| 1. |
- Niemi, MEK, et al.
(författare)
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- 2021
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swepub:Mat__t
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| 2. |
- Thomas, HS, et al.
(författare)
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- 2019
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swepub:Mat__t
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| 3. |
- Hudson, Lawrence N, et al.
(författare)
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The database of the PREDICTS (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems) project
- 2017
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Ingår i: Ecology and Evolution. - : John Wiley & Sons. - 2045-7758. ; 7:1, s. 145-188
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Tidskriftsartikel (refereegranskat)abstract
- The PREDICTS project-Projecting Responses of Ecological Diversity In Changing Terrestrial Systems (www.predicts.org.uk)-has collated from published studies a large, reasonably representative database of comparable samples of biodiversity from multiple sites that differ in the nature or intensity of human impacts relating to land use. We have used this evidence base to develop global and regional statistical models of how local biodiversity responds to these measures. We describe and make freely available this 2016 release of the database, containing more than 3.2 million records sampled at over 26,000 locations and representing over 47,000 species. We outline how the database can help in answering a range of questions in ecology and conservation biology. To our knowledge, this is the largest and most geographically and taxonomically representative database of spatial comparisons of biodiversity that has been collated to date; it will be useful to researchers and international efforts wishing to model and understand the global status of biodiversity.
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| 4. |
- Kanoni, Stavroula, et al.
(författare)
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Implicating genes, pleiotropy, and sexual dimorphism at blood lipid loci through multi-ancestry meta-analysis.
- 2022
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Ingår i: Genome biology. - : Springer Science and Business Media LLC. - 1474-760X .- 1465-6906 .- 1474-7596. ; 23:1
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Tidskriftsartikel (refereegranskat)abstract
- Genetic variants within nearly 1000 loci are known to contribute to modulation of blood lipid levels. However, the biological pathways underlying these associations are frequently unknown, limiting understanding of these findings and hindering downstream translational efforts such as drug target discovery.To expand our understanding of the underlying biological pathways and mechanisms controlling blood lipid levels, we leverage a large multi-ancestry meta-analysis (N=1,654,960) of blood lipids to prioritize putative causal genes for 2286 lipid associations using six gene prediction approaches. Using phenome-wide association (PheWAS) scans, we identify relationships of genetically predicted lipid levels to other diseases and conditions. We confirm known pleiotropic associations with cardiovascular phenotypes and determine novel associations, notably with cholelithiasis risk. We perform sex-stratified GWAS meta-analysis of lipid levels and show that 3-5% of autosomal lipid-associated loci demonstrate sex-biased effects. Finally, we report 21 novel lipid loci identified on the X chromosome. Many of the sex-biased autosomal and X chromosome lipid loci show pleiotropic associations with sex hormones, emphasizing the role of hormone regulation in lipid metabolism.Taken together, our findings provide insights into the biological mechanisms through which associated variants lead to altered lipid levels and potentially cardiovascular disease risk.
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| 5. |
- Eicher, John D., et al.
(författare)
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Platelet-Related Variants Identified by Exomechip Meta-analysis in 157,293 Individuals
- 2016
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Ingår i: American Journal of Human Genetics. - : Elsevier BV. - 0002-9297 .- 1537-6605. ; 99:1, s. 40-55
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Tidskriftsartikel (refereegranskat)abstract
- Platelet production, maintenance, and clearance are tightly controlled processes indicative of platelets' important roles in hemostasis and thrombosis. Platelets are common targets for primary and secondary prevention of several conditions. They are monitored clinically by complete blood counts, specifically with measurements of platelet count (PLT) and mean platelet volume (MPV). Identifying genetic effects on PLT and MPV can provide mechanistic insights into platelet biology and their role in disease. Therefore, we formed the Blood Cell Consortium (BCX) to perform a large-scale meta-analysis of Exomechip association results for PLT and MPV in 157,293 and 57,617 individuals, respectively. Using the low-frequency/rare coding variant-enriched Exomechip genotyping array, we sought to identify genetic variants associated with PLT and MPV. In addition to confirming 47 known PLT and 20 known MPV associations, we identified 32 PLT and 18 MPV associations not previously observed in the literature across the allele frequency spectrum, including rare large effect (FCER1A), low-frequency (IQGAP2, MAP1A, LY75), and common(ZMIZ2, SMG6, PEAR1, ARFGAP3/PACSIN2) variants. Several variants associated with PLT/MPV(PEAR1, MRVI1, PTGES3) were also associated with platelet reactivity. In concurrent BCX analyses, there was overlap of platelet-associated variants with red (MAP1A, TMPRSS6, ZMIZ2) and white (PEAR1, ZMIZ2, LY75) blood cell traits, suggesting common regulatory pathways with shared genetic architecture among these hematopoietic lineages. Our large-scale Exomechip analyses identified previously undocumented associations with platelet traits and further indicate that several complex quantitative hematological, lipid, and cardiovascular traits share genetic factors.
