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- Glasbey, JC, et al.
(författare)
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- 2021
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swepub:Mat__t
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| 5. |
- Campbell, PJ, et al.
(författare)
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Pan-cancer analysis of whole genomes
- 2020
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 578:7793, s. 82-
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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.
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| 6. |
- Weigelt, G., et al.
(författare)
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VLTI-MATISSE chromatic aperture-synthesis imaging of eta Carinae's stellar wind across the Br alpha line Periastron passage observations in February 2020
- 2021
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 652
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Tidskriftsartikel (refereegranskat)abstract
- Context. Eta Carinae is a highly eccentric, massive binary system (semimajor axis similar to 15.5 au) with powerful stellar winds and a phase-dependent wind-wind collision (WWC) zone. The primary star, eta Car A, is a luminous blue variable (LBV); the secondary, eta Car B, is a Wolf-Rayet or O star with a faster but less dense wind. Aperture-synthesis imaging allows us to study the mass loss from the enigmatic LBV eta Car. Understanding LBVs is a crucial step toward improving our knowledge about massive stars and their evolution. Aims. Our aim is to study the intensity distribution and kinematics of eta Car's WWC zone. Methods. Using the VLTI-MATISSE mid-infrared interferometry instrument, we perform Br alpha imaging of eta Car's distorted wind. Results. We present the first VLTI-MATISSE aperture-synthesis images of eta Car A's stellar windin several spectral channels distributed across the Br alpha 4.052 mu m line (spectral resolving power R similar to 960). Our observations were performed close to periastron passage in February 2020 (orbital phase similar to 14.0022). The reconstructed iso-velocity images show the dependence of the primary stellar wind on wavelength or line-of-sight (LOS) velocity with a spatial resolution of 6 mas (similar to 14 au). The radius of the faintest outer wind regions is similar to 26 mas (similar to 60 au). At several negative LOS velocities, the primary stellar wind is less extended to the northwest than in other directions. This asymmetry is most likely caused by the WWC. Therefore, we see both the velocity field of the undisturbed primary wind and the WWC cavity. In continuum spectral channels, the primary star wind is more compact than in line channels. A fit of the observed continuum visibilities with the visibilities of a stellar wind CMFGEN model (CMFGEN is an atmosphere code developed to model the spectra of a variety of objects) provides a full width at half maximum fit diameter of the primary stellar wind of 2.84 +/- 0.06 mas (6.54 +/- 0.14 au). We comparethe derived intensity distributions with the CMFGEN stellar wind model and hydrodynamic WWC models.
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| 7. |
- Dorn, R. J., et al.
(författare)
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CRIRES+ on sky at the ESO Very Large Telescope : Observing the Universe at infrared wavelengths and high spectral resolution
- 2023
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 671
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Tidskriftsartikel (refereegranskat)abstract
- The CRyogenic InfraRed Echelle Spectrograph (CRIRES) Upgrade project CRIRES+ extended the capabilities of CRIRES. It transformed this VLT instrument into a cross-dispersed spectrograph to increase the wavelength range that is covered simultaneously by up to a factor of ten. In addition, a new detector focal plane array of three Hawaii 2RG detectors with a 5.3 mu m cutoff wavelength replaced the existing detectors. Amongst many other improvements, a new spectropolarimetric unit was added and the calibration system has been enhanced. The instrument was installed at the VLT on Unit Telescope 3 at the beginning of 2020 and successfully commissioned and verified for science operations during 2021, partly remotely from Europe due to the COVID-19 pandemic. The instrument was subsequently offered to the community from October 2021 onwards. This article describes the performance and capabilities of the upgraded instrument and presents on sky results.
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| 8. |
- Hahlin, Axel, et al.
(författare)
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Determination of small-scale magnetic fields on Sun-like stars in the near-infrared using CRIRES
- 2023
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 675
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Tidskriftsartikel (refereegranskat)abstract
- Aims: We aim to characterise the small-scale magnetic fields of a sample of 16 Sun-like stars and investigate the capabilities of the newly upgraded near-infrared (NIR) instrument CRIRES+ at the Very Large Telescope in the context of small-scale magnetic field studies. Our targets also had their magnetic fields studied with optical spectra, which allowed us to compare magnetic field properties at different spatial scales on the stellar surface and to contrast small-scale magnetic field measurements at different wavelengths.Methods: We analysed the Zeeman broadening signature for six magnetically sensitive and insensitive Fe I lines in the H-band to measure small-scale magnetic fields on the stellar surfaces of our sample. We used polarised radiative transfer modelling and non-local thermodynamic equilibrium departure coefficients in combination with Markov chain Monte Carlo sampling to determine magnetic field characteristics and non-magnetic stellar parameters. We used two different approaches to describe the small-scale magnetic fields. The first is a two-component model with a single magnetic region and a free magnetic field strength. The second model contains multiple magnetic components with fixed magnetic field strengths.Results: We found average magnetic field strengths ranging from & SIM;0.4 kG down to < 0.1 kG. The results align closely with other results from high-resolution NIR spectrographs, such as SPIRou. It appears that the typical magnetic field strength in the magnetic region is slightly stronger than 1.3 kG, and for most stars in our sample, this strength is between 1 and 2 kG. We also found that the small-scale fields correlate with the large-scale fields and that the small-scale fields are at least ten times stronger than the large-scale fields inferred with Zeeman Doppler imaging. The two- and multi-component models produce systematically different results, as the strong fields from the multi-component model increase the obtained mean magnetic field strength. When comparing our results with the optical measurements of small-scale fields, we found a systematic offset two to three times stronger than fields in the optical results. This discrepancy cannot be explained by uncertainties in stellar parameters. Care should therefore be taken when comparing results obtained at different wavelengths until a clear cause can be established.
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| 9. |
- Yan, F., et al.
(författare)
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CRIRES+ detection of CO emissions lines and temperature inversions on the dayside of WASP-18b and WASP-76b
- 2023
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Ingår i: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 672
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Tidskriftsartikel (refereegranskat)abstract
- The dayside atmospheres of ultra-hot Jupiters (UHJs) are predicted to possess temperature inversion layers with extremely high temperatures at high altitudes. We observed the dayside thermal emission spectra of WASP-18b and WASP-76b with the new CRIRES+ high-resolution spectrograph at near-infrared wavelengths. Using the cross-correlation technique, we detected strong CO emission lines in both planets, which confirms the existence of temperature inversions on their dayside hemispheres. The two planets are the first UHJs orbiting F-type stars with CO emission lines detected; previous detections were mostly for UHJs orbiting A-type stars. Evidence of weak H2O emission signals is also found for both planets. We further applied forward-model retrievals on the detected CO lines and retrieved the temperature-pressure profiles along with the CO volume mixing ratios. The retrieved logarithmic CO mixing ratio of WASP-18b (-2.2(-1.5)(+1.4)) is slightly higher than the value predicted by the self-consistent model assuming solar abundance. For WASP-76b, the retrieved CO mixing ratio (-3.6(-1.6)(+1.8)) is broadly consistent with the value of solar abundance. In addition, we included the equatorial rotation velocity (upsilon(eq)) in the retrieval when analyzing the line profile broadening. The obtained upsilon(eq) is 7.0 +/- 2.9 km s(-1) for WASP-18b and 5.2(-3.0)(+2.5) km s(-1) for WASP-76b, which are consistent with the tidally locked rotational velocities.
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