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International evaluation of an AI system for breast cancer screening 期刊论文
NATURE, 2020, 577 (7788) : 89-+
作者:  McKinney, Scott Mayer;  Sieniek, Marcin;  Godbole, Varun;  Godwin, Jonathan;  Antropova, Natasha;  Ashrafian, Hutan;  Back, Trevor;  Chesus, Mary;  Corrado, Greg C.;  Darzi, Ara;  Etemadi, Mozziyar;  Garcia-Vicente, Florencia;  Gilbert, Fiona J.;  Halling-Brown, Mark;  Hassabis, Demis;  Jansen, Sunny;  Karthikesalingam, Alan;  Kelly, Christopher J.;  King, Dominic;  Ledsam, Joseph R.;  Melnick, David;  Mostofi, Hormuz;  Peng, Lily;  Reicher, Joshua Jay;  Romera-Paredes, Bernardino;  Sidebottom, Richard;  Suleyman, Mustafa;  Tse, Daniel;  Young, Kenneth C.;  De Fauw, Jeffrey;  Shetty, Shravya
收藏  |  浏览/下载:15/0  |  提交时间:2020/07/03

Screening mammography aims to identify breast cancer at earlier stages of the disease, when treatment can be more successful(1). Despite the existence of screening programmes worldwide, the interpretation of mammograms is affected by high rates of false positives and false negatives(2). Here we present an artificial intelligence (AI) system that is capable of surpassing human experts in breast cancer prediction. To assess its performance in the clinical setting, we curated a large representative dataset from the UK and a large enriched dataset from the USA. We show an absolute reduction of 5.7% and 1.2% (USA and UK) in false positives and 9.4% and 2.7% in false negatives. We provide evidence of the ability of the system to generalize from the UK to the USA. In an independent study of six radiologists, the AI system outperformed all of the human readers: the area under the receiver operating characteristic curve (AUC-ROC) for the AI system was greater than the AUC-ROC for the average radiologist by an absolute margin of 11.5%. We ran a simulation in which the AI system participated in the double-reading process that is used in the UK, and found that the AI system maintained non-inferior performance and reduced the workload of the second reader by 88%. This robust assessment of the AI system paves the way for clinical trials to improve the accuracy and efficiency of breast cancer screening.


  
Global chemical effects of the microbiome include new bile-acid conjugations 期刊论文
NATURE, 2020, 579 (7797) : 123-+
作者:  Dossin, Francois;  Pinheiro, Ines;  Zylicz, Jan J.;  Roensch, Julia;  Collombet, Samuel;  Le Saux, Agnes;  Chelmicki, Tomasz;  Attia, Mikael;  Kapoor, Varun;  Zhan, Ye;  Dingli, Florent;  Loew, Damarys;  Mercher, Thomas;  Dekker, Job;  Heard, Edith
收藏  |  浏览/下载:31/0  |  提交时间:2020/07/03

Metabolomics data from germ-free and specific-pathogen-free mice reveal effects of the microbiome on host chemistry, identifying conjugations of bile acids that are also enriched in patients with inflammatory bowel disease or cystic fibrosis.


A mosaic of cross-phylum chemical interactions occurs between all metazoans and their microbiomes. A number of molecular families that are known to be produced by the microbiome have a marked effect on the balance between health and disease(1-9). Considering the diversity of the human microbiome (which numbers over 40,000 operational taxonomic units(10)), the effect of the microbiome on the chemistry of an entire animal remains underexplored. Here we use mass spectrometry informatics and data visualization approaches(11-13) to provide an assessment of the effects of the microbiome on the chemistry of an entire mammal by comparing metabolomics data from germ-free and specific-pathogen-free mice. We found that the microbiota affects the chemistry of all organs. This included the amino acid conjugations of host bile acids that were used to produce phenylalanocholic acid, tyrosocholic acid and leucocholic acid, which have not previously been characterized despite extensive research on bile-acid chemistry(14). These bile-acid conjugates were also found in humans, and were enriched in patients with inflammatory bowel disease or cystic fibrosis. These compounds agonized the farnesoid X receptor in vitro, and mice gavaged with the compounds showed reduced expression of bile-acid synthesis genes in vivo. Further studies are required to confirm whether these compounds have a physiological role in the host, and whether they contribute to gut diseases that are associated with microbiome dysbiosis.


