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  • 1
    Publication Date: 2015-09-16
    Description: We performed a 22 GHz H 2 O maser survey towards 221 Bolocam Galactic Plane Survey (BGPS) sources. We detected 107 H 2 O masers, of which 12 are new. The detection rate is 48.4 per cent for our sample. We obtained the positions of five new H 2 O masers via On The Fly (OTF) observations. The detection rate of H 2 O masers is correlated with continuum emission fluxes of BGPS sources at far-infrared, sub-millimetre and millimetre wavelengths. We employed the classification of Dunham et al. to classify the evolutionary stage of BGPS sources into Group 0, 1, 2, and 3. The detection rate and velocity range of H 2 O masers increases as the BGPS sources evolve from Group 1 to Group 3. The BGPS sources associated with both H 2 O and CH 3 OH masers are more compact than that associated with either only H 2 O or only CH 3 OH masers. This indicates that the sources associated with both H 2 O and CH 3 OH masers are in relative later evolutionary stage. The detection rate of H 2 O masers towards BGPS sources displaying evidence of the collapse phenomenon is 62.1 per cent, which suggests that most BGPS sources showing indications of collapse phenomena contain ongoing active star formation activities.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 2
    Publication Date: 2015-09-27
    Description: We performed a 22 GHz H 2 O maser survey towards 221 Bolocam Galactic Plane Survey (BGPS) sources. We detected 107 H 2 O masers, of which 12 are new. The detection rate is 48.4 per cent for our sample. We obtained the positions of five new H 2 O masers via On The Fly (OTF) observations. The detection rate of H 2 O masers is correlated with continuum emission fluxes of BGPS sources at far-infrared, sub-millimetre and millimetre wavelengths. We employed the classification of Dunham et al. to classify the evolutionary stage of BGPS sources into Group 0, 1, 2, and 3. The detection rate and velocity range of H 2 O masers increases as the BGPS sources evolve from Group 1 to Group 3. The BGPS sources associated with both H 2 O and CH 3 OH masers are more compact than that associated with either only H 2 O or only CH 3 OH masers. This indicates that the sources associated with both H 2 O and CH 3 OH masers are in relative later evolutionary stage. The detection rate of H 2 O masers towards BGPS sources displaying evidence of the collapse phenomenon is 62.1 per cent, which suggests that most BGPS sources showing indications of collapse phenomena contain ongoing active star formation activities.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 3
    Publication Date: 2015-01-23
    Description: Due to having strong anisotropy in their polarization state and spatial structure, it is believed that kinetic Alfvén waves (KAWs) can play an important role in various energization phenomena of plasma particles and the fine-structure formation in magneto-plasma environments. The filamentous fine-structures are a kind of the common density inhomogeneity phenomena in magneto-plasmas, and hence, the density gradient is one of the sources of free energy that can lead to KAWs instabilities. In this paper, based on the two-fluid model in which ions and electrons are treated as separate fluids, we investigate the effect of density gradient inhomogeneous on the dispersion and instability of KAWs in a magneto-plasma. The results show that KAW instability can be excited effectively by the density gradient. Especially, both the real frequency ω R and the growth rate ω I of KAWs are dramatically dependent on the spatial position x in the presence of an inhomogeneous density gradient. The results also show that the real frequency increases with the characteristic spatial scale of inhomogeneity , while the growth rate of KAWs has maximum in the growing ranges of . On the other hand, the excited KAWs are weakly dispersive with λ e k x  〈 1. The results have potential importance for better understanding the microphysics of the filamentous fine-structure formation since the phenomena of density gradient inhomogeneous are ubiquitous in various magneto-plasmas, such as in the laboratory plasma as well as in both the solar coronal and terrestrial auroral plasmas.
    Print ISSN: 0148-0227
    Topics: Geosciences , Physics
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 4
    Publication Date: 2015-04-22
    Description: The interplay between structural properties and charge transfer in self-assembled quantum ring (QR) chains grown by molecular beam epitaxy on top of an InGaAs/GaAs quantum dot (QD) superlattice template is analyzed and characterized. The QDs and QRs are vertically stacked and laterally coupled as well as aligned within each layer due to the strain field distributions that governs the ordering. The strong interdot coupling influences the carrier transfer both along as well as between chains in the ring layer and dot template structures. A qualitative contrast between different dynamic models has been developed. By combining temperature and excitation intensity effects, the tuning of the photoluminescence gain for either the QR or the QD mode is attained. The information obtained here about relaxation parameters, energy scheme, interlayer and interdot coupling resulting in creation of 1D structures is very important for the usage of such specific QR–QD systems for applied purposes such as lasing, detection, and energy-harvesting technology of future solar panels.
    Print ISSN: 0021-8979
    Electronic ISSN: 1089-7550
    Topics: Physics
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  • 5
    Publication Date: 2012-02-28
    Description: Synthetic scaffolds that permit spatial and temporal organization of enzymes in living cells are a promising post-translational strategy for controlling the flow of information in both metabolic and signaling pathways. Here, we describe the use of plasmid DNA as a stable, robust and configurable scaffold for arranging biosynthetic enzymes in the cytoplasm of Escherichia coli . This involved conversion of individual enzymes into custom DNA-binding proteins by genetic fusion to zinc-finger domains that specifically bind unique DNA sequences. When expressed in cells that carried a rationally designed DNA scaffold comprising corresponding zinc finger binding sites, the titers of diverse metabolic products, including resveratrol, 1,2-propanediol and mevalonate were increased as a function of the scaffold architecture. These results highlight the utility of DNA scaffolds for assembling biosynthetic enzymes into functional metabolic structures. Beyond metabolism, we anticipate that DNA scaffolds may be useful in sequestering different types of enzymes for specifying the output of biological signaling pathways or for coordinating other assembly-line processes such as protein folding, degradation and post-translational modifications.