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| 6. |
- Huang, Chelsea X., et al.
(författare)
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TESS Spots a Hot Jupiter with an Inner Transiting Neptune
- 2020
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Ingår i: Astrophysical Journal Letters. - : American Astronomical Society. - 2041-8213 .- 2041-8205. ; 892:1
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Tidskriftsartikel (refereegranskat)abstract
- Hot Jupiters are rarely accompanied by other planets within a factor of a few in orbital distance. Previously, only two such systems have been found. Here, we report the discovery of a third system using data from the Transiting Exoplanet Survey Satellite (TESS). The host star, TOI-1130, is an eleventh magnitude K-dwarf in Gaia G-band. It has two transiting planets: a Neptune-sized planet (3.65 ± 0.10 R\oplus) with a 4.1 days period, and a hot Jupiter (1.50-0.22+0.27 RJ) with an 8.4 days period. Precise radial-velocity observations show that the mass of the hot Jupiter is 0.974-0.044+0.043 MJ. For the inner Neptune, the data provide only an upper limit on the mass of 0.17 MJ (3σ). Nevertheless, we are confident that the inner planet is real, based on follow-up ground-based photometry and adaptive-optics imaging that rule out other plausible sources of the TESS transit signal. The unusual planetary architecture of and the brightness of the host star make TOI-1130 a good test case for planet formation theories, and an attractive target for future spectroscopic observations.
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| 7. |
- Gaziano, Liam, et al.
(författare)
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Mild-to-moderate kidney dysfunction and cardiovascular disease : Observational and mendelian randomization analyses
- 2022
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Ingår i: Circulation. - : Wolters Kluwer. - 0009-7322 .- 1524-4539. ; 146:20, s. 1507-1517
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUND: End-stage renal disease is associated with a high risk of cardiovascular events. It is unknown, however, whether mild-to-moderate kidney dysfunction is causally related to coronary heart disease (CHD) and stroke.METHODS: Observational analyses were conducted using individual-level data from 4 population data sources (Emerging Risk Factors Collaboration, EPIC-CVD [European Prospective Investigation into Cancer and Nutrition-Cardiovascular Disease Study], Million Veteran Program, and UK Biobank), comprising 648 135 participants with no history of cardiovascular disease or diabetes at baseline, yielding 42 858 and 15 693 incident CHD and stroke events, respectively, during 6.8 million person-years of follow-up. Using a genetic risk score of 218 variants for estimated glomerular filtration rate (eGFR), we conducted Mendelian randomization analyses involving 413 718 participants (25 917 CHD and 8622 strokes) in EPIC-CVD, Million Veteran Program, and UK Biobank.RESULTS: There were U-shaped observational associations of creatinine-based eGFR with CHD and stroke, with higher risk in participants with eGFR values <60 or >105 mL·min-1·1.73 m-2, compared with those with eGFR between 60 and 105 mL·min-1·1.73 m-2. Mendelian randomization analyses for CHD showed an association among participants with eGFR <60 mL·min-1·1.73 m-2, with a 14% (95% CI, 3%-27%) higher CHD risk per 5 mL·min-1·1.73 m-2 lower genetically predicted eGFR, but not for those with eGFR >105 mL·min-1·1.73 m-2. Results were not materially different after adjustment for factors associated with the eGFR genetic risk score, such as lipoprotein(a), triglycerides, hemoglobin A1c, and blood pressure. Mendelian randomization results for stroke were nonsignificant but broadly similar to those for CHD.CONCLUSIONS: In people without manifest cardiovascular disease or diabetes, mild-to-moderate kidney dysfunction is causally related to risk of CHD, highlighting the potential value of preventive approaches that preserve and modulate kidney function.
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| 8. |
- Smith, Daniel G. A., et al.
