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- 2019
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Tidskriftsartikel (refereegranskat)
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| 3. |
- Abolfathi, Bela, et al.
(författare)
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The Fourteenth Data Release of the Sloan Digital Sky Survey : First Spectroscopic Data from the Extended Baryon Oscillation Spectroscopic Survey and from the Second Phase of the Apache Point Observatory Galactic Evolution Experiment
- 2018
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Ingår i: Astrophysical Journal Supplement Series. - : IOP Publishing Ltd. - 0067-0049 .- 1538-4365. ; 235:2
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Tidskriftsartikel (refereegranskat)abstract
- The fourth generation of the Sloan Digital Sky Survey (SDSS-IV) has been in operation since 2014 July. This paper describes the second data release from this phase, and the 14th from SDSS overall (making this Data Release Fourteen or DR14). This release makes the data taken by SDSS-IV in its first two years of operation (2014-2016 July) public. Like all previous SDSS releases, DR14 is cumulative, including the most recent reductions and calibrations of all data taken by SDSS since the first phase began operations in 2000. New in DR14 is the first public release of data from the extended Baryon Oscillation Spectroscopic Survey; the first data from the second phase of the Apache Point Observatory (APO) Galactic Evolution Experiment (APOGEE-2), including stellar parameter estimates from an innovative data-driven machine-learning algorithm known as "The Cannon"; and almost twice as many data cubes from the Mapping Nearby Galaxies at APO (MaNGA) survey as were in the previous release (N = 2812 in total). This paper describes the location and format of the publicly available data from the SDSS-IV surveys. We provide references to the important technical papers describing how these data have been taken (both targeting and observation details) and processed for scientific use. The SDSS web site (www.sdss.org) has been updated for this release and provides links to data downloads, as well as tutorials and examples of data use. SDSS-IV is planning to continue to collect astronomical data until 2020 and will be followed by SDSS-V.
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| 4. |
- Joshi, Peter K, et al.
(författare)
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Directional dominance on stature and cognition in diverse human populations
- 2015
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 523:7561, s. 459-462
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Tidskriftsartikel (refereegranskat)abstract
- Homozygosity has long been associated with rare, often devastating, Mendelian disorders, and Darwin was one of the first to recognize that inbreeding reduces evolutionary fitness. However, the effect of the more distant parental relatedness that is common in modern human populations is less well understood. Genomic data now allow us to investigate the effects of homozygosity on traits of public health importance by observing contiguous homozygous segments (runs of homozygosity), which are inferred to be homozygous along their complete length. Given the low levels of genome-wide homozygosity prevalent in most human populations, information is required on very large numbers of people to provide sufficient power. Here we use runs of homozygosity to study 16 health-related quantitative traits in 354,224 individuals from 102 cohorts, and find statistically significant associations between summed runs of homozygosity and four complex traits: height, forced expiratory lung volume in one second, general cognitive ability and educational attainment (P < 1 × 10(-300), 2.1 × 10(-6), 2.5 × 10(-10) and 1.8 × 10(-10), respectively). In each case, increased homozygosity was associated with decreased trait value, equivalent to the offspring of first cousins being 1.2 cm shorter and having 10 months' less education. Similar effect sizes were found across four continental groups and populations with different degrees of genome-wide homozygosity, providing evidence that homozygosity, rather than confounding, directly contributes to phenotypic variance. Contrary to earlier reports in substantially smaller samples, no evidence was seen of an influence of genome-wide homozygosity on blood pressure and low density lipoprotein cholesterol, or ten other cardio-metabolic traits. Since directional dominance is predicted for traits under directional evolutionary selection, this study provides evidence that increased stature and cognitive function have been positively selected in human evolution, whereas many important risk factors for late-onset complex diseases may not have been.
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| 5. |
- Mendelson, Michael M., et al.
