists' perceptions and opinions regarding species classification as well as the establishment of new species. Given the pluralistic nature of fungal taxonomy and its implications for species concepts and the nature of species, this consortium aims to provide a platform to better refine and stabilise fungal classification, taking into consideration views from different parties. In the future, a confidential voting system will be set up to gauge the opinions of all mycologists in the Consortium on important topics. The results of such surveys will be presented to the International Commission on the Taxonomy of Fungi (ICTF) and the Nomenclature Committee for Fungi (NCF) with opinions and percentages of votes for and against. Criticisms based on scientific evidence with regards to nomenclature, classifications, and taxonomic concepts will be welcomed, and any recommendations on specific taxonomic issues will also be encouraged; however, we will encourage professionally and ethically responsible criticisms of others' work. This biannual ongoing project will provide an outlet for advances in various topics of fungal classification, nomenclature, and taxonomic concepts and lead to a community-agreed classification scheme for the fungi and fungus-like taxa. Interested parties should contact the lead author if they would like to be involved in future outlines.
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| 13. |
- Lind, Lars, et al.
(författare)
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Heterogeneous contributions of change in population distribution of body mass index to change in obesity and underweight NCD Risk Factor Collaboration (NCD-RisC)
- 2021
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Ingår i: eLife. - : eLife Sciences Publications Ltd. - 2050-084X. ; 10
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Tidskriftsartikel (refereegranskat)abstract
- From 1985 to 2016, the prevalence of underweight decreased, and that of obesity and severe obesity increased, in most regions, with significant variation in the magnitude of these changes across regions. We investigated how much change in mean body mass index (BMI) explains changes in the prevalence of underweight, obesity, and severe obesity in different regions using data from 2896 population-based studies with 187 million participants. Changes in the prevalence of underweight and total obesity, and to a lesser extent severe obesity, are largely driven by shifts in the distribution of BMI, with smaller contributions from changes in the shape of the distribution. In East and Southeast Asia and sub-Saharan Africa, the underweight tail of the BMI distribution was left behind as the distribution shifted. There is a need for policies that address all forms of malnutrition by making healthy foods accessible and affordable, while restricting unhealthy foods through fiscal and regulatory restrictions.
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| 14. |
- Mishra, A, et al.
(författare)
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Diminishing benefits of urban living for children and adolescents' growth and development
- 2023
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 615:7954, s. 874-883
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Tidskriftsartikel (refereegranskat)abstract
- Optimal growth and development in childhood and adolescence is crucial for lifelong health and well-being1–6. Here we used data from 2,325 population-based studies, with measurements of height and weight from 71 million participants, to report the height and body-mass index (BMI) of children and adolescents aged 5–19 years on the basis of rural and urban place of residence in 200 countries and territories from 1990 to 2020. In 1990, children and adolescents residing in cities were taller than their rural counterparts in all but a few high-income countries. By 2020, the urban height advantage became smaller in most countries, and in many high-income western countries it reversed into a small urban-based disadvantage. The exception was for boys in most countries in sub-Saharan Africa and in some countries in Oceania, south Asia and the region of central Asia, Middle East and north Africa. In these countries, successive cohorts of boys from rural places either did not gain height or possibly became shorter, and hence fell further behind their urban peers. The difference between the age-standardized mean BMI of children in urban and rural areas was <1.1 kg m–2 in the vast majority of countries. Within this small range, BMI increased slightly more in cities than in rural areas, except in south Asia, sub-Saharan Africa and some countries in central and eastern Europe. Our results show that in much of the world, the growth and developmental advantages of living in cities have diminished in the twenty-first century, whereas in much of sub-Saharan Africa they have amplified.
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| 15. |
- Taddei, C, et al.
(författare)
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Repositioning of the global epicentre of non-optimal cholesterol
- 2020
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 582:7810, s. 73-
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Tidskriftsartikel (refereegranskat)abstract
- High blood cholesterol is typically considered a feature of wealthy western countries1,2. However, dietary and behavioural determinants of blood cholesterol are changing rapidly throughout the world3 and countries are using lipid-lowering medications at varying rates. These changes can have distinct effects on the levels of high-density lipoprotein (HDL) cholesterol and non-HDL cholesterol, which have different effects on human health4,5. However, the trends of HDL and non-HDL cholesterol levels over time have not been previously reported in a global analysis. Here we pooled 1,127 population-based studies that measured blood lipids in 102.6 million individuals aged 18 years and older to estimate trends from 1980 to 2018 in mean total, non-HDL and HDL cholesterol levels for 200 countries. Globally, there was little change in total or non-HDL cholesterol from 1980 to 2018. This was a net effect of increases in low- and middle-income countries, especially in east and southeast Asia, and decreases in high-income western countries, especially those in northwestern Europe, and in central and eastern Europe. As a result, countries with the highest level of non-HDL cholesterol—which is a marker of cardiovascular risk—changed from those in western Europe such as Belgium, Finland, Greenland, Iceland, Norway, Sweden, Switzerland and Malta in 1980 to those in Asia and the Pacific, such as Tokelau, Malaysia, The Philippines and Thailand. In 2017, high non-HDL cholesterol was responsible for an estimated 3.9 million (95% credible interval 3.7 million–4.2 million) worldwide deaths, half of which occurred in east, southeast and south Asia. The global repositioning of lipid-related risk, with non-optimal cholesterol shifting from a distinct feature of high-income countries in northwestern Europe, north America and Australasia to one that affects countries in east and southeast Asia and Oceania should motivate the use of population-based policies and personal interventions to improve nutrition and enhance access to treatment throughout the world.
