| 1. |
- Niemi, MEK, et al.
(författare)
-
- 2021
-
swepub:Mat__t
|
|
| 2. |
- Campbell, PJ, et al.
(författare)
-
Pan-cancer analysis of whole genomes
- 2020
-
Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 578:7793, s. 82-
-
Tidskriftsartikel (refereegranskat)abstract
- Cancer is driven by genetic change, and the advent of massively parallel sequencing has enabled systematic documentation of this variation at the whole-genome scale1–3. Here we report the integrative analysis of 2,658 whole-cancer genomes and their matching normal tissues across 38 tumour types from the Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium of the International Cancer Genome Consortium (ICGC) and The Cancer Genome Atlas (TCGA). We describe the generation of the PCAWG resource, facilitated by international data sharing using compute clouds. On average, cancer genomes contained 4–5 driver mutations when combining coding and non-coding genomic elements; however, in around 5% of cases no drivers were identified, suggesting that cancer driver discovery is not yet complete. Chromothripsis, in which many clustered structural variants arise in a single catastrophic event, is frequently an early event in tumour evolution; in acral melanoma, for example, these events precede most somatic point mutations and affect several cancer-associated genes simultaneously. Cancers with abnormal telomere maintenance often originate from tissues with low replicative activity and show several mechanisms of preventing telomere attrition to critical levels. Common and rare germline variants affect patterns of somatic mutation, including point mutations, structural variants and somatic retrotransposition. A collection of papers from the PCAWG Consortium describes non-coding mutations that drive cancer beyond those in the TERT promoter4; identifies new signatures of mutational processes that cause base substitutions, small insertions and deletions and structural variation5,6; analyses timings and patterns of tumour evolution7; describes the diverse transcriptional consequences of somatic mutation on splicing, expression levels, fusion genes and promoter activity8,9; and evaluates a range of more-specialized features of cancer genomes8,10–18.
|
|
| 3. |
|
|
| 4. |
- Aalbers, Jelle, et al.
(författare)
-
Solar neutrino detection sensitivity in DARWIN via electron scattering
- 2020
-
Ingår i: European Physical Journal C. - : Springer Science and Business Media LLC. - 1434-6044 .- 1434-6052. ; 80:12
-
Tidskriftsartikel (refereegranskat)abstract
- We detail the sensitivity of the proposed liquid xenon DARWIN observatory to solar neutrinos via elastic electron scattering. We find that DARWIN will have the potential to measure the fluxes of five solar neutrino components: pp, 7Be, 13N, 15O and pep. The precision of the 13N, 15O and pep components is hindered by the double-beta decay of 136Xe and, thus, would benefit from a depleted target. A high-statistics observation of pp neutrinos would allow us to infer the values of the electroweak mixing angle, sin2 theta w, and the electron-type neutrino survival probability, Pee, in the electron recoil energy region from a few keV up to 200 keV for the first time, with relative precision of 5% and 4%, respectively, with 10 live years of data and a 30 tonne fiducial volume. An observation of pp and 7Be neutrinos would constrain the neutrino-inferred solar luminosity down to 0.2%. A combination of all flux measurements would distinguish between the high- (GS98) and low-metallicity (AGS09) solar models with 2.1-2.5 sigma significance, independent of external measurements from other experiments or a measurement of 8B neutrinos through coherent elastic neutrino-nucleus scattering in DARWIN. Finally, we demonstrate that with a depleted target DARWIN may be sensitive to the neutrino capture process of 131Xe.
|
|
| 5. |
|
|
| 6. |
- Althueser, L., et al.
(författare)
-
GPU-based optical simulation of the DARWIN detector
- 2022
-
Ingår i: Journal of Instrumentation. - 1748-0221. ; 17:7
-
Tidskriftsartikel (refereegranskat)abstract
- Understanding propagation of scintillation light is critical for maximizing the discovery potential of next-generation liquid xenon detectors that use dual-phase time projection chamber technology. This work describes a detailed optical simulation of the DARWIN detector implemented using Chroma, a GPU-based photon tracking framework. To evaluate the framework and to explore ways of maximizing efficiency and minimizing the time of light collection, we simulate several variations of the conventional detector design. Results of these selected studies are presented. More generally, we conclude that the approach used in this work allows one to investigate alternative designs faster and in more detail than using conventional Geant4 optical simulations, making it an attractive tool to guide the development of the ultimate liquid xenon observatory.
|
|
| 7. |
- Chang, Kuang Yu, et al.
