| 1. |
- Buson, S., et al.
(author)
-
Unusual flaring activity in the blazar PKS 1424-418 during 2008-2011
- 2014
-
In: Astronomy and Astrophysics. - : EDP Sciences. - 0004-6361 .- 1432-0746. ; 569, s. A40-
-
Journal article (peer-reviewed)abstract
- Context. Blazars are a subset of active galactic nuclei (AGN) with jets that are oriented along our line of sight. Variability and spectral energy distribution (SED) studies are crucial tools for understanding the physical processes responsible for observed AGN emission. Aims. We report peculiar behavior in the bright gamma-ray blazar PKS 1424 418 and use its strong variability to reveal information about the particle acceleration and interactions in the jet. Methods. Correlation analysis of the extensive optical coverage by the ATOM telescope and nearly continuous gamma-ray coverage by the Fermi Large Area Telescope is combined with broadband, time-dependent modeling of the SED incorporating supplemental information from radio and X-ray observations of this blazar. Results. We analyse in detail four bright phases at optical-GeV energies. These flares of PKS 1424-418 show high correlation between these energy ranges, with the exception of one large optical flare that coincides with relatively low gamma-ray activity. Although the optical/gamma-ray behavior of PKS 1424-418 shows variety, the multiwavelength modeling indicates that these differences can largely be explained by changes in the flux and energy spectrum of the electrons in the jet that are radiating. We find that for all flares the SED is adequately represented by a leptonic model that includes inverse Compton emission from external radiation fields with similar parameters. Conclusions. Detailed studies of individual blazars like PKS 1424 418 during periods of enhanced activity in different wavebands are helping us identify underlying patterns in the physical parameters in this class of AGN.
|
|
| 2. |
- Edlund, Petra, et al.
(author)
-
The room temperature crystal structure of a bacterial phytochrome determined by serial femtosecond crystallography
- 2016
-
In: Scientific Reports. - : Springer Science and Business Media LLC. - 2045-2322. ; 6
-
Journal article (peer-reviewed)abstract
- Phytochromes are a family of photoreceptors that control light responses of plants, fungi and bacteria. A sequence of structural changes, which is not yet fully understood, leads to activation of an output domain. Time-resolved serial femtosecond crystallography (SFX) can potentially shine light on these conformational changes. Here we report the room temperature crystal structure of the chromophore-binding domains of the Deinococcus radiodurans phytochrome at 2.1 angstrom resolution. The structure was obtained by serial femtosecond X-ray crystallography from microcrystals at an X-ray free electron laser. We find overall good agreement compared to a crystal structure at 1.35 angstrom resolution derived from conventional crystallography at cryogenic temperatures, which we also report here. The thioether linkage between chromophore and protein is subject to positional ambiguity at the synchrotron, but is fully resolved with SFX. The study paves the way for time-resolved structural investigations of the phytochrome photocycle with time-resolved SFX.
|
|
| 3. |
- Munke, Anna, et al.
(author)
-
Data Descriptor : Coherent diffraction of single Rice Dwarf virus particles using hard X-rays at the Linac Coherent Light Source
- 2016
-
In: Scientific Data. - : Nature Publishing Group. - 2052-4463. ; 3
-
Journal article (peer-reviewed)abstract
- Single particle diffractive imaging data from Rice Dwarf Virus (RDV) were recorded using the Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS). RDV was chosen as it is a wellcharacterized model system, useful for proof-of-principle experiments, system optimization and algorithm development. RDV, an icosahedral virus of about 70 nm in diameter, was aerosolized and injected into the approximately 0.1 mu m diameter focused hard X-ray beam at the CXI instrument of LCLS. Diffraction patterns from RDV with signal to 5.9 angstrom ngstrom were recorded. The diffraction data are available through the Coherent X-ray Imaging Data Bank (CXIDB) as a resource for algorithm development, the contents of which are described here.
|
|
| 4. |
- Olson, Nathan D., et al.
(author)
-
precisionFDA Truth Challenge V2: Calling variants from short- and long-reads in difficult-to-map regions
- 2020
-
Other publication (other academic/artistic)abstract
- The precisionFDA Truth Challenge V2 aimed to assess the state-of-the-art of variant calling in difficult-to-map regions and the Major Histocompatibility Complex (MHC). Starting with FASTQ files, 20 challenge participants applied their variant calling pipelines and submitted 64 variant callsets for one or more sequencing technologies (~35X Illumina, ~35X PacBio HiFi, and ~50X Oxford Nanopore Technologies). Submissions were evaluated following best practices for benchmarking small variants with the new GIAB benchmark sets and genome stratifications. Challenge submissions included a number of innovative methods for all three technologies, with graph-based and machine-learning methods scoring best for short-read and long-read datasets, respectively. New methods out-performed the 2016 Truth Challenge winners, and new machine-learning approaches combining multiple sequencing technologies performed particularly well. Recent developments in sequencing and variant calling have enabled benchmarking variants in challenging genomic regions, paving the way for the identification of previously unknown clinically relevant variants.
|
|
| 5. |
- Olson, Nathan D., et al.
