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  • Reproducibility of Results  (121)
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  • 1
    Publication Date: 2011-07-26
    Description: The conserved Polycomb repressive complex 2 (PRC2) generates trimethylation of histone 3 lysine 27 (H3K27me3), a modification associated with stable epigenetic silencing. Much is known about PRC2-induced silencing but key questions remain concerning its nucleation and stability. Vernalization, the perception and memory of winter in plants, is a classic epigenetic process that, in Arabidopsis, involves PRC2-based silencing of the floral repressor FLC. The slow dynamics of vernalization, taking place over weeks in the cold, generate a level of stable silencing of FLC in the subsequent warm that depends quantitatively on the length of the prior cold. These features make vernalization an ideal experimental system to investigate both the maintenance of epigenetic states and the switching between them. Here, using mathematical modelling, chromatin immunoprecipitation and an FLC:GUS reporter assay, we show that the quantitative nature of vernalization is generated by H3K27me3-mediated FLC silencing in the warm in a subpopulation of cells whose number depends on the length of the prior cold. During the cold, H3K27me3 levels progressively increase at a tightly localized nucleation region within FLC. At the end of the cold, numerical simulations predict that such a nucleation region is capable of switching the bistable epigenetic state of an individual locus, with the probability of overall FLC coverage by silencing H3K27me3 marks depending on the length of cold exposure. Thus, the model predicts a bistable pattern of FLC gene expression in individual cells, a prediction we verify using the FLC:GUS reporter system. Our proposed switching mechanism, involving the local nucleation of an opposing histone modification, is likely to be widely relevant in epigenetic reprogramming.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Angel, Andrew -- Song, Jie -- Dean, Caroline -- Howard, Martin -- England -- Nature. 2011 Jul 24;476(7358):105-8. doi: 10.1038/nature10241.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Computational and Systems Biology, John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21785438" target="_blank"〉PubMed〈/a〉
    Keywords: Arabidopsis/*genetics/physiology ; Arabidopsis Proteins/genetics ; Chromatin Immunoprecipitation ; *Epigenesis, Genetic ; *Gene Expression Regulation, Plant ; Gene Silencing ; Histones/metabolism ; MADS Domain Proteins/genetics ; Methylation ; Models, Genetic ; Plant Roots/metabolism ; Polycomb-Group Proteins ; Repressor Proteins/*metabolism ; Reproducibility of Results ; Seasons ; Temperature
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    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 2
    Publication Date: 2011-02-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Onslow, Mark -- Packman, Ann -- England -- Nature. 2011 Feb 24;470(7335):465; author reply 465. doi: 10.1038/470465b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21350470" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Conditioning, Operant ; Humans ; Randomized Controlled Trials as Topic ; Reproducibility of Results ; Stuttering/epidemiology/*therapy ; Treatment Outcome
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  • 3
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    Nature Publishing Group (NPG)
    Publication Date: 2011-01-21
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hulme, Mike -- England -- Nature. 2011 Jan 20;469(7330):299. doi: 10.1038/469299a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21248825" target="_blank"〉PubMed〈/a〉
    Keywords: Climate Change ; Congresses as Topic ; Conservation of Natural Resources/*economics/history ; Developed Countries/*economics/history ; Developing Countries/*economics/history ; History, 20th Century ; History, 21st Century ; *International Cooperation/history ; Mexico ; United Nations
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  • 4
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    Nature Publishing Group (NPG)
    Publication Date: 2011-10-14
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ciechanover, Aaron -- England -- Nature. 2011 Oct 12;478(7368):S4. doi: 10.1038/478S4a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21993824" target="_blank"〉PubMed〈/a〉
    Keywords: Alzheimer Disease/drug therapy ; Chemistry/history ; History, 20th Century ; History, 21st Century ; Humans ; Mentors ; *Nobel Prize ; Precision Medicine/methods/trends ; Proteolysis ; Translational Medical Research ; Ubiquitin/*metabolism
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  • 5
    Publication Date: 2011-08-13
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Legg, David A -- Ma, Xiaoya -- Wolfe, Joanna M -- Ortega-Hernandez, Javier -- Edgecombe, Gregory D -- Sutton, Mark D -- England -- Nature. 2011 Aug 10;476(7359):E2-3; discussion E3-4. doi: 10.1038/nature10267.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Earth Science and Engineering, Imperial College London, London SW7 2AZ UK. d.legg10@imperial.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21833046" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arthropods/anatomy & histology/*classification ; Fossils ; *Phylogeny ; Pseudopodia/*classification ; Reproducibility of Results
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 6
    Publication Date: 2011-09-23
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Finkbeiner, Ann -- England -- Nature. 2011 Sep 21;477(7365):397-9. doi: 10.1038/477397a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉anniekf@gmail.com〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21938048" target="_blank"〉PubMed〈/a〉
    Keywords: Advisory Committees/economics/*history/*organization & administration/trends ; Biological Warfare/prevention & control ; Consultants ; *Federal Government ; History, 20th Century ; History, 21st Century ; Military Science/economics/*history/*manpower ; Security Measures ; United States ; United States Department of Defense/economics/organization & administration
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  • 7
    Publication Date: 2011-03-04
    Description: Palaeontologists characterize mass extinctions as times when the Earth loses more than three-quarters of its species in a geologically short interval, as has happened only five times in the past 540 million years or so. Biologists now suggest that a sixth mass extinction may be under way, given the known species losses over the past few centuries and millennia. Here we review how differences between fossil and modern data and the addition of recently available palaeontological information influence our understanding of the current extinction crisis. Our results confirm that current extinction rates are higher than would be expected from the fossil record, highlighting the need for effective conservation measures.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Barnosky, Anthony D -- Matzke, Nicholas -- Tomiya, Susumu -- Wogan, Guinevere O U -- Swartz, Brian -- Quental, Tiago B -- Marshall, Charles -- McGuire, Jenny L -- Lindsey, Emily L -- Maguire, Kaitlin C -- Mersey, Ben -- Ferrer, Elizabeth A -- R01 GM069801/GM/NIGMS NIH HHS/ -- England -- Nature. 2011 Mar 3;471(7336):51-7. doi: 10.1038/nature09678.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Integrative Biology, University of California, Berkeley, California 94720, USA. barnosky@berkeley.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21368823" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Biodiversity ; Conservation of Natural Resources/methods/trends ; Earth (Planet) ; Endangered Species/history/*statistics & numerical data/trends ; *Extinction, Biological ; Fossils ; History, 21st Century ; History, Ancient ; Human Activities ; Humans
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  • 8
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    Nature Publishing Group (NPG)
    Publication Date: 2011-01-07
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schmidhuber, Jurgen -- England -- Nature. 2011 Jan 6;469(7328):34. doi: 10.1038/469034b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21209647" target="_blank"〉PubMed〈/a〉
    Keywords: *Bibliometrics ; Economic Development/statistics & numerical data ; Europe ; Reproducibility of Results ; Research/economics/*standards ; United States ; Universities/economics/standards
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  • 9
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    Nature Publishing Group (NPG)
    Publication Date: 2011-09-09
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zimmerman, Peter D -- England -- Nature. 2011 Sep 7;477(7363):153-4. doi: 10.1038/477153a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of War Studies, King's College London, Strand, London WC2R 2LS, UK. peter.zimmerman@cox.net〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21900991" target="_blank"〉PubMed〈/a〉
    Keywords: History, 21st Century ; Humans ; Security Measures/economics/*history/legislation & jurisprudence/*organization & ; administration ; *September 11 Terrorist Attacks ; Terrorism/history/prevention & control ; United States ; United States Department of Homeland Security/economics/history/legislation & ; jurisprudence/*organization & administration
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  • 10
    Publication Date: 2011-03-25
    Description: Systematic annotation of gene regulatory elements is a major challenge in genome science. Direct mapping of chromatin modification marks and transcriptional factor binding sites genome-wide has successfully identified specific subtypes of regulatory elements. In Drosophila several pioneering studies have provided genome-wide identification of Polycomb response elements, chromatin states, transcription factor binding sites, RNA polymerase II regulation and insulator elements; however, comprehensive annotation of the regulatory genome remains a significant challenge. Here we describe results from the modENCODE cis-regulatory annotation project. We produced a map of the Drosophila melanogaster regulatory genome on the basis of more than 300 chromatin immunoprecipitation data sets for eight chromatin features, five histone deacetylases and thirty-eight site-specific transcription factors at different stages of development. Using these data we inferred more than 20,000 candidate regulatory elements and validated a subset of predictions for promoters, enhancers and insulators in vivo. We identified also nearly 2,000 genomic regions of dense transcription factor binding associated with chromatin activity and accessibility. We discovered hundreds of new transcription factor co-binding relationships and defined a transcription factor network with over 800 potential regulatory relationships.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3179250/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3179250/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Negre, Nicolas -- Brown, Christopher D -- Ma, Lijia -- Bristow, Christopher Aaron -- Miller, Steven W -- Wagner, Ulrich -- Kheradpour, Pouya -- Eaton, Matthew L -- Loriaux, Paul -- Sealfon, Rachel -- Li, Zirong -- Ishii, Haruhiko -- Spokony, Rebecca F -- Chen, Jia -- Hwang, Lindsay -- Cheng, Chao -- Auburn, Richard P -- Davis, Melissa B -- Domanus, Marc -- Shah, Parantu K -- Morrison, Carolyn A -- Zieba, Jennifer -- Suchy, Sarah -- Senderowicz, Lionel -- Victorsen, Alec -- Bild, Nicholas A -- Grundstad, A Jason -- Hanley, David -- MacAlpine, David M -- Mannervik, Mattias -- Venken, Koen -- Bellen, Hugo -- White, Robert -- Gerstein, Mark -- Russell, Steven -- Grossman, Robert L -- Ren, Bing -- Posakony, James W -- Kellis, Manolis -- White, Kevin P -- F32 GM074364/GM/NIGMS NIH HHS/ -- F32 GM074364-01/GM/NIGMS NIH HHS/ -- F32 GM074364-02/GM/NIGMS NIH HHS/ -- P50 GM081892/GM/NIGMS NIH HHS/ -- R01 HG004037/HG/NHGRI NIH HHS/ -- R01 HG004037-04/HG/NHGRI NIH HHS/ -- RC2 HG005639/HG/NHGRI NIH HHS/ -- RC2 HG005639-02/HG/NHGRI NIH HHS/ -- U01 HG004264/HG/NHGRI NIH HHS/ -- U01 HG004279/HG/NHGRI NIH HHS/ -- U01HG004264/HG/NHGRI NIH HHS/ -- England -- Nature. 2011 Mar 24;471(7339):527-31. doi: 10.1038/nature09990.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute for Genomics and Systems Biology, Department of Human Genetics, The University of Chicago, 900 East 57th Street, Chicago, Illinois 60637, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21430782" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Chromatin/metabolism ; Chromatin Assembly and Disassembly ; Chromatin Immunoprecipitation ; Drosophila melanogaster/*genetics ; Enhancer Elements, Genetic/genetics ; Genome, Insect/*genetics ; Histone Deacetylases/metabolism ; Insulator Elements/genetics ; *Molecular Sequence Annotation ; Promoter Regions, Genetic/genetics ; Regulatory Sequences, Nucleic Acid/*genetics ; Reproducibility of Results ; Silencer Elements, Transcriptional/genetics ; Transcription Factors/metabolism
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  • 11
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    Nature Publishing Group (NPG)
    Publication Date: 2011-03-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jonietz, Erika -- England -- Nature. 2011 Mar 24;471(7339):S20-1. doi: 10.1038/471S20a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21430717" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Azasteroids/pharmacology ; Biomarkers, Tumor/analysis/blood ; Clinical Trials as Topic/adverse effects/*methods ; Disease Models, Animal ; Drug Approval/legislation & jurisprudence ; Dutasteride ; Health ; Humans ; Male ; Neoplasms/blood/diagnosis/*prevention & control ; Prostatic Neoplasms/prevention & control ; Reproducibility of Results ; Risk Assessment ; United States ; United States Food and Drug Administration/legislation & jurisprudence
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  • 12
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    Nature Publishing Group (NPG)
    Publication Date: 2011-08-13
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ginsparg, Paul -- England -- Nature. 2011 Aug 10;476(7359):145-7. doi: 10.1038/476145a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Physics, Cornell University, Ithaca, New York 14853, USA. ginsparg@cornell.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21833066" target="_blank"〉PubMed〈/a〉
    Keywords: History, 20th Century ; History, 21st Century ; Information Dissemination/*history/methods ; Internet/*history ; Physics/history ; Publishing/history ; Research/*history ; Research Design ; Research Personnel
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  • 13
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    Nature Publishing Group (NPG)
