| 1. |
- Glasbey, JC, et al.
(author)
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- 2021
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swepub:Mat__t
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| 2. |
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| 3. |
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| 4. |
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| 5. |
- Dornelas, M., et al.
(author)
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BioTIME: A database of biodiversity time series for the Anthropocene
- 2018
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In: Global Ecology and Biogeography. - : Wiley. - 1466-822X .- 1466-8238. ; 27:7, s. 760-786
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Journal article (peer-reviewed)abstract
- Motivation: The BioTIME database contains raw data on species identities and abundances in ecological assemblages through time. These data enable users to calculate temporal trends in biodiversity within and amongst assemblages using a broad range of metrics. BioTIME is being developed as a community-led open-source database of biodiversity time series. Our goal is to accelerate and facilitate quantitative analysis of temporal patterns of biodiversity in the Anthropocene. Main types of variables included: The database contains 8,777,413 species abundance records, from assemblages consistently sampled for a minimum of 2 years, which need not necessarily be consecutive. In addition, the database contains metadata relating to sampling methodology and contextual information about each record. Spatial location and grain: BioTIME is a global database of 547,161 unique sampling locations spanning the marine, freshwater and terrestrial realms. Grain size varies across datasets from 0.0000000158 km(2) (158 cm(2)) to 100 km(2) (1,000,000,000,000 cm(2)). Time period and grainBio: TIME records span from 1874 to 2016. The minimal temporal grain across all datasets in BioTIME is a year. Major taxa and level of measurement: BioTIME includes data from 44,440 species across the plant and animal kingdoms, ranging from plants, plankton and terrestrial invertebrates to small and large vertebrates.
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| 6. |
- Ramilowski, JA, et al.
(author)
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Functional annotation of human long noncoding RNAs via molecular phenotyping
- 2020
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In: Genome research. - : Cold Spring Harbor Laboratory. - 1549-5469 .- 1088-9051. ; 30:7, s. 1060-1072
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Journal article (peer-reviewed)abstract
- Long noncoding RNAs (lncRNAs) constitute the majority of transcripts in the mammalian genomes, and yet, their functions remain largely unknown. As part of the FANTOM6 project, we systematically knocked down the expression of 285 lncRNAs in human dermal fibroblasts and quantified cellular growth, morphological changes, and transcriptomic responses using Capped Analysis of Gene Expression (CAGE). Antisense oligonucleotides targeting the same lncRNAs exhibited global concordance, and the molecular phenotype, measured by CAGE, recapitulated the observed cellular phenotypes while providing additional insights on the affected genes and pathways. Here, we disseminate the largest-to-date lncRNA knockdown data set with molecular phenotyping (over 1000 CAGE deep-sequencing libraries) for further exploration and highlight functional roles for ZNF213-AS1 and lnc-KHDC3L-2.
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| 7. |
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| 8. |
- Hilchenbach, M., et al.
(author)
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COMET 67P/CHURYUMOV-GERASIMENKO : CLOSE-UP on DUST PARTICLE FRAGMENTS
- 2016
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In: Astrophysical Journal Letters. - : Institute of Physics Publishing (IOPP). - 2041-8205 .- 2041-8213. ; 816:2
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Journal article (peer-reviewed)abstract
- The COmetary Secondary Ion Mass Analyser instrument on board ESA's Rosetta mission has collected dust particles in the coma of comet 67P/Churyumov-Gerasimenko. During the early-orbit phase of the Rosetta mission, particles and particle agglomerates have been imaged and analyzed in the inner coma at distances between 100 km and 10 km off the cometary nucleus and at more than 3 AU from the Sun. We identified 585 particles of more than 14 μm in size. The particles are collected at low impact speeds and constitute a sample of the dust particles in the inner coma impacting and fragmenting on the targets. The sizes of the particles range from 14 μm up to sub-millimeter sizes and the differential dust flux size distribution is fitted with a power law exponent of -3.1. After impact, the larger particles tend to stick together, spread out or consist of single or a group of clumps, and the flocculent morphology of the fragmented particles is revealed. The elemental composition of the dust particles is heterogeneous and the particles could contain typical silicates like olivine and pyroxenes, as well as iron sulfides. The sodium to iron elemental ratio is enriched with regard to abundances in CI carbonaceous chondrites by a factor from ∼1.5 to ∼15. No clear evidence for organic matter has been identified. The composition and morphology of the collected dust particles appear to be similar to that of interplanetary dust particles.
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| 9. |
- Fritz, M., et al.
