| 1. |
- Horvatovich, Peter, et al.
(author)
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Quest for Missing Proteins : Update 2015 on Chromosome-Centric Human Proteome Project
- 2015
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In: Journal of Proteome Research. - : American Chemical Society (ACS). - 1535-3893 .- 1535-3907. ; 14:9, s. 3415-3431
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Journal article (other academic/artistic)abstract
- This paper summarizes the recent activities of the Chromosome-Centric Human Proteome Project (C-HPP) consortium, which develops new technologies to identify yet-to-be annotated proteins (termed "missing proteins") in biological samples that lack sufficient experimental evidence at the protein level for confident protein identification. The C-HPP also aims to identify new protein forms that may be caused by genetic variability, post-translational modifications, and alternative splicing. Proteogenomic data integration forms the basis of the C-HPP's activities; therefore, we have summarized some of the key approaches and their roles in the project. We present new analytical technologies that improve the chemical space and lower detection limits coupled to bioinformatics tools and some publicly available resources that can be used to improve data analysis or support the development of analytical assays. Most of this paper's content has been compiled from posters, slides, and discussions presented in the series of C-HPP workshops held during 2014. All data (posters, presentations) used are available at the C-HPP Wild (http://c-hpp.webhosting.rug.nl/) and in the Supporting Information.
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| 2. |
- Akiyama, Kazunori, et al.
(author)
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First Sagittarius A* Event Horizon Telescope Results. II. EHT and Multiwavelength Observations, Data Processing, and Calibration
- 2022
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In: Astrophysical Journal Letters. - : American Astronomical Society. - 2041-8213 .- 2041-8205. ; 930:2
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Journal article (peer-reviewed)abstract
- We present Event Horizon Telescope (EHT) 1.3 mm measurements of the radio source located at the position of the supermassive black hole Sagittarius A* (Sgr A*), collected during the 2017 April 5-11 campaign. The observations were carried out with eight facilities at six locations across the globe. Novel calibration methods are employed to account for Sgr A*'s flux variability. The majority of the 1.3 mm emission arises from horizon scales, where intrinsic structural source variability is detected on timescales of minutes to hours. The effects of interstellar scattering on the image and its variability are found to be subdominant to intrinsic source structure. The calibrated visibility amplitudes, particularly the locations of the visibility minima, are broadly consistent with a blurred ring with a diameter of similar to 50 mu as, as determined in later works in this series. Contemporaneous multiwavelength monitoring of Sgr A* was performed at 22, 43, and 86 GHz and at near-infrared and X-ray wavelengths. Several X-ray flares from Sgr A* are detected by Chandra, one at low significance jointly with Swift on 2017 April 7 and the other at higher significance jointly with NuSTAR on 2017 April 11. The brighter April 11 flare is not observed simultaneously by the EHT but is followed by a significant increase in millimeter flux variability immediately after the X-ray outburst, indicating a likely connection in the emission physics near the event horizon. We compare Sgr A*'s broadband flux during the EHT campaign to its historical spectral energy distribution and find that both the quiescent emission and flare emission are consistent with its long-term behavior.
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| 3. |
- Benjamin, Daniel J., et al.
(author)
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Redefine statistical significance
- 2018
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In: Nature Human Behaviour. - : Nature Research (part of Springer Nature). - 2397-3374. ; 2:1, s. 6-10
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Journal article (other academic/artistic)
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| 4. |
- Diego, Guénot, et al.
(author)
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Simultaneous X-ray absorption and two-photon LIF for imaging the spray formation region
- 2019
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In: ILASS–Europe 2019, Proceedings of the 29th Conference on Liquid Atomization and Spray Systems, 2-4 September 2019, Paris, France.
