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  • 1
    Publication Date: 2003-08-11
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
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  • 2
    Publication Date: 2016-07-31
    Description: We explore the effect of varying the mass of a seed black hole on the resulting black hole mass–bulge mass relation at z ~ 0, using a semi-analytic model of galaxy formation combined with large cosmological N -body simulations. We constrain our model by requiring that the observed properties of galaxies at z ~ 0 are reproduced. In keeping with previous semi-analytic models, we place a seed black hole immediately after a galaxy forms. When the mass of the seed is set at 10 5 M , we find that the model results become inconsistent with recent observational results of the black hole mass–bulge mass relation for dwarf galaxies. In particular, the model predicts that bulges with ~10 9 M harbour larger black holes than observed. On the other hand, when we employ seed black holes of 10 3 M or select their mass randomly within a 10 3–5 M range, the resulting relation is consistent with observation estimates, including the observed dispersion. We find that, to obtain stronger constraints on the mass of seed black holes, observations of less massive bulges at z ~ 0 are a more powerful comparison than the relations at higher redshifts.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 3
    Publication Date: 2015-11-25
    Description: We investigate clustering properties of quasars using a new version of our semi-analytic model of galaxy and quasar formation with state-of-the-art cosmological N -body simulations. In this study, we assume that a major merger of galaxies triggers cold gas accretion on to a supermassive black hole and quasar activity. Our model can reproduce the downsizing trend of the evolution of quasars. We find that the median mass of quasar host dark matter haloes increases with cosmic time by an order of magnitude from z  = 4 (a few 10 11 M ) to z  = 1 (a few 10 12 M ), and depends only weakly on the quasar luminosity. Deriving the quasar bias through the quasar–galaxy cross-correlation function in the model, we find that the quasar bias does not depend on the quasar luminosity, similar to observed trends. This result reflects the fact that quasars with a fixed luminosity have various Eddington ratios and thus have various host halo masses that primarily determine the quasar bias. We also show that the quasar bias increases with redshift, which is in qualitative agreement with observations. Our bias value is lower than the observed values at high redshifts, implying that we need some mechanisms that make quasars inactive in low-mass haloes and/or that make them more active in high-mass haloes.
    Print ISSN: 1745-3925
    Electronic ISSN: 1745-3933
    Topics: Physics
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  • 4
    Publication Date: 2012-06-06
    Description: Effects of all- trans retinoic acid (ATRA) on sphingomyelinase expression were examined using MCF-7 (ATRA-sensitive) and MDA-MB-231 (ATRA-resistant) breast cancer cells. Increased NSMase activity, NSMase2 mRNA and protein were observed in ATRA-treated MCF-7 but not in ATRA-treated MDA-MB-231. Increased NSMase2 mRNA of ATRA-treated MCF-7 was mostly due to enhanced transcription. Promoter analysis revealed the important 5'-promoter region of NSMase2 between –148 and –42 bp containing three Sp1 sites but no retinoic acid responsive elements. Experiments using mutated Sp1 sites of the NSMase2 promoter, Mithramycin A (a Sp inhibitor) and Sp family over-expression demonstrated the importance of Sp family protein and the three Sp1 sites for ATRA-induced NSMase2 transcription of MCF-7 cells. Although no quantitative change of bound Sp1 on NSMase2 promoter region after ATRA treatment was detected, Sp1 phosphorylation (activation) by ATRA was observed. Interestingly, PKC was involved in ATRA-induced increased NSMase2 transcription. ATRA-induced PKC phosphorylation and then activated PKC phosphorylated Sp1. Chromatin immunoprecipitation (ChIP) assay showed Sp1, RARα and RXRα complex formation in MCF-7 cells regardless of ATRA treatment and ATRA-induced acetylated histone H3 of the 5'-promoter. Thus, NSMase2 mRNA expression enhanced by ATRA was due to increased transcription via phosphorylated Sp1 caused by PKC activation, followed by chromatin remodelling with histone H3 acetylation.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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  • 5
    Publication Date: 2014-04-29
    Description: Potassium (K + )-uptake transport proteins present in prokaryote and eukaryote cells are categorized into two classes; Trk/Ktr/HKT, K + channel, and Kdp belong to the same superfamily, whereas the remaining K + -uptake family, Kup/HAK/KT has no homology to the others, and neither its membrane topology nor crucial residues for K + uptake have been identified. We examined the topology of Kup from Escherichia coli . Results from the reporter fusion and cysteine labeling assays support a model with 12 membrane-spanning domains. A model for proton-coupled K + uptake mediated by Kup has been proposed. However, this study did not show any stimulation of Kup activity at low pH and any evidence of involvement of the three His in Kup-mediated K + uptake. Moreover, replacement of all four cysteines of Kup with serine did not abolish K + transport activity. To gain insight on crucial residues of Kup-mediated K + uptake activity, we focused on acidic residues in the predicted external and transmembrane regions, and identified four residues in the membrane regions required for K + uptake activity. This is different from no membrane-localized acidic residues essential for Trk/Ktr/HKTs, K + channels and Kdp. Taken together, these results demonstrate that Kup belongs to a distinct type of K + transport system.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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  • 6
    Publication Date: 2014-04-25
