| 1. |
- Nelson, G., et al.
(författare)
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QUAREP-LiMi: A community-driven initiative to establish guidelines for quality assessment and reproducibility for instruments and images in light microscopy
- 2021
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Ingår i: Journal of Microscopy. - : Wiley. - 0022-2720 .- 1365-2818. ; 284:1, s. 56-73
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Tidskriftsartikel (refereegranskat)abstract
- A modern day light microscope has evolved from a tool devoted to making primarily empirical observations to what is now a sophisticated , quantitative device that is an integral part of both physical and life science research. Nowadays, microscopes are found in nearly every experimental laboratory. However, despite their prevalent use in capturing and quantifying scientific phenomena, neither a thorough understanding of the principles underlying quantitative imaging techniques nor appropriate knowledge of how to calibrate, operate and maintain microscopes can be taken for granted. This is clearly demonstrated by the well-documented and widespread difficulties that are routinely encountered in evaluating acquired data and reproducing scientific experiments. Indeed, studies have shown that more than 70% of researchers have tried and failed to repeat another scientist's experiments, while more than half have even failed to reproduce their own experiments. One factor behind the reproducibility crisis of experiments published in scientific journals is the frequent underreporting of imaging methods caused by a lack of awareness and/or a lack of knowledge of the applied technique. Whereas quality control procedures for some methods used in biomedical research, such as genomics (e.g. DNA sequencing, RNA-seq) or cytometry, have been introduced (e.g. ENCODE), this issue has not been tackled for optical microscopy instrumentation and images. Although many calibration standards and protocols have been published, there is a lack of awareness and agreement on common standards and guidelines for quality assessment and reproducibility. In April 2020, the QUality Assessment and REProducibility for instruments and images in Light Microscopy (QUAREP-LiMi) initiative was formed. This initiative comprises imaging scientists from academia and industry who share a common interest in achieving a better understanding of the performance and limitations of microscopes and improved quality control (QC) in light microscopy. The ultimate goal of the QUAREP-LiMi initiative is to establish a set of common QC standards, guidelines, metadata models and tools, including detailed protocols, with the ultimate aim of improving reproducible advances in scientific research. This White Paper (1) summarizes the major obstacles identified in the field that motivated the launch of the QUAREP-LiMi initiative; (2) identifies the urgent need to address these obstacles in a grassroots manner, through a community of stakeholders including, researchers, imaging scientists, bioimage analysts, bioimage informatics developers, corporate partners, funding agencies, standards organizations, scientific publishers and observers of such; (3) outlines the current actions of the QUAREP-LiMi initiative and (4) proposes future steps that can be taken to improve the dissemination and acceptance of the proposed guidelines to manage QC. To summarize, the principal goal of the QUAREP-LiMi initiative is to improve the overall quality and reproducibility of light microscope image data by introducing broadly accepted standard practices and accurately captured image data metrics.
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| 2. |
- Aumayr, E., et al.
(författare)
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Service-based Analytics for 5G open experimentation platforms
- 2022
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Ingår i: Computer Networks. - : Elsevier B.V.. - 1389-1286 .- 1872-7069. ; 205
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Tidskriftsartikel (refereegranskat)abstract
- A scalable, flexible and reliable Analytics service has become a requirement toward building efficient Fifth Generation (5G) experimental platforms that can support a suite of end-user experiments and verticals. Our paper presents the challenges that come with designing such a service-based Analytics component, and shows how we have used it in the context of open experimental platforms in the 5GENESIS project. Our Analytics service was designed both for enabling the efficient setup and configuration of the underlying platform, and also for ensuring that it provides useful insights into the experimentation Key Performance Indicators (KPIs) toward the end-user. Thus, Analytics proved to be a useful tool across several stages, starting from ensuring correct operation during the initial phases of the network setup and continuing into the normal day-to-day experimentation. Our experiments show how the tool was used in our setup and provide information on how to apply it to different environments. The Analytics component, designed as a set of microservices that serve several goals in the analytics workflow, is also provided as open source, being part of the Open5Genesis suite.
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| 3. |
- Biber, H., et al.
(författare)
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Sputtering Behavior of Rough, Polycrystalline Mercury Analogs
- 2022
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Ingår i: The Planetary Science Journal. - : Institute of Physics (IOP). - 2632-3338. ; 3:12
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Tidskriftsartikel (refereegranskat)abstract
- The solar wind continuously impacts on rocky bodies in space, eroding their surface, thereby contributing significantly to the exosphere formations. The BepiColombo mission to Mercury will investigate the Hermean exosphere, which makes an understanding of the precise formation processes crucial for evaluation of the acquired data. We therefore developed an experimental setup with two microbalances that allows us to compare the sputter behavior of deposited thin solid layers with that of real mineral samples in the form of pressed powder. In addition, this technique is used to study the angular distribution of the sputtered particles. Using 4 keV He+ and 2 keV Ar+ ions, the sputter behavior of pellets of the minerals enstatite (MgSiO3) and wollastonite (CaSiO3) is studied, because these minerals represent analogs for the surface of the planet Mercury or the Moon. Pellets of powdered enstatite show significantly lower sputter yields than thin amorphous enstatite films prepared by pulsed laser deposition. 3D simulations of sputtering based on surface topography data from atomic force microscopy show that the observed reduction can be explained by the much rougher pellet surface alone. We therefore conclude that sputter yields from amorphous thin films can be applied to surfaces of celestial bodies exposed to ion irradiation, provided the effects of surface roughness, as encountered in realistic materials in space, are adequately accounted for. This also implies that taking surface roughness into account is important for modeling of the interaction of the solar wind with the surface of Mercury.
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| 4. |
- Szabo, P. S., et al.
(författare)
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Experimental Insights Into Space Weathering of Phobos : Laboratory Investigation of Sputtering by Atomic and Molecular Planetary Ions
- 2020
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Ingår i: Journal of Geophysical Research - Planets. - : AMER GEOPHYSICAL UNION. - 2169-9097 .- 2169-9100. ; 125:12
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Tidskriftsartikel (refereegranskat)abstract
- Investigating the space weathering of the Martian moon Phobos represents an important step toward understanding the development from its origin to its present-day appearance. Depending on Phobos' orbital position, its surface is continuously sputtered by the solar wind and planetary ions that originate in the Martian atmosphere. Based on Mars Atmosphere and Volatile Evolution measurements, it has been proposed that sputtering by planetary O+ and O-2(+) ions dominates in the Martian tail region, where the planet mostly shadows Phobos from the solar wind. In these models, uncertainties for sputtering yield inputs still exist due to the lack of sufficient analog experiments. Therefore, sputtering measurements with O+, O-2(+), C+, and CO2+ ions between 1 and 5 keV were performed using augite samples as Phobos analogs. The experimental results for O+ irradiations show smaller mass changes than predicted by SDTrimSP simulations, which probably can be attributed to O implantation enabled by the Fe content of the target. Sputtering with O-2(+) and CO2+ in the low keV range shows no deviations in the sputtering yields attributable to molecular effects. Therefore, CO2+ ions will most likely be negligible for the sputtering of Phobos according to the current understanding of ion fluxes on the Martian moon. Ultimately, our experiments suggest that the sputtering contribution on Phobos by O ions is about 50% smaller than previously assumed. This does not change the qualitative outcome from previous modeling stating that planetary O ions are by far the dominant sputtering contribution on Phobos in the Martian tail region.
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