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  • 1
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    Cordova: Web-based management of genetic variation data (2014)
    Oxford University Press
    Details
    Publication Date: 2014-11-26
    Description: : Cordova is an out-of-the-box solution for building and maintaining an online database of genetic variations integrated with pathogenicity prediction results from popular algorithms. Our primary motivation for developing this system is to aid researchers and clinician–scientists in determining the clinical significance of genetic variations. To achieve this goal, Cordova provides an interface to review and manually or computationally curate genetic variation data as well as share it for clinical diagnostics and the advancement of research. Availability and implementation: Cordova is open source under the MIT license and is freely available for download at https://github.com/clcg/cordova . Contact: sean.ephraim@gmail.com or terry-braun@uiowa.edu
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
    Published by Oxford University Press
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  • 2
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    Response of the Io plasma torus to comet Shoemaker-Levy 9 (1995)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 1995-03-03
    Description: Spectroscopic and imaging observations of the Io plasma torus were made in June and July 1994 in conjunction with the encounter of periodic comet Shoemaker-Levy 9 with Jupiter. Characteristic emissions from sulfur and oxygen ions showed a decline of about 30 percent in the extreme ultraviolet and an increase of about 40 percent in the far ultraviolet relative to preimpact observations. Changes in the extreme ultraviolet may be indicative of small changes in the torus electron temperature as a result of quenching of electrons by dust associated with the comet passage. However, no new emission features indicative of fragment dust within the torus were detected. The characteristic torus morphology seen in ground-based imaging was typical of that observed in the past.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉McGrath, M A -- Hall, D T -- Matheson, P L -- Weaver, H A -- Trauger, J T -- Smith, T E -- Thomas, N -- Gladstone, R -- Schneider, N M -- Harris, W M -- New York, N.Y. -- Science. 1995 Mar 3;267(5202):1313-7.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Space Telescope Science Institute, Baltimore, MD 21218.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/7871429" target="_blank"〉PubMed〈/a〉
    Keywords: Atmosphere ; *Extraterrestrial Environment ; *Jupiter ; Magnetics ; *Solar System ; Sulfur/analysis ; Temperature
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 3
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    Hubble space telescope observations of comet p/shoemaker-levy 9 (1993e) (1994)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 1994-02-11
    Description: The Hubble Space Telescope observed the fragmented comet P/Shoemaker-Levy 9 (1993e) (P indicates that it is a periodic comet) on 1 July 1993. Approximately 20 individual nuclei and their comae were observed in images taken with the Planetary Camera. After subtraction of the comae light, the 11 brightest nuclei have magnitudes between approximately 23.7 and 24.8. Assuming that the geometric albedo is 0.04, these magnitudes imply that the nuclear diameters are in the range approximately 2.5 to 4.3 kilometers. If the density of each nucleus is 1 gram per cubic centimeter, the total energy deposited by the impact of these 11 nuclei into Jupiter's atmosphere next July will be approximately 4 x 10(30) ergs ( approximately 10(8) megatons of TNT). This latter number should be regarded as an upper limit because the nuclear magnitudes probably contain a small residual coma contribution. The Faint Object Spectrograph was used to search for fluorescence from OH, which is usually an excellent indicator of cometary activity. No OH emission was detected, and this can be translated into an upper limit on the water production rate of approximately 2 x 10(27) molecules per second.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Weaver, H A -- Feldman, P D -- A'hearn, M F -- Arpigny, C -- Brown, R A -- Helin, E F -- Levy, D H -- Marsden, B G -- Meech, K J -- Larson, S M -- Noll, K S -- Scotti, J V -- Sekanina, Z -- Shoemaker, C S -- Shoemaker, E M -- Smith, T E -- Storrs, A D -- Yeomans, D K -- Zellner, B -- New York, N.Y. -- Science. 1994 Feb 11;263(5148):787-91.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/17770832" 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
    Published by American Association for the Advancement of Science (AAAS)
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  • 4
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    ChIP-Enrich: gene set enrichment testing for ChIP-seq data (2014)
    Oxford University Press
    Details
    Publication Date: 2014-08-01