    Publication Date: 2011-11-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Nov 2;479(7371):5-6. doi: 10.1038/479005b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22051633" target="_blank"〉PubMed〈/a〉
    Keywords: *Congresses as Topic/history/trends ; Environmental Policy/history/*legislation & jurisprudence ; Greenhouse Effect/legislation & jurisprudence/prevention & control ; History, 20th Century ; History, 21st Century ; Indonesia ; International Cooperation ; Ozone/analysis ; Quebec
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  • 14
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    Nature Publishing Group (NPG)
    Publication Date: 2011-02-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schooler, Jonathan -- England -- Nature. 2011 Feb 24;470(7335):437. doi: 10.1038/470437a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉University of California, Santa Barbara, USA. schooler@psych.ucsb.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21350443" target="_blank"〉PubMed〈/a〉
    Keywords: Databases, Factual/trends ; Information Dissemination/methods ; Publication Bias/*statistics & numerical data ; Reproducibility of Results ; *Research/standards ; Time Factors
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  • 15
    Publication Date: 2011-01-21
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Johnson, Neil -- Lux, Thomas -- England -- Nature. 2011 Jan 20;469(7330):302-3. doi: 10.1038/469302a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21248829" target="_blank"〉PubMed〈/a〉
    Keywords: Commerce/economics ; Communicable Diseases/epidemiology/transmission ; Economic Recession/statistics & numerical data ; *Ecosystem ; Financial Management/economics/*methods ; *Models, Biological ; *Models, Economic ; Reproducibility of Results ; Risk Factors ; Risk Management/legislation & jurisprudence/*methods
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  • 16
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    Nature Publishing Group (NPG)
    Publication Date: 2011-12-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gilbert, Natasha -- England -- Nature. 2011 Dec 12;480(7377):305. doi: 10.1038/480305a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22170659" target="_blank"〉PubMed〈/a〉
    Keywords: Belgium ; *European Union ; History, 21st Century ; *Policy Making ; Science/*organization & administration
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  • 17
    Publication Date: 2011-10-21
    Description: Climate change is driving latitudinal and altitudinal shifts in species distribution worldwide, leading to novel species assemblages. Lags between these biotic responses and contemporary climate changes have been reported for plants and animals. Theoretically, the magnitude of these lags should be greatest in lowland areas, where the velocity of climate change is expected to be much greater than that in highland areas. We compared temperature trends to temperatures reconstructed from plant assemblages (observed in 76,634 surveys) over a 44-year period in France (1965-2008). Here we report that forest plant communities had responded to 0.54 degrees C of the effective increase of 1.07 degrees C in highland areas (500-2,600 m above sea level), while they had responded to only 0.02 degrees C of the 1.11 degrees C warming trend in lowland areas. There was a larger temperature lag (by 3.1 times) between the climate and plant community composition in lowland forests than in highland forests. The explanation of such disparity lies in the following properties of lowland, as compared to highland, forests: the higher proportion of species with greater ability for local persistence as the climate warms, the reduced opportunity for short-distance escapes, and the greater habitat fragmentation. Although mountains are currently considered to be among the ecosystems most threatened by climate change (owing to mountaintop extinction), the current inertia of plant communities in lowland forests should also be noted, as it could lead to lowland biotic attrition.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bertrand, Romain -- Lenoir, Jonathan -- Piedallu, Christian -- Riofrio-Dillon, Gabriela -- de Ruffray, Patrice -- Vidal, Claude -- Pierrat, Jean-Claude -- Gegout, Jean-Claude -- England -- Nature. 2011 Oct 19;479(7374):517-20. doi: 10.1038/nature10548.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉AgroParisTech, ENGREF, UMR1092 Laboratoire d'Etude des Ressources Foret-Bois (LERFoB), 14 rue Girardet, F-54000 Nancy, France. romain.bertrand@engref.agroparistech.fr〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22012261" target="_blank"〉PubMed〈/a〉
    Keywords: Altitude ; *Biota ; France ; Global Warming/*statistics & numerical data ; History, 20th Century ; History, 21st Century ; Models, Biological ; *Plants ; Temperature ; Time Factors ; *Trees
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  • 18
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    Nature Publishing Group (NPG)
    Publication Date: 2011-10-14
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Oct 12;478(7368):155-6. doi: 10.1038/478155b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21993718" target="_blank"〉PubMed〈/a〉
    Keywords: Chemistry/history/methods ; Computer Graphics/*history ; Computers/*history ; History, 20th Century ; History, 21st Century ; Research/*history ; *Research Design ; Software/history
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  • 19
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    Nature Publishing Group (NPG)
    Publication Date: 2011-03-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Pearson, Helen -- MC_U123092720/Medical Research Council/United Kingdom -- England -- Nature. 2011 Mar 3;471(7336):20-4. doi: 10.1038/471020a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21368799" target="_blank"〉PubMed〈/a〉
    Keywords: Adolescent ; Adult ; Aged ; *Aging/genetics/physiology ; Archives ; Child ; Child, Preschool ; *Cohort Studies ; Environment ; Epigenesis, Genetic ; Epigenomics ; Female ; Genetic Predisposition to Disease/genetics ; Great Britain/epidemiology ; *Health Surveys/economics/history/trends ; History, 20th Century ; History, 21st Century ; Humans ; Infant ; Infant, Newborn ; Male ; Middle Aged ; Obesity/etiology/genetics ; Phenotype ; Socioeconomic Factors ; Survival Rate ; Young Adult
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 20
    Publication Date: 2011-11-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Shelton, James -- England -- Nature. 2011 Nov 2;479(7371):7. doi: 10.1038/479007a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Bureau for Global Health, US Agency for International Development, Washington DC, USA. jshelton@usaid.gov〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22051636" target="_blank"〉PubMed〈/a〉
    Keywords: Bias (Epidemiology) ; Condoms/utilization ; Contraceptive Agents, Female/administration & dosage/*adverse effects ; Contraceptives, Oral, Hormonal/adverse effects ; Female ; HIV Infections/*epidemiology/*etiology/transmission ; Humans ; Injections ; Male ; Newspapers as Topic/standards ; Periodicals as Topic/*standards ; Reproducibility of Results ; Research Personnel/*standards ; Risk Assessment ; Uncertainty ; Virus Shedding
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  • 21
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    Nature Publishing Group (NPG)
    Publication Date: 2011-06-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Jun 2;474(7349):5. doi: 10.1038/474005a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21637212" target="_blank"〉PubMed〈/a〉
    Keywords: *Acquired Immunodeficiency Syndrome/drug therapy/economics/history ; Cost-Benefit Analysis ; *Global Health ; History, 20th Century ; History, 21st Century ; Humans ; Research/trends
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  • 22
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    Nature Publishing Group (NPG)
    Publication Date: 2011-02-11
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Maxmen, Amy -- England -- Nature. 2011 Feb 10;470(7333):161-2. doi: 10.1038/470161a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21307912" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Classification ; Genomics/trends ; MicroRNAs/analysis ; *Phylogeny ; Reproducibility of Results
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  • 23
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    Nature Publishing Group (NPG)
    Publication Date: 2011-02-11
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wadman, Meredith -- England -- Nature. 2011 Feb 10;470(7333):156-9. doi: 10.1038/470156a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21307911" target="_blank"〉PubMed〈/a〉
    Keywords: Adult Stem Cells/cytology ; *Embryonic Stem Cells/cytology ; History, 20th Century ; History, 21st Century ; Humans ; Persuasive Communication ; Religion and Science ; Stem Cell Research/ethics/*legislation & jurisprudence ; United States
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  • 24
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    Nature Publishing Group (NPG)
    Publication Date: 2011-01-14
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Poste, George -- England -- Nature. 2011 Jan 13;469(7329):156-7. doi: 10.1038/469156a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Complex Adaptive Systems Initiative, Arizona State University, Scottsdale, Arizona 85257, USA. george.poste@asu.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21228852" target="_blank"〉PubMed〈/a〉
    Keywords: Biological Specimen Banks/supply & distribution ; Biomarkers/*analysis ; Biomedical Research/economics/standards/trends ; Cell Line ; Female ; Gene Expression Profiling ; Genetics, Medical/economics/*methods/standards/*trends ; Health Care Costs/trends ; Humans ; Male ; Oligonucleotide Array Sequence Analysis ; Pharmacogenetics/economics/standards/trends ; Precision Medicine/economics/standards/*trends ; Proteomics ; Reproducibility of Results ; Sample Size ; Specimen Handling/methods/standards
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  • 25
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    Nature Publishing Group (NPG)
    Publication Date: 2011-10-14
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gravitz, Lauren -- England -- Nature. 2011 Oct 11;478(7368):163-4. doi: 10.1038/478163a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21993732" target="_blank"〉PubMed〈/a〉
    Keywords: Aged ; Allergy and Immunology/*history/trends ; Cancer Vaccines/history/*immunology/therapeutic use ; Dendritic Cells/*immunology ; History, 20th Century ; History, 21st Century ; Humans ; Male ; Nobel Prize ; Pancreatic Neoplasms/immunology/therapy ; *Precision Medicine/history/trends
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  • 26
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    Nature Publishing Group (NPG)
    Publication Date: 2011-02-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Feb 17;470(7334):305-6. doi: 10.1038/470305b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21330998" target="_blank"〉PubMed〈/a〉
    Keywords: Computational Biology/*methods/*standards ; *Disclosure ; Documentation/*standards ; Genomics/methods/standards ; Reproducibility of Results ; Research Personnel ; Sequence Analysis, DNA/methods/standards ; Software
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  • 27
    Publication Date: 2011-09-23
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Brumfiel, Geoff -- England -- Nature. 2011 Sep 21;477(7365):388-9. doi: 10.1038/477388a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21938045" target="_blank"〉PubMed〈/a〉
    Keywords: Climate Change/statistics & numerical data ; *Cooperative Behavior ; Disasters/statistics & numerical data ; Environmental Monitoring/history/*statistics & numerical data ; History, 20th Century ; History, 21st Century ; *Information Dissemination/history ; *Military Science/history ; Research Personnel/*organization & administration ; Satellite Communications/history/utilization ; Spacecraft
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  • 28
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    Nature Publishing Group (NPG)
    Publication Date: 2011-06-24
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Jun 22;474(7352):419. doi: 10.1038/474419a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21697903" target="_blank"〉PubMed〈/a〉
    Keywords: Bias (Epidemiology) ; Famous Persons ; Reproducibility of Results ; Research/*standards ; Research Personnel/*standards ; Time Factors
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  • 29
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    Nature Publishing Group (NPG)
    Publication Date: 2011-03-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kutschera, U -- England -- Nature. 2011 Mar 3;471(7336):37. doi: 10.1038/471037c.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21368813" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Extinction, Biological ; *Phylogeny ; Reproducibility of Results
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  • 30
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    Nature Publishing Group (NPG)
    Publication Date: 2011-05-27
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kwok, Roberta -- England -- Nature. 2011 May 26;473(7348):436-8. doi: 10.1038/473436a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21614053" target="_blank"〉PubMed〈/a〉
    Keywords: Adverse Drug Reaction Reporting Systems ; Animals ; Chickens ; Child ; *Drug-Related Side Effects and Adverse Reactions ; Humans ; Influenza Vaccines/adverse effects ; Narcolepsy/epidemiology/etiology ; Poliovirus Vaccine, Inactivated ; Poliovirus Vaccine, Oral/adverse effects ; *Population Surveillance/methods ; Reproducibility of Results ; Risk Assessment ; Safety/*standards/*statistics & numerical data ; Vaccines/*adverse effects/biosynthesis/*standards
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  • 31
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    Nature Publishing Group (NPG)
    Publication Date: 2011-03-18
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Mar 17;471(7338):266. doi: 10.1038/471266a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21412289" target="_blank"〉PubMed〈/a〉
    Keywords: Artifacts ; Fatigue Syndrome, Chronic/*etiology/*virology ; Humans ; Patients/psychology ; Reproducibility of Results ; *Xenotropic murine leukemia virus-related virus/isolation & ; purification/pathogenicity
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  • 32
    Publication Date: 2011-08-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Buchen, Lizzie -- England -- Nature. 2011 Aug 24;476(7361):387-90. doi: 10.1038/476387a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21866135" target="_blank"〉PubMed〈/a〉
