| 1. |
- López-Isac, Elena, et al.
(författare)
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Brief Report : IRF4 Newly Identified as a Common Susceptibility Locus for Systemic Sclerosis and Rheumatoid Arthritis in a Cross-Disease Meta-Analysis of Genome-Wide Association Studies
- 2016
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Ingår i: Arthritis & Rheumatology. - : Wiley. - 2326-5191 .- 2326-5205. ; 68:9, s. 2338-2344
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Tidskriftsartikel (refereegranskat)abstract
- Objective: Systemic sclerosis (SSc) and rheumatoid arthritis (RA) are autoimmune diseases that have similar clinical and immunologic characteristics. To date, several shared SSc–RA genetic loci have been identified independently. The aim of the current study was to systematically search for new common SSc–RA loci through an interdisease meta–genome-wide association (meta-GWAS) strategy. Methods: The study was designed as a meta-analysis combining GWAS data sets of patients with SSc and patients with RA, using a strategy that allowed identification of loci with both same-direction and opposite-direction allelic effects. The top single-nucleotide polymorphisms were followed up in independent SSc and RA case–control cohorts. This allowed an increase in the sample size to a total of 8,830 patients with SSc, 16,870 patients with RA, and 43,393 healthy controls. Results: This cross-disease meta-analysis of the GWAS data sets identified several loci with nominal association signals (P < 5 × 10−6) that also showed evidence of association in the disease-specific GWAS scans. These loci included several genomic regions not previously reported as shared loci, as well as several risk factors that were previously found to be associated with both diseases. Follow-up analyses of the putatively new SSc–RA loci identified IRF4 as a shared risk factor for these 2 diseases (Pcombined = 3.29 × 10−12). Analysis of the biologic relevance of the known SSc–RA shared loci identified the type I interferon and interleukin-12 signaling pathways as the main common etiologic factors. Conclusion: This study identified a novel shared locus, IRF4, for the risk of SSc and RA, and highlighted the usefulness of a cross-disease GWAS meta-analysis strategy in the identification of common risk loci.
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| 2. |
- Zamora, Juan Carlos, et al.
(författare)
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Considerations and consequences of allowing DNA sequence data as types of fungal taxa
- 2018
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Ingår i: IMA Fungus. - : INT MYCOLOGICAL ASSOC. - 2210-6340 .- 2210-6359. ; 9:1, s. 167-185
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Tidskriftsartikel (refereegranskat)abstract
- Nomenclatural type definitions are one of the most important concepts in biological nomenclature. Being physical objects that can be re-studied by other researchers, types permanently link taxonomy (an artificial agreement to classify biological diversity) with nomenclature (an artificial agreement to name biological diversity). Two proposals to amend the International Code of Nomenclature for algae, fungi, and plants (ICN), allowing DNA sequences alone (of any region and extent) to serve as types of taxon names for voucherless fungi (mainly putative taxa from environmental DNA sequences), have been submitted to be voted on at the 11th International Mycological Congress (Puerto Rico, July 2018). We consider various genetic processes affecting the distribution of alleles among taxa and find that alleles may not consistently and uniquely represent the species within which they are contained. Should the proposals be accepted, the meaning of nomenclatural types would change in a fundamental way from physical objects as sources of data to the data themselves. Such changes are conducive to irreproducible science, the potential typification on artefactual data, and massive creation of names with low information content, ultimately causing nomenclatural instability and unnecessary work for future researchers that would stall future explorations of fungal diversity. We conclude that the acceptance of DNA sequences alone as types of names of taxa, under the terms used in the current proposals, is unnecessary and would not solve the problem of naming putative taxa known only from DNA sequences in a scientifically defensible way. As an alternative, we highlight the use of formulas for naming putative taxa (candidate taxa) that do not require any modification of the ICN.
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| 3. |
- Abelev, Betty, et al.