(author)
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Brief Communication : Future avenues for permafrost science from the perspective of early career researchers
- 2015
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In: The Cryosphere. - : Copernicus GmbH. - 1994-0416 .- 1994-0424. ; 9:4, s. 1715-1720
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Journal article (peer-reviewed)abstract
- Accelerating climate change and increased economic and environmental interests in permafrost-affected regions have resulted in an acute need for more directed permafrost research. In June 2014, 88 early career researchers convened to identify future priorities for permafrost research. This multidisciplinary forum concluded that five research topics deserve greatest attention: permafrost landscape dynamics, permafrost thermal modeling, integration of traditional knowledge, spatial distribution of ground ice, and engineering issues. These topics underline the need for integrated research across a spectrum of permafrost-related domains and constitute a contribution to the Third International Conference on Arctic Research Planning (ICARP III).
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| 10. |
- Harrison, Sarah M., et al.
(author)
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BPS Algebras in 2D String Theory
- 2022
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In: Annales Henri Poincare. - : Springer Science and Business Media LLC. - 1424-0637 .- 1424-0661. ; 23, s. 3667-3752
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Journal article (peer-reviewed)abstract
- We discuss a set of heterotic and type II string theory compactifications to 1 + 1 dimensions that are characterized by factorized internal worldsheet CFTs of the form V1⊗ V¯ 2, where V1, V2 are self-dual (super) vertex operator algebras. In the cases with spacetime supersymmetry, we show that the BPS states form a module for a Borcherds–Kac–Moody (BKM) (super)algebra, and we prove that for each model the BKM (super)algebra is a symmetry of genus zero BPS string amplitudes. We compute the supersymmetric indices of these models using both Hamiltonian and path integral formalisms. The path integrals are manifestly automorphic forms closely related to the Borcherds–Weyl–Kac denominator. Along the way, we comment on various subtleties inherent to these low-dimensional string compactifications.
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| 11. |
- Harrison, Sarah M., et al.
(author)
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Fun with F 24
- 2021
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In: Journal of High Energy Physics. - 1029-8479 .- 1126-6708. ; 2021:2
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Journal article (peer-reviewed)abstract
- We study some special features of F24, the holomorphic c = 12 superconformal field theory (SCFT) given by 24 chiral free fermions. We construct eight different Lie superalgebras of “physical” states of a chiral superstring compactified on F24, and we prove that they all have the structure of Borcherds-Kac-Moody superalgebras. This produces a family of new examples of such superalgebras. The models depend on the choice of an N = 1 supercurrent on F24, with the admissible choices labeled by the semisimple Lie algebras of dimension 24. We also discuss how F24, with any such choice of supercurrent, can be obtained via orbifolding from another distinguished c = 12 holomorphic SCFT, the N = 1 supersymmetric version of the chiral CFT based on the E8 lattice.
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| 12. |
- Harrison, S. M., et al.
(author)
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Fun with F24
- 2021
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In: Journal of High Energy Physics. - 1029-8479. ; 2021:2
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Journal article (peer-reviewed)abstract
- We study some special features of F24, the holomorphic c = 12 superconformal field theory (SCFT) given by 24 chiral free fermions. We construct eight different Lie superalgebras of “physical” states of a chiral superstring compactified on F24, and we prove that they all have the structure of Borcherds-Kac-Moody superalgebras. This produces a family of new examples of such superalgebras. The models depend on the choice of an N = 1 supercurrent on F24, with the admissible choices labeled by the semisimple Lie algebras of dimension 24. We also discuss how F24, with any such choice of supercurrent, can be obtained via orbifolding from another distinguished c = 12 holomorphic SCFT, the N = 1 supersymmetric version of the chiral CFT based on the E8 lattice. © 2021, The Author(s).
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| 13. |
- Hornung, K., et al.
(author)
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Electrical properties of cometary dust particles derived from line shapes of TOF-SIMS spectra measured by the ROSETTA/COSIMA instrument
- 2019
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In: Planetary and Space Science. - : Elsevier Ltd. - 0032-0633 .- 1873-5088. ; 182
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Journal article (peer-reviewed)abstract
- Between Aug. 2014 and Sept. 2016, while ESA's cornerstone mission Rosetta was operating in the vicinity of the nucleus and in the coma of comet 67P/Churyumov-Gerasimenko, the COSIMA instrument collected a large number of dust particles with diameters up to a millimeter. Positive or negative ions were detected by a time-of-flight secondary ion mass spectrometer (TOF-SIMS) and the composition of selected particles was deduced. Many of the negative ion mass spectra show, besides mass peaks at the correct position, an additional, extended contribution at the lower mass side caused by partial charging of the dust. This effect, usually avoided in SIMS applications, can in our case be used to obtain information on the electrical properties of the collected cometary dust particles, such as the specific resistivity (ρr>1.2⋅1010Ωm) and the real part of the relative electrical permittivity (εr<1.2). From these values a lower limit for the porosity is derived (P>0.8).