    Keywords: Crystallization/history ; Crystallography, X-Ray ; History, 20th Century ; History, 21st Century ; Models, Molecular ; Receptors, G-Protein-Coupled/*chemistry/history/metabolism ; Signal Transduction
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  • 33
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    Nature Publishing Group (NPG)
    Publication Date: 2011-12-24
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Lake, James A -- England -- Nature. 2011 Dec 21;480(7378):458. doi: 10.1038/480458a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, California 90095, USA. lake@mbi.ucla.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22193092" target="_blank"〉PubMed〈/a〉
    Keywords: *Biological Evolution ; Biology/history ; History, 20th Century ; History, 21st Century ; *Symbiosis ; United States
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  • 34
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    Nature Publishing Group (NPG)
    Publication Date: 2011-03-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Mar 3;471(7336):5. doi: 10.1038/471005a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21368778" target="_blank"〉PubMed〈/a〉
    Keywords: Adolescent ; Adult ; Aged ; Aging/genetics/physiology ; Child ; Child Development/physiology ; Child, Preschool ; *Cohort Studies ; Great Britain ; *Health Surveys/economics/history/trends ; History, 20th Century ; History, 21st Century ; Humans ; Infant ; Infant, Newborn ; Middle Aged ; Socioeconomic Factors ; Time Factors ; United States ; Young Adult
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  • 35
    Publication Date: 2011-02-11
    Description: The sequence of the human genome has dramatically accelerated biomedical research. Here I explore its impact, in the decade since its publication, on our understanding of the biological functions encoded in the genome, on the biological basis of inherited diseases and cancer, and on the evolution and history of the human species. I also discuss the road ahead in fulfilling the promise of genomics for medicine.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Lander, Eric S -- England -- Nature. 2011 Feb 10;470(7333):187-97. doi: 10.1038/nature09792.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Broad Institute of MIT and Harvard, 7 Cambridge Center, Cambridge, Massachusetts 02142, USA. lander@broadinstitute.org〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21307931" target="_blank"〉PubMed〈/a〉
    Keywords: Evolution, Molecular ; Genetic Predisposition to Disease/*genetics ; *Genetics, Medical/trends ; Genome, Human/*genetics ; History, 21st Century ; *Human Genome Project/history ; Humans ; Polymorphism, Genetic/genetics ; Sequence Analysis, DNA/history
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  • 36
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    Nature Publishing Group (NPG)
    Publication Date: 2011-01-21
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Robinson, Carol V -- England -- Nature. 2011 Jan 20;469(7330):300. doi: 10.1038/469300a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉University of Oxford Physical and Theoretical Chemistry Laboratory, Oxford OX1 3QZ, UK. carol.robinson@chem.ox.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21248828" target="_blank"〉PubMed〈/a〉
    Keywords: Chemistry/*history ; History, 20th Century ; History, 21st Century ; Military Science ; Nobel Prize ; Patents as Topic ; Spectrometry, Mass, Electrospray Ionization/*history ; United States
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  • 37
    Publication Date: 2011-03-25
    Description: Arising from M. A. Nowak, C. E. Tarnita & E. O. Wilson 466, 1057-1062 (2010); Nowak et al. reply. Nowak et al. argue that inclusive fitness theory has been of little value in explaining the natural world, and that it has led to negligible progress in explaining the evolution of eusociality. However, we believe that their arguments are based upon a misunderstanding of evolutionary theory and a misrepresentation of the empirical literature. We will focus our comments on three general issues.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3836173/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3836173/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Abbot, Patrick -- Abe, Jun -- Alcock, John -- Alizon, Samuel -- Alpedrinha, Joao A C -- Andersson, Malte -- Andre, Jean-Baptiste -- van Baalen, Minus -- Balloux, Francois -- Balshine, Sigal -- Barton, Nick -- Beukeboom, Leo W -- Biernaskie, Jay M -- Bilde, Trine -- Borgia, Gerald -- Breed, Michael -- Brown, Sam -- Bshary, Redouan -- Buckling, Angus -- Burley, Nancy T -- Burton-Chellew, Max N -- Cant, Michael A -- Chapuisat, Michel -- Charnov, Eric L -- Clutton-Brock, Tim -- Cockburn, Andrew -- Cole, Blaine J -- Colegrave, Nick -- Cosmides, Leda -- Couzin, Iain D -- Coyne, Jerry A -- Creel, Scott -- Crespi, Bernard -- Curry, Robert L -- Dall, Sasha R X -- Day, Troy -- Dickinson, Janis L -- Dugatkin, Lee Alan -- El Mouden, Claire -- Emlen, Stephen T -- Evans, Jay -- Ferriere, Regis -- Field, Jeremy -- Foitzik, Susanne -- Foster, Kevin -- Foster, William A -- Fox, Charles W -- Gadau, Juergen -- Gandon, Sylvain -- Gardner, Andy -- Gardner, Michael G -- Getty, Thomas -- Goodisman, Michael A D -- Grafen, Alan -- Grosberg, Rick -- Grozinger, Christina M -- Gouyon, Pierre-Henri -- Gwynne, Darryl -- Harvey, Paul H -- Hatchwell, Ben J -- Heinze, Jurgen -- Helantera, Heikki -- Helms, Ken R -- Hill, Kim -- Jiricny, Natalie -- Johnstone, Rufus A -- Kacelnik, Alex -- Kiers, E Toby -- Kokko, Hanna -- Komdeur, Jan -- Korb, Judith -- Kronauer, Daniel -- Kummerli, Rolf -- Lehmann, Laurent -- Linksvayer, Timothy A -- Lion, Sebastien -- Lyon, Bruce -- Marshall, James A R -- McElreath, Richard -- Michalakis, Yannis -- Michod, Richard E -- Mock, Douglas -- Monnin, Thibaud -- Montgomerie, Robert -- Moore, Allen J -- Mueller, Ulrich G -- Noe, Ronald -- Okasha, Samir -- Pamilo, Pekka -- Parker, Geoff A -- Pedersen, Jes S -- Pen, Ido -- Pfennig, David -- Queller, David C -- Rankin, Daniel J -- Reece, Sarah E -- Reeve, Hudson K -- Reuter, Max -- Roberts, Gilbert -- Robson, Simon K A -- Roze, Denis -- Rousset, Francois -- Rueppell, Olav -- Sachs, Joel L -- Santorelli, Lorenzo -- Schmid-Hempel, Paul -- Schwarz, Michael P -- Scott-Phillips, Tom -- Shellmann-Sherman, Janet -- Sherman, Paul W -- Shuker, David M -- Smith, Jeff -- Spagna, Joseph C -- Strassmann, Beverly -- Suarez, Andrew V -- Sundstrom, Liselotte -- Taborsky, Michael -- Taylor, Peter -- Thompson, Graham -- Tooby, John -- Tsutsui, Neil D -- Tsuji, Kazuki -- Turillazzi, Stefano -- Ubeda, Francisco -- Vargo, Edward L -- Voelkl, Bernard -- Wenseleers, Tom -- West, Stuart A -- West-Eberhard, Mary Jane -- Westneat, David F -- Wiernasz, Diane C -- Wild, Geoff -- Wrangham, Richard -- Young, Andrew J -- Zeh, David W -- Zeh, Jeanne A -- Zink, Andrew -- BB/H022716/1/Biotechnology and Biological Sciences Research Council/United Kingdom -- England -- Nature. 2011 Mar 24;471(7339):E1-4; author reply E9-10. doi: 10.1038/nature09831.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21430721" target="_blank"〉PubMed〈/a〉
    Keywords: *Altruism ; Animals ; *Biological Evolution ; Cooperative Behavior ; Female ; Game Theory ; *Genetic Fitness ; Genetics, Population ; Heredity ; Humans ; Male ; *Models, Biological ; Phenotype ; Reproducibility of Results ; *Selection, Genetic ; Sex Ratio
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  • 38
    Publication Date: 2011-03-29
    Description: Chromatin profiling has emerged as a powerful means of genome annotation and detection of regulatory activity. The approach is especially well suited to the characterization of non-coding portions of the genome, which critically contribute to cellular phenotypes yet remain largely uncharted. Here we map nine chromatin marks across nine cell types to systematically characterize regulatory elements, their cell-type specificities and their functional interactions. Focusing on cell-type-specific patterns of promoters and enhancers, we define multicell activity profiles for chromatin state, gene expression, regulatory motif enrichment and regulator expression. We use correlations between these profiles to link enhancers to putative target genes, and predict the cell-type-specific activators and repressors that modulate them. The resulting annotations and regulatory predictions have implications for the interpretation of genome-wide association studies. Top-scoring disease single nucleotide polymorphisms are frequently positioned within enhancer elements specifically active in relevant cell types, and in some cases affect a motif instance for a predicted regulator, thus suggesting a mechanism for the association. Our study presents a general framework for deciphering cis-regulatory connections and their roles in disease.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3088773/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3088773/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ernst, Jason -- Kheradpour, Pouya -- Mikkelsen, Tarjei S -- Shoresh, Noam -- Ward, Lucas D -- Epstein, Charles B -- Zhang, Xiaolan -- Wang, Li -- Issner, Robbyn -- Coyne, Michael -- Ku, Manching -- Durham, Timothy -- Kellis, Manolis -- Bernstein, Bradley E -- R01 HG004037/HG/NHGRI NIH HHS/ -- R01HG004037/HG/NHGRI NIH HHS/ -- RC1HG005334/HG/NHGRI NIH HHS/ -- U54 HG004570/HG/NHGRI NIH HHS/ -- U54 HG004570-01/HG/NHGRI NIH HHS/ -- U54 HG004570-02/HG/NHGRI NIH HHS/ -- U54 HG004570-02S1/HG/NHGRI NIH HHS/ -- U54 HG004570-03/HG/NHGRI NIH HHS/ -- U54 HG004570-03S1/HG/NHGRI NIH HHS/ -- U54 HG004570-04/HG/NHGRI NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2011 May 5;473(7345):43-9. doi: 10.1038/nature09906. Epub 2011 Mar 23.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21441907" target="_blank"〉PubMed〈/a〉
    Keywords: Binding Sites ; Cell Line ; Cell Line, Tumor ; *Cell Physiological Phenomena ; Cells, Cultured ; Chromatin/*genetics/*metabolism ; *Chromosome Mapping ; Gene Expression Regulation ; Genome, Human/genetics ; Hep G2 Cells ; Humans ; Promoter Regions, Genetic/genetics ; Reproducibility of Results ; Transcription Factors/genetics
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  • 39
    Publication Date: 2011-08-13
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Mounce, Ross C P -- Wills, Matthew A -- England -- Nature. 2011 Aug 10;476(7359):E1; discussion E3-4. doi: 10.1038/nature10266.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biology and Biochemistry, University of Bath, Bath BA2 7AY, UK. rcpm20@bath.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21833044" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arthropods/*classification ; Fossils ; *Phylogeny ; Pseudopodia/classification ; Reproducibility of Results
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  • 40
    Publication Date: 2011-04-02
    Description: Arising from W. Wiltschko et al. 419, 467-470 (2002); Wiltschko et al. replyThe magnetic compass of migratory birds is embedded in the visual system and it has been reported by Wiltschko et al. that European Robins, Erithacus rubecula, cannot show magnetic compass orientation using their left eye only. This has led to the notion that the magnetic compass should be located only in the right eye of birds. However, a complete right lateralization of the magnetic compass would be very surprising, and functional neuroanatomical data have questioned this notion. Here we show that the results of Wiltschko et al. could not be independently confirmed using double-blind protocols. European Robins can perform magnetic compass orientation with both eyes open, with the left eye open only, and with the right eye open only. No clear lateralization is observed.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hein, Christine Maira -- Engels, Svenja -- Kishkinev, Dmitry -- Mouritsen, Henrik -- England -- Nature. 2011 Mar 31;471(7340):E11-2; discussion E12-3. doi: 10.1038/nature09875.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉AG Neurosensorik/Animal Navigation, IBU, University of Oldenburg, D-26111 Oldenburg, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21455128" target="_blank"〉PubMed〈/a〉
    Keywords: Animal Migration/*physiology/radiation effects ; Animals ; *Eye/radiation effects ; Functional Laterality/physiology ; *Magnetics ; Models, Biological ; *Ocular Physiological Phenomena/radiation effects ; Orientation/*physiology/radiation effects ; Photic Stimulation ; Reproducibility of Results ; Seasons ; Songbirds/anatomy & histology/*physiology
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  • 41
    Publication Date: 2012-10-06
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Snowdon, Rod -- Friedt, Wolfgang -- England -- Nature. 2012 Oct 4;490(7418):37. doi: 10.1038/490037d.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23038458" target="_blank"〉PubMed〈/a〉
    Keywords: Biofuels/economics/statistics & numerical data/*supply & distribution ; Brassica rapa/chemistry/growth & development ; Europe ; *European Union ; Plant Oils/economics/*supply & distribution ; Reproducibility of Results ; Seeds/chemistry/growth & development
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  • 42
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    Nature Publishing Group (NPG)
    Publication Date: 2012-04-10
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ware, Jessica -- England -- Nature. 2012 Apr 5;484(7392):133.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22486001" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Biological Evolution ; Career Mobility ; *Classification ; Cooperative Behavior ; Financing, Organized ; Fossils ; Genome/genetics ; *Genomics/history ; History, 21st Century ; *Insects/anatomy & histology/genetics/physiology ; *Social Behavior ; Transcriptome/genetics
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  • 43
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    Nature Publishing Group (NPG)
    Publication Date: 2012-03-17
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wolman, David -- England -- Nature. 2012 Mar 14;483(7389):260-3. doi: 10.1038/483260a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22422242" target="_blank"〉PubMed〈/a〉
    Keywords: Adolescent ; Age Factors ; Animals ; Brain/*physiology/*physiopathology/surgery ; Cohort Studies ; Corpus Callosum/physiology/physiopathology/*surgery ; Epilepsy/history/surgery ; Female ; Functional Laterality/*physiology ; History, 20th Century ; History, 21st Century ; Humans ; Magnetic Resonance Imaging ; Male ; Morals ; Neurosciences/*history ; Seizures/history/surgery
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  • 44
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    Nature Publishing Group (NPG)
