| 1. |
- Grüning, Björn, et al.
(författare)
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Bioconda: A sustainable and comprehensive software distribution for the life sciences
- 2017
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Annan publikation (övrigt vetenskapligt/konstnärligt)abstract
- We present Bioconda (https://bioconda.github.io), a distribution of bioinformatics software for the lightweight, multi-platform and language-agnostic package manager Conda. Currently, Bioconda offers a collection of over 3000 software packages, which is continuously maintained, updated, and extended by a growing global community of more than 200 contributors. Bioconda improves analysis reproducibility by allowing users to define isolated environments with defined software versions, all of which are easily installed and managed without administrative privileges.
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| 2. |
- Pfeiler, Georg, et al.
(författare)
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Impact of BMI in Patients With Early Hormone Receptor-Positive Breast Cancer Receiving Endocrine Therapy With or Without Palbociclib in the PALLAS Trial
- 2023
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Ingår i: JOURNAL OF CLINICAL ONCOLOGY. - 0732-183X .- 1527-7755. ; 41:33
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Tidskriftsartikel (refereegranskat)abstract
- PURPOSEBMI affects breast cancer risk and prognosis. In contrast to cytotoxic chemotherapy, CDK4/6 inhibitors are given at a fixed dose, irrespective of BMI or weight. This preplanned analysis of the global randomized PALLAS trial investigates the impact of BMI on the side-effect profile, treatment adherence, and efficacy of palbociclib.METHODSPatients were categorized at baseline according to WHO BMI categories. Neutropenia rates were assessed with univariable and multivariable logistic regression. Time to early discontinuation of palbociclib was analyzed with Fine and Gray competing risk models. Unstratified Cox models were used to investigate the association between BMI category and time to invasive disease-free survival (iDFS). 95% CIs were derived.RESULTSOf 5,698 patients included in this analysis, 68 (1.2%) were underweight, 2,082 (36.5%) normal weight, 1,818 (31.9%) overweight, and 1,730 (30.4%) obese at baseline. In the palbociclib arm, higher BMI was associated with a significant decrease in neutropenia (unadjusted odds ratio for 1-unit change, 0.93; 95% CI, 0.91 to 0.94; adjusted for age, race ethnicity, region, chemotherapy use, and Eastern Cooperative Oncology Group at baseline, 0.93; 95% CI, 0.92 to 0.95). This translated into a significant decrease in treatment discontinuation rate with higher BMI (adjusted hazard ratio [HR] for 10-unit change, 0.75; 95% CI, 0.67 to 0.83). There was no significant improvement in iDFS with the addition of palbociclib to ET in any weight category (normal weight HR, 0.84; 95% CI, 0.63 to 1.12; overweight HR, 1.10; 95% CI, 0.82 to 1.49; and obese HR, 0.95; 95% CI, 0.69 to 1.30) in this analysis early in follow-up (31 months).CONCLUSIONThis preplanned analysis of the PALLAS trial demonstrates a significant impact of BMI on side effects, dose reductions, early treatment discontinuation, and relative dose intensity. Additional long-term follow-up will further evaluate whether BMI ultimately affects outcome. This preplanned analysis of the PALLAS trial demonstrates a significant impact of BMI on side effects, dose reductions, early treatment discontinuation, and relative dose intensity.
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| 3. |
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- 2019
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Tidskriftsartikel (refereegranskat)
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| 4. |
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| 5. |
- Fischer, Hubertus, et al.
(författare)
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Palaeoclimate constraints on the impact of 2 °C anthropogenic warming and beyond
- 2018
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Ingår i: Nature Geoscience. - : Springer Science and Business Media LLC. - 1752-0894 .- 1752-0908. ; 11:7, s. 474-485
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Tidskriftsartikel (refereegranskat)abstract
- Over the past 3.5 million years, there have been several intervals when climate conditions were warmer than during the pre-industrial Holocene. Although past intervals of warming were forced differently than future anthropogenic change, such periods can provide insights into potential future climate impacts and ecosystem feedbacks, especially over centennial-to-millennial timescales that are often not covered by climate model simulations. Our observation-based synthesis of the understanding of past intervals with temperatures within the range of projected future warming suggests that there is a low risk of runaway greenhouse gas feedbacks for global warming of no more than 2 °C. However, substantial regional environmental impacts can occur. A global average warming of 1–2 °C with strong polar amplification has, in the past, been accompanied by significant shifts in climate zones and the spatial distribution of land and ocean ecosystems. Sustained warming at this level has also led to substantial reductions of the Greenland and Antarctic ice sheets, with sea-level increases of at least several metres on millennial timescales. Comparison of palaeo observations with climate model results suggests that, due to the lack of certain feedback processes, model-based climate projections may underestimate long-term warming in response to future radiative forcing by as much as a factor of two, and thus may also underestimate centennial-to-millennial-scale sea-level rise.