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| 16. |
- Khatri, C, et al.
(författare)
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Outcomes after perioperative SARS-CoV-2 infection in patients with proximal femoral fractures: an international cohort study
- 2021
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Ingår i: BMJ open. - : BMJ. - 2044-6055. ; 11:11, s. e050830-
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Tidskriftsartikel (refereegranskat)abstract
- Studies have demonstrated high rates of mortality in people with proximal femoral fracture and SARS-CoV-2, but there is limited published data on the factors that influence mortality for clinicians to make informed treatment decisions. This study aims to report the 30-day mortality associated with perioperative infection of patients undergoing surgery for proximal femoral fractures and to examine the factors that influence mortality in a multivariate analysis.SettingProspective, international, multicentre, observational cohort study.ParticipantsPatients undergoing any operation for a proximal femoral fracture from 1 February to 30 April 2020 and with perioperative SARS-CoV-2 infection (either 7 days prior or 30-day postoperative).Primary outcome30-day mortality. Multivariate modelling was performed to identify factors associated with 30-day mortality.ResultsThis study reports included 1063 patients from 174 hospitals in 19 countries. Overall 30-day mortality was 29.4% (313/1063). In an adjusted model, 30-day mortality was associated with male gender (OR 2.29, 95% CI 1.68 to 3.13, p<0.001), age >80 years (OR 1.60, 95% CI 1.1 to 2.31, p=0.013), preoperative diagnosis of dementia (OR 1.57, 95% CI 1.15 to 2.16, p=0.005), kidney disease (OR 1.73, 95% CI 1.18 to 2.55, p=0.005) and congestive heart failure (OR 1.62, 95% CI 1.06 to 2.48, p=0.025). Mortality at 30 days was lower in patients with a preoperative diagnosis of SARS-CoV-2 (OR 0.6, 95% CI 0.6 (0.42 to 0.85), p=0.004). There was no difference in mortality in patients with an increase to delay in surgery (p=0.220) or type of anaesthetic given (p=0.787).ConclusionsPatients undergoing surgery for a proximal femoral fracture with a perioperative infection of SARS-CoV-2 have a high rate of mortality. This study would support the need for providing these patients with individualised medical and anaesthetic care, including medical optimisation before theatre. Careful preoperative counselling is needed for those with a proximal femoral fracture and SARS-CoV-2, especially those in the highest risk groups.Trial registration numberNCT04323644
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| 17. |
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| 18. |
- Sun, He, et al.
(författare)
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Increased glacier melt enhances future extreme floods in the southern Tibetan Plateau
- 2024
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Ingår i: Advances in Climate Change Research. - 1674-9278 .- 2524-1761.
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Tidskriftsartikel (refereegranskat)abstract
- Mountainous areas are of special hydrological concern because topography and atmospheric conditions can result in large and sudden floods, posing serious risks to water-related safety in neighbouring countries. The Yarlung Zangbo (YZ) River basin is the largest river basin on the Tibetan Plateau (TP), but how floods will discharge in this basin and how the role of glacier melt in floods will change throughout the 21st-century under shared socioeconomic pathways scenarios (SSP2-4.5 and SSP5-8.5) remain unclear. Here, we comprehensively address this scientific question based on a well-validated large-scale glacier-hydrology model. The results indicate that extreme floods was projected to increase in the YZ basin, and was mainly reflected in increased duration (4–10 d per decade) and intensity (153–985 m3 s−1 per decade). Glacier runoff was projected to increase (2–30 mm per decade) throughout the 21st-century, but there was also a noticeable decrease or deceleration in glacier runoff growth in the late first half of the century under the SSP2-4.5, and in the latter half of the century under the SSP5-8.5. Glacier melt was projected to enhance the duration (12%–23%) and intensity (15%–21%) of extreme floods under both SSPs, which would aggravate the impact of future floods on the socioeconomics of the YZ basin. This effect was gradually overwhelmed by precipitation-induced floods from glacier areas to YZ outlet. This study takes the YZ basin as a projection framework example to help enrich the understanding of future flood hazards in basins affected by rainfall- or meltwater across the TP, and to help policy-makers and water managers develop future plans.
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| 19. |
- Wu, Cary, et al.
(författare)
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Chinese Citizen Satisfaction with Government Performance during COVID-19
- 2021
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Ingår i: Journal of Contemporary China. - : Informa UK Limited. - 1067-0564 .- 1469-9400. ; 30:132, s. 930-944
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Tidskriftsartikel (refereegranskat)abstract
- While foreign pundits have alternatively blamed and praised the Chinese government’s handling of the COVID-19 virus, little is known about how citizens within China understand this performance. This article considers how satisfied Chinese citizens are with their government’s performance during the COVID-19 pandemic. It first considers the impact of authoritarian control, political culture, and/or actual government performance on citizen satisfaction. Then, it tests the consequences of satisfaction and specifically whether citizen satisfaction leads to greater trust. Analyzing data from the first post-COVID survey of its kind (n = 19,816) conducted from April 22 to 28 April 2020, the authors find that Chinese citizens have an overall high level of satisfaction, but that this satisfaction drops with each lower level of government. Further, authoritarian control, political culture, and awareness of government performance all contribute to citizen satisfaction and this in turn, has enhanced public support for the Chinese government.
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| 20. |
- Calabrese, Claudia, et al.