    Publication Date: 2012-04-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hayden, Erika Check -- England -- Nature. 2012 Apr 25;484(7395):428. doi: 10.1038/484428a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22538578" target="_blank"〉PubMed〈/a〉
    Keywords: Data Interpretation, Statistical ; Genomic Imprinting/*genetics ; *High-Throughput Nucleotide Sequencing/methods ; Models, Genetic ; Polymorphism, Single Nucleotide/genetics ; RNA/*genetics ; RNA Editing/genetics ; Reproducibility of Results ; *Sequence Analysis, RNA/methods
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  • 45
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    Nature Publishing Group (NPG)
    Publication Date: 2012-01-20
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Rice, Stuart A -- Haselkorn, Robert -- England -- Nature. 2012 Jan 18;481(7381):266. doi: 10.1038/481266a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Chemistry and the James Franck Institute, University of Chicago, Illinois 60637, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22258598" target="_blank"〉PubMed〈/a〉
    Keywords: Biochemistry/*history ; DNA/chemistry ; History, 20th Century ; History, 21st Century ; Polymers/chemistry ; Proteins/chemistry ; United States
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  • 46
    Publication Date: 2012-08-04
    Description: One of the greatest sources of uncertainty for future climate predictions is the response of the global carbon cycle to climate change. Although approximately one-half of total CO(2) emissions is at present taken up by combined land and ocean carbon reservoirs, models predict a decline in future carbon uptake by these reservoirs, resulting in a positive carbon-climate feedback. Several recent studies suggest that rates of carbon uptake by the land and ocean have remained constant or declined in recent decades. Other work, however, has called into question the reported decline. Here we use global-scale atmospheric CO(2) measurements, CO(2) emission inventories and their full range of uncertainties to calculate changes in global CO(2) sources and sinks during the past 50 years. Our mass balance analysis shows that net global carbon uptake has increased significantly by about 0.05 billion tonnes of carbon per year and that global carbon uptake doubled, from 2.4 +/- 0.8 to 5.0 +/- 0.9 billion tonnes per year, between 1960 and 2010. Therefore, it is very unlikely that both land and ocean carbon sinks have decreased on a global scale. Since 1959, approximately 350 billion tonnes of carbon have been emitted by humans to the atmosphere, of which about 55 per cent has moved into the land and oceans. Thus, identifying the mechanisms and locations responsible for increasing global carbon uptake remains a critical challenge in constraining the modern global carbon budget and predicting future carbon-climate interactions.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ballantyne, A P -- Alden, C B -- Miller, J B -- Tans, P P -- White, J W C -- England -- Nature. 2012 Aug 2;488(7409):70-2. doi: 10.1038/nature11299.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Geology, University of Colorado, Boulder, Colorado 80309, USA. apballantyne@gmail.com〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22859203" target="_blank"〉PubMed〈/a〉
    Keywords: Atmosphere/*chemistry ; Carbon/analysis ; Carbon Dioxide/*analysis/history ; *Carbon Sequestration ; Climate Change/*statistics & numerical data ; History, 20th Century ; History, 21st Century ; Human Activities ; Models, Theoretical ; Oceans and Seas ; Seawater/*chemistry ; Time Factors ; Uncertainty
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  • 47
    Publication Date: 2012-03-20
    Description: Targeted therapies have demonstrated efficacy against specific subsets of molecularly defined cancers. Although most patients with lung cancer are stratified according to a single oncogenic driver, cancers harbouring identical activating genetic mutations show large variations in their responses to the same targeted therapy. The biology underlying this heterogeneity is not well understood, and the impact of co-existing genetic mutations, especially the loss of tumour suppressors, has not been fully explored. Here we use genetically engineered mouse models to conduct a 'co-clinical' trial that mirrors an ongoing human clinical trial in patients with KRAS-mutant lung cancers. This trial aims to determine if the MEK inhibitor selumetinib (AZD6244) increases the efficacy of docetaxel, a standard of care chemotherapy. Our studies demonstrate that concomitant loss of either p53 (also known as Tp53) or Lkb1 (also known as Stk11), two clinically relevant tumour suppressors, markedly impaired the response of Kras-mutant cancers to docetaxel monotherapy. We observed that the addition of selumetinib provided substantial benefit for mice with lung cancer caused by Kras and Kras and p53 mutations, but mice with Kras and Lkb1 mutations had primary resistance to this combination therapy. Pharmacodynamic studies, including positron-emission tomography (PET) and computed tomography (CT), identified biological markers in mice and patients that provide a rationale for the differential efficacy of these therapies in the different genotypes. These co-clinical results identify predictive genetic biomarkers that should be validated by interrogating samples from patients enrolled on the concurrent clinical trial. These studies also highlight the rationale for synchronous co-clinical trials, not only to anticipate the results of ongoing human clinical trials, but also to generate clinically relevant hypotheses that can inform the analysis and design of human studies.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3385933/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3385933/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Chen, Zhao -- Cheng, Katherine -- Walton, Zandra -- Wang, Yuchuan -- Ebi, Hiromichi -- Shimamura, Takeshi -- Liu, Yan -- Tupper, Tanya -- Ouyang, Jing -- Li, Jie -- Gao, Peng -- Woo, Michele S -- Xu, Chunxiao -- Yanagita, Masahiko -- Altabef, Abigail -- Wang, Shumei -- Lee, Charles -- Nakada, Yuji -- Pena, Christopher G -- Sun, Yanping -- Franchetti, Yoko -- Yao, Catherine -- Saur, Amy -- Cameron, Michael D -- Nishino, Mizuki -- Hayes, D Neil -- Wilkerson, Matthew D -- Roberts, Patrick J -- Lee, Carrie B -- Bardeesy, Nabeel -- Butaney, Mohit -- Chirieac, Lucian R -- Costa, Daniel B -- Jackman, David -- Sharpless, Norman E -- Castrillon, Diego H -- Demetri, George D -- Janne, Pasi A -- Pandolfi, Pier Paolo -- Cantley, Lewis C -- Kung, Andrew L -- Engelman, Jeffrey A -- Wong, Kwok-Kin -- 1U01CA141576/CA/NCI NIH HHS/ -- CA122794/CA/NCI NIH HHS/ -- CA137008/CA/NCI NIH HHS/ -- CA137008-01/CA/NCI NIH HHS/ -- CA137181/CA/NCI NIH HHS/ -- CA140594/CA/NCI NIH HHS/ -- CA147940/CA/NCI NIH HHS/ -- K23 CA157631/CA/NCI NIH HHS/ -- P01 CA120964/CA/NCI NIH HHS/ -- P30 CA016086/CA/NCI NIH HHS/ -- P50 CA090578/CA/NCI NIH HHS/ -- P50 CA090578-06/CA/NCI NIH HHS/ -- P50CA090578/CA/NCI NIH HHS/ -- R01 CA122794/CA/NCI NIH HHS/ -- R01 CA122794-01/CA/NCI NIH HHS/ -- R01 CA137008/CA/NCI NIH HHS/ -- R01 CA137008-01/CA/NCI NIH HHS/ -- R01 CA137181/CA/NCI NIH HHS/ -- R01 CA137181-01A2/CA/NCI NIH HHS/ -- R01 CA140594/CA/NCI NIH HHS/ -- R01 CA140594-01/CA/NCI NIH HHS/ -- R01 CA163896/CA/NCI NIH HHS/ -- RC2 CA147940/CA/NCI NIH HHS/ -- RC2 CA147940-01/CA/NCI NIH HHS/ -- U01 CA141576/CA/NCI NIH HHS/ -- U01 CA141576-01/CA/NCI NIH HHS/ -- England -- Nature. 2012 Mar 18;483(7391):613-7. doi: 10.1038/nature10937.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Medicine, Harvard Medical School, Boston, Massachusetts 02115, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22425996" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Antineoplastic Combined Chemotherapy Protocols ; Benzimidazoles/*pharmacology/therapeutic use ; Biomarkers, Tumor/genetics/metabolism ; *Clinical Trials, Phase II as Topic ; *Disease Models, Animal ; Drug Evaluation, Preclinical ; Fluorodeoxyglucose F18 ; Genes, p53/genetics ; Humans ; Lung Neoplasms/*drug therapy/enzymology/*genetics/metabolism ; MAP Kinase Signaling System/drug effects ; Mice ; Mitogen-Activated Protein Kinase Kinases/antagonists & inhibitors ; Mutation/genetics ; Pharmacogenetics/*methods ; Positron-Emission Tomography ; Protein-Serine-Threonine Kinases/deficiency/genetics ; Proto-Oncogene Proteins/genetics/metabolism ; Proto-Oncogene Proteins p21(ras)/genetics/metabolism ; Randomized Controlled Trials as Topic ; Reproducibility of Results ; Taxoids/*therapeutic use ; Tomography, X-Ray Computed ; Treatment Outcome ; ras Proteins/genetics/metabolism
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  • 48
    Publication Date: 2012-12-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Rossant, Janet -- Mummery, Christine -- England -- Nature. 2012 Dec 6;492(7427):56. doi: 10.1038/492056a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23222608" target="_blank"〉PubMed〈/a〉
    Keywords: Adult Stem Cells/*cytology ; Animals ; *Cellular Reprogramming ; Cloning, Organism/*history ; History, 20th Century ; History, 21st Century ; Humans ; *Medicine ; *Nobel Prize ; *Nuclear Transfer Techniques ; *Physiology ; Rejuvenation ; Sheep
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  • 49
    Publication Date: 2012-12-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Roth, Bryan L -- Marshall, Fiona H -- England -- Nature. 2012 Dec 6;492(7427):57. doi: 10.1038/492057a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23222609" target="_blank"〉PubMed〈/a〉
    Keywords: Biochemistry/history ; *Chemistry/history ; Drug Discovery/history ; High-Throughput Screening Assays/history ; History, 20th Century ; History, 21st Century ; Humans ; *Nobel Prize ; Receptors, G-Protein-Coupled/genetics/isolation & purification/*metabolism ; Structure-Activity Relationship
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  • 50
    Publication Date: 2012-07-06
    Description: It is possible that anthropogenic climate change will drive the Earth system into a qualitatively different state. Although different types of uncertainty limit our capacity to assess this risk, Earth system scientists are particularly concerned about tipping elements, large-scale components of the Earth system that can be switched into qualitatively different states by small perturbations. Despite growing evidence that tipping elements exist in the climate system, whether large-scale vegetation systems can tip into alternative states is poorly understood. Here we show that tropical grassland, savanna and forest ecosystems, areas large enough to have powerful impacts on the Earth system, are likely to shift to alternative states. Specifically, we show that increasing atmospheric CO2 concentration will force transitions to vegetation states characterized by higher biomass and/or woody-plant dominance. The timing of these critical transitions varies as a result of between-site variance in the rate of temperature increase, as well as a dependence on stochastic variation in fire severity and rainfall. We further show that the locations of bistable vegetation zones (zones where alternative vegetation states can exist) will shift as climate changes. We conclude that even though large-scale directional regime shifts in terrestrial ecosystems are likely, asynchrony in the timing of these shifts may serve to dampen, but not nullify, the shock that these changes may represent to the Earth system.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Higgins, Steven I -- Scheiter, Simon -- England -- Nature. 2012 Aug 9;488(7410):209-12. doi: 10.1038/nature11238.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institut fur Physische Geographie, Goethe Universitat Frankfurt am Main, 60438 Frankfurt am Main, Germany. higgins@em.uni-frankfurt.de〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22763447" target="_blank"〉PubMed〈/a〉
    Keywords: Africa ; Atmosphere/*chemistry ; Biomass ; Carbon/metabolism ; Carbon Dioxide/analysis/*metabolism ; Climate Change/*statistics & numerical data ; *Ecosystem ; Fires ; Geography ; History, 19th Century ; History, 20th Century ; History, 21st Century ; Hot Temperature ; Models, Biological ; Photosynthesis/physiology ; Poaceae/growth & development/metabolism ; Probability ; Rain ; Stochastic Processes ; Time Factors ; Trees/*growth & development/metabolism ; Wood
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  • 51
    Publication Date: 2012-11-07
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Barley, Shanta -- England -- Nature. 2012 Nov 1;491(7422):24-6. doi: 10.1038/491024a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23128207" target="_blank"〉PubMed〈/a〉
    Keywords: *Developed Countries ; Eritrea ; *Federal Government ; History, 20th Century ; History, 21st Century ; Hospitals/statistics & numerical data ; Human Rights/statistics & numerical data ; Humans ; *International Cooperation ; Medicine/*organization & administration ; Missouri ; Physicians/supply & distribution ; Public Health/statistics & numerical data ; Schools, Medical/history/manpower/organization & administration ; Science/manpower/*organization & administration
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  • 52
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    Publication Date: 2012-09-25
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2012 Sep 20;489(7416):335-6.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23002452" target="_blank"〉PubMed〈/a〉
    Keywords: Disasters/economics/prevention & control/*statistics & numerical data ; Global Warming/economics/legislation & jurisprudence/prevention & ; control/*statistics & numerical data ; Liability, Legal ; *Models, Theoretical ; Policy Making ; Probability ; Reproducibility of Results
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  • 53
    Publication Date: 2012-04-07
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Baumgartner, Holger -- England -- Nature. 2012 Apr 4;484(7392):37. doi: 10.1038/484037d.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22481345" target="_blank"〉PubMed〈/a〉
    Keywords: *Ethics, Research ; Humans ; *Periodicals as Topic ; Publishing/*standards ; Reproducibility of Results ; Retraction of Publication as Topic ; Scientific Misconduct
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  • 54
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    Nature Publishing Group (NPG)
    Publication Date: 2012-05-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sarewitz, Daniel -- England -- Nature. 2012 May 9;485(7397):149. doi: 10.1038/485149a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Consortium for Science, Policy and Outcomes, Arizona State University, USA. dsarewitz@gmail.com〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22575922" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Bias (Epidemiology) ; Biomedical Research/standards ; Humans ; Mice ; Models, Animal ; *Public Opinion ; Reproducibility of Results ; Research/*standards ; *Research Design ; *Trust