    Keywords: Synthetic Biology and Assembly Cloning
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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  • 6
    Publication Date: 2012-08-08
    Description: Motivation: The human microbiome plays an important role in human disease and health. Identification of factors that affect the microbiome composition can provide insights into disease mechanism as well as suggest ways to modulate the microbiome composition for therapeutical purposes. Distance-based statistical tests have been applied to test the association of microbiome composition with environmental or biological covariates. The unweighted and weighted UniFrac distances are the most widely used distance measures. However, these two measures assign too much weight either to rare lineages or to most abundant lineages, which can lead to loss of power when the important composition change occurs in moderately abundant lineages. Results: We develop generalized UniFrac distances that extend the weighted and unweighted UniFrac distances for detecting a much wider range of biologically relevant changes. We evaluate the use of generalized UniFrac distances in associating microbiome composition with environmental covariates using extensive Monte Carlo simulations. Our results show that tests using the unweighted and weighted UniFrac distances are less powerful in detecting abundance change in moderately abundant lineages. In contrast, the generalized UniFrac distance is most powerful in detecting such changes, yet it retains nearly all its power for detecting rare and highly abundant lineages. The generalized UniFrac distance also has an overall better power than the joint use of unweighted/weighted UniFrac distances. Application to two real microbiome datasets has demonstrated gains in power in testing the associations between human microbiome and diet intakes and habitual smoking. Availability: http://cran.r-project.org/web/packages/GUniFrac Contact: hongzhe@upenn.edu Supplementary information: Supplementary data are available at Bioinformatics online.
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
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  • 7
    Publication Date: 2013-12-29
    Description: Reactome ( http://www.reactome.org ) is a manually curated open-source open-data resource of human pathways and reactions. The current version 46 describes 7088 human proteins (34% of the predicted human proteome), participating in 6744 reactions based on data extracted from 15 107 research publications with PubMed links. The Reactome Web site and analysis tool set have been completely redesigned to increase speed, flexibility and user friendliness. The data model has been extended to support annotation of disease processes due to infectious agents and to mutation.
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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  • 8
    Publication Date: 2018-03-07
    Description: Publisher Correction: Beyond a phenomenological description of magnetostriction Publisher Correction: Beyond a phenomenological description of magnetostriction, Published online: 07 March 2018; doi:10.1038/s41467-018-03389-4 Publisher Correction: Beyond a phenomenological description of magnetostriction
    Electronic ISSN: 2041-1723
    Topics: Biology , Chemistry and Pharmacology , Natural Sciences in General , Physics
    Published by Springer Nature
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  • 9
    Publication Date: 2017-01-08
    Description: Type III solar radio bursts (SRBs) produced by fast electron beams (FEBs) traveling along solar magnetic fields are the best known and the most important kind of SRBs because of their clearest association with FEBs as well as most frequent observations during solar activities. However, the physics of their emitting mechanism has been a controversial issue. Based on the electron cyclotron maser (ECM) instability driven directly by a magnetized FEB, whose physics is fairly well known from the Earth's auroral kilometric radiation, this paper proposes a self-consistent mechanism for type III SRBs, in which the Alfvén wave (AW) produced by the current instability of the beam-return current system associated with the FEB, called the self-generated AW, plays an important and crucial role. Taking into account of the return-current effect of the FEB, the growth rate and the saturation intensity of the self-generated AW are estimated. Then the effects of the self-generated AW on the ECM emission via the ECM instability driven by the magnetized FEB are further investigated. The results show that the self-generated AW can significantly influence and change the physical properties of the ECM emission. In particular, this novel ECM-emission mechanism can effectively overcome the main difficulties of the conventional ECM-emission mechanism in application to type III SRBs and may potentially provide a self-consistent physics scenario for type III SRBs.
    Print ISSN: 0148-0227
    Topics: Geosciences , Physics
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 10
    Publication Date: 2015-02-26
    Description: Iron oxides compounds constitute an important component of mineral dust aerosol. Several previous studies have shown that these minerals are strong absorbers at visible wavelengths and thus that they play a critical role in the overall climate forcing caused by dust aerosol. When compiling a database of complex refractive indices of possible mineral species of iron-oxides to study their optical properties, we found that uniformly continuous optical constants for a single type of iron-oxides in the wavelength range between 0.2 and 50 μm is very scarce and that the use of hematite to represent all molecular or mineral iron-oxides types is a popular hypothesis. However, the crucial problem is that three continuous datasets for complex refractive indices of hematite are employed in climate models, but there are significant differences between them. Thus, the real role of iron-oxides in the optical properties of dust aerosols becomes a key scientific question, and we address this problem by considering different refractive indices, size distributions, and more logical weight fractions and mixing states of hematite. Based on the microscopic observations, a semi-external mixture that employs an external mixture between Fe-aggregates and other minerals and partly internal mixing between iron-oxides and aluminosilicate particles is advised as the optimal approximation. The simulations demonstrate that hematite with a spectral refractive indices from Longtin et al. (1988) shows approximately equal absorbing capacity to the mineral illite over the whole wavelength region from 0.55 to 2.5 μm, and only enhances the optical absorption of aerosol mixture at λ 〈 0.55 μm. Using the dataset from Querry (1985) may overestimate the optical absorption of hematite at both visible and near-infrared wavelengths. More laboratory measurements of the refractive index of iron-oxides, especially for hematite and goethite in the visible spectrum, should therefore be taken into account when assessing the effect of mineral dust on climate forcing.
    Electronic ISSN: 1680-7375
    Topics: Geosciences
    Published by Copernicus on behalf of European Geosciences Union.
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