  
Selective inhibition of the BD2 bromodomain of BET proteins in prostate cancer 期刊论文
NATURE, 2020, 578 (7794) : 306-+
作者:  Harper, Gavin;  Sommerville, Roberto;  Kendrick, Emma;  Driscoll, Laura;  Slater, Peter;  Stolkin, Rustam;  Walton, Allan;  Christensen, Paul;  Heidrich, Oliver;  Lambert, Simon;  Abbott, Andrew;  Ryder, Karl;  Gaines, Linda;  Anderson, Paul
收藏  |  浏览/下载:14/0  |  提交时间:2020/07/03

ABBV-744, a selective inhibitor of the BD2 domains of BET family proteins, is effective against prostate cancer in mouse xenograft models, with lower toxicities than the dual-bromodomain BET inhibitor ABBV-075.


Proteins of the bromodomain and extra-terminal (BET) domain family are epigenetic readers that bind acetylated histones through their bromodomains to regulate gene transcription. Dual-bromodomain BET inhibitors (DbBi) that bind with similar affinities to the first (BD1) and second (BD2) bromodomains of BRD2, BRD3, BRD4 and BRDt have displayed modest clinical activity in monotherapy cancer trials. A reduced number of thrombocytes in the blood (thrombocytopenia) as well as symptoms of gastrointestinal toxicity are dose-limiting adverse events for some types of DbBi(1-5). Given that similar haematological and gastrointestinal defects were observed after genetic silencing of Brd4 in mice(6), the platelet and gastrointestinal toxicities may represent on-target activities associated with BET inhibition. The two individual bromodomains in BET family proteins may have distinct functions(7-9) and different cellular phenotypes after pharmacological inhibition of one or both bromodomains have been reported(10,11), suggesting that selectively targeting one of the bromodomains may result in a different efficacy and tolerability profile compared with DbBi. Available compounds that are selective to individual domains lack sufficient potency and the pharmacokinetics properties that are required for in vivo efficacy and tolerability assessment(10-13). Here we carried out a medicinal chemistry campaign that led to the discovery of ABBV-744, a highly potent and selective inhibitor of the BD2 domain of BET family proteins with drug-like properties. In contrast to the broad range of cell growth inhibition induced by DbBi, the antiproliferative activity of ABBV-744 was largely, but not exclusively, restricted to cell lines of acute myeloid leukaemia and prostate cancer that expressed the full-length androgen receptor (AR). ABBV-744 retained robust activity in prostate cancer xenografts, and showed fewer platelet and gastrointestinal toxicities than the DbBi ABBV-075(14). Analyses of RNA expression and chromatin immunoprecipitation followed by sequencing revealed that ABBV-744 displaced BRD4 from AR-containing super-enhancers and inhibited AR-dependent transcription, with less impact on global transcription compared with ABBV-075. These results underscore the potential value of selectively targeting the BD2 domain of BET family proteins for cancer therapy.