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| 6. |
- Fischer, Hubertus, et al.
(författare)
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Reconstruction of millennial changes in dust emission, transport and regional sea ice coverage using the deep EPICA ice cores from the Atlantic and Indian Ocean sector of Antarctica
- 2007
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Ingår i: Earth and Planetary Science Letters. - : Elsevier BV. - 0012-821X. ; 260, s. 340-354
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Tidskriftsartikel (refereegranskat)abstract
- Continuous sea salt and mineral dust aerosol records have been studied on the two EPICA (European Project for Ice Coring inAntarctica) deep ice cores. The joint use of these records from opposite sides of the East Antarctic plateau allows for an estimate ofchanges in dust transport and emission intensity as well as for the identification of regional differences in the sea salt aerosolsource. The mineral dust flux records at both sites show a strong coherency over the last 150 kyr related to dust emission changes inthe glacial Patagonian dust source with three times higher dust fluxes in the Atlantic compared to the Indian Ocean sector of theSouthern Ocean (SO). Using a simple conceptual transport model this indicates that transport can explain only 40% of theatmospheric dust concentration changes in Antarctica, while factor 5–10 changes occurred. Accordingly, the main cause for the strong glacial dust flux changes in Antarctica must lie in environmental changes in Patagonia. Dust emissions, hence environmentalconditions in Patagonia, were very similar during the last two glacials and interglacials, respectively, despite 2–4 °C warmertemperatures recorded in Antarctica during the penultimate interglacial than today. 2–3 times higher sea salt fluxes found in bothice cores in the glacial compared to the Holocene are difficult to reconcile with a largely unchanged transport intensity and thedistant open ocean source. The substantial glacial enhancements in sea salt aerosol fluxes can be readily explained assuming sea iceformation as the main sea salt aerosol source with a significantly larger expansion of (summer) sea ice in the Weddell Sea than inthe Indian Ocean sector. During the penultimate interglacial, our sea salt records point to a 50% reduction of winter sea icecoverage compared to the Holocene both in the Indian and Atlantic Ocean sector of the SO. However, from 20 to 80 ka beforepresent sea salt fluxes show only very subdued millennial changes despite pronounced temperature fluctuations, likely due to thelarge distance of the sea ice salt source to our drill sites.
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| 7. |
- Gustafsson, Jan-Eric, 1949, et al.
(författare)
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Measuring fluid intelligence at age four
- 2015
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Ingår i: Intelligence. - : Elsevier BV. - 0160-2896. ; 50, s. 175-185
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Tidskriftsartikel (refereegranskat)abstract
- Individual differences in the broad ability dimension General fluid intelligence (Gf) are typically assessed with visuospatial problem solving tasks, and particularly so among young children. Such tests may, however, contribute construct-irrelevant variance due to the figural content of the tasks. The main aim of the study is, therefore, to investigate if measures of working memory capacity can add to the measurement of Gf. A sample of 364 children aged four were given a test-battery which included 10 tests designed to measure different aspects of Gf: three visuospatial problem solving tests, two visual short-term memory (STM) tests, two verbal STM tests, and three verbal tests of working memory capacity. Confirmatory factor analysis showed that an oblique model with four factors fitted the data well, as did a bifactor model with a general factor, along with verbal and visual modality factors. The bifactor model was the preferred solution, and it was concluded that the general factor in this model represents Gf. It was also observed that the visuospatial problem solving tests were influenced by both Gf and the visual modality factor, the latter contributing construct-irrelevant variance to the intended measurement of Gf.
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| 8. |
- Horn, M. A., et al.
