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  • 1
    Publication Date: 2013-09-18
    Description: Transcriptional profiling is a useful strategy to study development and disease. Approaches to isolate RNA from specific cell types, or from specific cellular compartments, would extend the power of this strategy. Previous work has shown that isolation of genetically tagged ribosomes (translating ribosome affinity purification; TRAP) is an effective means...
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 2
    Publication Date: 2012-02-15
    Description: Heart growth is tightly controlled so that the heart reaches a predetermined size. Fetal heart growth occurs through cardiomyocyte proliferation, whereas postnatal heart growth involves primarily physiological cardiomyocyte hypertrophy. The Hippo kinase cascade is an important regulator of organ growth. A major target of this kinase cascade is YAP1, a transcriptional coactivator that is inactivated by Hippo kinase activity. Here, we used both genetic gain and loss of Yap1 function to investigate its role in regulating proliferative and physiologic hypertrophic heart growth. Fetal Yap1 inactivation caused marked, lethal myocardial hypoplasia and decreased cardiomyocyte proliferation, whereas fetal activation of YAP1 stimulated cardiomyocyte proliferation. Enhanced proliferation was particularly dramatic in trabecular cardiomyocytes that normally exit from the cell cycle. Remarkably, YAP1 activation was sufficient to stimulate proliferation of postnatal cardiomyocytes, both in culture and in the intact heart. A dominant negative peptide that blocked YAP1 binding to TEAD transcription factors inhibited YAP1 proliferative activity, indicating that this activity requires YAP1–TEAD interaction. Although Yap1 was a critical regulator of cardiomyocyte proliferation, it did not influence physiological hypertrophic growth of cardiomyocytes, because postnatal Yap1 gain or loss of function did not significantly alter cardiomyocyte size. These studies demonstrate that Yap1 is a crucial regulator of cardiomyocyte proliferation, cardiac morphogenesis, and myocardial trabeculation. Activation of Yap1 in postnatal cardiomyocytes may be a useful strategy to stimulate cardiomyocyte expansion in therapeutic myocardial regeneration.
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 3
    Publication Date: 2015-06-20
    Description: Li et al. (Reports, 18 April 2014, p. 292) proposed a unity nitrous acid (HONO) yield for reaction between nitrogen dioxide and the hydroperoxyl-water complex and suggested a substantial overestimation in HONO photolysis contribution to hydroxyl radical budget. Based on airborne observations of all parameters in this chemical system, we have determined an upper-limit HONO yield of 0.03 for the reaction.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ye, Chunxiang -- Zhou, Xianliang -- Pu, Dennis -- Stutz, Jochen -- Festa, James -- Spolaor, Max -- Cantrell, Christopher -- Mauldin, Roy L -- Weinheimer, Andrew -- Haggerty, Julie -- New York, N.Y. -- Science. 2015 Jun 19;348(6241):1326. doi: 10.1126/science.aaa1992.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Wadsworth Center, New York State Department of Health, Albany, NY, USA. ; Wadsworth Center, New York State Department of Health, Albany, NY, USA. Department of Environmental Health Sciences, State University of New York, Albany, NY, USA. xianliang.zhou@health.ny.gov. ; Department of Environmental Health Sciences, State University of New York, Albany, NY, USA. ; University of California, Los Angeles, CA, USA. ; University of Colorado, Boulder, CO, USA. ; University of Colorado, Boulder, CO, USA. Department of Physics, University of Helsinki, Helsinki, Finland. ; National Center for Atmosphere Research, Earth System Laboratory, Boulder, CO, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26089507" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 4
    Publication Date: 2017-06-08
    Description: The roundworm Caenorhabditis elegans is widely used as a model for studying conserved pathways for fat storage, aging, and metabolism. The most broadly used methods for imaging fat in C. elegans require fixing and staining the animal. Here, we show that dark field images acquired through an ordinary light microscope can be used to estimate fat levels in worms. We define a metric based on the amount of light scattered per area, and show that this light scattering metric is strongly correlated with worm fat levels as measured by Oil Red O (ORO) staining across a wide variety of genetic backgrounds and feeding conditions. Dark field imaging requires no exogenous agents or chemical fixation, making it compatible with live worm imaging. Using our method, we track fat storage with high temporal resolution in developing larvae, and show that fat storage in the intestine increases in at least one burst during development.