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  • 55
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    Nature Publishing Group (NPG)
    Publication Date: 2012-06-09
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2012 Jun 6;486(7401):19. doi: 10.1038/486019a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22678261" target="_blank"〉PubMed〈/a〉
    Keywords: Biodiversity ; Brazil ; *Congresses as Topic/history ; *Conservation of Natural Resources/economics/history/legislation & ; jurisprudence/trends ; Developing Countries/economics ; *Environmental Policy/economics/history/legislation & jurisprudence/trends ; History, 20th Century ; History, 21st Century ; *International Cooperation/history/legislation & jurisprudence
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  • 56
    Publication Date: 2012-09-18
    Description: Antiviral responses must be tightly regulated to defend rapidly against infection while minimizing inflammatory damage. Type 1 interferons (IFN-I) are crucial mediators of antiviral responses and their transcription is regulated by a variety of transcription factors; principal among these is the family of interferon regulatory factors (IRFs). The IRF gene regulatory networks are complex and contain multiple feedback loops. The tools of systems biology are well suited to elucidate the complex interactions that give rise to precise coordination of the interferon response. Here we have used an unbiased systems approach to predict that a member of the forkhead family of transcription factors, FOXO3, is a negative regulator of a subset of antiviral genes. This prediction was validated using macrophages isolated from Foxo3-null mice. Genome-wide location analysis combined with gene deletion studies identified the Irf7 gene as a critical target of FOXO3. FOXO3 was identified as a negative regulator of Irf7 transcription and we have further demonstrated that FOXO3, IRF7 and IFN-I form a coherent feed-forward regulatory circuit. Our data suggest that the FOXO3-IRF7 regulatory circuit represents a novel mechanism for establishing the requisite set points in the interferon pathway that balances the beneficial effects and deleterious sequelae of the antiviral response.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3556990/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3556990/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Litvak, Vladimir -- Ratushny, Alexander V -- Lampano, Aaron E -- Schmitz, Frank -- Huang, Albert C -- Raman, Ayush -- Rust, Alistair G -- Bergthaler, Andreas -- Aitchison, John D -- Aderem, Alan -- HHSN272200700038C/AI/NIAID NIH HHS/ -- HHSN272200700038C/PHS HHS/ -- HHSN272200800058C/AI/NIAID NIH HHS/ -- HSN272200800058C/PHS HHS/ -- R01 AI025032/AI/NIAID NIH HHS/ -- R01 AI032972/AI/NIAID NIH HHS/ -- R01AI025032/AI/NIAID NIH HHS/ -- R01AI032972/AI/NIAID NIH HHS/ -- U19 AI100627/AI/NIAID NIH HHS/ -- U54 GM103511/GM/NIGMS NIH HHS/ -- U54 RR022220/RR/NCRR NIH HHS/ -- U54GM103511/GM/NIGMS NIH HHS/ -- England -- Nature. 2012 Oct 18;490(7420):421-5. doi: 10.1038/nature11428. Epub 2012 Sep 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Seattle Biomedical Research Institute, Seattle, Washington 98109, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22982991" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Female ; Forkhead Transcription Factors/deficiency/genetics/*metabolism ; Gene Deletion ; Gene Expression Regulation/*immunology ; Inflammation/genetics/*immunology/*pathology ; Interferon Regulatory Factor-7/deficiency/genetics/*metabolism ; Interferon Type I/immunology ; Lung/immunology/pathology/virology ; Macrophages/immunology ; Mice ; Mice, Inbred C57BL ; Reproducibility of Results ; Vesiculovirus/*immunology
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  • 57
    Publication Date: 2012-11-07
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bolker, Jessica -- England -- Nature. 2012 Nov 1;491(7422):31-3. doi: 10.1038/491031a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biological Sciences, University of New Hampshire, Durham 03824, New Hampshire, USA. jessica.bolker@unh.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23128209" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; *Animals, Laboratory ; Arabidopsis ; Caenorhabditis elegans ; Disease Models, Animal ; Drosophila melanogaster/genetics/growth & development/physiology ; Environment ; Genotype ; Mice ; *Models, Animal ; *Models, Biological ; Phenotype ; Rats ; Reproducibility of Results ; Research Design/*standards ; Species Specificity
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  • 58
    Publication Date: 2012-02-24
    Description: Scientific communication relies on evidence that cannot be entirely included in publications, but the rise of computational science has added a new layer of inaccessibility. Although it is now accepted that data should be made available on request, the current regulations regarding the availability of software are inconsistent. We argue that, with some exceptions, anything less than the release of source programs is intolerable for results that depend on computation. The vagaries of hardware, software and natural language will always ensure that exact reproducibility remains uncertain, but withholding code increases the chances that efforts to reproduce results will fail.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ince, Darrel C -- Hatton, Leslie -- Graham-Cumming, John -- England -- Nature. 2012 Feb 22;482(7386):485-8. doi: 10.1038/nature10836.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Computing Open University, Walton Hall, Milton Keynes MK7 6AA, UK. d.c.ince@open.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22358837" target="_blank"〉PubMed〈/a〉
    Keywords: Algorithms ; Editorial Policies ; *Information Dissemination ; Intellectual Property ; Periodicals as Topic/standards ; Publishing/*standards ; Reproducibility of Results ; Research/*standards ; Research Design ; *Software
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  • 59
    Publication Date: 2012-04-14
    Description: Systematic climate shifts have been linked to multidecadal variability in observed sea surface temperatures in the North Atlantic Ocean. These links are extensive, influencing a range of climate processes such as hurricane activity and African Sahel and Amazonian droughts. The variability is distinct from historical global-mean temperature changes and is commonly attributed to natural ocean oscillations. A number of studies have provided evidence that aerosols can influence long-term changes in sea surface temperatures, but climate models have so far failed to reproduce these interactions and the role of aerosols in decadal variability remains unclear. Here we use a state-of-the-art Earth system climate model to show that aerosol emissions and periods of volcanic activity explain 76 per cent of the simulated multidecadal variance in detrended 1860-2005 North Atlantic sea surface temperatures. After 1950, simulated variability is within observational estimates; our estimates for 1910-1940 capture twice the warming of previous generation models but do not explain the entire observed trend. Other processes, such as ocean circulation, may also have contributed to variability in the early twentieth century. Mechanistically, we find that inclusion of aerosol-cloud microphysical effects, which were included in few previous multimodel ensembles, dominates the magnitude (80 per cent) and the spatial pattern of the total surface aerosol forcing in the North Atlantic. Our findings suggest that anthropogenic aerosol emissions influenced a range of societally important historical climate events such as peaks in hurricane activity and Sahel drought. Decadal-scale model predictions of regional Atlantic climate will probably be improved by incorporating aerosol-cloud microphysical interactions and estimates of future concentrations of aerosols, emissions of which are directly addressable by policy actions.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Booth, Ben B B -- Dunstone, Nick J -- Halloran, Paul R -- Andrews, Timothy -- Bellouin, Nicolas -- England -- Nature. 2012 Apr 4;484(7393):228-32. doi: 10.1038/nature10946.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Met Office Hadley Centre, FitzRoy Road, Exeter EX1 3PB, UK. ben.booth@metoffice.gov.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22498628" target="_blank"〉PubMed〈/a〉
    Keywords: *Aerosols ; Atlantic Ocean ; *Climate ; Droughts ; Global Warming/*statistics & numerical data ; History, 19th Century ; History, 20th Century ; History, 21st Century ; Human Activities ; Radiation ; Seawater ; Temperature ; Volcanic Eruptions ; Water Movements
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  • 60
    Publication Date: 2012-12-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Udovicic, Frank -- England -- Nature. 2012 Dec 20;492(7429):356. doi: 10.1038/492356a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23257870" target="_blank"〉PubMed〈/a〉
    Keywords: *Botany ; History, 20th Century ; History, 21st Century ; International Cooperation ; *Language/history ; Research Report/*standards ; *Terminology as Topic ; Translations
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  • 61
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    Nature Publishing Group (NPG)
    Publication Date: 2012-12-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bourzac, Katherine -- England -- Nature. 2012 Dec 6;492(7427):S18-20. doi: 10.1038/492S18a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23222670" target="_blank"〉PubMed〈/a〉
    Keywords: Age of Onset ; Aging/*drug effects/genetics/*physiology ; Animal Diseases/epidemiology/genetics/prevention & control ; Animals ; Biomedical Research ; *Caloric Restriction ; Cardiovascular Diseases/prevention & control ; Female ; Gene Expression Profiling ; Geriatrics/methods ; Humans ; Longevity/*drug effects/genetics/*physiology ; Macaca mulatta/physiology ; Male ; Mice ; Models, Animal ; Neoplasms/prevention & control ; Oligonucleotide Array Sequence Analysis ; Reproducibility of Results ; Sirolimus/adverse effects/analogs & derivatives/immunology/*pharmacology ; Sirtuins/deficiency/genetics/metabolism ; Somatomedins/genetics/metabolism ; Stilbenes/pharmacology ; TOR Serine-Threonine Kinases/metabolism
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  • 62
    Publication Date: 2011-12-23
    Description: Human immunodeficiency virus (HIV) has a small genome and therefore relies heavily on the host cellular machinery to replicate. Identifying which host proteins and complexes come into physical contact with the viral proteins is crucial for a comprehensive understanding of how HIV rewires the host's cellular machinery during the course of infection. Here we report the use of affinity tagging and purification mass spectrometry to determine systematically the physical interactions of all 18 HIV-1 proteins and polyproteins with host proteins in two different human cell lines (HEK293 and Jurkat). Using a quantitative scoring system that we call MiST, we identified with high confidence 497 HIV-human protein-protein interactions involving 435 individual human proteins, with approximately 40% of the interactions being identified in both cell types. We found that the host proteins hijacked by HIV, especially those found interacting in both cell types, are highly conserved across primates. We uncovered a number of host complexes targeted by viral proteins, including the finding that HIV protease cleaves eIF3d, a subunit of eukaryotic translation initiation factor 3. This host protein is one of eleven identified in this analysis that act to inhibit HIV replication. This data set facilitates a more comprehensive and detailed understanding of how the host machinery is manipulated during the course of HIV infection.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3310911/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3310911/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jager, Stefanie -- Cimermancic, Peter -- Gulbahce, Natali -- Johnson, Jeffrey R -- McGovern, Kathryn E -- Clarke, Starlynn C -- Shales, Michael -- Mercenne, Gaelle -- Pache, Lars -- Li, Kathy -- Hernandez, Hilda -- Jang, Gwendolyn M -- Roth, Shoshannah L -- Akiva, Eyal -- Marlett, John -- Stephens, Melanie -- D'Orso, Ivan -- Fernandes, Jason -- Fahey, Marie -- Mahon, Cathal -- O'Donoghue, Anthony J -- Todorovic, Aleksandar -- Morris, John H -- Maltby, David A -- Alber, Tom -- Cagney, Gerard -- Bushman, Frederic D -- Young, John A -- Chanda, Sumit K -- Sundquist, Wesley I -- Kortemme, Tanja -- Hernandez, Ryan D -- Craik, Charles S -- Burlingame, Alma -- Sali, Andrej -- Frankel, Alan D -- Krogan, Nevan J -- P01 AI090935/AI/NIAID NIH HHS/ -- P01 AI090935-02/AI/NIAID NIH HHS/ -- P01 GM073732-05/GM/NIGMS NIH HHS/ -- P41 GM103481/GM/NIGMS NIH HHS/ -- P41 RR001081/RR/NCRR NIH HHS/ -- P41RR001614/RR/NCRR NIH HHS/ -- P50 GM081879/GM/NIGMS NIH HHS/ -- P50 GM081879-02/GM/NIGMS NIH HHS/ -- P50 GM082250/GM/NIGMS NIH HHS/ -- P50 GM082250-05/GM/NIGMS NIH HHS/ -- P50GM081879/GM/NIGMS NIH HHS/ -- P50GM082545/GM/NIGMS NIH HHS/ -- U54 RR022220/RR/NCRR NIH HHS/ -- England -- Nature. 2011 Dec 21;481(7381):365-70. doi: 10.1038/nature10719.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Cellular and Molecular Pharmacology, University of California, San Francisco, California 94158, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22190034" target="_blank"〉PubMed〈/a〉
    Keywords: Affinity Labels ; Amino Acid Sequence ; Conserved Sequence ; Eukaryotic Initiation Factor-3/chemistry/metabolism ; HEK293 Cells ; HIV Infections/metabolism/virology ; HIV Protease/metabolism ; HIV-1/*chemistry/*metabolism/physiology ; *Host-Pathogen Interactions ; Human Immunodeficiency Virus Proteins/analysis/chemistry/isolation & ; purification/*metabolism ; Humans ; Immunoprecipitation ; Jurkat Cells ; Mass Spectrometry ; Protein Binding ; Protein Interaction Mapping/*methods ; Protein Interaction Maps/*physiology ; Reproducibility of Results ; Virus Replication
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  • 63
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    Nature Publishing Group (NPG)
    Publication Date: 2012-05-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Tollefson, Jeff -- England -- Nature. 2012 May 9;485(7397):164-6. doi: 10.1038/485164a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22575940" target="_blank"〉PubMed〈/a〉
    Keywords: Absorption ; Aerosols/*analysis ; Air Pollution/statistics & numerical data ; Arctic Regions ; Atlantic Ocean ; Atmosphere/analysis/chemistry ; Color ; Geography ; Global Warming/*statistics & numerical data ; Human Activities ; Ice Cover ; Meteorological Concepts ; *Meteorology ; Models, Theoretical ; Reproducibility of Results ; Seawater ; Sunlight ; Temperature ; Uncertainty