  
Characterising the biophysical, economic and social impacts of soil carbon sequestration as a greenhouse gas removal technology 期刊论文
GLOBAL CHANGE BIOLOGY, 2019
作者:  Sykes, Alasdair J.;  Macleod, Michael;  Eory, Vera;  Rees, Robert M.;  Payen, Florian;  Myrgiotis, Vasilis;  Williams, Mathew;  Sohi, Saran;  Hillier, Jon;  Moran, Dominic;  Manning, David A. C.;  Goglio, Pietro;  Seghetta, Michele;  Williams, Adrian;  Harris, Jim;  Dondini, Marta;  Walton, Jack;  House, Joanna;  Smith, Pete
收藏  |  浏览/下载:10/0  |  提交时间:2019/11/27
4 per mille  agriculture  greenhouse gas removal  negative emissions  soil carbon sequestration  soil organic carbon  
Global wildlife trade across the tree of life 期刊论文
SCIENCE, 2019, 366 (6461) : 71-+
作者:  Scheffers, Brett R.;  Oliveira, Brunno F.;  Lamb, Ieuan;  Edwards, David P.
收藏  |  浏览/下载:9/0  |  提交时间:2019/11/27
A global risk assessment of primates under climate and land use/cover scenarios 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (9) : 3163-3178
作者:  Carvalho, Joana S.;  Graham, Bruce;  Rebelo, Hugo;  Bocksberger, Gaelle;  Meyer, Christoph F. J.;  Wich, Serge;  Kuehl, Hjalmar S.
收藏  |  浏览/下载:16/0  |  提交时间:2019/11/27
climate change  exposure  extinction risk  hazard  land use  cover change  primate conservation  primate hotspots  species ranges  
Observed and modelled historical trends in the water-use efficiency of plants and ecosystems 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (7) : 2242-2257
作者:  Lavergne, Alienor;  Graven, Heather;  De Kauwe, Martin G.;  Keenan, Trevor F.;  Medlyn, Belinda E.;  Prentice, Iain Colin
收藏  |  浏览/下载:16/0  |  提交时间:2019/11/27
carbon isotopic discrimination  eddy-covariance flux  spatial scales  stomatal conductance  trends in water-use efficiency  vegetation modelling  
Spatial early warning signals for impending regime shifts: A practical framework for application in real-world landscapes 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (6) : 1905-1921
作者:  Nijp, Jelmer J.;  Temme, Arnaud J. A. M.;  van Voorn, George A. K.;  Kooistra, Lammert;  Hengeveld, Geerten M.;  Soons, Merel B.;  Teuling, Adriaan J.;  Wallinga, Jakob
收藏  |  浏览/下载:13/0  |  提交时间:2019/11/26
alternative stable states  critical slowing down  early warning signals  ecosystem resilience  environmental change  landscapes  regime shifts  remote sensing  spatial patterns  tipping points  
Managing the middle: A shift in conservation priorities based on the global human modification gradient 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (3) : 811-826
作者:  Kennedy, Christina M.;  Oakleaf, James R.;  Theobald, David M.;  Baruch-Mordo, Sharon;  Kiesecker, Joseph
收藏  |  浏览/下载:12/0  |  提交时间:2019/04/09
Bonn challenge  connectivity  conservation planning  cumulative impact assessment  ecological integrity  habitat restoration  Half-Earth  human footprint  intermediate disturbance  land use policy  landscape fragmentation threshold  landscape gradient  protected areas  Sustainable Development Goals  wilderness  
Developing a list of invasive alien species likely to threaten biodiversity and ecosystems in the European Union 期刊论文
GLOBAL CHANGE BIOLOGY, 2019, 25 (3) : 1032-1048
作者:  Roy, Helen E.;  Bacher, Sven;  Essl, Franz;  Adriaens, Tim;  Aldridge, David C.;  Bishop, John D. D.;  Blackburn, Tim M.;  Branquart, Etienne;  Brodie, Juliet;  Carboneras, Carles;  Cottier-Cook, Elizabeth J.;  Copp, Gordon H.;  Dean, Hannah J.;  Eilenberg, Jorgen;  Gallardo, Belinda;  Garcia, Mariana;  Garcia-Berthou, Emili;  Genovesi, Piero;  Hulme, Philip E.;  Kenis, Marc;  Kerckhof, Francis;  Kettunen, Marianne;  Minchin, Dan;  Nentwig, Wolfgang;  Nieto, Ana;  Pergl, Jan;  Pescott, Oliver L.;  Peyton, Jodey M.;  Preda, Cristina;  Roques, Alain;  Rorke, Steph L.;  Scalera, Riccardo;  Schindler, Stefan;  Schonrogge, Karsten;  Sewell, Jack;  Solarz, Wojciech;  Stewart, Alan J. A.;  Tricarico, Elena;  Vanderhoeven, Sonia;  van der Velde, Gerard;  Vila, Montserrat;  Wood, Christine A.;  Zenetos, Argyro;  Rabitsch, Wolfgang
收藏  |  浏览/下载:20/0  |  提交时间:2019/04/09
biological invasions  consensus approach  environmental policy  impacts  introductions  prioritization  risk assessment