(författare)
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Long-range angular correlations on the near and away side in p-Pb collisions at root S-NN=5.02 TeV
- 2013
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Ingår i: Physics Letters. Section B: Nuclear, Elementary Particle and High-Energy Physics. - : Elsevier BV. - 0370-2693. ; 719:1-3, s. 29-41
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Tidskriftsartikel (refereegranskat)abstract
- Angular correlations between charged trigger and associated particles are measured by the ALICE detector in p-Pb collisions at a nucleon-nucleon centre-of-mass energy of 5.02 TeV for transverse momentum ranges within 0.5 < P-T,P-assoc < P-T,P-trig < 4 GeV/c. The correlations are measured over two units of pseudorapidity and full azimuthal angle in different intervals of event multiplicity, and expressed as associated yield per trigger particle. Two long-range ridge-like structures, one on the near side and one on the away side, are observed when the per-trigger yield obtained in low-multiplicity events is subtracted from the one in high-multiplicity events. The excess on the near-side is qualitatively similar to that recently reported by the CMS Collaboration, while the excess on the away-side is reported for the first time. The two-ridge structure projected onto azimuthal angle is quantified with the second and third Fourier coefficients as well as by near-side and away-side yields and widths. The yields on the near side and on the away side are equal within the uncertainties for all studied event multiplicity and p(T) bins, and the widths show no significant evolution with event multiplicity or p(T). These findings suggest that the near-side ridge is accompanied by an essentially identical away-side ridge. (c) 2013 CERN. Published by Elsevier B.V. All rights reserved.
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| 4. |
- Abelev, Betty, et al.
(författare)
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Measurement of prompt J/psi and beauty hadron production cross sections at mid-rapidity in pp collisions at root s=7 TeV
- 2012
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Ingår i: Journal of High Energy Physics. - 1029-8479. ; :11
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Tidskriftsartikel (refereegranskat)abstract
- The ALICE experiment at the LHC has studied J/psi production at mid-rapidity in pp collisions at root s = 7 TeV through its electron pair decay on a data sample corresponding to an integrated luminosity L-int = 5.6 nb(-1). The fraction of J/psi from the decay of long-lived beauty hadrons was determined for J/psi candidates with transverse momentum p(t) > 1,3 GeV/c and rapidity vertical bar y vertical bar < 0.9. The cross section for prompt J/psi mesons, i.e. directly produced J/psi and prompt decays of heavier charmonium states such as the psi(2S) and chi(c) resonances, is sigma(prompt J/psi) (p(t) > 1.3 GeV/c, vertical bar y vertical bar < 0.9) = 8.3 +/- 0.8(stat.) +/- 1.1 (syst.)(-1.4)(+1.5) (syst. pol.) mu b. The cross section for the production of b-hadrons decaying to J/psi with p(t) > 1.3 GeV/c and vertical bar y vertical bar < 0.9 is a sigma(J/psi <- hB) (p(t) > 1.3 GeV/c, vertical bar y vertical bar < 0.9) = 1.46 +/- 0.38 (stat.)(-0.32)(+0.26) (syst.) mu b. The results are compared to QCD model predictions. The shape of the p(t) and y distributions of b-quarks predicted by perturbative QCD model calculations are used to extrapolate the measured cross section to derive the b (b) over bar pair total cross section and d sigma/dy at mid-rapidity.
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| 5. |
- Abelev, Betty, et al.
(författare)
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Underlying Event measurements in pp collisions at root s=0.9 and 7 TeV with the ALICE experiment at the LHC
- 2012
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Ingår i: Journal of High Energy Physics. - 1029-8479. ; :7
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Tidskriftsartikel (refereegranskat)abstract
- We present measurements of Underlying Event observables in pp collisions at root s = 0 : 9 and 7 TeV. The analysis is performed as a function of the highest charged-particle transverse momentum p(T),L-T in the event. Different regions are defined with respect to the azimuthal direction of the leading (highest transverse momentum) track: Toward, Transverse and Away. The Toward and Away regions collect the fragmentation products of the hardest partonic interaction. The Transverse region is expected to be most sensitive to the Underlying Event activity. The study is performed with charged particles above three different p(T) thresholds: 0.15, 0.5 and 1.0 GeV/c. In the Transverse region we observe an increase in the multiplicity of a factor 2-3 between the lower and higher collision energies, depending on the track p(T) threshold considered. Data are compared to PYTHIA 6.4, PYTHIA 8.1 and PHOJET. On average, all models considered underestimate the multiplicity and summed p(T) in the Transverse region by about 10-30%.