(författare)
-
Substantial hysteresis in emergent temperature sensitivity of global wetland CH4 emissions
- 2021
-
Ingår i: Nature Communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 12:1, s. 2266-2266
-
Tidskriftsartikel (refereegranskat)abstract
- Wetland methane (CH4) emissions ([Formula: see text]) are important in global carbon budgets and climate change assessments. Currently, [Formula: see text] projections rely on prescribed static temperature sensitivity that varies among biogeochemical models. Meta-analyses have proposed a consistent [Formula: see text] temperature dependence across spatial scales for use in models; however, site-level studies demonstrate that [Formula: see text] are often controlled by factors beyond temperature. Here, we evaluate the relationship between [Formula: see text] and temperature using observations from the FLUXNET-CH4 database. Measurements collected across the globe show substantial seasonal hysteresis between [Formula: see text] and temperature, suggesting larger [Formula: see text] sensitivity to temperature later in the frost-free season (about 77% of site-years). Results derived from a machine-learning model and several regression models highlight the importance of representing the large spatial and temporal variability within site-years and ecosystem types. Mechanistic advancements in biogeochemical model parameterization and detailed measurements in factors modulating CH4 production are thus needed to improve global CH4 budget assessments.
|
|
| 8. |
- Dimmock, Andrew P., et al.
(författare)
-
Backstreaming ions at a high Mach number interplanetary shock : Solar Orbiter measurements during the nominal mission phase
- 2023
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 679
-
Tidskriftsartikel (refereegranskat)abstract
- Context: Solar Orbiter, a mission developed by the European Space Agency, explores in situ plasma across the inner heliosphere while providing remote-sensing observations of the Sun. The mission aims to study the solar wind, but also transient structures such as interplanetary coronal mass ejections and stream interaction regions. These structures often contain a leading shock wave that can differ from other plasma shock waves, such as those around planets. Importantly, the Mach number of these interplanetary shocks is typically low (1-3) compared to planetary bow shocks and most astrophysical shocks. However, our shock survey revealed that on 30 October 2021, Solar Orbiter measured a shock with an Alfven Mach number above 6, which can be considered high in this context.Aims: Our study examines particle observations for the 30 October 2021 shock. The particles provide clear evidence of ion reflection up to several minutes upstream of the shock. Additionally, the magnetic and electric field observations contain complex electromagnetic structures near the shock, and we aim to investigate how they are connected to ion dynamics. The main goal of this study is to advance our understanding of the complex coupling between particles and the shock structure in high Mach number regimes of interplanetary shocks.Methods: We used observations of magnetic and electric fields, probe-spacecraft potential, and thermal and energetic particles to characterize the structure of the shock front and particle dynamics. Furthermore, ion velocity distribution functions were used to study reflected ions and their coupling to the shock. To determine shock parameters and study waves, we used several methods, including cold plasma theory, singular-value decomposition, minimum variance analysis, and shock Rankine-Hugoniot relations. To support the analysis and interpretation of the experimental data, test-particle analysis, and hybrid particle in-cell simulations were used.Results: The ion velocity distribution functions show clear evidence of particle reflection in the form of backstreaming ions several minutes upstream. The shock structure has complex features at the ramp and whistler precursors. The backstreaming ions may be modulated by the complex shock structure, and the whistler waves are likely driven by gyrating ions in the foot. Supra-thermal ions up to 20 keV were observed, but shock-accelerated particles with energies above this were not.
|
|
| 9. |
- Jebaraj, I. C., et al.
(författare)
-
Relativistic electron beams accelerated by an interplanetary shock
- 2023
-
Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 680
-
Tidskriftsartikel (refereegranskat)abstract
- Context: Collisionless shock waves have long been considered to be among the most prolific particle accelerators in the universe. Shocks alter the plasma they propagate through, and often exhibit complex evolution across multiple scales. Interplanetary (IP) traveling shocks have been recorded in situ for over half a century and act as a natural laboratory for experimentally verifying various aspects of large-scale collisionless shocks. A fundamentally interesting problem in both heliophysics and astrophysics is the acceleration of electrons to relativistic energies (> 300 keV) by traveling shocks.Aims: The reason for an incomplete understanding of electron acceleration at IP shocks is due to scale-related challenges and a lack of instrumental capabilities. This Letter presents the first observations of field-aligned beams of relativistic electrons upstream of an IP shock, observed thanks to the instrumental capabilities of Solar Orbiter. This study presents the characteristics of the electron beams close to the source and contributes to the understanding of their acceleration mechanism.Methods: On 25 July 2022, Solar Orbiter encountered an IP shock at 0.98 AU. The shock was associated with an energetic storm particle event, which also featured upstream field-aligned relativistic electron beams observed 14 min prior to the actual shock crossing. The distance of the beam's origin was investigated using a velocity dispersion analysis (VDA). Peak-intensity energy spectra were anaylzed and compared with those obtained from a semi-analytical fast-Fermi acceleration model.Results: By leveraging Solar Orbiter's high temporal resolution Energetic Particle Detector (EPD), we successfully showcase an IP shock's ability to accelerate relativistic electron beams. Our proposed acceleration mechanism offers an explanation for the observed electron beam and its characteristics, while we also explore the potential contributions of more complex mechanisms.
|
|
| 10. |
|
|