(författare)
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Genomic basis for RNA alterations in cancer
- 2020
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 578:7793, s. 129-136
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Tidskriftsartikel (refereegranskat)abstract
- Transcript alterations often result from somatic changes in cancer genomes1. Various forms of RNA alterations have been described in cancer, including overexpression2, altered splicing3 and gene fusions4; however, it is difficult to attribute these to underlying genomic changes owing to heterogeneity among patients and tumour types, and the relatively small cohorts of patients for whom samples have been analysed by both transcriptome and whole-genome sequencing. Here we present, to our knowledge, the most comprehensive catalogue of cancer-associated gene alterations to date, obtained by characterizing tumour transcriptomes from 1,188 donors of the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA)5. Using matched whole-genome sequencing data, we associated several categories of RNA alterations with germline and somatic DNA alterations, and identified probable genetic mechanisms. Somatic copy-number alterations were the major drivers of variations in total gene and allele-specific expression. We identified 649 associations of somatic single-nucleotide variants with gene expression in cis, of which 68.4% involved associations with flanking non-coding regions of the gene. We found 1,900 splicing alterations associated with somatic mutations, including the formation of exons within introns in proximity to Alu elements. In addition, 82% of gene fusions were associated with structural variants, including 75 of a new class, termed 'bridged' fusions, in which a third genomic location bridges two genes. We observed transcriptomic alteration signatures that differ between cancer types and have associations with variations in DNA mutational signatures. This compendium of RNA alterations in the genomic context provides a rich resource for identifying genes and mechanisms that are functionally implicated in cancer.
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| 21. |
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| 22. |
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| 23. |
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| 24. |
- Du, Hao, et al.
(författare)
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Side reactions/changes in lithium-ion batteries : mechanisms and strategies for creating safer and better batteries
- 2024
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Ingår i: Advanced Materials. - : John Wiley & Sons. - 0935-9648 .- 1521-4095.
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Forskningsöversikt (refereegranskat)abstract
- Abstract Lithium-ion batteries (LIBs), in which lithium ions function as charge carriers, are considered the most competitive energy storage devices due to their high energy and power density. However, battery materials, especially with high capacity undergo side reactions and changes that result in capacity decay and safety issues. A deep understanding of the reactions that cause changes in the battery's internal components and the mechanisms of those reactions is needed to build safer and better batteries. This review focuses on the processes of battery failures, with voltage and temperature as the underlying factors. Voltage-induced failures result from anode interfacial reactions, current collector corrosion, cathode interfacial reactions, overcharge, and overdischarge, while temperature-induced failure mechanisms include SEI decomposition, separator damage, and interfacial reactions between electrodes and electrolytes. The review also presents protective strategies for controlling these reactions. As a result, the reader is offered a comprehensive overview of the safety features and failure mechanisms of various LIB components.
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| 25. |
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| 26. |
- He, Haoran, et al.
(författare)
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Deciphering microbiomes dozens of meters under our feet and their edaphoclimatic and spatial drivers
- 2024
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Ingår i: Global Change Biology. - 1354-1013. ; 30:1
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Tidskriftsartikel (refereegranskat)abstract
- Microbes inhabiting deep soil layers are known to be different from their counterpart in topsoil yet remain under investigation in terms of their structure, function, and how their diversity is shaped. The microbiome of deep soils (>1 m) is expected to be relatively stable and highly independent from climatic conditions. Much less is known, however, on how these microbial communities vary along climate gradients. Here, we used amplicon sequencing to investigate bacteria, archaea, and fungi along fifteen 18-m depth profiles at 20–50-cm intervals across contrasting aridity conditions in semi-arid forest ecosystems of China's Loess Plateau. Our results showed that bacterial and fungal α diversity and bacterial and archaeal community similarity declined dramatically in topsoil and remained relatively stable in deep soil. Nevertheless, deep soil microbiome still showed the functional potential of N cycling, plant-derived organic matter degradation, resource exchange, and water coordination. The deep soil microbiome had closer taxa–taxa and bacteria–fungi associations and more influence of dispersal limitation than topsoil microbiome. Geographic distance was more influential in deep soil bacteria and archaea than in topsoil. We further showed that aridity was negatively correlated with deep-soil archaeal and fungal richness, archaeal community similarity, relative abundance of plant saprotroph, and bacteria–fungi associations, but increased the relative abundance of aerobic ammonia oxidation, manganese oxidation, and arbuscular mycorrhizal in the deep soils. Root depth, complexity, soil volumetric moisture, and clay play bridging roles in the indirect effects of aridity on microbes in deep soils. Our work indicates that, even microbial communities and nutrient cycling in deep soil are susceptible to changes in water availability, with consequences for understanding the sustainability of dryland ecosystems and the whole-soil in response to aridification. Moreover, we propose that neglecting soil depth may underestimate the role of soil moisture in dryland ecosystems under future climate scenarios.
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| 27. |
- He, Shuang, et al.
(författare)
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First-principles study of Re-W interactions and their effects on the mechanical properties of γ/γ' interface in Ni-based single-crystal alloys
- 2023
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Ingår i: Materials Today Communications. - : Elsevier. - 2352-4928. ; 36
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Tidskriftsartikel (refereegranskat)abstract
- The distribution of solutes and their interactions play a crucial role in determining the mechanical properties of the γ/γ′ interface in Ni-based single-crystal alloys. In this study, atomic interactions between Re and W and their alloying effects on the inter-phase cohesion of the γ/γ′ interface are investigated by first-principles calculations. Our results show that W atom exhibits a preference for partitioning into the γ phase, while the stability of the γ/γ′ interface can be enhanced due to the partitioning of W to the γ′ phase. Moreover, our results reveal that partitioned W atoms in the γ′ phase contribute to the strengthening of the γ/γ′ interface. Conversely, the dissolution of W atoms in the γ phase weakens the inter-phase cohesion. However, this detrimental effect can be mitigated by introducing of Re into the γ/γ′ interface. Partitioning of Re and W into separate phases yields minimal alterations in interaction energies, resulting in a notable enhancement of inter-phase cohesion when compared to the partitioning of Re and W within γ phase of the γ/γ′ interface. Additionally, the partitioning of solute atoms at the γ/γ′ interface leads to local lattice distortion and interfacial energy reduction, which contribute to the enhancement of inter-phase cohesion of the γ/γ′ interface. As a result, a model is proposed for interpretation of crack propagation at the γ/γ′ interface at the threshold region with the presence of tensile stress in Ni-based single-crystal alloys.
