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- Hudson, Lawrence N, et al.
(författare)
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The database of the PREDICTS (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems) project
- 2017
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Ingår i: Ecology and Evolution. - : John Wiley & Sons. - 2045-7758. ; 7:1, s. 145-188
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Tidskriftsartikel (refereegranskat)abstract
- The PREDICTS project-Projecting Responses of Ecological Diversity In Changing Terrestrial Systems (www.predicts.org.uk)-has collated from published studies a large, reasonably representative database of comparable samples of biodiversity from multiple sites that differ in the nature or intensity of human impacts relating to land use. We have used this evidence base to develop global and regional statistical models of how local biodiversity responds to these measures. We describe and make freely available this 2016 release of the database, containing more than 3.2 million records sampled at over 26,000 locations and representing over 47,000 species. We outline how the database can help in answering a range of questions in ecology and conservation biology. To our knowledge, this is the largest and most geographically and taxonomically representative database of spatial comparisons of biodiversity that has been collated to date; it will be useful to researchers and international efforts wishing to model and understand the global status of biodiversity.
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| 4. |
- Huyghe, Jeroen R., et al.
(författare)
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Discovery of common and rare genetic risk variants for colorectal cancer
- 2019
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Ingår i: Nature Genetics. - : Nature Publishing Group. - 1061-4036 .- 1546-1718. ; 51:1, s. 76-
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Tidskriftsartikel (refereegranskat)abstract
- To further dissect the genetic architecture of colorectal cancer (CRC), we performed whole-genome sequencing of 1,439 cases and 720 controls, imputed discovered sequence variants and Haplotype Reference Consortium panel variants into genome-wide association study data, and tested for association in 34,869 cases and 29,051 controls. Findings were followed up in an additional 23,262 cases and 38,296 controls. We discovered a strongly protective 0.3% frequency variant signal at CHD1. In a combined meta-analysis of 125,478 individuals, we identified 40 new independent signals at P < 5 x 10(-8), bringing the number of known independent signals for CRC to similar to 100. New signals implicate lower-frequency variants, Kruppel-like factors, Hedgehog signaling, Hippo-YAP signaling, long noncoding RNAs and somatic drivers, and support a role for immune function. Heritability analyses suggest that CRC risk is highly polygenic, and larger, more comprehensive studies enabling rare variant analysis will improve understanding of biology underlying this risk and influence personalized screening strategies and drug development.
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- Kehoe, Laura, et al.
(författare)
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Make EU trade with Brazil sustainable
- 2019
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 364:6438, s. 341-
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Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)
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- Raghavan, Maanasa, et al.
(författare)
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Genomic evidence for the Pleistocene and recent population history of Native Americans
- 2015
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 0036-8075 .- 1095-9203. ; 349:6250
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Tidskriftsartikel (refereegranskat)abstract
- Howand when the Americas were populated remains contentious. Using ancient and modern genome-wide data, we found that the ancestors of all present-day Native Americans, including Athabascans and Amerindians, entered the Americas as a single migration wave from Siberia no earlier than 23 thousand years ago (ka) and after no more than an 8000-year isolation period in Beringia. After their arrival to the Americas, ancestral Native Americans diversified into two basal genetic branches around 13 ka, one that is now dispersed across North and South America and the other restricted to North America. Subsequent gene flow resulted in some Native Americans sharing ancestry with present-day East Asians (including Siberians) and, more distantly, Australo-Melanesians. Putative "Paleoamerican" relict populations, including the historical Mexican Pericues and South American Fuego-Patagonians, are not directly related to modern Australo-Melanesians as suggested by the Paleoamerican Model.
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| 7. |
- Antanas, Laura, et al.
(författare)
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Semantic and geometric reasoning for robotic grasping : a probabilistic logic approach
- 2019
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Ingår i: Autonomous Robots. - : Springer. - 0929-5593 .- 1573-7527. ; 43:6, s. 1393-1418
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Tidskriftsartikel (refereegranskat)abstract
- While any grasp must satisfy the grasping stability criteria, good grasps depend on the specific manipulation scenario: the object, its properties and functionalities, as well as the task and grasp constraints. We propose a probabilistic logic approach for robot grasping, which improves grasping capabilities by leveraging semantic object parts. It provides the robot with semantic reasoning skills about the most likely object part to be grasped, given the task constraints and object properties, while also dealing with the uncertainty of visual perception and grasp planning. The probabilistic logic framework is task-dependent. It semantically reasons about pre-grasp configurations with respect to the intended task and employs object-task affordances and object/task ontologies to encode rules that generalize over similar object parts and object/task categories. The use of probabilistic logic for task-dependent grasping contrasts with current approaches that usually learn direct mappings from visual perceptions to task-dependent grasping points. The logic-based module receives data from a low-level module that extracts semantic objects parts, and sends information to the low-level grasp planner. These three modules define our probabilistic logic framework, which is able to perform robotic grasping in realistic kitchen-related scenarios.