(författare)
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Association of Body Mass Index with DNA Methylation and Gene Expression in Blood Cells and Relations to Cardiometabolic Disease : A Mendelian Randomization Approach
- 2017
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Ingår i: PLoS Medicine. - : PUBLIC LIBRARY SCIENCE. - 1549-1277 .- 1549-1676. ; 14:1
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Tidskriftsartikel (refereegranskat)abstract
- Background The link between DNA methylation, obesity, and adiposity-related diseases in the general population remains uncertain. Methods and Findings We conducted an association study of body mass index (BMI) and differential methylation for over 400,000 CpGs assayed by microarray in whole-blood-derived DNA from 3,743 participants in the Framingham Heart Study and the Lothian Birth Cohorts, with independent replication in three external cohorts of 4,055 participants. We examined variations in whole blood gene expression and conducted Mendelian randomization analyses to investigate the functional and clinical relevance of the findings. We identified novel and previously reported BMI-related differential methylation at 83 CpGs that replicated across cohorts; BMI-related differential methylation was associated with concurrent changes in the expression of genes in lipid metabolism pathways. Genetic instrumental variable analysis of alterations in methylation at one of the 83 replicated CpGs, cg11024682 (intronic to sterol regulatory element binding transcription factor 1 [SREBF1]), demonstrated links to BMI, adiposity-related traits, and coronary artery disease. Independent genetic instruments for expression of SREBF1 supported the findings linking methylation to adiposity and cardiometabolic disease. Methylation at a substantial proportion (16 of 83) of the identified loci was found to be secondary to differences in BMI. However, the cross-sectional nature of the data limits definitive causal determination. Conclusions We present robust associations of BMI with differential DNA methylation at numerous loci in blood cells. BMI-related DNA methylation and gene expression provide mechanistic insights into the relationship between DNA methylation, obesity, and adiposity-related diseases.
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| 6. |
- Wuttke, Matthias, et al.
(författare)
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A catalog of genetic loci associated with kidney function from analyses of a million individuals
- 2019
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Ingår i: Nature Genetics. - : NATURE PUBLISHING GROUP. - 1061-4036 .- 1546-1718. ; 51:6, s. 957-972
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Tidskriftsartikel (refereegranskat)abstract
- Chronic kidney disease (CKD) is responsible for a public health burden with multi-systemic complications. Through transancestry meta-analysis of genome-wide association studies of estimated glomerular filtration rate (eGFR) and independent replication (n = 1,046,070), we identified 264 associated loci (166 new). Of these,147 were likely to be relevant for kidney function on the basis of associations with the alternative kidney function marker blood urea nitrogen (n = 416,178). Pathway and enrichment analyses, including mouse models with renal phenotypes, support the kidney as the main target organ. A genetic risk score for lower eGFR was associated with clinically diagnosed CKD in 452,264 independent individuals. Colocalization analyses of associations with eGFR among 783,978 European-ancestry individuals and gene expression across 46 human tissues, including tubulo-interstitial and glomerular kidney compartments, identified 17 genes differentially expressed in kidney. Fine-mapping highlighted missense driver variants in 11 genes and kidney-specific regulatory variants. These results provide a comprehensive priority list of molecular targets for translational research.
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| 7. |
- Arvidsson, Åke, 1957-, et al.
(författare)
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Web metrics for the next generation performance enhancing proxies
- 2019
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Ingår i: 2019 27TH INTERNATIONAL CONFERENCE ON SOFTWARE, TELECOMMUNICATIONS AND COMPUTER NETWORKS (SOFTCOM). - : IEEE. - 9789532900880 ; , s. 171-176
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Konferensbidrag (refereegranskat)abstract
- The fast growth of Internet traffic, the growing importance of cellular accesses and the escalating competition between content providers and network operators result in a growing interest in improving network performance and user experience. In terms of network transport, different solutions ranging from tuning TCP to installing middleboxes are applied. It turns out, however, that the practical results sometimes are disappointing and we believe that poor testing is one of the reasons for this. Indeed, many cases in the literature limit testing to the simple and rare use case of a single file download, while common and complex use cases like web browsing often are ignored or modelled only by considering smaller files. To facilitate better testing, we present a broader view which includes domain counts, flow counts and different forms of concurrency to better characterise the complexity around web pages, and from which the potential for different optimisation techniques can be estimated. We also derive numerical values of these metrics for a small set of popular web pages and study similarities and differences between pages with the same kind of content (newspapers, e-commerce and video) and between pages designed for the same platform (computer and smartphone).
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| 8. |
- Braco, Veletanlic, et al.