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| 6. |
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| 7. |
- Cabrera Arteaga, Javier, 1992-, et al.
(författare)
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CROW: Code Diversification for WebAssembly
- 2021
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Konferensbidrag (refereegranskat)abstract
- The adoption of WebAssembly increases rapidly, as it provides a fast and safe model for program execution in the browser. However, WebAssembly is not exempt from vulnerabilities that can be exploited by malicious observers. Code diversification can mitigate some of these attacks. In this paper, we present the first fully automated workflow for the diversification of WebAssembly binaries. We present CROW, an open-source tool implementing this workflow through enumerative synthesis of diverse code snippets expressed in the LLVMintermediate representation. We evaluate CROW’s capabilitieson303C programs and study its use on a real-life security-sensitive program: libsodium, a modern cryptographic library. Overall, CROW is able to generate diverse variants for239out of303 (79%)small programs. Furthermore, our experiments show that our approach and tool is able to successfully diversify off-the-shelf cryptographic software (libsodium).
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| 8. |
- Commowick, Olivier, et al.
(författare)
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Objective Evaluation of Multiple Sclerosis Lesion Segmentation using a Data Management and Processing Infrastructure
- 2018
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Ingår i: Scientific Reports. - : Nature Publishing Group. - 2045-2322. ; 8
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Tidskriftsartikel (refereegranskat)abstract
- We present a study of multiple sclerosis segmentation algorithms conducted at the international MICCAI 2016 challenge. This challenge was operated using a new open-science computing infrastructure. This allowed for the automatic and independent evaluation of a large range of algorithms in a fair and completely automatic manner. This computing infrastructure was used to evaluate thirteen methods of MS lesions segmentation, exploring a broad range of state-of-theart algorithms, against a high-quality database of 53 MS cases coming from four centers following a common definition of the acquisition protocol. Each case was annotated manually by an unprecedented number of seven different experts. Results of the challenge highlighted that automatic algorithms, including the recent machine learning methods (random forests, deep learning,.), are still trailing human expertise on both detection and delineation criteria. In addition, we demonstrate that computing a statistically robust consensus of the algorithms performs closer to human expertise on one score (segmentation) although still trailing on detection scores.
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| 9. |
- Ding, Pengji, et al.
(författare)
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Nonadiabaticity of cavity-free neutral nitrogen lasing
- 2017
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Ingår i: Physical Review A. - 2469-9926. ; 96:3
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Tidskriftsartikel (refereegranskat)abstract
- We report on a theoretical study of cavity-free lasing of neutral nitrogen molecules in femtosecond laser filaments with a nonadiabatic Maxwell-Bloch model, compared with recent pump-seed experiments. The nonadiabaticity of the lasing process is revealed and it is found that electron-neutral collisions dominate the dipole dephasing rate. Moreover, we show that the asymmetry between forward and backward lasing not only depends on the different amplification lengths but also on the temporal dynamics of electron-neutral collisions. The comparison of the nonadiabatic model with simulations based on the adiabatic approximation (such as radiative transfer equations) explicitly sets a bound on the validity of the latter model for cavity-free nitrogen lasing phenomenon, which holds a unique potential in optical remote sensing applications.
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| 10. |
- Gerkin, Richard C., et al.