(författare)
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Screening for X-linked adrenoleukodystrophy among adult men with Addison's disease
- 2013
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Ingår i: Clinical Endocrinology. - : Wiley. - 0300-0664. ; 79:3, s. 316-320
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Tidskriftsartikel (refereegranskat)abstract
- ObjectivesX-linked adrenoleukodystrophy is an important cause of Addison's disease in boys, but less is known about its contribution to Addison's disease in adult men. After surveying all known cases of X-linked adrenoleukodystrophy in Norway in a separate study, we aimed to look for any missed cases among the population of adult men with nonautoimmune Addison's disease. Study designAmong 153 adult men identified in a National Registry for Addison's Disease (75% of identified male cases of Addison's disease in Norway), those with negative indices for 21-hydroxylase autoantibodies were selected. Additionally, cases with low autoantibody indices (48-200) were selected. Sera from subjects included were analysed for levels of very long-chain fatty acids, which are diagnostic for X-linked adrenoleukodystrophy in men. ResultsEighteen subjects had negative indices and 17 had low indices for 21-hydroxylase autoantibodies. None of those with low indices and only one of those with negative indices were found to have X-linked adrenoleukodystrophy; this subject had already been diagnosed because of the neurological symptoms. Cases of Addison's disease proved to be caused by X-linked adrenoleukodystrophy constitute 15% of all adult male cases in Norway; the proportion among nonautoimmune cases was 15%. ConclusionsWe found X-linked adrenoleukodystrophy to be an uncommon cause of Addison's disease in adult men. However, this aetiological diagnosis has far-reaching consequences both for the patient and for his extended family. We therefore recommend that all adult men with nonautoimmune Addison's disease be analysed for levels of very long-chain fatty acids.
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| 9. |
- Kaufmann, Patrik, et al.
(författare)
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Ammonium and non-sea salt sulfate in the EPICA ice cores as indicator of biological activity in the Southern Ocean
- 2010
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Ingår i: Quaternary Science Reviews. - : Elsevier BV. - 0277-3791 .- 1873-457X. ; 29:02-jan, s. 313-323
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Tidskriftsartikel (refereegranskat)abstract
- Sulfate (SO42-) and ammonium (NH4+) flux records over the last 150,000 years from both Antarctic EPICA ice cores (European Project for Ice Coring in Antarctica) are presented. The ice core record from Dome C is influenced by the Indian sector of the Southern Ocean (SO), whereas Dronning Maud Land is facing the Atlantic sector. Generally, they reflect the past atmospheric aerosol load and, thus, potentially reveal the fingerprint of marine biogenic sources from the SO. The most important feature of both, the nssSO(4)(2-) as well as NH4+ flux records, is the absence of any significant glacial cycles, in contrary to the distinct transitions for mineral dust and sea salt aerosol over the last 150,000 years. This finding challenges the iron fertilization hypothesis on long time scales, as the significant changes in dust, e.g. from the last glacial maximum toward the Holocene have neither an impact on nssSO(4)(2-) nor on NH4+ fluxes found in interior Antarctica. The inter-site correlation of both species is weak, r(2) = 0.42 for the nssSO(4)(2-) flux and r(2) = 0.12 for the NH4+ flux respectively, emphasizing the local Source characteristics of biogenic aerosol from the SO. Millennial variability in NH4+ and nssSO(4)(2-) is within the uncertainty of our flux estimates. Correlation with mineral dust and sea ice derived sodium shows only a very weak influence of dust deposition on those insignificant changes in nssSO(4)(2-) flux for the Atlantic sector of the Southern Ocean, but also small transport changes or terrigeneous sulfate contributions may contribute to those variations at EDML.
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| 10. |
- Kawecki, Maciej, et al.
(författare)
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Probing the dynamics of high-viscosity entangled polymers under shear using Neutron Spin Echo spectroscopy
- 2016
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Ingår i: VI European Conference On Neutron Scattering (ECNS2015). - : IOP Publishing.
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Konferensbidrag (refereegranskat)abstract
- Neutron Spin Echo spectroscopy provides unique insight into molecular and submolecular dynamics as well as intra-and inter-molecular interactions in soft matter. These dynamics may change drastically under shear flow. In particular in polymer physics a stress plateau is observed, which might be explained by an entanglement-disentanglement transition. However, such a transition is difficult to identify directly by experiments. Neutron Spin Echo has been proven to provide information about entanglement length and degree by probing the local dynamics of the polymer chains. Combining shear experiments and neutron spin echo is challenging since, first the beam polarisation has to be preserved during scattering and second, Doppler scattered neutrons may cause inelastic scattering. In this paper we present a new shear device adapted for these needs. We demonstrate that a high beam polarisation can be preserved and present first data on an entangled polymer solution under shear. To complement the experiments on the dynamics we present novel SANS data revealing shear-induced conformational changes in highly entangled polymers.
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