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| 28. |
- He, Xiaoyu, et al.
(författare)
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Dual-optimization strategy engineered Ti-based metal-organic framework with Fe active sites for highly-selective CO2 photoreduction to formic acid
- 2023
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Ingår i: Applied Catalysis B. - : Elsevier BV. - 0926-3373 .- 1873-3883. ; 327
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Tidskriftsartikel (refereegranskat)abstract
- Increasing CO2 conversion efficiency over metal-organic framework (MOF) based photocatalysts is of great significance to promote the carbon capture and utilization. In this work, a dual-benefit design strategy is deployed in the synthesis of a new two-dimensional Fe/Ti-BPDC MOF photocatalyst with atomically dispersed Fe sites. This catalyst demonstrated an excellent catalytic performance in the visible-light-driven CO2 conversion to HCOOH, achieving a high yield of 703.9 μmol g-1 h-1 at a selectivity greater than 99.7%. This is attributed to the ‘dual-optimization’ achieved by this catalyst to sustain the supply of photogenerated electrons and to effectively activate CO2. Specifically, the Fe/Ti-BPDC catalyst provides a high proportion of effective photogenerated electrons for the CO2 photocatalysis process via a unique electron transfer mechanism. Meanwhile, the strong O/Fe affinity between CO2 and atomically dispersed Fe active sites not only enables a fast CO2 activation, but also dictates the intermediate reaction pathways towards high HCOOH selectivity.
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| 29. |
- Kebede, Rahel Zeleke, et al.
(författare)
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A modular ontology modeling approach to developing digital product passports to promote circular economy in the built environment
- 2024
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Ingår i: Sustainable Production and Consumption. - : Elsevier. - 2352-5509. ; 48, s. 248-268
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Tidskriftsartikel (refereegranskat)abstract
- The significant impact of the built environment on resource consumption and waste production has led to calls for a shift towards a circular economy model that maximizes the efficient use of resources. This study explores the use of digital product passports (DPPs) to improve how we manage products throughout their lifecycle. However, dealing with the complexity and large volume of data in DPPs can be challenging in terms of effective information management and utilization. We address this issue by adopting a modular ontological approach to systematically capture product lifecycle information from its origin to its end-of-life phase. To ensure interoperability and reusability of the ontology, we annotate key concepts and relationships using International Organization for Standardization (ISO) standards that promote circular economy. Our research led to the development of several ontology modules derived from literature reviews and interviews conducted with industry and academia experts who specialize in sustainability. These modules were then integrated to create a digital product passport ontology. The study demonstrates the feasibility of using a modular ontology approach to manage the complex information inherent in DPPs paving the way for more sustainable management practices in the built environment sector.
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| 30. |
- Kebede, Rahel Zeleke, et al.
(författare)
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Circular economy in the built environment : a framework for implementing digital product passports with knowledge graphs
- 2023
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Ingår i: Proceedings of the 2023 European Conference on Computing in Construction and the 40th International CIB W78 Conference. - : European Council on Computing in Construction. - 9780701702731
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Konferensbidrag (refereegranskat)abstract
- The built environment is heavily dependent on wasteful linear economic models and needs to transition to the circular economy (CE). One of the key enablers of CE is Digital Product Passports (DPPs). However, determining the necessary information and selecting suitable technologies remains to be challenging in practical implementations. This research aims to present a framework for implementing DPPs using Knowledge Graphs (KGs). A literature review was conducted to identify the key components of the framework. The result shows that the key elements encompass use cases identification, data collection, modelling, integration, governance, access and querying, and maintenance and updating.
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| 31. |
- Kebede, Rahel Zeleke
(författare)
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Integration of building product data with BIM – Semantic representation of product data
- 2022
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Licentiatavhandling (övrigt vetenskapligt/konstnärligt)abstract
- The adoption and implementation of Building Information Modelling (BIM), as technologies and processes, in the Architecture, Engineering and Construction (AEC) industry marked a significant step forward in advanced digital transformation. One of the distinctive features of the AEC industry is that it necessitates a collaborative effort between several actors from different domains to realize building projects effectively. The involved actors employ different BIM platforms and tools that best suit the task they perform. In addition, the actors rely on one another for information to successfully perform their tasks indicating the crucial importance of digital collaboration and information exchanges between the involved actors.Building product manufacturers are among the important actors in the AEC industry and digitizing how building product data is shared and exchanged is an essential factor for the success of digital BIM processes. The Industry Foundation Classes (IFC) is a widely used data schema for representing building information in a neutral format to support information exchanges between different digital tools. Currently, IFC is supported by several BIM applications employed in the industry and can successfully exchange geometric information of a product.However, the IFC data schema does not cover explicit semantic definitions for domain-specific, innovative or multifunctional product data descriptions, making semantic enrichment of product data difficult. In addition, semantic queries, consistency checking, reasoning and automated data processing are challenging to apply on the IFC models. Several studies suggest using web-based standards and technologies, including the semantic web, to digitally manage and share information.Therefore, the purpose of this research is to investigate how the semantic web technologies can support information interoperability and data integration processes between the manufacturing and building industries. As a proof of concept, a prototype is developed to investigate and demonstrate the feasibility of using the semantic web technologies for information exchanges.The design science research methodology frames the research work presented in this thesis and guides the development and evaluation of the prototype. The prototype is evaluated, with industry representatives, based on product description requirements derived from the research problem and related studies. The outcome demonstrates the feasibility of applying the semantic web technologies in the AEC industry, implying the potential benefits the semantic web could provide in addressing the industry's long-standing information interoperability challenge.