    Electronic ISSN: 2160-1836
    Topics: Biology
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  • 5
    Publication Date: 2016-04-12
    Description: Nitrogen oxides are essential for the formation of secondary atmospheric aerosols and of atmospheric oxidants such as ozone and the hydroxyl radical, which controls the self-cleansing capacity of the atmosphere. Nitric acid, a major oxidation product of nitrogen oxides, has traditionally been considered to be a permanent sink of nitrogen oxides. However, model studies predict higher ratios of nitric acid to nitrogen oxides in the troposphere than are observed. A 'renoxification' process that recycles nitric acid into nitrogen oxides has been proposed to reconcile observations with model studies, but the mechanisms responsible for this process remain uncertain. Here we present data from an aircraft measurement campaign over the North Atlantic Ocean and find evidence for rapid recycling of nitric acid to nitrous acid and nitrogen oxides in the clean marine boundary layer via particulate nitrate photolysis. Laboratory experiments further demonstrate the photolysis of particulate nitrate collected on filters at a rate more than two orders of magnitude greater than that of gaseous nitric acid, with nitrous acid as the main product. Box model calculations based on the Master Chemical Mechanism suggest that particulate nitrate photolysis mainly sustains the observed levels of nitrous acid and nitrogen oxides at midday under typical marine boundary layer conditions. Given that oceans account for more than 70 per cent of Earth's surface, we propose that particulate nitrate photolysis could be a substantial tropospheric nitrogen oxide source. Recycling of nitrogen oxides in remote oceanic regions with minimal direct nitrogen oxide emissions could increase the formation of tropospheric oxidants and secondary atmospheric aerosols on a global scale.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Ye, Chunxiang -- Zhou, Xianliang -- Pu, Dennis -- Stutz, Jochen -- Festa, James -- Spolaor, Max -- Tsai, Catalina -- Cantrell, Christopher -- Mauldin, Roy L 3rd -- Campos, Teresa -- Weinheimer, Andrew -- Hornbrook, Rebecca S -- Apel, Eric C -- Guenther, Alex -- Kaser, Lisa -- Yuan, Bin -- Karl, Thomas -- Haggerty, Julie -- Hall, Samuel -- Ullmann, Kirk -- Smith, James N -- Ortega, John -- Knote, Christoph -- England -- Nature. 2016 Apr 28;532(7600):489-91. doi: 10.1038/nature17195. Epub 2016 Apr 11.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Wadsworth Center, New York State Department of Health, Albany, New York, USA. ; Department of Environmental Health Sciences, State University of New York, Albany, New York, USA. ; Department of Atmospheric and Oceanic Sciences, University of California, Los Angeles (UCLA), California, USA. ; Department of Atmospheric and Oceanic Sciences, University of Colorado at Boulder, Boulder, Colorado, USA. ; Department of Physics, University of Helsinki, Helsinki, Finland. ; National Center for Atmospheric Research, Boulder, Colorado, USA. ; Pacific Northwest National Laboratory, Richland, Washington, USA. ; NOAA, Earth System Research Laboratory, Chemical Sciences Division, Boulder, Colorado, USA. ; Cooperative Institute for Research in Environmental Sciences, University of Colorado at Boulder, Boulder, Colorado, USA. ; Institute for Meteorology and Geophysics, University of Innsbruck, Innsbruck, Austria. ; University of Eastern Finland, Kuopio, Finland.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/27064904" target="_blank"〉PubMed〈/a〉
    Keywords: Aerosols/chemistry ; Atlantic Ocean ; Atmosphere/*chemistry ; Nitrates/analysis/chemistry ; Nitric Acid/chemistry ; Nitrogen/*analysis/*chemistry ; Nitrogen Oxides/*analysis/*chemistry ; Nitrous Acid/analysis/chemistry ; North Carolina ; Oxidants/chemistry ; Photolysis ; Seawater/*chemistry ; South Carolina
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 6
    Electronic Resource
    Electronic Resource
    Springer
    Journal of optimization theory and applications 106 (2000), S. 551-568 
    ISSN: 1573-2878
    Keywords: nonsmooth optimization ; inexact Newton methods ; generalized Newton methods ; global convergence ; superlinear rate
    Source: Springer Online Journal Archives 1860-2000
    Topics: Mathematics
    Notes: Abstract Motivated by the method of Martinez and Qi (Ref. 1), we propose in this paper a globally convergent inexact generalized Newton method to solve unconstrained optimization problems in which the objective functions have Lipschitz continuous gradient functions, but are not twice differentiable. This method is implementable, globally convergent, and produces monotonically decreasing function values. We prove that the method has locally superlinear convergence or even quadratic convergence rate under some mild conditions, which do not assume the convexity of the functions.
    Type of Medium: Electronic Resource
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  • 7
  • 8
    Publication Date: 2000-09-01
    Print ISSN: 0022-3239
    Electronic ISSN: 1573-2878
    Topics: Mathematics
    Published by Springer
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  • 9
    Publication Date: 2002-01-01
    Print ISSN: 0022-3239
    Electronic ISSN: 1573-2878
    Topics: Mathematics
    Published by Springer
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  • 10
    Publication Date: 2015-04-29
    Description: Sequencing by ligation (SBL) is a straightforward enzymatic method for interrogating DNA sequence, in which the ligation efficiency and specificity of each probe play an essential role. Here, the number of labelled dyes in the probe, probe length and probe constituent were investigated to optimize the ligation efficiency and specificity. First, the performance of double- and single-labelled fluorescent probes in SBL was evaluated. The experimental results showed that double-labelled fluorescent probes could yield a remarkable increase in the fluorescence intensities and avoid higher background compared with single-labelled fluorescent probes. Second, probes between 7- and 9-mers in length were designed to uniform T m difference. We hoped the uniformed probes with smaller T m difference could improve the ligation efficiency. However, 8-mer probes with larger T m difference showed stronger fluorescence intensities. Third, we evaluated whether probes containing deoxyinosines either in the 5' or the 3' end had influence on the ligation efficiency. Consequently, probes containing deoxyinosines at the 5' termini might decrease the ligation efficiency, and the accumulation of 3' terminal deoxyinosines in the sequencing primers was likely to reduce the fluorescence intensity and the ligation efficiency, which was inconsistent with the traditional viewpoint. The optimized probes will improve the ligation efficiency and accuracy in SBL.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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