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| 14. |
- Isnard, R., et al.
(author)
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H/C elemental ratio of the refractory organic matter in cometary particles of 67P/Churyumov-Gerasimenko
- 2019
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In: Astronomy and Astrophysics. - : EDP SCIENCES S A. - 0004-6361 .- 1432-0746. ; 630
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Journal article (peer-reviewed)abstract
- Context. Because comets are part of the most primitive bodies of our solar system, establishing their chemical composition and comparing them to other astrophysical bodies gives new constraints on the formation and evolution of organic matter throughout the solar system. For two years, the time-of-flight secondary ion mass spectrometer COmetary Secondary Ion Mass Analyzer (COSIMA) on board the Rosetta orbiter performed in situ analyses of the dust particles ejected from comet 67P/Churyumov-Gerasimenko (67P). Aims. The aim is to determine the H/C elemental ratio of the refractory organic component contained in cometary particles of 67P. Methods. We analyzed terrestrial and extraterrestrial calibration samples using the COSIMA ground-reference model. Exploiting these calibration samples, we provide calibration lines in both positive and negative ion registration modes. Thus, we are now able to measure the cometary H/C elemental ratio. Results. The mean H/C value is 1.04 +/- 0.16 based on 33 different cometary particles. Consequently, the H/C atomic ratio is on average higher in cometary particles of 67P than in even the most primitive insoluble organic matter extracted from meteorites. Conclusions. These results imply that the refractory organic matter detected in dust particles of 67P is less unsaturated than the material in meteorites.
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| 15. |
- Kambach, S., et al.
(author)
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How do trees respond to species mixing in experimental compared to observational studies?
- 2019
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In: Ecology and Evolution. - : Wiley. - 2045-7758. ; 9:19, s. 11254-11265
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Journal article (peer-reviewed)abstract
- For decades, ecologists have investigated the effects of tree species diversity on tree productivity at different scales and with different approaches ranging from observational to experimental study designs. Using data from five European national forest inventories (16,773 plots), six tree species diversity experiments (584 plots), and six networks of comparative plots (169 plots), we tested whether tree species growth responses to species mixing are consistent and therefore transferrable between those different research approaches. Our results confirm the general positive effect of tree species mixing on species growth (16% on average) but we found no consistency in species-specific responses to mixing between any of the three approaches, even after restricting comparisons to only those plots that shared similar mixtures compositions and forest types. These findings highlight the necessity to consider results from different research approaches when selecting species mixtures that should maximize positive forest biodiversity and functioning relationships.
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| 16. |
- Mustjoki, S., et al.
(author)
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Clonal expansion of T/NK-cells during tyrosine kinase inhibitor dasatinib therapy
- 2009
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In: Leukemia. - : Springer Science and Business Media LLC. - 1476-5551 .- 0887-6924. ; 23:8, s. 1398-1405
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Journal article (peer-reviewed)abstract
- Dasatinib, a broad-spectrum tyrosine kinase inhibitor (TKI), predominantly targets BCR-ABL and SRC oncoproteins and also inhibits off-target kinases, which may result in unexpected drug responses. We identified 22 patients with marked lymphoproliferation in blood while on dasatinib therapy. Clonality and immunophenotype were analyzed and related clinical information was collected. An abrupt lymphocytosis (peak count range 4-20 x 10(9)/l) with large granular lymphocyte (LGL) morphology was observed after a median of 3 months from the start of therapy and it persisted throughout the therapy. Fifteen patients had a cytotoxic T-cell and seven patients had an NK-cell phenotype. All T-cell expansions were clonal. Adverse effects, such as colitis and pleuritis, were common (18 of 22 patients) and were preceded by LGL lymphocytosis. Accumulation of identical cytotoxic T cells was also detected in pleural effusion and colon biopsy samples. Responses to dasatinib were good and included complete, unexpectedly long-lasting remissions in patients with advanced leukemia. In a phase II clinical study on 46 Philadelphia chromosome-positive acute lymphoblastic leukemia, patients with lymphocytosis had superior survival compared with patients without lymphocytosis. By inhibiting immunoregulatory kinases, dasatinib may induce a reversible state of aberrant immune reactivity associated with good clinical responses and a distinct adverse effect profile. Leukemia (2009) 23, 1398-1405; doi:10.1038/leu.2009.46; published online 19 March 2009
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| 17. |
- O'Connor, M. I., et al.