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| 32. |
- Kebede, Rahel Zeleke, et al.
(författare)
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Integration of manufacturers' product data in BIM platforms using semantic web technologies
- 2022
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Ingår i: Automation in Construction. - : Elsevier. - 0926-5805 .- 1872-7891. ; 144
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Tidskriftsartikel (refereegranskat)abstract
- As building information modeling (BIM) gains popularity in the architecture, engineering, and construction (AEC) industry, manufacturers are required to distribute their product specifications in digital product models. Currently, manufacturers mainly employ proprietary formats, such as BIM objects supplemented by PDF documents to represent their product data descriptions. However, these formats do not support flexible automated product search and data integration. This paperdescribes the use of Semantic Web technologies in combination with BIM-based visual programming language (VPL) to automatically integrate product data from external databases. To facilitate data integration, we introduced a method to semantically represent product data linked with the CEN/TS 17623:2021 standard using ontologies in web ontology language (OWL). The study has focused on the use case of a manufacturer of lighting products. Results show that building designers are able to execute a more efficient product search that satisfies their query requirements and returns suitable products of their choice from the manufacturer's database based on their requests. This approach eliminates the time-consuming and error-prone process of manually entering product data into BIM software.
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| 33. |
- Kostka, Kristin, et al.
(författare)
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Unraveling COVID-19: A Large-Scale Characterization of 4.5 Million COVID-19 Cases Using CHARYBDIS.
- 2022
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Ingår i: Clinical epidemiology. - 1179-1349. ; 14, s. 369-384
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Tidskriftsartikel (refereegranskat)abstract
- Routinely collected real world data (RWD) have great utility in aiding the novel coronavirus disease (COVID-19) pandemic response. Here we present the international Observational Health Data Sciences and Informatics (OHDSI) Characterizing Health Associated Risks and Your Baseline Disease In SARS-COV-2 (CHARYBDIS) framework for standardisation and analysis of COVID-19 RWD.We conducted a descriptive retrospective database study using a federated network of data partners in the United States, Europe (the Netherlands, Spain, the UK, Germany, France and Italy) and Asia (South Korea and China). The study protocol and analytical package were released on 11th June 2020 and are iteratively updated via GitHub. We identified three non-mutually exclusive cohorts of 4,537,153 individuals with a clinical COVID-19 diagnosis or positive test, 886,193 hospitalized with COVID-19, and 113,627 hospitalized with COVID-19 requiring intensive services.We aggregated over 22,000 unique characteristics describing patients with COVID-19. All comorbidities, symptoms, medications, and outcomes are described by cohort in aggregate counts and are readily available online. Globally, we observed similarities in the USA and Europe: more women diagnosed than men but more men hospitalized than women, most diagnosed cases between 25 and 60 years of age versus most hospitalized cases between 60 and 80 years of age. South Korea differed with more women than men hospitalized. Common comorbidities included type 2 diabetes, hypertension, chronic kidney disease and heart disease. Common presenting symptoms were dyspnea, cough and fever. Symptom data availability was more common in hospitalized cohorts than diagnosed.We constructed a global, multi-centre view to describe trends in COVID-19 progression, management and evolution over time. By characterising baseline variability in patients and geography, our work provides critical context that may otherwise be misconstrued as data quality issues. This is important as we perform studies on adverse events of special interest in COVID-19 vaccine surveillance.
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| 34. |
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| 35. |
- Le Guen, Yann, et al.
(författare)
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Multiancestry analysis of the HLA locus in Alzheimer's and Parkinson's diseases uncovers a shared adaptive immune response mediated by HLA-DRB1*04 subtypes.
- 2023
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Ingår i: Proceedings of the National Academy of Sciences of the United States of America. - : Proceedings of the National Academy of Sciences (PNAS). - 1091-6490 .- 0027-8424. ; 120:36
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Tidskriftsartikel (refereegranskat)abstract
- Across multiancestry groups, we analyzed Human Leukocyte Antigen (HLA) associations in over 176,000 individuals with Parkinson's disease (PD) and Alzheimer's disease (AD) versus controls. We demonstrate that the two diseases share the same protective association at the HLA locus. HLA-specific fine-mapping showed that hierarchical protective effects of HLA-DRB1*04 subtypes best accounted for the association, strongest with HLA-DRB1*04:04 and HLA-DRB1*04:07, and intermediary with HLA-DRB1*04:01 and HLA-DRB1*04:03. The same signal was associated with decreased neurofibrillary tangles in postmortem brains and was associated with reduced tau levels in cerebrospinal fluid and to a lower extent with increased Aβ42. Protective HLA-DRB1*04 subtypes strongly bound the aggregation-prone tau PHF6 sequence, however only when acetylated at a lysine (K311), a common posttranslational modification central to tau aggregation. An HLA-DRB1*04-mediated adaptive immune response decreases PD and AD risks, potentially by acting against tau, offering the possibility of therapeutic avenues.
