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| 2. |
- Panova, E., et al.
(författare)
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Optimized Computation of Tight Focusing of Short Pulses Using Mapping to Periodic Space
- 2021
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Ingår i: Applied Sciences-Basel. - : MDPI AG. - 2076-3417. ; 11:3
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Tidskriftsartikel (refereegranskat)abstract
- When a pulsed, few-cycle electromagnetic wave is focused by optics with f-number smaller than two, the frequency components it contains are focused to different regions of space, building up a complex electromagnetic field structure. Accurate numerical computation of this structure is essential for many applications such as the analysis, diagnostics, and control of high-intensity laser-matter interactions. However, straightforward use of finite-difference methods can impose unacceptably high demands on computational resources, owing to the necessity of resolving far-field and near-field zones at sufficiently high resolution to overcome numerical dispersion effects. Here, we present a procedure for fast computation of tight focusing by mapping a spherically curved far-field region to periodic space, where the field can be advanced by a dispersion-free spectral solver. In many cases of interest, the mapping reduces both run time and memory requirements by a factor of order 10, making it possible to carry out simulations on a desktop machine or a single node of a supercomputer. We provide an open-source C++ implementation with Python bindings and demonstrate its use for a desktop machine, where the routine provides the opportunity to use the resolution sufficient for handling the pulses with spectra spanning over several octaves. The described approach can facilitate the stability analysis of theoretical proposals, the studies based on statistical inferences, as well as the overall development and analysis of experiments with tightly-focused short laser pulses.
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| 3. |
- Bashinov, A. V., et al.
(författare)
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Towards attosecond-scale highly directed GeV gamma-ray sources with multipetawatt-class lasers
- 2017
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Ingår i: Journal of Optics. - : IOP Publishing. - 2040-8978 .- 2040-8986. ; 19:11
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Tidskriftsartikel (refereegranskat)abstract
- We consider a possibility of constructing a gamma-ray source based on the multibeam configuration of a multipetawatt laser system which we simulate using a converging dipole wave. It is shown that such a configuration of fields allows the generation of gamma radiation with narrow directivity of about 1 mrad in the form of pulse trains or isolated pulses on the attosecond timescale. The influence of quantum electrodynamic cascade development on the parameters of generated gamma bursts is studied.
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| 4. |
- Bastrakov, S., et al.
(författare)
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Performance aspects of collocated and staggered grids for particle-in-cell plasma simulation
- 2017
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Ingår i: Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). - Cham : Springer International Publishing. - 1611-3349 .- 0302-9743. - 9783319629315 ; 10421, s. 94-100
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Konferensbidrag (refereegranskat)abstract
- We present a computational comparison of collocated and staggered uniform grids for particle-in-cell plasma simulation. Both types of grids are widely used, and numerical properties of the corresponding solvers are well-studied. However, for large-scale simulations performance is also an important factor, which is the focus of this paper. We start with a baseline implementation, apply widely-used techniques for performance optimization and measure their efficacy for both grids on a high-end Xeon CPU and a second-generation Xeon Phi processor. For the optimized version the collocated grid outperforms the staggered one by about 1.5x on both Xeon and Xeon Phi. The speedup on the Xeon Phi processor compared to Xeon is about 1.9x.
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| 5. |
- Chen, Nansheng, et al.
(författare)
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Identification of ciliary and ciliopathy genes in Caenorhabditis elegans through comparative genomics
- 2006
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Ingår i: Genome Biology. - : Springer Science and Business Media LLC. - 1465-6906 .- 1474-760X. ; 7:12, s. R126-
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Tidskriftsartikel (refereegranskat)abstract
- Background: The recent availability of genome sequences of multiple related Caenorhabditis species has made it possible to identify, using comparative genomics, similarly transcribed genes in Caenorhabditis elegans and its sister species. Taking this approach, we have identified numerous novel ciliary genes in C. elegans, some of which may be orthologs of unidentified human ciliopathy genes. Results: By screening for genes possessing canonical X-box sequences in promoters of three Caenorhabditis species, namely C. elegans, C. briggsae and C. remanei, we identified 93 genes ( including known X-box regulated genes) that encode putative components of ciliated neurons in C. elegans and are subject to the same regulatory control. For many of these genes, restricted anatomical expression in ciliated cells was confirmed, and control of transcription by the ciliogenic DAF-19 RFX transcription factor was demonstrated by comparative transcriptional profiling of different tissue types and of daf-19(+) and daf-19(-) animals. Finally, we demonstrate that the dye-filling defect of dyf-5( mn400) animals, which is indicative of compromised exposure of cilia to the environment, is caused by a nonsense mutation in the serine/threonine protein kinase gene M04C9.5. Conclusion: Our comparative genomics-based predictions may be useful for identifying genes involved in human ciliopathies, including Bardet-Biedl Syndrome ( BBS), since the C. elegans orthologs of known human BBS genes contain X-box motifs and are required for normal dye filling in C. elegans ciliated neurons.
