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- Klionsky, Daniel J., et al.
(författare)
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Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
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Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
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Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
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- Le Coroller, H., et al.
(författare)
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K-Stacker : an algorithm to hack the orbital parameters of planets hidden in high-contrast imaging
- 2020
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 639
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Tidskriftsartikel (refereegranskat)abstract
- Context. Recent high-contrast imaging surveys, using the Spectro-Polarimetic High contrast imager for Exoplanets REsearch (SPHERE) or the Gemini Planet Imager in search of planets in young, nearby systems, have shown evidence of a small number ofgiant planets at relatively large separation beyond 10–30 au, where those surveys are the most sensitive. Access to smaller physical separations between 5 and 30 au is the next step for future planet imagers on 10 m telescopes and the next generation of extremely large telescopes in order to bridge the gap with indirect techniques such as radial velocity, transit, and soon astrometry with Gaia. In addition to new technologies and instruments, the development of innovative observing strategies combined with optimized data processing tools is participating in the improvement of detection capabilities at very close angular separation. In that context, we recently proposed a new algorithm, Keplerian-Stacker, which combines multiple observations acquired at different epochs and takes into account the orbital motion of a potential planet present in the images to boost the ultimate detection limit. We showed that this algorithm is able to find planets in time series of simulated images of the SPHERE InfraRed Dual-band Imager and Spectrograph (IRDIS) even when a planet remains undetected at one epoch.Aims. Our goal is to test and validate the K-Stacker algorithm performances on real SPHERE datasets to demonstrate the resilience of this algorithm to instrumental speckles and the gain offered in terms of true detection. This will motivate future dedicated multi-epoch observation campaigns of well-chosen, young, nearby systems and very nearby stars carefully selected to search for planets in emitted and reflected light, respectively, to open a new path concerning the observing strategy used with current and future planet imagers.Methods. To test K-Stacker, we injected fake planets and scanned the low signal-to-noise ratio (S/N) regime in a series of raw observations obtained by the SPHERE/IRDIS instrument in the course of the SPHERE High-contrast ImagiNg survey for Exoplanets. We also considered the cases of two specific targets intensively monitored during this campaign: β Pictoris and HD 95086. For each target and epoch, the data were reduced using standard angular differential imaging processing techniques and then recombined with K-Stackerto recover the fake planetary signals. In addition, the known exoplanets β Pictoris b and HD 95086 b previously identified at lower S/N in single epochs have also been recovered by K-Stacker.Results. We show that K-Stacker achieves a high success rate of ≈100% when the S/N of the planet in the stacked image reaches≈9. The improvement of the S/N is given as the square root of the total exposure time contained in the data being combined. At S/N<6−7, the number of false positives is high near the coronagraphic mask, but a chromatic study or astrophysical criteria can help to disentangle between a bright speckle and a true detection. During the blind test and the redetection of HD 95086 b, and β Pic b, we highlight the ability of K-Stacker to find orbital solutions consistent with those derived by the current Markov chain Monte Carlo orbital fitting techniques. This confirms that in addition to the detection gain, K-Stacker offers the opportunity to characterize the most probable orbital solutions of the exoplanets recovered at low S/N.
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| 6. |
- Al-Dahan, N., et al.
(författare)
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Multiple beta(-) decaying states in Re-194: Shape evolution in neutron-rich osmium isotopes
- 2012
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Ingår i: Physical Review C (Nuclear Physics). - 0556-2813. ; 85:3
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Tidskriftsartikel (refereegranskat)abstract
- beta decays from heavy, neutron-rich nuclei with A similar to 190 have been investigated following their production via the relativistic projectile fragmentation of an E/A = 1 GeV Pb-208 primary beam on a similar to 2.5 g/cm(2) Be-9 target. The reaction products were separated and identified using the GSI FRagment Separator (FRS) and stopped in the RISING active stopper. gamma decays were observed and correlated with these secondary ions on an event-by-event basis such that gamma-ray transitions following from both internal (isomeric) and beta decays were recorded. A number of discrete, beta-delayed gamma-ray transitions associated with beta decays from Re-194 to excited states in Os-194 have been observed, including previously reported decays from the yrast I-pi = (6(+)) state. Three previously unreported gamma-ray transitions with energies 194, 349, and 554 keV are also identified; these transitions are associated with decays from higher spin states in Os-194. The results of these investigations are compared with theoretical predictions from Nilsson multi-quasiparticle (MQP) calculations. Based on lifetime measurements and the observed feeding pattern to states in Os-194, it is concluded that there are three beta(-)-decaying states in Re-194.
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| 7. |
- Morales, A. I., et al.
(författare)
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beta -Delayed gamma -Ray Spectroscopy of Heavy Neutron Rich Nuclei "South" of Lead
- 2009
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Ingår i: Acta Physica Polonica B. - 0587-4254. ; 40:3, s. 867-870
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Konferensbidrag (refereegranskat)abstract
- Relativistic projectile fragmentation of a Pb-208 primary beam has been used to produce neutron-rich nuclei with proton-holes relative to the Z = 82 shell closure, i.e., "south" of Pb. beta-delayed gamma-ray spectroscopy allows to investigate the structural properties of such nuclei with A similar to 195 -> 205. The current work presents transitions de-exciting excited states in Au-204, which are the first spectroscopic information on this N = 125 isotone.
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| 8. |
- Abdulhamid, M. I., et al.
(författare)
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Azimuthal correlations of high transverse momentum jets at next-to-leading order in the parton branching method
- 2022
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Ingår i: European Physical Journal C. - : Springer Science and Business Media LLC. - 1434-6044 .- 1434-6052. ; 82:1
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Tidskriftsartikel (refereegranskat)abstract
- The azimuthal correlation, Δ ϕ12, of high transverse momentum jets in pp collisions at s=13 TeV is studied by applying PB-TMD distributions to NLO calculations via MCatNLO together with the PB-TMD parton shower. A very good description of the cross section as a function of Δ ϕ12 is observed. In the back-to-back region of Δ ϕ12→ π, a very good agreement is observed with the PB-TMD Set 2 distributions while significant deviations are obtained with the PB-TMD Set 1 distributions. Set 1 uses the evolution scale while Set 2 uses transverse momentum as an argument in αs, and the above observation therefore confirms the importance of an appropriate soft-gluon coupling in angular ordered parton evolution. The total uncertainties of the predictions are dominated by the scale uncertainties of the matrix element, while the uncertainties coming from the PB-TMDs and the corresponding PB-TMD shower are very small. The Δ ϕ12 measurements are also compared with predictions using MCatNLO together Pythia8, illustrating the importance of details of the parton shower evolution.
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