(författare)
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Quantum Chemistry Common Driver and Databases (QCDB) and Quantum Chemistry Engine (QCEngine) : Automation and interoperability among computational chemistry programs
- 2021
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Ingår i: Journal of Chemical Physics. - : American Institute of Physics (AIP). - 0021-9606 .- 1089-7690. ; 155:20
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Tidskriftsartikel (refereegranskat)abstract
- Community efforts in the computational molecular sciences (CMS) are evolving toward modular, open, and interoperable interfaces that work with existing community codes to provide more functionality and composability than could be achieved with a single program. The Quantum Chemistry Common Driver and Databases (QCDB) project provides such capability through an application programming interface (API) that facilitates interoperability across multiple quantum chemistry software packages. In tandem with the Molecular Sciences Software Institute and their Quantum Chemistry Archive ecosystem, the unique functionalities of several CMS programs are integrated, including CFOUR, GAMESS, NWChem, OpenMM, Psi4, Qcore, TeraChem, and Turbomole, to provide common computational functions, i.e., energy, gradient, and Hessian computations as well as molecular properties such as atomic charges and vibrational frequency analysis. Both standard users and power users benefit from adopting these APIs as they lower the language barrier of input styles and enable a standard layout of variables and data. These designs allow end-to-end interoperable programming of complex computations and provide best practices options by default.
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| 9. |
- Alimena, Juliette, et al.
(författare)
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Searching for long-lived particles beyond the Standard Model at the Large Hadron Collider
- 2020
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Ingår i: Journal of Physics G. - : IOP Publishing. - 0954-3899 .- 1361-6471. ; 47:9
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Tidskriftsartikel (refereegranskat)abstract
- Particles beyond the Standard Model (SM) can generically have lifetimes that are long compared to SM particles at the weak scale. When produced at experiments such as the Large Hadron Collider (LHC) at CERN, these long-lived particles (LLPs) can decay far from the interaction vertex of the primary proton-proton collision. Such LLP signatures are distinct from those of promptly decaying particles that are targeted by the majority of searches for new physics at the LHC, often requiring customized techniques to identify, for example, significantly displaced decay vertices, tracks with atypical properties, and short track segments. Given their non-standard nature, a comprehensive overview of LLP signatures at the LHC is beneficial to ensure that possible avenues of the discovery of new physics are not overlooked. Here we report on the joint work of a community of theorists and experimentalists with the ATLAS, CMS, and LHCb experiments-as well as those working on dedicated experiments such as MoEDAL, milliQan, MATHUSLA, CODEX-b, and FASER-to survey the current state of LLP searches at the LHC, and to chart a path for the development of LLP searches into the future, both in the upcoming Run 3 and at the high-luminosity LHC. The work is organized around the current and future potential capabilities of LHC experiments to generally discover new LLPs, and takes a signature-based approach to surveying classes of models that give rise to LLPs rather than emphasizing any particular theory motivation. We develop a set of simplified models; assess the coverage of current searches; document known, often unexpected backgrounds; explore the capabilities of proposed detector upgrades; provide recommendations for the presentation of search results; and look towards the newest frontiers, namely high-multiplicity 'dark showers', highlighting opportunities for expanding the LHC reach for these signals.
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| 10. |
- Knudsen, Gitte M, et al.
(författare)
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Guidelines for the content and format of PET brain data in publications and archives : A consensus paper
- 2020
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Ingår i: Journal of Cerebral Blood Flow and Metabolism. - : SAGE Publications. - 0271-678X .- 1559-7016. ; 40:8, s. 1576-1585
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Tidskriftsartikel (refereegranskat)abstract
- It is a growing concern that outcomes of neuroimaging studies often cannot be replicated. To counteract this, the magnetic resonance (MR) neuroimaging community has promoted acquisition standards and created data sharing platforms, based on a consensus on how to organize and share MR neuroimaging data. Here, we take a similar approach to positron emission tomography (PET) data. To facilitate comparison of findings across studies, we first recommend publication standards for tracer characteristics, image acquisition, image preprocessing, and outcome estimation for PET neuroimaging data. The co-authors of this paper, representing more than 25 PET centers worldwide, voted to classify information as mandatory, recommended, or optional. Second, we describe a framework to facilitate data archiving and data sharing within and across centers. Because of the high cost of PET neuroimaging studies, sample sizes tend to be small and relatively few sites worldwide have the required multidisciplinary expertise to properly conduct and analyze PET studies. Data sharing will make it easier to combine datasets from different centers to achieve larger sample sizes and stronger statistical power to test hypotheses. The combining of datasets from different centers may be enhanced by adoption of a common set of best practices in data acquisition and analysis.