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  • 64
    Publication Date: 2012-12-14
    Description: The clinical efficacy and safety of a drug is determined by its activity profile across many proteins in the proteome. However, designing drugs with a specific multi-target profile is both complex and difficult. Therefore methods to design drugs rationally a priori against profiles of several proteins would have immense value in drug discovery. Here we describe a new approach for the automated design of ligands against profiles of multiple drug targets. The method is demonstrated by the evolution of an approved acetylcholinesterase inhibitor drug into brain-penetrable ligands with either specific polypharmacology or exquisite selectivity profiles for G-protein-coupled receptors. Overall, 800 ligand-target predictions of prospectively designed ligands were tested experimentally, of which 75% were confirmed to be correct. We also demonstrate target engagement in vivo. The approach can be a useful source of drug leads when multi-target profiles are required to achieve either selectivity over other drug targets or a desired polypharmacology.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3653568/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3653568/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Besnard, Jeremy -- Ruda, Gian Filippo -- Setola, Vincent -- Abecassis, Keren -- Rodriguiz, Ramona M -- Huang, Xi-Ping -- Norval, Suzanne -- Sassano, Maria F -- Shin, Antony I -- Webster, Lauren A -- Simeons, Frederick R C -- Stojanovski, Laste -- Prat, Annik -- Seidah, Nabil G -- Constam, Daniel B -- Bickerton, G Richard -- Read, Kevin D -- Wetsel, William C -- Gilbert, Ian H -- Roth, Bryan L -- Hopkins, Andrew L -- 083481/Wellcome Trust/United Kingdom -- BB/FOF/PF/15/09/Biotechnology and Biological Sciences Research Council/United Kingdom -- BB/J010510/1/Biotechnology and Biological Sciences Research Council/United Kingdom -- MH082441/MH/NIMH NIH HHS/ -- R01 DA017204/DA/NIDA NIH HHS/ -- R01 MH061887/MH/NIMH NIH HHS/ -- U19 MH082441/MH/NIMH NIH HHS/ -- WT 083481/Wellcome Trust/United Kingdom -- England -- Nature. 2012 Dec 13;492(7428):215-20. doi: 10.1038/nature11691.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Biological Chemistry and Drug Discovery, College of Life Sciences, University of Dundee, Dundee DD1 5EH, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23235874" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Automation ; Drug Delivery Systems ; *Drug Design ; Female ; *Ligands ; Male ; Mice ; Mice, Inbred C57BL ; Models, Theoretical ; Pharmacological Phenomena ; Reproducibility of Results
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  • 65
    Publication Date: 2012-10-02
    Description: The genome-wide identification of pairs of interacting proteins is an important step in the elucidation of cell regulatory mechanisms. Much of our present knowledge derives from high-throughput techniques such as the yeast two-hybrid assay and affinity purification, as well as from manual curation of experiments on individual systems. A variety of computational approaches based, for example, on sequence homology, gene co-expression and phylogenetic profiles, have also been developed for the genome-wide inference of protein-protein interactions (PPIs). Yet comparative studies suggest that the development of accurate and complete repertoires of PPIs is still in its early stages. Here we show that three-dimensional structural information can be used to predict PPIs with an accuracy and coverage that are superior to predictions based on non-structural evidence. Moreover, an algorithm, termed PrePPI, which combines structural information with other functional clues, is comparable in accuracy to high-throughput experiments, yielding over 30,000 high-confidence interactions for yeast and over 300,000 for human. Experimental tests of a number of predictions demonstrate the ability of the PrePPI algorithm to identify unexpected PPIs of considerable biological interest. The surprising effectiveness of three-dimensional structural information can be attributed to the use of homology models combined with the exploitation of both close and remote geometric relationships between proteins.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3482288/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3482288/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zhang, Qiangfeng Cliff -- Petrey, Donald -- Deng, Lei -- Qiang, Li -- Shi, Yu -- Thu, Chan Aye -- Bisikirska, Brygida -- Lefebvre, Celine -- Accili, Domenico -- Hunter, Tony -- Maniatis, Tom -- Califano, Andrea -- Honig, Barry -- CA082683/CA/NCI NIH HHS/ -- CA121852/CA/NCI NIH HHS/ -- DK057539/DK/NIDDK NIH HHS/ -- GM030518/GM/NIGMS NIH HHS/ -- GM094597/GM/NIGMS NIH HHS/ -- R01 CA082683/CA/NCI NIH HHS/ -- R01 DK057539/DK/NIDDK NIH HHS/ -- R01 GM030518/GM/NIGMS NIH HHS/ -- R01 NS043915/NS/NINDS NIH HHS/ -- R01NS043915/NS/NINDS NIH HHS/ -- U54 CA121852/CA/NCI NIH HHS/ -- U54 GM094597/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2012 Oct 25;490(7421):556-60. doi: 10.1038/nature11503. Epub 2012 Sep 30.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute, Columbia University, New York, New York 10032, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23023127" target="_blank"〉PubMed〈/a〉
    Keywords: *Algorithms ; Animals ; Bayes Theorem ; Brain/metabolism ; Cadherins/metabolism ; High-Throughput Screening Assays ; Humans ; Matrix Attachment Region Binding Proteins/metabolism ; Mice ; Models, Molecular ; PPAR gamma/metabolism ; Phylogeny ; Protein Binding ; Protein Conformation ; Protein Interaction Mapping/*methods ; *Protein Interaction Maps ; Protein Kinases/chemistry/metabolism ; Proteins/*chemistry/*metabolism ; Proteome/chemistry/metabolism ; Proteomics/*methods ; ROC Curve ; Reproducibility of Results ; Saccharomyces cerevisiae/chemistry/metabolism ; Suppressor of Cytokine Signaling Proteins/metabolism ; Transcription Factors/metabolism
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  • 66
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    Publication Date: 2012-03-31
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2012 Mar 28;483(7391):509. doi: 10.1038/483509a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22460859" target="_blank"〉PubMed〈/a〉
    Keywords: Biological Science Disciplines/standards ; Humans ; Periodicals as Topic/standards ; Quality Control ; Reproducibility of Results ; Research/*standards ; Research Design/standards/*statistics & numerical data ; Research Personnel/*standards ; Treatment Failure
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  • 67
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    Nature Publishing Group (NPG)
    Publication Date: 2012-10-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Van Noorden, Richard -- England -- Nature. 2012 Oct 18;490(7420):320. doi: 10.1038/490320a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23075956" target="_blank"〉PubMed〈/a〉
    Keywords: Arrestins/chemistry/history/metabolism ; Cell Communication ; *Drug Discovery/history ; History, 20th Century ; History, 21st Century ; *Nobel Prize ; Receptors, Adrenergic, beta-2/chemistry/history/metabolism ; Receptors, G-Protein-Coupled/antagonists & ; inhibitors/chemistry/history/*metabolism ; *Signal Transduction
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  • 68
    Publication Date: 2012-04-13
    Description: Primary triple-negative breast cancers (TNBCs), a tumour type defined by lack of oestrogen receptor, progesterone receptor and ERBB2 gene amplification, represent approximately 16% of all breast cancers. Here we show in 104 TNBC cases that at the time of diagnosis these cancers exhibit a wide and continuous spectrum of genomic evolution, with some having only a handful of coding somatic aberrations in a few pathways, whereas others contain hundreds of coding somatic mutations. High-throughput RNA sequencing (RNA-seq) revealed that only approximately 36% of mutations are expressed. Using deep re-sequencing measurements of allelic abundance for 2,414 somatic mutations, we determine for the first time-to our knowledge-in an epithelial tumour subtype, the relative abundance of clonal frequencies among cases representative of the population. We show that TNBCs vary widely in their clonal frequencies at the time of diagnosis, with the basal subtype of TNBC showing more variation than non-basal TNBC. Although p53 (also known as TP53), PIK3CA and PTEN somatic mutations seem to be clonally dominant compared to other genes, in some tumours their clonal frequencies are incompatible with founder status. Mutations in cytoskeletal, cell shape and motility proteins occurred at lower clonal frequencies, suggesting that they occurred later during tumour progression. Taken together, our results show that understanding the biology and therapeutic responses of patients with TNBC will require the determination of individual tumour clonal genotypes.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3863681/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3863681/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Shah, Sohrab P -- Roth, Andrew -- Goya, Rodrigo -- Oloumi, Arusha -- Ha, Gavin -- Zhao, Yongjun -- Turashvili, Gulisa -- Ding, Jiarui -- Tse, Kane -- Haffari, Gholamreza -- Bashashati, Ali -- Prentice, Leah M -- Khattra, Jaswinder -- Burleigh, Angela -- Yap, Damian -- Bernard, Virginie -- McPherson, Andrew -- Shumansky, Karey -- Crisan, Anamaria -- Giuliany, Ryan -- Heravi-Moussavi, Alireza -- Rosner, Jamie -- Lai, Daniel -- Birol, Inanc -- Varhol, Richard -- Tam, Angela -- Dhalla, Noreen -- Zeng, Thomas -- Ma, Kevin -- Chan, Simon K -- Griffith, Malachi -- Moradian, Annie -- Cheng, S-W Grace -- Morin, Gregg B -- Watson, Peter -- Gelmon, Karen -- Chia, Stephen -- Chin, Suet-Feung -- Curtis, Christina -- Rueda, Oscar M -- Pharoah, Paul D -- Damaraju, Sambasivarao -- Mackey, John -- Hoon, Kelly -- Harkins, Timothy -- Tadigotla, Vasisht -- Sigaroudinia, Mahvash -- Gascard, Philippe -- Tlsty, Thea -- Costello, Joseph F -- Meyer, Irmtraud M -- Eaves, Connie J -- Wasserman, Wyeth W -- Jones, Steven -- Huntsman, David -- Hirst, Martin -- Caldas, Carlos -- Marra, Marco A -- Aparicio, Samuel -- 5U01ES017154-02/ES/NIEHS NIH HHS/ -- R01 GM084875/GM/NIGMS NIH HHS/ -- R01GM084875/GM/NIGMS NIH HHS/ -- Cancer Research UK/United Kingdom -- England -- Nature. 2012 Apr 4;486(7403):395-9. doi: 10.1038/nature10933.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, British Columbia V6T 2B5, Canada. sshah@bccrc.ca〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22495314" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Breast Neoplasms/diagnosis/*genetics/*pathology ; Clone Cells/metabolism/pathology ; DNA Copy Number Variations/genetics ; DNA Mutational Analysis ; Disease Progression ; *Evolution, Molecular ; Female ; Gene Expression Profiling ; Gene Expression Regulation, Neoplastic/genetics ; Genotype ; High-Throughput Nucleotide Sequencing ; Humans ; INDEL Mutation/genetics ; Mutation/*genetics ; Point Mutation/genetics ; Precision Medicine ; Reproducibility of Results ; Sequence Analysis, RNA
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  • 69
    Publication Date: 2012-02-10
    Description: Cancer immunoediting, the process by which the immune system controls tumour outgrowth and shapes tumour immunogenicity, is comprised of three phases: elimination, equilibrium and escape. Although many immune components that participate in this process are known, its underlying mechanisms remain poorly defined. A central tenet of cancer immunoediting is that T-cell recognition of tumour antigens drives the immunological destruction or sculpting of a developing cancer. However, our current understanding of tumour antigens comes largely from analyses of cancers that develop in immunocompetent hosts and thus may have already been edited. Little is known about the antigens expressed in nascent tumour cells, whether they are sufficient to induce protective antitumour immune responses or whether their expression is modulated by the immune system. Here, using massively parallel sequencing, we characterize expressed mutations in highly immunogenic methylcholanthrene-induced sarcomas derived from immunodeficient Rag2(-/-) mice that phenotypically resemble nascent primary tumour cells. Using class I prediction algorithms, we identify mutant spectrin-beta2 as a potential rejection antigen of the d42m1 sarcoma and validate this prediction by conventional antigen expression cloning and detection. We also demonstrate that cancer immunoediting of d42m1 occurs via a T-cell-dependent immunoselection process that promotes outgrowth of pre-existing tumour cell clones lacking highly antigenic mutant spectrin-beta2 and other potential strong antigens. These results demonstrate that the strong immunogenicity of an unedited tumour can be ascribed to expression of highly antigenic mutant proteins and show that outgrowth of tumour cells that lack these strong antigens via a T-cell-dependent immunoselection process represents one mechanism of cancer immunoediting.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3874809/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3874809/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Matsushita, Hirokazu -- Vesely, Matthew D -- Koboldt, Daniel C -- Rickert, Charles G -- Uppaluri, Ravindra -- Magrini, Vincent J -- Arthur, Cora D -- White, J Michael -- Chen, Yee-Shiuan -- Shea, Lauren K -- Hundal, Jasreet -- Wendl, Michael C -- Demeter, Ryan -- Wylie, Todd -- Allison, James P -- Smyth, Mark J -- Old, Lloyd J -- Mardis, Elaine R -- Schreiber, Robert D -- R01 CA043059/CA/NCI NIH HHS/ -- U01 CA141541/CA/NCI NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2012 Feb 8;482(7385):400-4. doi: 10.1038/nature10755.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Pathology and Immunology, Washington University School of Medicine, 660 South Euclid Avenue, St Louis, Missouri 63110, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22318521" target="_blank"〉PubMed〈/a〉
    Keywords: Algorithms ; Animals ; Carrier Proteins/genetics/immunology ; DNA-Binding Proteins/deficiency/genetics ; Exome/*genetics/*immunology ; Histocompatibility Antigens Class I/immunology ; Humans ; Immunologic Surveillance/*immunology ; Male ; Methylcholanthrene ; Mice ; Microfilament Proteins/genetics/immunology ; Models, Immunological ; Neoplasms/chemically induced/*genetics/*immunology/pathology ; Reproducibility of Results ; Sarcoma/chemically induced/genetics/immunology/pathology ; T-Lymphocytes/*immunology
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  • 70
    Publication Date: 2012-05-19