(author)
-
PrecisionFDA Truth Challenge V2: Calling variants from short and long reads in difficult-to-map regions
- 2022
-
In: Cell Genomics. - : Elsevier BV. - 2666-979X. ; 2:5, s. 1-12
-
Journal article (peer-reviewed)abstract
- The precisionFDA Truth Challenge V2 aimed to assess the state of the art of variant calling in challenging genomic regions. Starting with FASTQs, 20 challenge participants applied their variant-calling pipelines and submitted 64 variant call sets for one or more sequencing technologies (Illumina, PacBio HiFi, and Oxford Nanopore Technologies). Submissions were evaluated following best practices for benchmarking small variants with updated Genome in a Bottle benchmark sets and genome stratifications. Challenge submissions included numerous innovative methods, with graph-based and machine learning methods scoring best for short-read and long-read datasets, respectively. With machine learning approaches, combining multiple sequencing technologies performed particularly well. Recent developments in sequencing and variant calling have enabled benchmarking variants in challenging genomic regions, paving the way for the identification of previously unknown clinically relevant variants.
|
|
| 6. |
|
|
| 7. |
- D'Ammando, F., et al.
(author)
-
Long-term monitoring of PKS 0537-441 with Fermi-LAT and multiwavelength observations
- 2013
-
In: Monthly notices of the Royal Astronomical Society. - : Oxford University Press (OUP). - 0035-8711 .- 1365-2966. ; 431:3, s. 2481-2492
-
Journal article (peer-reviewed)abstract
- We report on multiwavelength observations of the blazar PKS 0537-441 (z = 0.896) obtained from microwaves through gamma-rays by Submillimeter Array, Rapid Eye Mounting, Automatic Telescope for Optical Monitoring (ATOM), Swift and Fermi mostly during 2008 August-2010 April. Strong variability has been observed in gamma-rays, with two major flaring episodes (2009 July and 2010 March) and a harder-when-brighter behaviour, quite common for flat spectrum radio quasars and low-synchrotron-peaked BL Lacertae objects (BL Lacs), in 2010 March. In the same way, the spectral energy distribution (SED) of the source cannot be modelled by a simple synchrotron self-Compton model, as opposed to many BL Lacs, but the addition of an external Compton component of seed photons from a dust torus is needed. The 230 GHz light curve showed an increase simultaneous with the gamma-ray one, indicating co-spatiality of the mm and gamma-ray emission region likely at large distance from the central engine. The low, average, and high activity SED of the source could be fit changing only the electron distribution parameters, but two breaks in the electron distribution are necessary. The ensuing extra spectral break, located at near-infrared (NIR)-optical frequencies, together with that in gamma-rays seem to indicate a common origin, most likely due to an intrinsic feature in the underlying electron distribution. An overall correlation between the gamma-ray band with the R band and K band has been observed with no significant time lag. On the other hand, when inspecting the light curves on short time-scales some differences are evident. In particular, flaring activity has been detected in NIR and optical bands with no evident gamma-ray counterparts in 2009 September and November. Moderate variability has been observed in X-rays with no correlation between flux and photon index. An increase of the detected X-ray flux with no counterpart at the other wavelengths has been observed in 2008 October, suggesting once more a complex correlation between the emission at different energy bands.
|
|
| 8. |
- Gruen, E., et al.
(author)
-
Ulysses Dust Detection System V3.1
- 2010
-
In: NASA Planetary Data System. ; 140
-
Journal article (peer-reviewed)abstract
- This data set contains the data from the Ulysses dust detector system (UDDS) from start of mission through the end of mission, 1990-2007. (As the dust detector was turned off after Nov. 30, 2007, this is the last date for which UDDS data is recorded.) Included are the dust impact data, noise data, laboratory calibration data, and location and orientation of the spacecraft and instrument.
|
|
| 9. |
- Grün, E., et al.
(author)
-
Dust Measurements During Galileo's Approach to Jupiter and Io Encounter
- 1996
-
In: Science. - : American Association for the Advancement of Science (AAAS). - 1095-9203 .- 0036-8075. ; 274:5286, s. 399-401
-
Journal article (peer-reviewed)abstract
- About a hundred dust impacts per day were detected during the first week in December 1995 by Galileo during its approach to Jupiter. These impacts were caused by submicrometer-sized particles that were just above the detection limit. After the closest approach to Io on 7 December, impacts of these small particles ceased. This effect is expected for dust grains emitted from Io that exit the field of view of the instrument after the flyby. The impact rate of bigger micrometer-sized dust grains continued to increase toward Jupiter. These dust particles are in orbit about Jupiter or are interplanetary grains that are gravitationally concentrated near Jupiter.
|
|
| 10. |
- Grün, E., et al.
(author)
-
Dust measurements in the Jovian magnetosphere
- 1997
-
In: Geophysical Research Letters. - 1944-8007. ; 24:17, s. 2171-2174
-
Journal article (peer-reviewed)abstract
- Dust measurements have been obtained with the dust detector onboard the Galileo spacecraft inside a distance of about 60RJ from Jupiter (Jupiter radius, RJ = 71,492 km) during two periods of about 8 days around Galileo's closest approaches to Ganymede on 27 June and on 6 Sept 1996. The impact rate of submicrometer-sized particles fluctuated by a factor of several hundred with a period of about 10 hours, implying that their trajectories are strongly affected by the interaction with the Jovian magnetic field. Concentrations of small dust impacts were detected at the times of Ganymede closest approaches that could be secondary ejecta particles generated upon impact of other particles onto Ganymede's surface. Micrometer-sized dust particles, which could be on bound orbits about Jupiter, are concentrated in the inner Jovian system inside about 20RJ from Jupiter.
|
|