(författare)
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Flipped classroom approach and its implementation in an online course
- 2016
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Ingår i: Lärarlärdom 2016. - Högskolan Kristianstad : Kristianstad University Press.
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- Active learning is the process where students learn beyond passively listening to an instructor's lecture. In this way students are engaged in their learning activities. It has been accepted that active learning leads to deeper understanding and better learning outcomes.The term flipped classroom has been widely used to describe a new pedagogical approach in which traditional lecture and homework elements of a course are reversed so that the initial exposure to the learning content takes place outside of the classroom. This approach frees up class time, promotes active learning and engagement in learning and facilitates student-centered learning.In this study we experimented with flipped classroom approach in the online course Programming in C during the autumn term 2015. The purpose of the experiment was to determine whether flipped classroom can serve as an appropriate method to use in an online course and to find out to what extent flipped classroom can stimulate active learning in an online setting. Based on known concept of flipped classroom approach and literature review, we systematically reviewed YouTube videos and selected 52 video clips to use as companion course materials. We also compiled and produced 212 quiz questions to use as formative assessment. In order to promote interaction among the students, we experimented with peer-review as a part of the laboratory work process. We also provided scheduled online sessions in the form of chat rooms. Short video clips were positively received by the students. Even the peer-review approach was positively received but the students gave up this activity at the end of the course, due to the work load. Flipped classroom has potential to be used in online settings but distinction between "classroom" and "outside classroom" is not always clear.More work is needed to make this distinction visible and to make the transition between these two learning environments smooth.
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| 9. |
- Braco, Veletanlic, et al.
(författare)
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Flipped classroom approach and its implementation in an online course
- 2016
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Konferensbidrag (övrigt vetenskapligt/konstnärligt)abstract
- Active learning is the process where students learn beyond passively listening to an instructor's lecture. In this way students are engaged in their learning activities. It has been accepted that active learning leads to deeper understanding and better learning outcomes. The term flipped classroom has been widely used to describe a new pedagogical approach in which traditional lecture and homework elements of a course are reversed so that the initial exposure to the learning content takes place outside of the classroom. This approach frees up class time, promotes active learning and engagement in learning and facilitates student-centered learning. In this study we experimented with flipped classroom approach in the online course Programming in C during the autumn term 2015. The purpose of the experiment was to determine whether flipped classroom can serve as an appropriate method to use in an online course and to find out to what extent flipped classroom can stimulate active learning in an online setting. Based on known concept of flipped classroom approach and literature review, we systematically reviewed YouTube videos and selected 52 video clips to use as companion course materials. We also compiled and produced 212 quiz questions to use as formative assessment. In order to promote interaction among the students, we experimented with peer-review as a part of the laboratory work process. We also provided scheduled online sessions in the form of chat rooms. Short video clips were positively received by the students. Even the peer-review approach was positively received but the students gave up this activity at the end of the course, due to the work load. Flipped classroom has potential to be used in online settings but distinction between "classroom" and "outside classroom" is not always clear. More work is needed to make this distinction visible and to make the transition between these two learning environments smooth.
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| 10. |
- Chen, Eric Zhi, 1963-, et al.
(författare)
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A database of linear codes over F13 with minimum distance bounds and new quasi-twisted codes from a heuristic search algorithm
- 2015
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Ingår i: Journal of Algebra Combinatorics Discrete Structures and Application. - Turkey. - 2148-838X. ; 2:1, s. 1-16
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Tidskriftsartikel (refereegranskat)abstract
- Error control codes have been widely used in data communications and storage systems. One centralproblem in coding theory is to optimize the parameters of a linear code and construct codes withbest possible parameters. There are tables of best-known linear codes over finite fields of sizes up to9. Recently, there has been a growing interest in codes over F13 and other fields of size greater than9. The main purpose of this work is to present a database of best-known linear codes over the fieldF13 together with upper bounds on the minimum distances. To find good linear codes to establishlower bounds on minimum distances, an iterative heuristic computer search algorithm is employed toconstruct quasi-twisted (QT) codes over the field F13 with high minimum distances. A large numberof new linear codes have been found, improving previously best-known results. Tables of [pm;m] QTcodes over F13 with best-known minimum distances as well as a table of lower and upper bounds onthe minimum distances for linear codes of length up to 150 and dimension up to 6 are presented.
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