    Description: Gene set enrichment testing can enhance the biological interpretation of ChIP-seq data. Here, we develop a method, ChIP-Enrich, for this analysis which empirically adjusts for gene locus length (the length of the gene body and its surrounding non-coding sequence). Adjustment for gene locus length is necessary because it is often positively associated with the presence of one or more peaks and because many biologically defined gene sets have an excess of genes with longer or shorter gene locus lengths. Unlike alternative methods, ChIP-Enrich can account for the wide range of gene locus length-to-peak presence relationships (observed in ENCODE ChIP-seq data sets). We show that ChIP-Enrich has a well-calibrated type I error rate using permuted ENCODE ChIP-seq data sets; in contrast, two commonly used gene set enrichment methods, Fisher's exact test and the binomial test implemented in Genomic Regions Enrichment of Annotations Tool (GREAT), can have highly inflated type I error rates and biases in ranking. We identify DNA-binding proteins, including CTCF, JunD and glucocorticoid receptor α (GRα), that show different enrichment patterns for peaks closer to versus further from transcription start sites. We also identify known and potential new biological functions of GRα. ChIP-Enrich is available as a web interface ( http://chip-enrich.med.umich.edu ) and Bioconductor package.
    Keywords: Computational Methods, Genomics
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
    Published by Oxford University Press
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  • 5
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    Field determination of biomass burning emission ratios and factors via open-path FTIR spectroscopy and fire radiative power assessment: headfire, backfire and residual smouldering combustion in African savannahs (2012)
    European Geosciences Union
    Details
    Publication Date: 2017-04-04
    Description: Biomass burning emissions factors are vital to quantifying trace gas release from vegetation fires. Here we evaluate emissions factors for a series of savannah fires in Kruger National Park (KNP), South Africa using ground-based open path Fourier transform infrared (FTIR) spectroscopy and an IR source separated by 150–250 m distance. Molecular abundances along the extended open path are retrieved using a spectral forward model coupled to a non-linear least squares fitting approach. We demonstrate derivation of trace gas column amounts for horizontal paths transecting the width of the advected plume, and find for example that CO mixing ratio changes of ~0.01 μmol mol−1 [10 ppbv] can be detected across the relatively long optical paths used here. Though FTIR spectroscopy can detect dozens of different chemical species present in vegetation fire smoke, we focus our analysis on five key combustion products released preferentially during the pyrolysis (CH2O), flaming (CO2) and smoldering (CO, CH4, NH3) processes. We demonstrate that well constrained emissions ratios for these gases to both CO2 and CO can be derived for the backfire, headfire and residual smouldering combustion (RSC) stages of these savannah fires, from which stage-specific emission factors can then be calculated. Headfires and backfires often show similar emission ratios and emission factors, but those of the RSC stage can differ substantially. The timing of each fire stage was identified via airborne optical and thermal IR imagery and ground-observer reports, with the airborne IR imagery also used to derive estimates of fire radiative energy (FRE), allowing the relative amount of fuel burned in each stage to be calculated and "fire averaged" emission ratios and emission factors to be determined. These "fire averaged" metrics are dominated by the headfire contribution, since the FRE data indicate that the vast majority of the fuel is burned in this stage. Our fire averaged emission ratios and factors for CO2 and CH4 agree well with those from prior studies conducted in the same area using e.g. airborne plume sampling. We also concur with past suggestions that emission factors for formaldehyde in this environment appear substantially underestimated in widely used databases, but see no evidence to support suggestions by Sinha et al. (2003) of a major overestimation in the emission factor of ammonia in works such as Andreae and Merlet (2001) and Akagi et al. (2011). We also measure somewhat higher CO and NH3 emission ratios and factors than are usually reported for this environment, which is interpreted to result from the OP-FTIR ground-based technique sampling a greater proportion of smoke from smouldering processes than is generally the case with methods such as airborne sampling. Finally, our results suggest that the contribution of burning animal (elephant) dung can be a significant factor in the emissions characteristics of certain KNP fires, and that the ability of remotely sensed fire temperatures to provide information useful in tailoring modified combustion efficiency (MCE) and emissions factor estimates maybe rather limited, at least until the generally available precision of such temperature estimates can be substantially improved. One limitation of the OP-FTIR method is its ability to sample only near-ground level smoke, which may limit application at more intense fires where the majority of smoke is released into a vertically rising convection column. Nevertheless, even in such cases the method potentially enables a much better assessment of the emissions contribution of the RSC stage than is typically conducted currently.