    Description: The opioid receptor family comprises three members, the micro-, delta- and kappa-opioid receptors, which respond to classical opioid alkaloids such as morphine and heroin as well as to endogenous peptide ligands like endorphins. They belong to the G-protein-coupled receptor (GPCR) superfamily, and are excellent therapeutic targets for pain control. The delta-opioid receptor (delta-OR) has a role in analgesia, as well as in other neurological functions that remain poorly understood. The structures of the micro-OR and kappa-OR have recently been solved. Here we report the crystal structure of the mouse delta-OR, bound to the subtype-selective antagonist naltrindole. Together with the structures of the micro-OR and kappa-OR, the delta-OR structure provides insights into conserved elements of opioid ligand recognition while also revealing structural features associated with ligand-subtype selectivity. The binding pocket of opioid receptors can be divided into two distinct regions. Whereas the lower part of this pocket is highly conserved among opioid receptors, the upper part contains divergent residues that confer subtype selectivity. This provides a structural explanation and validation for the 'message-address' model of opioid receptor pharmacology, in which distinct 'message' (efficacy) and 'address' (selectivity) determinants are contained within a single ligand. Comparison of the address region of the delta-OR with other GPCRs reveals that this structural organization may be a more general phenomenon, extending to other GPCR families as well.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3523198/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3523198/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Granier, Sebastien -- Manglik, Aashish -- Kruse, Andrew C -- Kobilka, Tong Sun -- Thian, Foon Sun -- Weis, William I -- Kobilka, Brian K -- DA031418/DA/NIDA NIH HHS/ -- NS028471/NS/NINDS NIH HHS/ -- R01 GM083118/GM/NIGMS NIH HHS/ -- R01 NS028471/NS/NINDS NIH HHS/ -- R21 DA031418/DA/NIDA NIH HHS/ -- England -- Nature. 2012 May 16;485(7398):400-4. doi: 10.1038/nature11111.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, California 94305, USA. granier@stanford.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22596164" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Animals ; Binding Sites ; Conserved Sequence ; Crystallography, X-Ray ; Mice ; Models, Molecular ; Molecular Sequence Data ; Naltrexone/*analogs & derivatives/chemistry/metabolism/pharmacology ; Protein Structure, Tertiary ; Receptors, Opioid, delta/antagonists & inhibitors/*chemistry/metabolism ; Reproducibility of Results ; Structure-Activity Relationship ; Substrate Specificity
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  • 71
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    Nature Publishing Group (NPG)
    Publication Date: 2012-12-12
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Shen, Helen -- England -- Nature. 2012 Dec 6;492(7427):17. doi: 10.1038/492017a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23222583" target="_blank"〉PubMed〈/a〉
    Keywords: Climate Change ; *Federal Government ; History, 20th Century ; History, 21st Century ; Patents as Topic/legislation & jurisprudence ; Science/economics/*legislation & jurisprudence ; Texas ; United States ; United States Environmental Protection Agency
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  • 72
    Publication Date: 2012-08-24
    Description: After methane, ethane is the most abundant hydrocarbon in the remote atmosphere. It is a precursor to tropospheric ozone and it influences the atmosphere's oxidative capacity through its reaction with the hydroxyl radical, ethane's primary atmospheric sink. Here we present the longest continuous record of global atmospheric ethane levels. We show that global ethane emission rates decreased from 14.3 to 11.3 teragrams per year, or by 21 per cent, from 1984 to 2010. We attribute this to decreasing fugitive emissions from ethane's fossil fuel source--most probably decreased venting and flaring of natural gas in oil fields--rather than a decline in its other major sources, biofuel use and biomass burning. Ethane's major emission sources are shared with methane, and recent studies have disagreed on whether reduced fossil fuel or microbial emissions have caused methane's atmospheric growth rate to slow. Our findings suggest that reduced fugitive fossil fuel emissions account for at least 10-21 teragrams per year (30-70 per cent) of the decrease in methane's global emissions, significantly contributing to methane's slowing atmospheric growth rate since the mid-1980s.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Simpson, Isobel J -- Sulbaek Andersen, Mads P -- Meinardi, Simone -- Bruhwiler, Lori -- Blake, Nicola J -- Helmig, Detlev -- Rowland, F Sherwood -- Blake, Donald R -- England -- Nature. 2012 Aug 23;488(7412):490-4. doi: 10.1038/nature11342.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Chemistry, University of California-Irvine, Irvine, California 92697, USA. isimpson@uci.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22914166" target="_blank"〉PubMed〈/a〉
    Keywords: Atmosphere/*chemistry ; Biofuels/utilization ; Biomass ; Ethane/*analysis/*chemistry/history ; Greenhouse Effect ; History, 20th Century ; History, 21st Century ; Methane/*analysis/*chemistry/history ; Natural Gas/utilization ; Oil and Gas Fields ; Ozone/chemistry ; Wetlands
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  • 73
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    Nature Publishing Group (NPG)
    Publication Date: 2012-09-22
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Maxmen, Amy -- England -- Nature. 2012 Sep 20;489(7416):349-50. doi: 10.1038/489349a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22996526" target="_blank"〉PubMed〈/a〉
    Keywords: Humans ; Kidney/pathology/virology ; Kidney Diseases/*etiology/pathology/prevention & control/*virology ; Models, Biological ; RNA, Viral/urine ; Reproducibility of Results ; United States/epidemiology ; West Nile Fever/*complications/epidemiology/therapy ; West Nile virus/genetics/isolation & purification/*pathogenicity
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  • 74
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    Nature Publishing Group (NPG)
    Publication Date: 2012-02-24
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Waldrop, M Mitchell -- England -- Nature. 2012 Feb 22;482(7386):456-8. doi: 10.1038/482456a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22358809" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Brain/*physiology ; Cognition/physiology ; *Computer Simulation ; European Union ; History, 20th Century ; History, 21st Century ; Humans ; Internationality ; *Models, Neurological ; Neurosciences/economics/history/trends ; Switzerland
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  • 75
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    Nature Publishing Group (NPG)
    Publication Date: 2011-05-27
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Altschuler, Eric L -- England -- Nature. 2011 May 26;473(7348):452. doi: 10.1038/473452a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21614062" target="_blank"〉PubMed〈/a〉
    Keywords: Peer Review, Research/*methods/*standards ; Reproducibility of Results ; Research Personnel/economics/psychology
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  • 76
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    Nature Publishing Group (NPG)
    Publication Date: 2011-05-20
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Tollefson, Jeff -- England -- Nature. 2011 May 19;473(7347):268-70. doi: 10.1038/473268a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21593836" target="_blank"〉PubMed〈/a〉
    Keywords: Air Pollution/history/legislation & jurisprudence/*prevention & control ; California ; Conservation of Energy Resources/legislation & jurisprudence ; Environmental Policy/history/*legislation & jurisprudence ; Greenhouse Effect/legislation & jurisprudence/*prevention & control ; History, 20th Century ; History, 21st Century
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  • 77
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    Publication Date: 2011-10-01
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schiermeier, Quirin -- England -- Nature. 2011 Sep 27;477(7366):517-8. doi: 10.1038/477517a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21956304" target="_blank"〉PubMed〈/a〉
    Keywords: Carbon Dioxide/analysis ; Climate Change/*statistics & numerical data ; Congresses as Topic ; *Conservation of Natural Resources ; India ; *International Cooperation ; Reproducibility of Results ; South Africa
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  • 78
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    Publication Date: 2011-10-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Nussenzweig, Michel C -- Mellman, Ira -- England -- Nature. 2011 Oct 26;478(7370):460. doi: 10.1038/478460a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Rockefeller University, USA. nussen@mail.rockefeller.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22031432" target="_blank"〉PubMed〈/a〉
    Keywords: Allergy and Immunology/*history ; Animals ; Canada ; Cancer Vaccines/immunology ; Cell Biology/history ; Dendritic Cells/cytology/*immunology ; History, 20th Century ; History, 21st Century ; Humans ; Nobel Prize ; Translational Medical Research ; United States
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  • 79
    Publication Date: 2011-04-05
    Description: Methylation at the 5' position of cytosine in DNA has important roles in genome function and is dynamically reprogrammed during early embryonic and germ cell development. The mammalian genome also contains 5-hydroxymethylcytosine (5hmC), which seems to be generated by oxidation of 5-methylcytosine (5mC) by the TET family of enzymes that are highly expressed in embryonic stem (ES) cells. Here we use antibodies against 5hmC and 5mC together with high throughput sequencing to determine genome-wide patterns of methylation and hydroxymethylation in mouse wild-type and mutant ES cells and differentiating embryoid bodies. We find that 5hmC is mostly associated with euchromatin and that whereas 5mC is under-represented at gene promoters and CpG islands, 5hmC is enriched and is associated with increased transcriptional levels. Most, if not all, 5hmC in the genome depends on pre-existing 5mC and the balance between these two modifications is different between genomic regions. Knockdown of Tet1 and Tet2 causes downregulation of a group of genes that includes pluripotency-related genes (including Esrrb, Prdm14, Dppa3, Klf2, Tcl1 and Zfp42) and a concomitant increase in methylation of their promoters, together with an increased propensity of ES cells for extraembryonic lineage differentiation. Declining levels of TETs during differentiation are associated with decreased hydroxymethylation levels at the promoters of ES cell-specific genes together with increased methylation and gene silencing. We propose that the balance between hydroxymethylation and methylation in the genome is inextricably linked with the balance between pluripotency and lineage commitment.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ficz, Gabriella -- Branco, Miguel R -- Seisenberger, Stefanie -- Santos, Fatima -- Krueger, Felix -- Hore, Timothy A -- Marques, C Joana -- Andrews, Simon -- Reik, Wolf -- G0801156/Medical Research Council/United Kingdom -- G0801727/Medical Research Council/United Kingdom -- Biotechnology and Biological Sciences Research Council/United Kingdom -- Medical Research Council/United Kingdom -- England -- Nature. 2011 May 19;473(7347):398-402. doi: 10.1038/nature10008. Epub 2011 Apr 3.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Laboratory of Developmental Genetics and Imprinting, The Babraham Institute, Cambridge CB22 3AT, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21460836" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Antibodies/immunology ; Cell Differentiation/*genetics ; Cell Line ; Cell Lineage/genetics ; CpG Islands/genetics ; Cytosine/*analogs & derivatives/analysis/immunology/metabolism ; *DNA Methylation ; DNA-Binding Proteins/deficiency ; Down-Regulation ; Embryoid Bodies/cytology/metabolism ; Embryonic Stem Cells/*cytology/*metabolism ; Euchromatin/genetics/metabolism ; Exons/genetics ; *Gene Expression Regulation, Developmental ; Gene Silencing ; Genome/genetics ; Mice ; Pluripotent Stem Cells/cytology/metabolism ; Promoter Regions, Genetic/genetics ; Proto-Oncogene Proteins/deficiency ; Reproducibility of Results ; Sequence Analysis, DNA ; Transcription, Genetic
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  • 80
    Publication Date: 2011-08-13
    Description: Methane and ethane are the most abundant hydrocarbons in the atmosphere and they affect both atmospheric chemistry and climate. Both gases are emitted from fossil fuels and biomass burning, whereas methane (CH(4)) alone has large sources from wetlands, agriculture, landfills and waste water. Here we use measurements in firn (perennial snowpack) air from Greenland and Antarctica to reconstruct the atmospheric variability of ethane (C(2)H(6)) during the twentieth century. Ethane levels rose from early in the century until the 1980s, when the trend reversed, with a period of decline over the next 20 years. We find that this variability was primarily driven by changes in ethane emissions from fossil fuels; these emissions peaked in the 1960s and 1970s at 14-16 teragrams per year (1 Tg = 10(12) g) and dropped to 8-10 Tg yr(-1) by the turn of the century. The reduction in fossil-fuel sources is probably related to changes in light hydrocarbon emissions associated with petroleum production and use. The ethane-based fossil-fuel emission history is strikingly different from bottom-up estimates of methane emissions from fossil-fuel use, and implies that the fossil-fuel source of methane started to decline in the 1980s and probably caused the late twentieth century slow-down in the growth rate of atmospheric methane.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Aydin, Murat -- Verhulst, Kristal R -- Saltzman, Eric S -- Battle, Mark O -- Montzka, Stephen A -- Blake, Donald R -- Tang, Qi -- Prather, Michael J -- England -- Nature. 2011 Aug 10;476(7359):198-201. doi: 10.1038/nature10352.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Earth System Science, University of California, Irvine, California 92697, USA. maydin@uci.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21833087" target="_blank"〉PubMed〈/a〉
    Keywords: Antarctic Regions ; Atmosphere/*chemistry ; Biofuels ; Biomass ; Ethane/*analysis ; Fires ; *Fossil Fuels/history/utilization ; Geography ; Greenland ; History, 20th Century ; History, 21st Century ; Ice/analysis ; Methane/*analysis ; Models, Theoretical ; Snow/*chemistry
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  • 81