    Description: We present a new version of a semi-analytic model of cosmological galaxy formation, incorporating a star formation law with a feedback depending on the galaxy-scale mean dust opacity and metallicity, motivated by recent observations of star formation in nearby galaxies and theoretical considerations. This new model is used to investigate the effect of such a feedback on shaping the galaxy luminosity function and its evolution. Star formation activity is significantly suppressed in dwarf galaxies by the new feedback effect, and the faint-end slope of local luminosity functions can be reproduced with a reasonable strength of supernova feedback, which is in contrast to the previous models that require a rather extreme strength of supernova feedback. Our model can also reproduce the early appearance of massive galaxies manifested in the bright-end of high-redshift K -band luminosity functions. Though some of the previous models also succeeded in reproducing this, they assumed a star formation law depending on the galaxy-scale dynamical time, which is not supported by observations. We argue that the feedback depending on dust opacity (or metal column density) is essential, rather than that simply depending on gas column density, to get these results.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 7
    Publication Date: 2014-03-27
    Description: Glioblastomas frequently harbour genetic lesions that stimulate the activity of mammalian target of rapamycin complex 1 (mTORC1). Loss of heterozygosity of tuberous sclerosis complex 1 ( TSC1 ) or TSC2 , which together form a critical negative regulator of mTORC1, is also seen in glioblastoma; however, it is not known how loss of the TSC complex affects the development of malignant gliomas. Here we investigated the role of Tsc1 in gliomagenesis in mice. Tsc1 deficiency up-regulated mTORC1 activity and suppressed the proliferation of neural stem/progenitor cells (NSPCs) in a serial neurosphere-forming assay, suggesting that Tsc1 -deficient NSPCs have defective self-renewal activity. The neurosphere-forming capacity of Tsc1 -deficient NSPCs was restored by p16 Ink4a p19 Arf deficiency. Combined Tsc1 and p16 Ink4a p19 Arf deficiency in NSPCs did not cause gliomagenesis in vivo . However, in a glioma model driven by an active mutant of epidermal growth factor receptor (EGFR), EGFRvIII, loss of Tsc1 resulted in an earlier onset of glioma development. The mTORC1 hyperactivation by Tsc1 deletion accelerated malignant phenotypes, including increased tumour mass and enhanced microvascular formation, leading to intracranial haemorrhage. These data demonstrate that, although mTORC1 hyperactivation itself may not be sufficient for gliomagenesis, it is a potent modifier of glioma development when combined with oncogenic signals.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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  • 8
    Publication Date: 2015-04-01
    Description: Current constraints on dark matter density profiles from weak lensing are typically limited to radial scales greater than 50–100 kpc. In this paper, we explore the possibility of probing the very inner regions of galaxy/halo density profiles by measuring stacked weak lensing on scales of only a few tens of kpc. Our forecasts focus on scales smaller than the ‘equality radius' ( R eq ), where the stellar component and the dark matter component contribute equally to the lensing signal. We compute the evolution of R eq as a function of lens stellar mass and redshift and show that R eq  = 7–34 kpc for galaxies with M *  = 10 9.5 –10 11.5  M . Unbiased shear measurements will be challenging on these scales. We introduce a simple metric to quantify how many source galaxies overlap with their neighbours and for which shear measurements will be challenging. Rejecting source galaxies with close-by companions results in an ~20 per cent decrease in the overall source density. Despite this decrease, we show that Euclid and Wide Field Infrared Survey Telescope will be able to constrain galaxy/halo density profiles at R eq with S/N 〉20 for M *  〉 10 10 M . Weak lensing measurements at R eq , in combination with stellar kinematics on smaller scales, will be a powerful means by which to constrain both the inner slope of the dark matter density profile as well as the mass and redshift dependence of the stellar initial mass function.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 9
    Publication Date: 2015-03-29
    Description: We have investigated effects of dust attenuation on quasar luminosity functions at z  ~ 2 using a semi-analytic galaxy formation model combined with a large cosmological N -body simulation. We estimate the dust attenuation of quasars self-consistently with that of galaxies by considering the dust in their host bulges. We find that the luminosity of the bright quasars is strongly dimmed by the dust attenuation, ~2 mag in the B -band. Assuming the empirical bolometric corrections for active galactic nuclei (AGNs) by Marconi et al., we find that this dust attenuation is too strong to explain the B -band and X-ray quasar luminosity functions simultaneously. We consider two possible mechanisms that weaken the dust attenuation. As such a mechanism, we introduce a time delay for AGN activity, that is, gas fuelling to a central black hole starts sometime after the beginning of the starburst induced by a major merger. The other is the anisotropy in the dust distribution. We find that in order to make the dust attenuation of the quasars negligible, either the gas accretion into the black holes has to be delayed at least three times the dynamical time-scale of their host bulges or the dust covering factor is as small as ~0.1.
    Print ISSN: 1745-3925
    Electronic ISSN: 1745-3933
    Topics: Physics
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  • 10
    Publication Date: 2013-02-02
    Description: PIWI-interacting RNA (piRNA) clusters act as anti-transposon/retrovirus centers. Integration of selfish jumping elements into piRNA clusters generates de novo piRNAs, which in turn exert trans -silencing activity against these elements in animal gonads. To date, neither genome-wide chromatin modification states of piRNA clusters nor a mode for piRNA precursor transcription have been well understood. Here, to understand the chromatin landscape of piRNA clusters and how piRNA precursors are generated, we analyzed the transcriptome, transcription start sites (TSSs) and the chromatin landscape of the BmN4 cell line, which harbors the germ-line piRNA pathway. Notably, our epigenomic map demonstrated the highly euchromatic nature of unique piRNA clusters. RNA polymerase II was enriched for TSSs that transcribe piRNA precursors. piRNA precursors possessed 5'-cap structures as well as 3'-poly A-tails. Collectively, we envision that the euchromatic, opened nature of unique piRNA clusters or piRNA cluster-associated TSSs allows piRNA clusters to capture new insertions efficiently.
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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