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| 36. |
- Li, Xingzhen, et al.
(författare)
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Mono-N-Alkylation of Sulfonamides with Alcohols Catalyzed by Iridium N-Heterocyclic Carbene-Phosphine Complexes
- 2022
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Ingår i: Asian Journal of Organic Chemistry. - : Wiley. - 2193-5807 .- 2193-5815. ; 11:7
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Tidskriftsartikel (refereegranskat)abstract
- A N-heterocyclic carbene-phosphine iridium complex is presented for the efficient and selective mono-N-alkylation of sulfonamides with alcohols based on a borrowing hydrogenation strategy. Herein, water is the only by-product and this methodology thus offers a more environmentally benign and interesting alternative to the use of traditional alkylating reagents. This facile protocol tolerates a large number of (hetero) aromatic and aliphatic sulfonamides as well as (hetero) aromatic and aliphatic alcohols to obtain the desired product is high isolated yield (up to 98%). The alkylation completely retards after the formation of the secondary sulfonamide and no over-alkylation was observed in all cases. The option to run the reaction under solvent-free conditions as well as the scalability of this borrowing hydrogenation are key features of this protocol.
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| 37. |
- Li, Ziyu, et al.
(författare)
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Enhancing Rheocasting Process Control with AI-based Systems
- 2023
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Konferensbidrag (refereegranskat)abstract
- Semisolid casting has emerged as an attractivealternative to conventional casting methods due to its potentialto yield superior mechanical properties, reduce environmentalpollution, and decrease production costs. However, optimizingprocess parameters and controlling the casting process remainschallenging. Process control largely relies on human expertise,associated with significant time and cost expenditures. Inresponse, this study presents a third-circle research project toinvestigate the correlation between the casting process and thesolidification process. The study proposes leveraging AI technologyto digitize the entire process control, thereby increasing thereliability and stability of cast products’ quality. The researchwill focus on understanding the key factors influencing thecasting process and developing an AI-based decision supportsystem to aid in process parameter selection and optimization.The outcomes of this study are expected to contribute to thedevelopment of more reliable and efficient semisolid castingprocesses.
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| 38. |
- Li, Ziyu, et al.
(författare)
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On the Possibility of Replacing Scheil-Gulliver Modeling with Machine Learning and Neural Network Models
- 2023
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Ingår i: Solid State Phenomena. - : Trans Tech Publications. ; , s. 157-163
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Bokkapitel (refereegranskat)abstract
- Resource-efficient manufacturing is a foundation for sustainable and circular manufacturing. Semi-solid processing typically reduces material loss and improves productivity but generally requires a better understanding and control of the solidification of the cast material. Thermal analysis is commonly used in high-pressure die casting (HPDC) processes to determine casting process parameters, such as liquidus and solidus temperatures. However, this method is inadequate for semi-solid casting processes because the eutectic temperature is also a crucial parameter for successful semi-solid casting. This study explores the feasibility of using machine learning and artificial neural networks to predict fundamental values in Al-Si alloy casting. The Thermo-Calc 2022 software Scheil-Gulliver calculation function was used to generate the training and the test datasets, which included features such as melting temperature, alpha aluminium solidification temperature, eutectic temperature, and the solid fraction amounts at eutectic temperature. The results show that both models have a symmetric mean absolute percentage error (SMAPE) of less than 2 % with temperature prediction, with the machine learning model achieving a better accuracy of less than 1 %. A case study comparing practical measurements with prediction results is also discussed, demonstrating the potential of AI methods for predicting semi-solid casting processes.
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| 39. |
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| 40. |
- Li, Ziyu, et al.
(författare)
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Smart-Cast : An AI-Based System for Semisolid Casting Process Control
- 2024
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Ingår i: Procedia Computer Science. - : Elsevier. - 1877-0509. ; 232, s. 2440-2447
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Tidskriftsartikel (refereegranskat)abstract
- To satisfy the rising demand for higher product quality and giga-casting requirements, the casting process is undergoing significant changes. However, current control methods rely significantly on human expertise and experience, making process availability and stability difficult to ensure. The semisolid casting process is more complicated than conventional liquid casting due to the additional casting parameters incorporated during the slurry preparation, which can have an effect on the quality of the final product. Therefore, an efficient tool is required to simplify the complete process of semisolid casting. The introduction of an AI system to aid in the supervision of the casting manufacturing procedure is one potential solution. This paper introduces a new casting system named”Smart-Cast” developed for this specific purpose. The paper describes the functions of the system and its current development process. Using an AI system as an assistant can help to achieve the goal of enhancing the efficacy of casting process control, and it can also help foundries step into the Industry 4.0 era.
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| 41. |
- Liu, Ye, et al.
(författare)
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First-principles investigation on the thermodynamic and mechanical properties of Y4Zr3O12 and Y2Ti2O7 oxides in ferritic alloy under helium environment
- 2024
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Ingår i: Journal of Materials Research and Technology. - : Elsevier. - 2238-7854. ; 29, s. 1872-1886
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Tidskriftsartikel (refereegranskat)abstract
- This study investigates the thermodynamic and mechanical properties of Y4Zr3O12 and Y2Ti2O7 oxides in ferritic alloys with and without Helium utilizing a systematic first-principles approach. Firstly, the atomic arrangement of Y and Zr atoms at cation 18f sites in δ-(Y–Zr–O) oxide is identified, while it is found that Y4Zr3O12 exhibits a more robust formation tendency than Y2Ti2O7. Furthermore, it is noted that both Y4Zr3O12 and Y2Ti2O7 oxides demonstrate a prior ability to trap Helium compared to the bcc-Fe matrix, which leads to a substantial enhancement on the stiffness of both oxides. The elastic moduli of both Y4Zr3O12 and Y2Ti2O7 oxide exhibit a gradual increase with the growing Helium concentration. As a result, the enhanced shear modulus of oxides and sustained shear modulus of the bcc-Fe matrix collectively contribute to the overall strength of ferritic alloys under Helium environments. The findings in this work propose valuable insights for guiding critical strategies in the design of high-performance oxide-dispersion-strengthened ferritic alloys, particularly for applications in Helium environments.