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    Publication Date: 2011-09-03
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Germain, Ronald N -- Paul, William E -- England -- Nature. 2011 Aug 31;477(7362):34. doi: 10.1038/477034a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, Maryland 20892, USA. rgermain@nih.gov〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21886149" target="_blank"〉PubMed〈/a〉
    Keywords: *Allergy and Immunology ; History, 20th Century ; History, 21st Century ; United States ; Venezuela
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  • 82
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    Publication Date: 2011-03-11
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Sarewitz, Daniel -- England -- Nature. 2011 Mar 10;471(7337):137. doi: 10.1038/471137a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Consortium for Science, Policy and Outcomes, Arizona State University, USA. dsarewitz@gmail.com〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21390086" target="_blank"〉PubMed〈/a〉
    Keywords: *Federal Government ; History, 20th Century ; History, 21st Century ; Military Science/economics/history ; Policy Making ; Public-Private Sector Partnerships/economics ; Science/*economics/*organization & administration ; Technology/*economics/*organization & administration ; United States ; United States Department of Defense/economics/history ; United States National Aeronautics and Space Administration/economics
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 83
    Publication Date: 2011-05-20
    Description: Gene expression is a multistep process that involves the transcription, translation and turnover of messenger RNAs and proteins. Although it is one of the most fundamental processes of life, the entire cascade has never been quantified on a genome-wide scale. Here we simultaneously measured absolute mRNA and protein abundance and turnover by parallel metabolic pulse labelling for more than 5,000 genes in mammalian cells. Whereas mRNA and protein levels correlated better than previously thought, corresponding half-lives showed no correlation. Using a quantitative model we have obtained the first genome-scale prediction of synthesis rates of mRNAs and proteins. We find that the cellular abundance of proteins is predominantly controlled at the level of translation. Genes with similar combinations of mRNA and protein stability shared functional properties, indicating that half-lives evolved under energetic and dynamic constraints. Quantitative information about all stages of gene expression provides a rich resource and helps to provide a greater understanding of the underlying design principles.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schwanhausser, Bjorn -- Busse, Dorothea -- Li, Na -- Dittmar, Gunnar -- Schuchhardt, Johannes -- Wolf, Jana -- Chen, Wei -- Selbach, Matthias -- England -- Nature. 2011 May 19;473(7347):337-42. doi: 10.1038/nature10098.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Max Delbruck Center for Molecular Medicine, Robert-Rossle-Str. 10, D-13092 Berlin, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21593866" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Gene Expression Profiling/*methods ; *Gene Expression Regulation ; Half-Life ; Mammals/genetics ; Mice ; Models, Genetic ; NIH 3T3 Cells ; Protein Biosynthesis/genetics ; Proteins/*analysis/genetics/metabolism ; RNA, Messenger/*analysis/biosynthesis/genetics/metabolism ; Reproducibility of Results ; Staining and Labeling
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 84
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    Nature Publishing Group (NPG)
    Publication Date: 2011-12-23
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Cheung, Felix -- England -- Nature. 2011 Dec 21;480(7378):S82-3. doi: 10.1038/480S82a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22190085" target="_blank"〉PubMed〈/a〉
    Keywords: History, 15th Century ; History, 16th Century ; History, 17th Century ; History, 18th Century ; History, 19th Century ; History, 20th Century ; History, 21st Century ; History, Ancient ; History, Medieval ; Humans ; *Medicine, Chinese Traditional/economics/history/standards/trends/utilization ; Research
    Print ISSN: 0028-0836
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 85
    Publication Date: 2011-07-15
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Losos, Jonathan B -- Pringle, Robert M -- England -- Nature. 2011 Jul 13;475(7355):E1-2; discussion E3. doi: 10.1038/nature10140.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts 02138, USA. jlosos@oeb.harvard.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21753806" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Birds/physiology ; Competitive Behavior/*physiology ; *Geography ; Lizards/*physiology ; Population Density ; Predatory Behavior/*physiology ; Reproducibility of Results ; Research Design ; *Selection, Genetic ; Snakes/physiology ; Survival Analysis
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  • 86
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    Nature Publishing Group (NPG)
    Publication Date: 2011-10-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉England -- Nature. 2011 Oct 26;478(7370):428. doi: 10.1038/478428a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22031398" target="_blank"〉PubMed〈/a〉
    Keywords: Climate Change/*statistics & numerical data ; *Peer Review, Research/methods/standards ; Periodicals as Topic/standards ; Reproducibility of Results
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  • 87
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    Nature Publishing Group (NPG)
    Publication Date: 2011-07-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Seitz, Russell -- England -- Nature. 2011 Jul 6;475(7354):37. doi: 10.1038/475037b.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21734694" target="_blank"〉PubMed〈/a〉
    Keywords: Air Pollution/adverse effects/analysis ; *Cold Temperature ; Models, Theoretical ; *Nuclear Warfare ; Reproducibility of Results ; *Smoke/analysis ; Sunlight
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  • 88
    Publication Date: 2011-04-15
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Mackas, David L -- England -- Nature. 2011 Apr 14;472(7342):E4-5; discussion E8-9. doi: 10.1038/nature09951.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute of Ocean Sciences, Fisheries and Oceans Canada, PO Box 6000, Sidney, British Columbia, V8L 4B2, Canada. Dave.Mackas@dfo-mpo.gc.ca〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21490623" target="_blank"〉PubMed〈/a〉
    Keywords: Aquatic Organisms/growth & development/isolation & purification/metabolism ; Bias (Epidemiology) ; Biomass ; Chlorophyll/analysis/*metabolism ; Data Collection/methods ; Phytoplankton/growth & development/isolation & purification/metabolism ; Reproducibility of Results ; Time Factors
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  • 89
    Publication Date: 2011-12-02
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schubert, Charlotte -- England -- Nature. 2011 Nov 30;480(7375):133-7. doi: 10.1038/480133a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22129730" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Genetic Heterogeneity ; Genome ; History, 20th Century ; History, 21st Century ; Humans ; National Institutes of Health (U.S.) ; Single-Cell Analysis/economics/history/*methods/trends ; Transcriptome ; United States
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  • 90
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    Nature Publishing Group (NPG)
    Publication Date: 2011-08-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Phillips, Rob -- England -- Nature. 2011 Aug 24;476(7361):400. doi: 10.1038/476400a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉California Institute of Technology, Pasadena, California 91125, USA. phillips@pboc.caltech.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21866146" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; DNA/chemistry/genetics/metabolism ; Gene Expression Regulation ; Genome/*genetics ; History, 20th Century ; History, 21st Century ; Humans ; Nucleic Acid Conformation ; Nucleosomes/*chemistry/genetics/metabolism ; United States
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  • 91
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    Nature Publishing Group (NPG)
    Publication Date: 2011-08-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Pielke, Roger Jr -- England -- Nature. 2011 Aug 17;476(7360):284. doi: 10.1038/476284a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Center for Science and Technology Policy Research, University of Colorado, Boulder, Colorado 80309, USA. pielke@colorado.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21850096" target="_blank"〉PubMed〈/a〉
    Keywords: Advisory Committees/*history/organization & administration ; Federal Government/*history ; History, 20th Century ; History, 21st Century ; Physics/*history ; Politics ; United States ; Universities/history/organization & administration
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  • 92
    Publication Date: 2011-04-23
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gosling, Raymond -- Tickle, Cheryll -- Running, Steve W -- Tandong, Yao -- Dinnyes, Andras -- Osowole, A A -- Cule, Erika -- England -- Nature. 2011 Apr 21;472(7343):283-6. doi: 10.1038/472283a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21512550" target="_blank"〉PubMed〈/a〉
    Keywords: Blogging ; Education, Graduate/*history ; History, 20th Century ; History, 21st Century ; Internationality ; Public Policy ; Research/education/*history ; Research Personnel/education/*history
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  • 93
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    Nature Publishing Group (NPG)
    Publication Date: 2011-11-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Wadman, Meredith -- England -- Nature. 2011 Nov 2;479(7371):28-31. doi: 10.1038/479028a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22051658" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Autistic Disorder/economics/*etiology/genetics ; *Biomedical Research/economics ; *Charities/economics ; *Evidence-Based Medicine/economics ; Female ; Financing, Organized/economics ; Genetic Testing ; History, 20th Century ; History, 21st Century ; Humans ; Male ; Measles-Mumps-Rubella Vaccine/adverse effects ; Research Support as Topic/economics ; Thimerosal/adverse effects ; United States
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  • 94
    Publication Date: 2011-03-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Serreze, Mark C -- England -- Nature. 2011 Mar 3;471(7336):47-8. doi: 10.1038/471047a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21368820" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Arctic Regions ; *Climate Change/history/statistics & numerical data ; *Freezing ; History, 20th Century ; History, 21st Century ; *Ice Cover ; *Models, Theoretical ; Seasons ; Time Factors
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  • 95
    Publication Date: 2011-11-19
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Brassard, Gilles -- England -- Nature. 2011 Nov 16;479(7373):307-8. doi: 10.1038/479307a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Departement d'informatique et de recherche operationnelle, Universite de Montreal, Montreal, Quebec H3C 3J7, Canada. brassard@iro.umontreal.ca〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22094688" target="_blank"〉PubMed〈/a〉
    Keywords: *Geographic Information Systems ; Quantum Theory ; Reproducibility of Results ; Time Factors ; Trust ; *Uncertainty
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  • 96
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    Nature Publishing Group (NPG)
    Publication Date: 2011-07-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Maxmen, Amy -- England -- Nature. 2011 Jul 6;475(7354):23-5. doi: 10.1038/475023a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21734684" target="_blank"〉PubMed〈/a〉
    Keywords: Bone and Bones/metabolism/physiology ; Calcium/metabolism ; Dietary Supplements/utilization ; Evidence-Based Medicine/methods/standards ; Guidelines as Topic/standards ; Health Surveys/standards ; Humans ; Institute of Medicine (U.S.) ; *Meta-Analysis as Topic ; *Nutritional Requirements ; *Nutritional Sciences/standards ; Public Health/methods/standards ; Reproducibility of Results ; United States ; Vitamin D/blood/metabolism/*physiology ; Vitamin D Deficiency/blood/epidemiology
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  • 97
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    Nature Publishing Group (NPG)
    Publication Date: 2011-12-16
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉RajBhandary, Uttam L -- England -- Nature. 2011 Dec 14;480(7377):322. doi: 10.1038/480322a.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA. bhandary@mit.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/22170673" target="_blank"〉PubMed〈/a〉
    Keywords: Biochemistry/history ; Genetic Code ; Genetics/*history ; History, 20th Century ; History, 21st Century ; India ; Nobel Prize ; United States
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  • 98
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    Nature Publishing Group (NPG)
    Publication Date: 2011-02-05
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Gupta, Nitin -- Stopfer, Mark -- England -- Nature. 2011 Feb 3;470(7332):39. doi: 10.1038/470039a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21293361" target="_blank"〉PubMed〈/a〉
    Keywords: Meta-Analysis as Topic ; *Models, Biological ; Reproducibility of Results ; *Research Report
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    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 99
    Publication Date: 2011-07-29
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Waldrop, M Mitchell -- England -- Nature. 2011 Jul 27;475(7357):442-4. doi: 10.1038/475442a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21796182" target="_blank"〉PubMed〈/a〉
    Keywords: *Exobiology/economics/instrumentation/trends ; History, 20th Century ; History, 21st Century ; *Radio Waves
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  • 100
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    Nature Publishing Group (NPG)
    Publication Date: 2011-06-04
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Waldrop, M Mitchell -- England -- Nature. 2011 Jun 2;474(7349):20-2. doi: 10.1038/474020a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21637234" target="_blank"〉PubMed〈/a〉
    Keywords: History, 20th Century ; History, 21st Century ; *Neoplasms ; *Physics ; *Research/economics/organization & administration
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