(författare)
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Recent Smell Loss Is the Best Predictor of COVID-19 Among Individuals With Recent Respiratory Symptoms
- 2021
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Ingår i: Chemical Senses. - : Oxford University Press (OUP). - 0379-864X .- 1464-3553. ; 46
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Tidskriftsartikel (refereegranskat)abstract
- In a preregistered, cross-sectional study, we investigated whether olfactory loss is a reliable predictor of COVID-19 using a crowdsourced questionnaire in 23 languages to assess symptoms in individuals self-reporting recent respiratory illness. We quantified changes in chemosensory abilities during the course of the respiratory illness using 0–100 visual analog scales (VAS) for participants reporting a positive (C19+; n = 4148) or negative (C19−; n = 546) COVID-19 laboratory test outcome. Logistic regression models identified univariate and multivariate predictors of COVID-19 status and post-COVID-19 olfactory recovery. Both C19+ and C19− groups exhibited smell loss, but it was significantly larger in C19+ participants (mean ± SD, C19+: −82.5 ± 27.2 points; C19−: −59.8 ± 37.7). Smell loss during illness was the best predictor of COVID-19 in both univariate and multivariate models (ROC AUC = 0.72). Additional variables provide negligible model improvement. VAS ratings of smell loss were more predictive than binary chemosensory yes/no-questions or other cardinal symptoms (e.g., fever). Olfactory recovery within 40 days of respiratory symptom onset was reported for ~50% of participants and was best predicted by time since respiratory symptom onset. We find that quantified smell loss is the best predictor of COVID-19 amongst those with symptoms of respiratory illness. To aid clinicians and contact tracers in identifying individuals with a high likelihood of having COVID-19, we propose a novel 0–10 scale to screen for recent olfactory loss, the ODoR-19. We find that numeric ratings ≤2 indicate high odds of symptomatic COVID-19 (4 < OR < 10). Once independently validated, this tool could be deployed when viral lab tests are impractical or unavailable.
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| 11. |
- Gorasso, Vanessa, et al.
(författare)
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Burden of disease attributable to risk factors in European countries: a scoping literature review
- 2023
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Ingår i: Archives of Public Health. - 0778-7367 .- 2049-3258. ; 81:1
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Forskningsöversikt (refereegranskat)abstract
- Objectives: Within the framework of the burden of disease (BoD) approach, disease and injury burden estimates attributable to risk factors are a useful guide for policy formulation and priority setting in disease prevention. Considering the important differences in methods, and their impact on burden estimates, we conducted a scoping literature review to: (1) map the BoD assessments including risk factors performed across Europe; and (2) identify the methodological choices in comparative risk assessment (CRA) and risk assessment methods. Methods: We searched multiple literature databases, including grey literature websites and targeted public health agencies websites. Results: A total of 113 studies were included in the synthesis and further divided into independent BoD assessments (54 studies) and studies linked to the Global Burden of Disease (59 papers). Our results showed that the methods used to perform CRA varied substantially across independent European BoD studies. While there were some methodological choices that were more common than others, we did not observe patterns in terms of country, year or risk factor. Each methodological choice can affect the comparability of estimates between and within countries and/or risk factors, since they might significantly influence the quantification of the attributable burden. From our analysis we observed that the use of CRA was less common for some types of risk factors and outcomes. These included environmental and occupational risk factors, which are more likely to use bottom-up approaches for health outcomes where disease envelopes may not be available. Conclusions: Our review also highlighted misreporting, the lack of uncertainty analysis and the under-investigation of causal relationships in BoD studies. Development and use of guidelines for performing and reporting BoD studies will help understand differences, avoid misinterpretations thus improving comparability among estimates.
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| 12. |
- Nováková Zachovalová, Věra, et al.
(författare)
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Introduction and progress in the EMPIR project TracePQM : Traceability Routes for Electric Power Quality Measurements
- 2018
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Ingår i: Journal of Physics. - : Institute of Physics Publishing.