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| 11. |
- Bean, Jacob L., et al.
(författare)
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The CRIRES search for planets around the lowest-mass stars. I. High-precision near-infrared radial velocities with an ammonia gas cell
- 2010
-
Ingår i: Astrophysical Journal. - 0004-637X. ; 713:1, s. 410-422
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Tidskriftsartikel (refereegranskat)abstract
- Radial velocities measured from near-infrared (NIR) spectra are a potentially powerful tool to search for planets around cool stars and sub-stellar objects. However, no technique currently exists that yields NIR radial velocity precision comparable to that routinely obtained in the visible. We are carrying out an NIR radial velocity planet search program targeting a sample of the lowest-mass M dwarfs using the CRIRES instrument on the Very Large Telescope. In this first paper in a planned series about the project, we describe a method for measuring high-precision relative radial velocities of these stars from K-band spectra. The method makes use of a glass cell filled with ammonia gas to calibrate the spectrograph response similar to the "iodine cell" technique that has been used very successfully in the visible. Stellar spectra are obtained through the ammonia cell and modeled as the product of a Doppler-shifted template spectrum of the object and a spectrum of the cell, convolved with a variable instrumental profile (IP) model. A complicating factor is that a significant number of telluric absorption lines are present in the spectral regions containing useful stellar and ammonia lines. The telluric lines are modeled simultaneously as well using spectrum synthesis with a time-resolved model of the atmosphere over the observatory. The free parameters in the complete model are the wavelength scale of the spectrum, the IP, adjustments to the water and methane abundances in the atmospheric model, telluric spectrum Doppler shift, and stellar Doppler shift. Tests of the method based on the analysis of hundreds of spectra obtained for late-M dwarfs over 6 months demonstrate that precisions of similar to 5 m s(-1) are obtainable over long timescales, and precisions of better than 3 m s(-1) can be obtained over timescales up to a week. The obtained precision is comparable to the predicted photon-limited errors, but primarily limited over long timescales by the imperfect modeling of the telluric lines.
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| 12. |
- Bean, Jacob L., et al.
(författare)
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The crires search for planets around the lowest-mass stars. I. High-precision near-infrared radial velocities with an ammonia gas cell
- 2010
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Ingår i: Astrophysical Journal. - : American Astronomical Society. - 0004-637X .- 1538-4357. ; 713:1, s. 410-422
-
Tidskriftsartikel (refereegranskat)abstract
- Radial velocities measured from near-infrared (NIR) spectra are a potentially powerful tool to search for planets around cool stars and sub-stellar objects. However, no technique currently exists that yields NIR radial velocity precision comparable to that routinely obtained in the visible. We are carrying out an NIR radial velocity planet search program targeting a sample of the lowest-mass M dwarfs using the CRIRES instrument on the Very Large Telescope. In this first paper in a planned series about the project, we describe a method for measuring high-precision relative radial velocities of these stars from K-band spectra. The method makes use of a glass cell filled with ammonia gas to calibrate the spectrograph response similar to the "iodine cell" technique that has been used very successfully in the visible. Stellar spectra are obtained through the ammonia cell and modeled as the product of a Doppler-shifted template spectrum of the object and a spectrum of the cell, convolved with a variable instrumental profile (IP) model. A complicating factor is that a significant number of telluric absorption lines are present in the spectral regions containing useful stellar and ammonia lines. The telluric lines are modeled simultaneously as well using spectrum synthesis with a time-resolved model of the atmosphere over the observatory. The free parameters in the complete model are the wavelength scale of the spectrum, the IP, adjustments to the water and methane abundances in the atmospheric model, telluric spectrum Doppler shift, and stellar Doppler shift. Tests of the method based on the analysis of hundreds of spectra obtained for late-M dwarfs over 6 months demonstrate that precisions of ∼ 5 m s−1 are obtainable over long timescales, and precisions of better than 3 m s−1 can be obtained over timescales up to a week. The obtained precision is comparable to the predicted photon-limited errors, but primarily limited over long timescales by the imperfect modeling of the telluric lines.
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| 13. |
- Bean, Jacob L., et al.