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| 6. |
- Efimenko, Evgeni, et al.
(författare)
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Caenorhabditis elegans DYF-2, an orthologue of human WDR19, is a component of the intraflagellar transport machinery in sensory Cilia
- 2006
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Ingår i: Molecular Biology of the Cell. - 1059-1524 .- 1939-4586. ; 17:11, s. 4801-4811
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Tidskriftsartikel (refereegranskat)abstract
- The intraflagellar transport (IFT) machinery required to build functional cilia consists of a multisubunit complex whose molecular composition, organization, and function are poorly understood. Here, we describe a novel tryptophan-aspartic acid (WD) repeat (WDR) containing IFT protein from Caenorhabditis elegans, DYF-2, that plays a critical role in maintaining the structural and functional integrity of the IFT machinery. We determined the identity of the dyf-2 gene by transgenic rescue of mutant phenotypes and by sequencing of mutant alleles. Loss of DYF-2 function selectively affects the assembly and motility of different IFT components and leads to defects in cilia structure and chemosensation in the nematode. Based on these observations, and the analysis of DYF-2 movement in a Bardet-Biedl syndrome mutant with partially disrupted IFT particles, we conclude that DYF-2 can associate with IFT particle complex B. At the same time, mutations in dyf-2 can interfere with the function of complex A components, suggesting an important role of this protein in the assembly of the IFT particle as a whole. Importantly, the mouse orthologue of DYF-2, WDR19, also localizes to cilia, pointing to an important evolutionarily conserved role for this WDR protein in cilia development and function.
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| 7. |
- Efimenko, E., et al.
(författare)
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Extreme plasma states in laser-governed vacuum breakdown
- 2018
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Ingår i: Scientific Reports. - : Springer Science and Business Media LLC. - 2045-2322 .- 2045-2322. ; 8:1
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Tidskriftsartikel (refereegranskat)abstract
- Triggering vacuum breakdown at laser facility is expected to provide rapid electron-positron p air production for studies in laboratory astrophysics and fundamental physics. However, the density of the produced plasma may cease to increase at a relativistic critical density, when the plasma becomes opaque. Here, we identify the opportunity of breaking this limit using optimal beam configuration of petawatt-class lasers. Tightly focused laser fields allow generating plasma in a small focal volume much less than λ 3 and creating extreme plasma states in terms of density and produced currents. These states can be regarded to be a new object of nonlinear plasma physics. Using 3D QED-PIC simulations we demonstrate a possibility of reaching densities over 10 25 cm -3, which is an order of magnitude higher than expected earlier. Controlling the process via initial target parameters provides an opportunity to reach the discovered plasma states at the upcoming laser facilities.
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| 8. |
- Gonoskov, Arkady, 1984, et al.
(författare)
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Extended particle-in-cell schemes for physics in ultrastrong laser fields : Review and developments
- 2015
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Ingår i: Physical Review E. Statistical, Nonlinear, and Soft Matter Physics. - 1539-3755 .- 1550-2376. ; 92:2
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Tidskriftsartikel (refereegranskat)abstract
- We review common extensions of particle-in-cell (PIC) schemes which account for strong field phenomena in laser-plasma interactions. After describing the physical processes of interest and their numerical implementation, we provide solutions for several associated methodological and algorithmic problems. We propose a modified event generator that precisely models the entire spectrum of incoherent particle emission without any low-energy cutoff, and which imposes close to the weakest possible demands on the numerical time step. Based on this, we also develop an adaptive event generator that subdivides the time step for locally resolving QED events, allowing for efficient simulation of cascades. Further, we present a unified technical interface for including the processes of interest in different PIC implementations. Two PIC codes which support this interface, PICADOR and ELMIS, are also briefly reviewed.
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| 9. |
- Gonoskov, Arkady, 1984, et al.
(författare)
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Ultrabright GeV Photon Source via Controlled Electromagnetic Cascades in Laser-Dipole Waves
- 2017
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Ingår i: Physical Review X. - 2160-3308. ; 7:4
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Tidskriftsartikel (refereegranskat)abstract
- Electromagnetic cascades have the potential to act as a high-energy photon source of unprecedented brightness. Such a source would offer new experimental possibilities in fundamental science, but in the cascade process radiation reaction and rapid electron-positron plasma production seemingly restrict the efficient production of photons to sub-GeV energies. Here, we show how to overcome these energetic restrictions and how to create a directed GeV photon source, with unique capabilities as compared to existing sources. Our new source concept is based on a controlled interplay between the cascade and anomalous radiative trapping. Using specially designed advanced numerical models supported with analytical estimates, we demonstrate that the concept becomes feasible at laser powers of around 7 PW, which is accessible at soon-to-be-available facilities. A higher peak power of 40 PW can provide 10(9) photons with GeV energies in a well-collimated 3-fs beam, achieving peak brilliance 9 x 10(24) ph s(-1) mrad(-2) mm(-2)/0.1%BW.
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| 10. |
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