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Konferensbidrag (refereegranskat)abstract
- Increasing demands for traceable, accurate measurements of power and power quality (PQ) parameters have resulted in an intensive metrology research effort in this area. This paper describes the objectives and so far achieved results of the EURAMET EMPIR Project TracePQM (15RPT04), jointly founded by the European Union and the participating countries. The overall goal of this project is to develop an open, modular, and well documented metrology grade system for measurement of power and PQ parameters by means of digital sampling techniques available to everyone and to increase research capacity in this area.
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| 13. |
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| 14. |
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The Seventeenth Data Release of the Sloan Digital Sky Surveys : Complete Release of MaNGA, MaStar, and APOGEE-2 Data
- 2022
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Ingår i: Astrophysical Journal Supplement Series. - : Institute of Physics (IOP). - 0067-0049 .- 1538-4365. ; 259:2
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Tidskriftsartikel (refereegranskat)abstract
- This paper documents the seventeenth data release (DR17) from the Sloan Digital Sky Surveys; the fifth and final release from the fourth phase (SDSS-IV). DR17 contains the complete release of the Mapping Nearby Galaxies at Apache Point Observatory (MaNGA) survey, which reached its goal of surveying over 10,000 nearby galaxies. The complete release of the MaNGA Stellar Library accompanies this data, providing observations of almost 30,000 stars through the MaNGA instrument during bright time. DR17 also contains the complete release of the Apache Point Observatory Galactic Evolution Experiment 2 survey that publicly releases infrared spectra of over 650,000 stars. The main sample from the Extended Baryon Oscillation Spectroscopic Survey (eBOSS), as well as the subsurvey Time Domain Spectroscopic Survey data were fully released in DR16. New single-fiber optical spectroscopy released in DR17 is from the SPectroscipic IDentification of ERosita Survey subsurvey and the eBOSS-RM program. Along with the primary data sets, DR17 includes 25 new or updated value-added catalogs. This paper concludes the release of SDSS-IV survey data. SDSS continues into its fifth phase with observations already underway for the Milky Way Mapper, Local Volume Mapper, and Black Hole Mapper surveys.
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| 15. |
- Vera-Agullo, Jose, et al.
(författare)
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Durability of concrete caissons made in floating docks
- 2015
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Ingår i: Concrete 2015. - : Institute of Australia. - 9781943847709 ; , s. 894-903
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Konferensbidrag (refereegranskat)abstract
- ACCIONA Infrastructure, a Spanish contractor, uses the caisson method for the construction ofbreakwater structures. One of its floating docks, Kugira, is one of the largest of its kind in the world and itcan produce concrete caissons measuring 70 m long by 36 m wide and 35 m high. Concrete caissonsmade in floating docks are gradually immersed in sea water as they are built; thus, the set concrete isexposed to sea water at a very early stage, within 18 to 48 hours after casting in sliding formwork. In orderto study the durability of slag concrete using this construction method, the properties of concrete exposedto sea water at a very young age have been tested. Specimens were exposed to artificial sea water by theponding method at different ages (16h, 1, 2, 3, 7 and 28 days) for a period of 6, 18 and 36 (analysispending) months. The following properties were measured and compared with unexposed specimens:compressive strength, water and oxygen permeability, pore size distribution, migration coefficient DNT492and chloride profiles. After 6 and 18 months ponding, lower chloride contents were measured for thespecimens exposed to sea water after 28 days curing compared to those exposed at early ages.However, this difference significantly decreases within a small depth from the exposed surface. Also themigration coefficient DNT492 decreases significantly with the increase of the age of the concrete. Withregards to water and oxygen permeability, no significant differences were found. In this paper, a summaryof all these works is presented.Apart from this laboratory analysis, real scale tests were performed at site with the aim to increasedurability by the addition of nanosilica particles. The characterization of these real scale tests are alsodescribed and discussed in this paper.
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| 16. |
- Vera, Carlos, et al.