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| 42. |
- Liu, Zhenchao, et al.
(författare)
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Guided Mode Induced Surface Phase Mutation for Enhanced SPR Biosensor with Dual-Parameters Interrogation
- 2023
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Ingår i: Advanced Materials Interfaces. - : Wiley. - 2196-7350. ; 10:34
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Tidskriftsartikel (refereegranskat)abstract
- Ongoing research on the sensitivity and integration of refractive index-based biosensors has resulted in significant advancements. Here, the study presents an enhanced surface plasmon resonance biosensor that integrates imaging technology and features dual-parameter interrogation (intensity and phase) with guided mode coupling. By depositing a silica-waveguide-layer on a metal-layer, two-mode coupling is established to generate a high Q resonance and induce a phase mutation. The sensing performance experiment demonstrated a phase sensing sensitivity of 1.1 × 105 degree RIU−1, Q-value of the resonant peak up to 314, and figure of merit of 300 RIU−1, superior to most standard plasmonic sensors. An in-line phase-polarization modulation scheme combined with imaging technology is proposed to extract the resonant phase carrying refractive index information. Additionally, a pair-prism module is designed to optimize the sensing system configuration. Meanwhile, dual-parameters interrogation including the intensity and phase are demonstrated, which offers potential for complementary and multi-sensing fusion applications. The intensity interrogation also shows a considerable sensitivity of 7.2 × 104 a.u. RIU−1. Furthermore, it is combined with microfluidic chip to detect of alpha-synuclein protein closely related to Parkinson's disease, and the limit of detection can reach 300 pg mL−1 level, which indicated a considerable potential for high-throughput diagnosis application.
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| 43. |
- Liu, Zhenchao, et al.
(författare)
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Phase Interrogation Sensor Based on All-Dielectric BIC Metasurface
- 2023
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Ingår i: Nano Letters. - : American Chemical Society (ACS). - 1530-6984 .- 1530-6992. ; 23:22, s. 10441-10448
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Tidskriftsartikel (refereegranskat)abstract
- The low performance of sensors based on an all-dielectric metasurface limits their application compared to metallic counterparts. Here, for the first time, an all-dielectric BIC (bound states in the continuum) metasurface is employed for highly sensitive phase interrogation refractive index sensing. The proposed sensor is well analyzed, fabricated, and characterized. Experimentally, a high-performance BIC-based microfluidic sensing chip with a Q factor of 1200 is achieved by introducing symmetry breaking. A refractive index sensor with high figure of merit of 418 RIU-1 is demonstrated, which is beneficial to the phase interrogation. Notably, we measure a record phase interrogation sensitivity of 2.7 x 10(4) deg/RIU to the refractive index, thus enabling the all-dielectric BIC to rival the refractive index detection capabilities of metal-based sensors such as surface plasmon resonance. This scheme establishes a pivotal role of the all-dielectric metasurface in the field of ultrahigh sensitivity sensors and opens possibilities for trace detection in biochemical analysis and environment monitoring.
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| 44. |
- Luo, Yang, et al.
(författare)
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Three-dimensional and temperature-dependent electronic structure of the heavy-fermion compound CePt2In7 studied by angle-resolved photoemission spectroscopy
- 2020
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Ingår i: Physical Review B. - : AMER PHYSICAL SOC. - 2469-9950 .- 2469-9969. ; 101:11
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Tidskriftsartikel (refereegranskat)abstract
- The three-dimensional and temperature-dependent electronic structures of the heavy-fermion superconductor CePt2In7 are investigated. Angle-resolved photoemission spectroscopy using variable photon energy establishes the existence of quasi-two- and three-dimensional Fermi surface topologies. Temperature-dependent 4d-4f on-resonance photoemission spectroscopies data reveal that heavy quasiparticle bands begin to form at a temperature well above the characteristic (coherence) temperature T+. The emergence of low-lying crystal electric field excitation may be responsible for the "relocalization" or the precursor to the establishment of heavy electrons coherence in heavy-fermion compounds. These findings provide critical insight into understanding the hybridization in heavy-fermion systems.
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| 45. |
- Luo, Ziteng, et al.
(författare)
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Linking roots, preferential flow, and soil moisture redistribution in deciduous and coniferous forest soils
- 2022
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Ingår i: Journal of Soils and Sediments. - : Springer Science and Business Media LLC. - 1614-7480 .- 1439-0108.
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Tidskriftsartikel (refereegranskat)abstract
- Soil moisture (i.e., the changes in the gravimetric soil water content) redistribution is closely linked with root distribution and preferential flow in soils. This study aimed at exploring the soil water content distribution in the presence of root-enhanced preferential flow in deciduous (Quercus variabilis BI.) and coniferous forests (Platycladus orientalis (L.)).
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| 46. |
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| 47. |
- Miao, Yuchen, et al.
