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- Samland, M., et al.
(författare)
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Spectral and atmospheric characterization of 51 Eridani b using VLT/SPHERE
- 2017
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 603
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Tidskriftsartikel (refereegranskat)abstract
- Context. 51 Eridani b is an exoplanet around a young (20 Myr) nearby (29.4 pc) F0-type star, which was recently discovered by direct imaging. It is one of the closest direct imaging planets in angular and physical separation (similar to 0.5 '', similar to 13 au) and is well suited for spectroscopic analysis using integral field spectrographs. Aims. We aim to refine the atmospheric properties of the known giant planet and to constrain the architecture of the system further by searching for additional companions. Methods. We used the extreme adaptive optics instrument SPHERE at the Very Large Telescope (VLT) to obtain simultaneous dual-band imaging with IRDIS and integral field spectra with IFS, extending the spectral coverage of the planet to the complete Y-to H-band range and providing additional photometry in the K12-bands (2.11, 2.25 mu m). The object is compared to other known cool and peculiar dwarfs. The posterior probability distributions for parameters of cloudy and clear atmospheric models are explored using MCMC. We verified our methods by determining atmospheric parameters for the two benchmark brown dwarfs Gl 570D and HD 3651B. We used archival VLT-NACO (L') Sparse Aperture Masking data to probe the innermost region for additional companions. Results. We present the first spectrophotometric measurements in the Y and K bands for the planet and revise its J-band flux to values 40% fainter than previous measurements. Cloudy models with uniform cloud coverage provide a good match to the data. We derive the temperature, radius, surface gravity, metallicity, and cloud sedimentation parameter f(sed). We find that the atmosphere is highly super-solar ([Fe/H] = 1.0 +/- 0.1 dex), and the low f(sed) = 1.26(-0.29)(+0.36) value is indicative of a vertically extended, optically thick cloud cover with small sized particles. The model radius and surface gravity estimates suggest higher planetary masses of M-gravity = 9.1(-3.3)(+4.9) M-J. The evolutionary model only provides a lower mass limit of > 2 M-J (for pure hot-start). The cold-start model cannot explain the luminosity of the planet. The SPHERE and NACO/SAM detection limits probe the 51 Eri system at solar system scales and exclude brown-dwarf companions more massive than 20 M-J beyond separations of similar to 2.5 au and giant planets more massive than 2 M-J beyond 9 au.
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- Wang, Yifan, et al.
(författare)
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The BRCA1-Δ11q alternative splice isoform bypasses germline mutations and promotes therapeutic resistance to PARP inhibition and cisplatin
- 2016
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Ingår i: Cancer Research. - 0008-5472. ; 76:9, s. 2778-2790
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Tidskriftsartikel (refereegranskat)abstract
- Breast and ovarian cancer patients harboring BRCA1/2 germline mutations have clinically benefitted from therapy with PARP inhibitor (PARPi) or platinum compounds, but acquired resistance limits clinical impact. In this study, we investigated the impact of mutations on BRCA1 isoform expression and therapeutic response. Cancer cell lines and tumors harboring mutations in exon 11 of BRCA1 express a BRCA1-Δ11q splice variant lacking the majority of exon 11. The introduction of frameshift mutations to exon 11 resulted in nonsense-mediated mRNA decay of full-length, but not the BRCA1-Δ11q isoform. CRISPR/Cas9 gene editing as well as overexpression experiments revealed that the BRCA1-Δ11q protein was capable of promoting partial PARPi and cisplatin resistance relative to full-length BRCA1, both in vitro and in vivo. Furthermore, spliceosome inhibitors reduced BRCA1- Δ11q levels and sensitized cells carrying exon 11 mutations to PARPi treatment. Taken together, our results provided evidence that cancer cells employ a strategy to remove deleterious germline BRCA1 mutations through alternative mRNA splicing, giving rise to isoforms that retain residual activity and contribute to therapeutic resistance.
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- Brouwer-Brolsma, Elske M., et al.