    Description: Published
    Description: 11591-11615
    Description: 1.10. TTC - Telerilevamento
    Description: JCR Journal
    Description: open
    Keywords: X-ray computed microtomography ; preferred orientation ; texture analysis ; volcanic scoria ; synchrotron X-rays ; pumice ; 01. Atmosphere::01.01. Atmosphere::01.01.02. Climate ; 01. Atmosphere::01.01. Atmosphere::01.01.05. Radiation ; 01. Atmosphere::01.02. Ionosphere::01.02.06. Instruments and techniques
    Repository Name: Istituto Nazionale di Geofisica e Vulcanologia (INGV)
    Type: article
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  • 6
    Electronic Resource
    Electronic Resource
    Refractive Index-Temperature Data for Anhydrous Ethyl Alcohol (1952)
    s.l. : American Chemical Society
    Analytical chemistry 24 (1952), S. 517-518 
    Details
    ISSN: 1520-6882
    Source: ACS Legacy Archives
    Topics: Chemistry and Pharmacology
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1021/ac60063a025
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  • 7
    Electronic Resource
    Electronic Resource
    Studies on the Mechanism of Action of Monoamine Oxidase: Metabolism of N,N-Dimethyltryptamine and N,N-Dimethyltryptamine-N-Oxide (1962)
    s.l. : American Chemical Society
    Biochemistry 1 (1962), S. 137-143 
    Details
    ISSN: 1520-4995
    Source: ACS Legacy Archives
    Topics: Biology , Chemistry and Pharmacology
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1021/bi00907a021
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  • 8
    Electronic Resource
    Electronic Resource
    Optimal search on spatial paths with recall, Part II: Computational procedures and examples (2000)
    Oxford, UK : Blackwell Publishing Ltd
    Papers in regional science 79 (2000), S. 0 
    Details
    ISSN: 1435-5957
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Geography , Economics
    Notes: Abstract. This is the second part of a two-part analysis of optimal spatial search begun in Harwitz et al. (1998). In the present article, two explicit computational procedures are developed for the optimal spatial search problem studied in Part I. The first uses reservation prices with continuous known distributions of prices and is illustrated for three stores. The second does not use reservation prices but assumes known discrete distributions. It is a numerical approximation to the first and also a tool for examining examples with larger numbers of stores.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1111/j.1435-5597.2000.tb00773.x
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  • 9
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    The Malayan Elections of 1959 (1960)
    Honolulu, etc. : Periodicals Archive Online (PAO)
    Pacific Affairs. 33:1 (1960:Mar.) 38 
    Details
    ISSN: 0030-851X
    Topics: Political Science , Sociology , Economics
    URL: http://gateway.proquest.com/openurl?url_ver=Z39.88-2004&res_dat=xri:pao:&rft_dat=xri:pao:article:5082-1960-033-01-000003
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  • 10
    Electronic Resource
    Electronic Resource
    Disassociation of Heart Cells by Collagenase (1963)
    [s.l.] : Nature Publishing Group
    Nature 200 (1963), S. 261-262 
    Details
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] The criteria for a suitable disassociating enzyme were: (a) cell damage must be minimized; (b) cell yield should be high; (c) the mucus-like strands which appear during trypsinization should be absent; (d) the ionic environment during disassociation should be normal. It was observed that, using ...
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1038/200261b0
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