(författare)
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TouchKey : Touch to Generate Symmetric Keys by Skin Electric Potentials Induced by Powerline Radiation
- 2023
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Ingår i: Proceedings of the ACM on Interactive Mobile Wearable and Ubiquitous Technologies-Imwut. - : Association for Computing Machinery (ACM). - 2474-9567. ; 7:2
-
Tidskriftsartikel (refereegranskat)abstract
- Secure device pairing is important to wearables. Existing solutions either degrade usability due to the need of specific actions like shaking, or they lack universality due to the need of dedicated hardware like electrocardiogram sensors. This paper proposes TOUCHKEY, a symmetric key generation scheme that exploits the skin electric potential (SEP) induced by powerline electromagnetic radiation. The SEP is ubiquitously accessible indoors with analog-to-digital converters widely available on Internet of Things devices. Our measurements show that the SEP has high randomness and the SEPs measured at two close locations on the same human body are similar. Extensive experiments show that TOUCHKEY achieves a high key generation rate of 345 bit/s and an average success rate of 99.29%. Under a range of adversary models including active and passive attacks, TOUCHKEY shows a low false acceptance rate of 0.86%, which outperforms existing solutions. Besides, the overall execution time and energy usage are 0.44 s and 2.716 mJ, which make it suitable for resource-constrained devices.
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| 48. |
- Muus, Christoph, et al.
(författare)
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Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics
- 2021
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Ingår i: Nature Medicine. - : Springer Science and Business Media LLC. - 1078-8956 .- 1546-170X. ; 27:3, s. 546-559
-
Tidskriftsartikel (refereegranskat)abstract
- Angiotensin-converting enzyme 2 (ACE2) and accessory proteases (TMPRSS2 and CTSL) are needed for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) cellular entry, and their expression may shed light on viral tropism and impact across the body. We assessed the cell-type-specific expression of ACE2, TMPRSS2 and CTSL across 107 single-cell RNA-sequencing studies from different tissues. ACE2, TMPRSS2 and CTSL are coexpressed in specific subsets of respiratory epithelial cells in the nasal passages, airways and alveoli, and in cells from other organs associated with coronavirus disease 2019 (COVID-19) transmission or pathology. We performed a meta-analysis of 31 lung single-cell RNA-sequencing studies with 1,320,896 cells from 377 nasal, airway and lung parenchyma samples from 228 individuals. This revealed cell-type-specific associations of age, sex and smoking with expression levels of ACE2, TMPRSS2 and CTSL. Expression of entry factors increased with age and in males, including in airway secretory cells and alveolar type 2 cells. Expression programs shared by ACE2(+)TMPRSS2(+) cells in nasal, lung and gut tissues included genes that may mediate viral entry, key immune functions and epithelial-macrophage cross-talk, such as genes involved in the interleukin-6, interleukin-1, tumor necrosis factor and complement pathways. Cell-type-specific expression patterns may contribute to the pathogenesis of COVID-19, and our work highlights putative molecular pathways for therapeutic intervention. An integrated analysis of over 100 single-cell and single-nucleus transcriptomics studies illustrates severe acute respiratory syndrome coronavirus 2 viral entry gene coexpression patterns across different human tissues, and shows association of age, smoking status and sex with viral entry gene expression in respiratory cell populations.
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| 49. |
- Mäe, Maarja Andaloussi, et al.
(författare)
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Single-Cell Analysis of Blood-Brain Barrier Response to Pericyte Loss
- 2021
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Ingår i: Circulation Research. - : Lippincott Williams & Wilkins. - 0009-7330 .- 1524-4571. ; 128:4, s. E46-E62
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Tidskriftsartikel (refereegranskat)abstract
- Rationale: Pericytes are capillary mural cells playing a role in stabilizing newly formed blood vessels during development and tissue repair. Loss of pericytes has been described in several brain disorders, and genetically induced pericyte deficiency in the brain leads to increased macromolecular leakage across the blood-brain barrier (BBB). However, the molecular details of the endothelial response to pericyte deficiency remain elusive.Objective: To map the transcriptional changes in brain endothelial cells resulting from lack of pericyte contact at single-cell level and to correlate them with regional heterogeneities in BBB function and vascular phenotype.Methods and Results: We reveal transcriptional, morphological, and functional consequences of pericyte absence for brain endothelial cells using a combination of methodologies, including single-cell RNA sequencing, tracer analyses, and immunofluorescent detection of protein expression in pericyte-deficient adult Pdgfb(ret/ret) mice. We find that endothelial cells without pericyte contact retain a general BBB-specific gene expression profile, however, they acquire a venous-shifted molecular pattern and become transformed regarding the expression of numerous growth factors and regulatory proteins. Adult Pdgfb(ret/ret) brains display ongoing angiogenic sprouting without concomitant cell proliferation providing unique insights into the endothelial tip cell transcriptome. We also reveal heterogeneous modes of pericyte-deficient BBB impairment, where hotspot leakage sites display arteriolar-shifted identity and pinpoint putative BBB regulators. By testing the causal involvement of some of these using reverse genetics, we uncover a reinforcing role for angiopoietin 2 at the BBB.Conclusions: By elucidating the complexity of endothelial response to pericyte deficiency at cellular resolution, our study provides insight into the importance of brain pericytes for endothelial arterio-venous zonation, angiogenic quiescence, and a limited set of BBB functions. The BBB-reinforcing role of ANGPT2 (angiopoietin 2) is paradoxical given its wider role as TIE2 (TEK receptor tyrosine kinase) receptor antagonist and may suggest a unique and context-dependent function of ANGPT2 in the brain.
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| 50. |
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