(författare)
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Combining traditional dietary assessment methods with novel metabolomics techniques: Present efforts by the Food Biomarker Alliance
- 2017
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Ingår i: Proceedings of the Nutrition Society. - 0029-6651 .- 1475-2719. ; 76:4, s. 619-627
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Tidskriftsartikel (refereegranskat)abstract
- FFQ, food diaries and 24 h recall methods represent the most commonly used dietary assessment tools in human studies on nutrition and health, but food intake biomarkers are assumed to provide a more objective reflection of intake. Unfortunately, very few of these biomarkers are sufficiently validated. This review provides an overview of food intake biomarker research and highlights present research efforts of the Joint Programming Initiative 'A Healthy Diet for a Healthy Life' (JPI-HDHL) Food Biomarkers Alliance (FoodBAll). In order to identify novel food intake biomarkers, the focus is on new food metabolomics techniques that allow the quantification of up to thousands of metabolites simultaneously, which may be applied in intervention and observational studies. As biomarkers are often influenced by various other factors than the food under investigation, FoodBAll developed a food intake biomarker quality and validity score aiming to assist the systematic evaluation of novel biomarkers. Moreover, to evaluate the applicability of nutritional biomarkers, studies are presently also focusing on associations between food intake biomarkers and diet-related disease risk. In order to be successful in these metabolomics studies, knowledge about available electronic metabolomics resources is necessary and further developments of these resources are essential. Ultimately, present efforts in this research area aim to advance quality control of traditional dietary assessment methods, advance compliance evaluation in nutritional intervention studies, and increase the significance of observational studies by investigating associations between nutrition and health.
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- Wilkinson, Mark D., et al.
(författare)
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Comment : The FAIR Guiding Principles for scientific data management and stewardship
- 2016
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Ingår i: Scientific Data. - : Springer Science and Business Media LLC. - 2052-4463. ; 3
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Tidskriftsartikel (refereegranskat)abstract
- There is an urgent need to improve the infrastructure supporting the reuse of scholarly data. A diverse set of stakeholders-representing academia, industry, funding agencies, and scholarly publishers-have come together to design and jointly endorse a concise and measureable set of principles that we refer to as the FAIR Data Principles. The intent is that these may act as a guideline for those wishing to enhance the reusability of their data holdings. Distinct from peer initiatives that focus on the human scholar, the FAIR Principles put specific emphasis on enhancing the ability of machines to automatically find and use the data, in addition to supporting its reuse by individuals. This Comment is the first formal publication of the FAIR Principles, and includes the rationale behind them, and some exemplar implementations in the community.
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- Ba, Alexandre, et al.
(författare)
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Inter-laboratory comparison of channelized hotelling observer computation
- 2018
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Ingår i: Medical Physics. - : Wiley. - 0094-2405 .- 2473-4209. ; 45:7, s. 3019-3030
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Tidskriftsartikel (refereegranskat)abstract
- Purpose: The task-based assessment of image quality using model observers is increasingly used for the assessment of different imaging modalities. However, the performance computation of model observers needs standardization as well as a well-established trust in its implementation methodology and uncertainty estimation. The purpose of this work was to determine the degree of equivalence of the channelized Hotelling observer performance and uncertainty estimation using an intercomparison exercise. Materials and Methods: Image samples to estimate model observer performance for detection tasks were generated from two-dimensional CT image slices of a uniform water phantom. A common set of images was sent to participating laboratories to perform and document the following tasks: (a) estimate the detectability index of a well-defined CHO and its uncertainty in three conditions involving different sized targets all at the same dose, and (b) apply this CHO to an image set where ground truth was unknown to participants (lower image dose). In addition, and on an optional basis, we asked the participating laboratories to (c) estimate the performance of real human observers from a psychophysical experiment of their choice. Each of the 13 participating laboratories was confidentially assigned a participant number and image sets could be downloaded through a secure server. Results were distributed with each participant recognizable by its number and then each laboratory was able to modify their results with justification as model observer calculation are not yet a routine and potentially error prone. Results: Detectability index increased with signal size for all participants and was very consistent for 6 mm sized target while showing higher variability for 8 and 10 mm sized target. There was one order of magnitude between the lowest and the largest uncertainty estimation. Conclusions: This intercomparison helped define the state of the art of model observer performance computation and with thirteen participants, reflects openness and trust within the medical imaging community. The performance of a CHO with explicitly defined channels and a relatively large number of test images was consistently estimated by all participants. In contrast, the paper demonstrates that there is no agreement on estimating the variance of detectability in the training and testing setting.
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