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Conference paper (peer-reviewed)abstract
- Imaging the spray formation region of atomizing sprays is particularly challenging due to the presence of a variety of irregular liquid structures such as ligaments, liquid blobs, droplets, liquid sheets and a possible liquid core. The number and concentration of those liquid bodies dictate the presence of liquid/air interfaces, which are responsible to undesired scattering effects. The resulting images are blurred, ultimately concealing the real structure of the spray formation region. Due to both, scattering effects and the presence of highly irregular 3D liquid structures, the only reliable measurement of liquid mass in the spray formation region is obtained using X-ray radiography. The generation of collimated X-rays pulsed has been done, in the past, by means of a synchrotron, thus limiting the number of studies that can be performed.In parallel to the use of X-rays, progresses in advanced laser imaging techniques for suppressing multiple scattering issues have been particularly important over the past decade. A very recent solution consists in using 2-photon excitation LIF laser sheet imaging.In this paper, we report for the first time the possibility of simultaneously imaging an atomizing spray using X-ray absorption and 2-photon LIF planar imaging, where the simultaneous single-shot recordings are made over a ~20mmx20mm viewed area. The spray is generated from a commercial fuel port injection system from which, water was injected. The unique illumination/detection scheme proposed here was made possible thanks to the use of X-rays emitted from a laser plasma accelerator (Betatron radiation). For this experiment, we use the High Intensity Laser system at Lund University that provides on target 800mJ, 38fs laser pulses. The emitted X-ray radiation is ranging from 1 to 10keV and peaking at ~2keV. It propagates outside of the vacuum chamber where an X-ray camera records the shadow of the liquid jet. In addition to that, a fraction of the laser pulse ~10mJ is directed on the liquid jet and focuses with a cylindrical lens where it induces fluorescence from a 2-photon excitation process in a dye -here, fluorescein- added to the liquid. The 2p-LIF images provide details on the size and shape of the liquid structures, optically sectioned by the light sheet, while the integrated liquid mass is extracted from the X-ray radiography. This is making the two imaging techniques highly complementary for the characterization of spray systems as well as for further understanding the physics related to liquid atomization.
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| 5. |
- Jungclaus, Johann H., et al.
(author)
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The PMIP4 contribution to CMIP6 - Part 3 : The last millennium, scientific objective, and experimental design for the PMIP4 past1000 simulations
- 2017
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In: Geoscientific Model Development. - : Copernicus GmbH. - 1991-959X .- 1991-9603. ; 10:11, s. 4005-4033
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Journal article (peer-reviewed)abstract
- The pre-industrial millennium is among the periods selected by the Paleoclimate Model Intercomparison Project (PMIP) for experiments contributing to the sixth phase of the Coupled Model Intercomparison Project (CMIP6) and the fourth phase of the PMIP (PMIP4). The past1000 transient simulations serve to investigate the response to (mainly) natural forcing under background conditions not too different from today, and to discriminate between forced and internally generated variability on interannual to centennial timescales. This paper describes the motivation and the experimental set-ups for the PMIP4-CMIP6 past1000 simulations, and discusses the forcing agents orbital, solar, volcanic, and land use/land cover changes, and variations in greenhouse gas concentrations. The past1000 simulations covering the pre-industrial millennium from 850 Common Era (CE) to 1849 CE have to be complemented by historical simulations (1850 to 2014 CE) following the CMIP6 protocol. The external forcings for the past1000 experiments have been adapted to provide a seamless transition across these time periods. Protocols for the past1000 simulations have been divided into three tiers. A default forcing data set has been defined for the Tier 1 (the CMIP6 past1000) experiment. However, the PMIP community has maintained the flexibility to conduct coordinated sensitivity experiments to explore uncertainty in forcing reconstructions as well as parameter uncertainty in dedicated Tier 2 simulations. Additional experiments (Tier 3) are defined to foster collaborative model experiments focusing on the early instrumental period and to extend the temporal range and the scope of the simulations. This paper outlines current and future research foci and common analyses for collaborative work between the PMIP and the observational communities (reconstructions, instrumental data).
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| 6. |
- Zanello, Marc, et al.
(author)
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Surgical resection of cavernous angioma located within eloquent brain areas : International survey of the practical management among 19 specialized centers
- 2019
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In: Seizure. - : Elsevier. - 1059-1311 .- 1532-2688. ; 69, s. 31-40
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Journal article (peer-reviewed)abstract
- PURPOSE: The practical management of cavernous angioma located within eloquent brain area before, during and after surgical resection is poorly documented. We assessed the practical pre-operative, intra-operative, and post-operative management of cavernous angioma located within eloquent brain area.METHOD: An online survey composed of 61 items was sent to 26 centers to establish a multicenter international retrospective cohort of adult patients who underwent a surgical resection as the first-line treatment of a supratentorial cavernous angioma located within or close to eloquent brain area.RESULTS: 272 patients from 19 centers (mean 13.6 ± 16.7 per center) from eight countries were included. The pre-operative management varied significantly between centers and countries regarding the pre-operative functional assessment, the pre-operative epileptological assessment, the first given antiepileptic drug, and the time to surgery. The intra-operative environment varied significantly between centers and countries regarding the use of imaging systems, the use of functional mapping with direct electrostimulations, the extent of resection of the hemosiderin rim, the realization of a post-operative functional assessment, and the time to post-operative functional assessment. The present survey found a post-operative improvement, as compared to pre-operative evaluations, of the functional status, the ability to work, and the seizure control.CONCLUSIONS: We observed a variety of practice between centers and countries regarding the management of cavernous angioma located within eloquent regions. Multicentric prospective studies are required to solve relevant questions regarding the management of cavernous angioma-related seizures, the timing of surgery, and the optimal extent of hemosiderin rim resection.
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