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| 8. |
- Bien, Stephanie A., et al.
(författare)
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Genetic variant predictors of gene expression provide new insight into risk of colorectal cancer
- 2019
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Ingår i: Human Genetics. - : Springer. - 0340-6717 .- 1432-1203. ; 138:4, s. 307-326
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Tidskriftsartikel (refereegranskat)abstract
- Genome-wide association studies have reported 56 independently associated colorectal cancer (CRC) risk variants, most of which are non-coding and believed to exert their effects by modulating gene expression. The computational method PrediXcan uses cis-regulatory variant predictors to impute expression and perform gene-level association tests in GWAS without directly measured transcriptomes. In this study, we used reference datasets from colon (n=169) and whole blood (n=922) transcriptomes to test CRC association with genetically determined expression levels in a genome-wide analysis of 12,186 cases and 14,718 controls. Three novel associations were discovered from colon transverse models at FDR0.2 and further evaluated in an independent replication including 32,825 cases and 39,933 controls. After adjusting for multiple comparisons, we found statistically significant associations using colon transcriptome models with TRIM4 (discovery P=2.2x10(-4), replication P=0.01), and PYGL (discovery P=2.3x10(-4), replication P=6.7x10(-4)). Interestingly, both genes encode proteins that influence redox homeostasis and are related to cellular metabolic reprogramming in tumors, implicating a novel CRC pathway linked to cell growth and proliferation. Defining CRC risk regions as one megabase up- and downstream of one of the 56 independent risk variants, we defined 44 non-overlapping CRC-risk regions. Among these risk regions, we identified genes associated with CRC (P<0.05) in 34/44 CRC-risk regions. Importantly, CRC association was found for two genes in the previously reported 2q25 locus, CXCR1 and CXCR2, which are potential cancer therapeutic targets. These findings provide strong candidate genes to prioritize for subsequent laboratory follow-up of GWAS loci. This study is the first to implement PrediXcan in a large colorectal cancer study and findings highlight the utility of integrating transcriptome data in GWAS for discovery of, and biological insight into, risk loci.
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| 9. |
- Candelario, Victor M., et al.
(författare)
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Aqueous colloidal processing of nano-SiC and its nano-Y3Al5O12 liquid-phase sintering additives with carbon nanotubes
- 2015
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Ingår i: Journal of the European Ceramic Society. - : Elsevier BV. - 0955-2219 .- 1873-619X. ; 35:13, s. 3363-3368
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Tidskriftsartikel (refereegranskat)abstract
- Carbon nanotubes (CNTs) have occasionally been observed to benefit the aqueous colloidal processing of nano-SiC with its nano-Y3Al5O12 liquid-phase-sintering additives. Experimental evidence is here presented for a broad set of CNTs with different morphology and/or surface functionalization confirming that CNTs (7 vol.% addition), regardless of their features, prevent the coagulation of these nanoceramic suspensions, whence it is inferred that aqueous colloidal processing is well-suited for the environmentally friendly preparation of the homogeneous mixtures of nanoceramic particles and CNTs required for the fabrication of CNT-reinforced ceramic matrix nanocomposites. Furthermore, it is shown that surface-functionalized CNTs seem to work better than deflocculated CNTs for the preparation of stable concentrated colloidal suspensions, whose rheological properties are in general very close, but with thinner CNTs being nonetheless preferable. Finally, the feasibility is demonstrated of fabricating SiC/CNT nanocomposites by aqueous colloidal processing followed by liquid-phase assisted spark-plasma sintering.
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| 10. |
- Candelario, Victor M., et al.
(författare)
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Liquid-phase assisted spark-plasma sintering of SiC nanoceramics and their nanocomposites with carbon nanotubes
- 2017
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Ingår i: Journal of the European Ceramic Society. - : Elsevier BV. - 0955-2219 .- 1873-619X. ; 37:5, s. 1929-1936
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Tidskriftsartikel (refereegranskat)abstract
- The appropriate conditions for liquid-phase assisted spark-plasma sintering (SPS) were identified for the fabrication of both SiC nanoceramics and their nanocomposites with carbon nanotubes (CNTs). A parametric study of the nanoceramics and nanocomposites with a given type of CNTs showed that the SPS temperature (as measured by the radial optical pyrometer) optimizing their densification, nanograin size, and mechanical properties is 1700 degrees C (soaking for a few minutes), below which there is incomplete densification, and above which there is obvious grain growth with no benefit in hardness or toughness in the case of the nanoceramics, and prejudicial to both properties in the case of the nanocomposites due to the CNT degradation. It was also shown that the nanocomposites have smaller nanograins than their nanoceramic counterparts, and are softer but tougher. Extension to nanocomposites with different types of CNTs confirmed these trends, and showed that the CNT features do not condition the densification, microstructure or mechanical properties of these nanocomposites.
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