(author)
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A general biodiversity-function relationship is mediated by trophic level
- 2017
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In: Oikos. - : Wiley. - 0030-1299. ; 126:1, s. 18-31
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Journal article (peer-reviewed)abstract
- Species diversity affects the functioning of ecosystems, including the efficiency by which communities capture limited resources, produce biomass, recycle and retain biologically essential nutrients. These ecological functions ultimately support the ecosystem services upon which humanity depends. Despite hundreds of experimental tests of the effect of biodiversity on ecosystem function (BEF), it remains unclear whether diversity effects are sufficiently general that we can use a single relationship to quantitatively predict how changes in species richness alter an ecosystem function across trophic levels, ecosystems and ecological conditions. Our objective here is to determine whether a general relationship exists between biodiversity and standing biomass. We used hierarchical mixed effects models, based on a power function between species richness and biomass production (Y = a x S-b), and a database of 374 published experiments to estimate the BEF relationship (the change in biomass with the addition of species), and its associated uncertainty, in the context of environmental factors. We found that the mean relationship (b = 0.26, 95% CI: 0.16, 0.37) characterized the vast majority of observations, was robust to differences in experimental design, and was independent of the range of species richness levels considered. However, the richness-biomass relationship varied by trophic level and among ecosystems; in aquatic systems b was nearly twice as large for consumers (herbivores and detritivores) compared to primary producers; in terrestrial ecosystems, b for detritivores was negative but depended on few studies. We estimated changes in biomass expected for a range of changes in species richness, highlighting that species loss has greater implications than species gains, skewing a distribution of biomass change relative to observed species richness change. When biomass provides a good proxy for processes that underpin ecosystem services, this relationship could be used as a step in modeling the production of ecosystem services and their dependence on biodiversity.
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| 18. |
- Paquette, J A, et al.
(author)
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D/H in the refractory organics of comet 67P/Churyumov-Gerasimenko measured by Rosetta/COSIMA
- 2021
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In: monthly notices of the royal astronomical society. ; 504:4
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Journal article (peer-reviewed)abstract
- The D/H ratio is a clue to the origin and evolution of hydrogen-bearing chemical species in Solar system materials. D/H has been observed in the coma of many comets, but most such measurements have been for gaseous water. We present the first in situ measurements of the D/H ratios in the organic refractory component of cometary dust particles collected at very low impact speeds in the coma of comet 67P/Churyumov-Gerasimenko (hereafter 67P) by the COSIMA instrument onboard Rosetta. The values measured by COSIMA are spatial averages over an approximately 35 × 50 µm2 area. The average D/H ratio for the 25 measured particles is (1.57 ± 0.54) × 10−3, about an order of magnitude higher than the Vienna Standard Mean Ocean Water (VSMOW), but more than an order of magnitude lower than the values measured in gas-phase organics in solar-like protostellar regions and hot cores. This relatively high averaged value suggests that refractory carbonaceous matter in comet 67P is less processed than the most primitive insoluble organic matter (IOM) in meteorites, which has a D/H ratio in the range of about 1 to 7 × 10−4. The cometary particles measured in situ also have a higher H/C ratio than the IOM. We deduce that the measured D/H in cometary refractory organics is an inheritance from the presolar molecular cloud from which the Solar system formed. The high D/H ratios observed in the cometary particles challenges models in which high D/H ratios result solely from processes that operated in the protosolar disc.
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| 19. |
- Paquette, N. M., et al.
(author)
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Monstrous BPS-algebras and the superstring origin of moonshine
- 2016
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In: Communications in Number Theory and Physics. - 1931-4531 .- 1931-4523. ; 10:3, s. 433-526
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Journal article (peer-reviewed)abstract
- We provide a physics derivation of Monstrous moonshine. We show that the McKay-Thompson series T-g, g epsilon M, can be interpreted as supersymmetric indices counting spacetime BPS-states in certain heterotic string models. The invariance groups of these series arise naturally as spacetime T-duality groups and their genus zero property descends from the behaviour of these heterotic models in suitable decompactification limits. We also show that the space of BPS-states forms a module for the Monstrous Lie algebras m(g), constructed by Borcherds and Carnahan. We argue that m(g) arise in the heterotic models as algebras of spontaneously broken gauge symmetries, whose generators are in exact correspondence with BPS-states. This gives mg an interpretation as a kind of BPS-algebra.
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