(författare)
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The proposed giant planet orbiting VB 10 does not exist
- 2010
-
Ingår i: Astrophysical Journal Letters. - 2041-8213. ; 711:1, s. 19-23
-
Tidskriftsartikel (refereegranskat)abstract
- We present high-precision relative radial velocities of the very low mass star VB 10 that were obtained over a time span of 0.61 years as part of an ongoing search for planets around stars at the end of the main sequence. The radial velocities were measured from high-resolution near-infrared spectra obtained using the CRIRES instrument on the Very Large Telescope with an ammonia gas cell. The typical internal precision of the measurements is 10 m s(-1). These data do not exhibit significant variability and are essentially constant at a level consistent with the measurement uncertainties. Therefore, we do not detect the radial velocity variations of VB 10 expected due to the presence of an orbiting giant planet similar to that recently proposed by Pravdo & Shaklan based on apparent astrometric perturbations. In addition, we do not confirm the similar to 1 km s(-1) radial velocity variability of the star tentatively detected by Zapatero Osorio and colleagues with lower precision measurements. Our measurements rule out planets with M-p > 3 M-Jup and the orbital period and inclination suggested by Pravdo & Shaklan at better than 5 sigma confidence. We conclude that the planet detection claimed by Pravdo & Shaklan is spurious on the basis of this result. Although the outcome of this work is a non-detection, it illustrates the potential of using ammonia cell radial velocities to detect planets around very low mass stars.
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| 14. |
- Bean, Jacob L., et al.
(författare)
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The proposed giant planet orbiting VB 10 does not exist
- 2010
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Ingår i: Astrophysical Journal Letters. - : American Astronomical Society. - 2041-8205 .- 2041-8213. ; 711:1, s. L19-L23
-
Tidskriftsartikel (refereegranskat)abstract
- We present high-precision relative radial velocities of the very low mass star VB 10 that were obtained over a time span of 0.61 years as part of an ongoing search for planets around stars at the end of the main sequence. The radial velocities were measured from high-resolution near-infrared spectra obtained using the CRIRES instrument on the Very Large Telescope with an ammonia gas cell. The typical internal precision of the measurements is 10 m s−1. These data do not exhibit significant variability and are essentially constant at a level consistent with the measurement uncertainties. Therefore, we do not detect the radial velocity variations of VB 10 expected due to the presence of an orbiting giant planet similar to that recently proposed by Pravdo & Shaklan based on apparent astrometric perturbations. In addition, we do not confirm the ∼1 km s−1 radial velocity variability of the star tentatively detected by Zapatero Osorio and colleagues with lower precision measurements. Our measurements rule out planets with Mp > 3 MJup and the orbital period and inclination suggested by Pravdo & Shaklan at better than 5σ confidence. We conclude that the planet detection claimed by Pravdo & Shaklan is spurious on the basis of this result. Although the outcome of this work is a non-detection, it illustrates the potential of using ammonia cell radial velocities to detect planets around very low mass stars.
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| 15. |
- Fiedler, Heidelore, Dr. 1953-, et al.
(författare)
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A Critical Review of A Recommended Analytical and Classification Approach for Organic Fluorinated Compounds with an Emphasis on Per- and Polyfluoroalkyl Substances
- 2021
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Ingår i: Integrated Environmental Assessment and Management. - : John Wiley & Sons. - 1551-3777 .- 1551-3793. ; 17:2, s. 331-351
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Forskningsöversikt (refereegranskat)abstract
- Organic fluorinated compounds have been detected in various environmental media and biota. Some of these compounds are regulated locally (e.g., perfluorononanoic acid maximum contaminant level in drinking water by the New Jersey Dept. of Environmental Protection), nationally (e.g., perfluorooctanoic acid maximum acceptable concentration in drinking water by Health Canada) or internationally (e.g. Stockholm Convention on Persistent Organic Pollutants). Globally, regulators and researchers seek to identify the organic fluorinated compounds associated with potential adverse effects, bioaccumulation, mobility and persistence to manage their risks, and, to understand the beneficial attributes they bring to products such as first responder gear, etc. Clarity is needed to determine the best analytical method for the goal of the analyses (e.g., pure research or analysis to determine the extent of an accidental release, monitoring ground water for specific compounds to determine regulatory compliance, establish baseline levels in a river of organic fluorinated substances associated with human health risk prior to a clean-up effort, etc.). Analytical techniques that identify organic fluorine coupled together with targeted chemical analysis will yield information sufficient to identify public health or environmental hazards.
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