| 1. |
- 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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| 2. |
- Fukuda, M., et al.
(författare)
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Reaction cross section studies at NIRS and RIBF
- 2010
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Ingår i: American Institute of Physics Conference Series. - American Institute of Physics : AIP. ; , s. 270-273
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Konferensbidrag (refereegranskat)abstract
- Reaction cross sections for stable nuclei at intermediate energies have been measured precisely and systematically. The data have been found to be reproduced nicely by the optical‐limit approximation of Glauber theory modified to include the nucleon multiple scattering effect and the Fermi‐motion effect. Applying this prescription, the nucleon density distribution of 17Ne has been studied. The surface structure of 8B and 11Be has been also studied using this prescription and hydrogen targets. Using the RIBF that has just started application to studies of exotic nuclei, neutron‐rich Ne isotopes around the Island of Inversion have been investigated through measurements of their interaction cross sections.
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| 3. |
- Takechi, M., et al.
(författare)
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Interaction cross sections for Ne isotopes towards the island of inversion and halo structures of 29Ne and 31Ne
- 2012
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Ingår i: Physics Letters B. - Elsevier : Elsevier BV. - 0370-2693 .- 1873-2445. ; 707:3-€“4, s. 357-361
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Tidskriftsartikel (refereegranskat)abstract
- Interaction cross sections (σI) for Ne isotopes from the stability line to the vicinity of the neutron dripline have been measured at around 240 MeV/nucleon using BigRIPS at RIBF, RIKEN. The σI for 27–32Ne in every case exceed the systematic mass-number dependence of σI for stable nuclei, which can be explained by considering the nuclear deformation. In particular the σI for 29Ne and 31Ne are significantly greater than those of their neighboring nuclides. These enhancements of σI for 29Ne and 31Ne cannot be explained by a single-particle model calculation under the assumption that the valence neutron of 29Ne (31Ne) occupies the 0d3/2 (0f7/2 ) orbital, as expected from the standard spherical shell ordering. The present data suggest an s dominant halo structure of 29Ne and s- or p-orbital halo in 31Ne.
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| 4. |
- Kuboki, T.a, et al.
(författare)
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Measurement of interaction cross-sections for neutron-rich Na isotopes
- 2011
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Ingår i: Acta Physica Polonica B. - : Jagellonian University. - 0587-4254 .- 1509-5770. ; 42:3-4, s. 765-768
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Tidskriftsartikel (refereegranskat)abstract
- The interaction cross-sections (σI) of neutron-rich Na isotopes, 23-35Na, on C target have been measured at 250A MeV using the RI beam factory (RIBF) at RIKEN. Mass dependence of σI for 27-35Na suggests monotonic growth of the skin thickness. The root-mean-square nuclear matter radii (rm) of 23-35Na were deduced from observed σI via a Glauber-type calculation. These rm are in a good agreement with the theoretical prediction by relativistic mean field model (RMF). rm of 33-35Na were determined for the first time.
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| 5. |
- Ozawa, A., et al.
(författare)
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Charge-changing cross sections of 30Ne, 32,33Na with a proton target
- 2014
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Ingår i: Physical Review C. Nuclear Physics. - 0556-2813 .- 1089-490X. ; 89, s. 044602-1-044602-5
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Tidskriftsartikel (refereegranskat)abstract
- The total charge-changing, charge pick-up, and partial charge-changing cross sections of very neutron-rich nuclei (30Ne, 32,33Na) with a proton target have been measured at ~240A MeV for the first time. We introduced the phenomenological correction factor in Glauber-model calculations for the total charge-changing cross sections with the proton target, and applied it to deduce the proton radii of these nuclei. For 30Ne and 32Na, the neutron skin thicknesses of the nuclei were deduced by comparing the proton radii with the matter radii deduced from the interaction cross-section measurements. A significant thick neutron-skin has been observed for the nuclei. We also found that the charge pick-up cross sections are much larger than those in the systematics of stable nuclei.
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| 6. |
- Takechi, M., et al.
(författare)
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Measurements of nuclear radii for neutron-rich Ne isotopes 28-32Ne
- 2010
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Ingår i: Nuclear Physics A. - Elsevier : Elsevier BV. - 0375-9474 .- 1873-1554. ; 834:1-4, s. 412c-415c
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Tidskriftsartikel (refereegranskat)abstract
- Interaction cross sections (σI) for neutron-rich Ne isotopes, 28-32Ne on C target have been measured at 240A MeV using the RIBF at RIKEN. A large enhancement of σI beyond the systematics of stable nuclei have been observed for neutron-rich Ne isotopes, particularly for 31Ne. The possible halo structure for 29,31Ne which would be caused by the lowering of the pf-shell and nuclear deformation of Ne isotopes are discussed by the preliminary analysis.
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| 7. |
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| 8. |
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| 9. |
- Sato, T., et al.
(författare)
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Overview of Particle and Heavy Ion Transport Code System PHITS
- 2014
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Ingår i: Sna + Mc 2013 - Joint International Conference on Supercomputing in Nuclear Applications + Monte Carlo. - Les Ulis, France : EDP Sciences. ; , s. article no 06018-
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Konferensbidrag (refereegranskat)abstract
- A general purpose Monte Carlo Particle and Heavy Ion Transport code System, PHITS, is being developed through the collaboration of several institutes in Japan and Europe. The Japan Atomic Energy Agency is responsible for managing the entire project. PHITS can deal with the transport of nearly all particles, including neutrons, protons, heavy ions, photons, and electrons, over wide energy ranges using various nuclear reaction models and data libraries. It is written in Fortran language and can be executed on almost all computers. All components of PHITS such as its source, executable and data-library files are assembled in one package and then distributed to many countries via the Research organization for Information Science and Technology, the Data Bank of the Organization for Economic Co-operation and Development's Nuclear Energy Agency, and the Radiation Safety Information Computational Center. More than 1,000 researchers have been registered as PHITS users, and they apply the code to various research and development fields such as nuclear technology, accelerator design, medical physics, and cosmic-ray research. This paper briefly summarizes the physics models implemented in PHITS, and introduces some important functions useful for specific applications, such as an event generator mode and beam transport functions.
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| 10. |
- Sato, T., et al.
(författare)
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Particle and Heavy Ion Transport code System, PHITS, version 2.52
- 2013
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Ingår i: Journal of Nuclear Science and Technology. - : Informa UK Limited. - 0022-3131 .- 1881-1248. ; 50:9, s. 913-923
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Tidskriftsartikel (refereegranskat)abstract
- An upgraded version of the Particle and Heavy Ion Transport code System, PHITS2.52, was developed and released to the public. The new version has been greatly improved from the previously released version, PHITS2.24, in terms of not only the code itself but also the contents of its package, such as the attached data libraries. In the new version, a higher accuracy of simulation was achieved by implementing several latest nuclear reaction models. The reliability of the simulation was improved by modifying both the algorithms for the electron-, positron-, and photon-transport simulations and the procedure for calculating the statistical uncertainties of the tally results. Estimation of the time evolution of radioactivity became feasible by incorporating the activation calculation program DCHAIN-SP into the new package. The efficiency of the simulation was also improved as a result of the implementation of shared-memory parallelization and the optimization of several time-consuming algorithms. Furthermore, a number of new user-support tools and functions that help users to intuitively and effectively perform PHITS simulations were developed and incorporated. Due to these improvements, PHITS is now a more powerful tool for particle transport simulation applicable to various research and development fields, such as nuclear technology, accelerator design, medical physics, and cosmic-ray research.
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