(författare)
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Validation of a Qualification Procedure Applied to the Verification of Partial Discharge Analysers Used for HVDC or HVAC Networks
- 2023
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Ingår i: Applied Sciences. - : Multidisciplinary Digital Publishing Institute (MDPI). - 2076-3417. ; 13:14
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Tidskriftsartikel (refereegranskat)abstract
- The insulation condition of HVDC grids consisting of cable systems, GIS, and converters should be monitored by partial discharge (PD) analysers using artificial intelligence (AI) tools for efficient insulation diagnosis. Although there are many experiences of PD monitoring solutions developed for the supervision of the insulation condition of HVAC grids using PD analysers, there are no standardised requirements for their qualification available yet. The international technical specification TS IEC 62478 provides general rules for PD measurements using electromagnetic methods but does not define performance requirements for qualification tests. HVDC and HVAC PD analysers must be tested by unambiguous test procedures. This paper compiles experiences of using PD analysers with HFCT sensors in HVAC grids (cable systems, GIS, and AIS) to define a qualification procedure for HVAC systems. This procedure is applicable to HVDC grids (cable systems, GIS, AIS, and converters) because the particularities related to the insulation behaviour under HVDC voltage are also considered. Representative PD sources are discussed in HVAC and HVDC positive and negative polarity. The PD pulse trend of representative insulation defects in HVDC cable systems is quite different from that of HVAC grids. Special attention should be paid to the acquisition of PD signals in HVDC grids since few pulses appear in solid insulations, mainly during voltage changes (polarity reversals or surges), but rarely in continuous operation with constant direct voltage. A synthetic PD simulator has been developed to reproduce trains of PD pulses or noise signals, similar to those that can appear in the power network. A set of three functionality tests has been developed for qualification of the diagnostic capabilities of PD analysers working up to 30 MHz addressed to HVDC or HVAC grids: (1) PD recognition test, (2) PD clustering test, and (3) PD location test. This qualification procedure has been validated by means of a round-robin test performed by five research institutes (RISE, FFII, TUDelft, TAU, and UPM) using commercial and in-development AI PD recognition and clustering tools to demonstrate its robustness and applicability. Applying this qualification procedure, two PD methods for electrical detection and prevention of insulation defects have been approved, one for HVAC and the other for HVDC grids. © 2023 by the authors.
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| 17. |
- Zariquiey, Roberto, et al.
(författare)
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Linking endangerment databases and descriptive linguistics : an assessment of the use of terms relating to language endangerment in grammars
- 2022
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Ingår i: Language Documentation & Conservation. - : University of Hawaii Press. - 1934-5275. ; 16, s. 290-318
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Tidskriftsartikel (refereegranskat)abstract
- The world harbours a diversity of some 6,500 mutually unintelligible languages. As has been increasingly observed by linguists, many minority languages are becoming endangered and will be lost forever if not documented. The increased urgency has led to the development of several global endangerment databases and a more fine-grained understanding of the language endangerment progression as well as its possible reversal. In the present paper, we explore the terminological correlates of this development as found in the descriptive linguistic literature, using a corpus of over 10,000 digitized grammatical descriptions. Comparing this with existing endangerment databases, we find that simply counting terms related to endangerment does signal endangerment, but the degree of endangerment is more difficult to assess from grammatical descriptions. The label endangered seems to be an umbrella term that covers different situations ranging from moribund languages with less than ten speakers to minority languages with several thousand speakers. For many languages considered endangered in existing databases, explicit terms to this effect cannot be found in their descriptions. The discrepancy is due to incompleteness of the searchterm set, gaps in the literature, and projected rather than observed information in the databases. Our explorations illustrate the potential for database curation assisted by computational searches both to maintain accuracy of the databases and to investigate assumed language endangerment. Future work includes a larger cloud of search terms, usage of term frequencies, and prescreening of descriptive literature for the existence of a relevant section. From the perspective of descriptive linguistics, this study calls for a more careful correlation between the language endangerment indexes, as developed in the global endangerment databases, and the treatment of the endangerment status of individual languages in descriptive grammars.
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