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  • 1
    Electronic Resource
    Electronic Resource
    Release of vasoactive intestinal peptide from rat jejuno-ileum in vitro. Effect of various depolarizing agents (1983)
    Springer
    Cellular and molecular life sciences 39 (1983), S. 732-733 
    Details
    ISSN: 1420-9071
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Summary Vasoactive intestinal peptide (VIP) can be released in vitro from intestinal slices under veratridine and batrachotoxin depolarization, whereas potassium depolarization has no effect. The lack of an effect of potassium observed in this peripheral preparation is different from the positive action described for it in the CNS. The present dat suggest that VIP can be released through different mechanisms in the peripheral and central nervous system.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF01990297
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  • 2
    Electronic Resource
    Electronic Resource
    Development of insulin and epidermal growth factor receptors during the differentiation of rat preadipocytes in primary culture
    Amsterdam : Elsevier
    Biochimica et Biophysica Acta (BBA)/Molecular Cell Research 968 (1988), S. 231-238 
    Details
    ISSN: 0167-4889
    Keywords: (Rat preadipocyte) ; Differentiation ; Epidermal growth factor receptor ; Insulin receptor
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology , Chemistry and Pharmacology , Medicine , Physics
    Type of Medium: Electronic Resource
    URL: http://linkinghub.elsevier.com/retrieve/pii/0167-4889(88)90012-2
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  • 3
    Electronic Resource
    Electronic Resource
    Directional sensitivity of auditory neurons in the superior colliculus of the bat,Eptesicus fuscus, using free field sound stimulation (1984)
    Springer
    Journal of comparative physiology 154 (1984), S. 253-261 
    Details
    ISSN: 1432-1351
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Summary Electrophysiological recordings were made from 130 single neurons of the superior colliculus (SC) of big brown bats,Eptesicus fuscus, in order to test their general as well as directional auditory response properties. Bursts of constant frequency and frequency modulated signals were broadcasted through a condenser loudspeaker, which could be placed at any azimuth and elevation on a hemisphere in front of the bat's head. The SC units responded equally well to both types of signals. The best frequencies of SC neurons ranged from 25 up to 82 kHz, and their tuning curves appeared to be broad (compared to those of the main auditory nuclei of the same and other bats) with Q10dB values of 1.8–17.5. All units encountered revealed directional sensitivity and were classified in two groups: the majority of them had a constant best angle of response (BA) whatever the sound intensity was (unidirectional type); the others showed a shift in their BA towards the center of the stimulating hemisphere as the intensity decreased (pluridirectional type). In both response types, the BA results are corroborated by the properties of the receptive fields. The presence of an auditory ‘space map’ in the horizontal plane is not obvious for the superior colliculus of this bat.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1007/BF00604991
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    Paper (German National Licenses)
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  • 4
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    Leading Indicators: A Tool for Corporate Forecasting (1973)
    Cambridge, Mass. : Periodicals Archive Online (PAO)
    Sloan management review. 14:3 (1973:Spring) 47 
    Details
    ISSN: 0019-848X
    Topics: Economics
    URL: http://gateway.proquest.com/openurl?url_ver=Z39.88-2004&res_dat=xri:pao:&rft_dat=xri:pao:article:m158-1973-014-03-000005
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  • 5
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    A crowd-sourcing approach for the construction of species-specific cell signaling networks (2015)
    Oxford University Press
    Details
    Publication Date: 2015-02-13
    Description: Motivation: Animal models are important tools in drug discovery and for understanding human biology in general. However, many drugs that initially show promising results in rodents fail in later stages of clinical trials. Understanding the commonalities and differences between human and rat cell signaling networks can lead to better experimental designs, improved allocation of resources and ultimately better drugs. Results: The sbv IMPROVER Species-Specific Network Inference challenge was designed to use the power of the crowds to build two species-specific cell signaling networks given phosphoproteomics, transcriptomics and cytokine data generated from NHBE and NRBE cells exposed to various stimuli. A common literature-inspired reference network with 220 nodes and 501 edges was also provided as prior knowledge from which challenge participants could add or remove edges but not nodes. Such a large network inference challenge not based on synthetic simulations but on real data presented unique difficulties in scoring and interpreting the results. Because any prior knowledge about the networks was already provided to the participants for reference, novel ways for scoring and aggregating the results were developed. Two human and rat consensus networks were obtained by combining all the inferred networks. Further analysis showed that major signaling pathways were conserved between the two species with only isolated components diverging, as in the case of ribosomal S6 kinase RPS6KA1. Overall, the consensus between inferred edges was relatively high with the exception of the downstream targets of transcription factors, which seemed more difficult to predict. Contact: ebilal@us.ibm.com or gustavo@us.ibm.com . Supplementary information: Supplementary data are available at Bioinformatics online.
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
    Published by Oxford University Press
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  • 6
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    Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge (2015)
    Oxford University Press
    Details
    Publication Date: 2015-02-13
    Description: Motivation: Inferring how humans respond to external cues such as drugs, chemicals, viruses or hormones is an essential question in biomedicine. Very often, however, this question cannot be addressed because it is not possible to perform experiments in humans. A reasonable alternative consists of generating responses in animal models and ‘translating’ those results to humans. The limitations of such translation, however, are far from clear, and systematic assessments of its actual potential are urgently needed. sbv IMPROVER ( s ystems b iology v erification for I ndustrial M ethodology for PRO cess VE rification in R esearch) was designed as a series of challenges to address translatability between humans and rodents. This collaborative crowd-sourcing initiative invited scientists from around the world to apply their own computational methodologies on a multilayer systems biology dataset composed of phosphoproteomics, transcriptomics and cytokine data derived from normal human and rat bronchial epithelial cells exposed in parallel to 52 different stimuli under identical conditions. Our aim was to understand the limits of species-to-species translatability at different levels of biological organization: signaling, transcriptional and release of secreted factors (such as cytokines). Participating teams submitted 49 different solutions across the sub-challenges, two-thirds of which were statistically significantly better than random. Additionally, similar computational methods were found to range widely in their performance within the same challenge, and no single method emerged as a clear winner across all sub-challenges. Finally, computational methods were able to effectively translate some specific stimuli and biological processes in the lung epithelial system, such as DNA synthesis, cytoskeleton and extracellular matrix, translation, immune/inflammation and growth factor/proliferation pathways, better than the expected response similarity between species. Contact: pmeyerr@us.ibm.com or Julia.Hoeng@pmi.com Supplementary information: Supplementary data are available at Bioinformatics online.
    Print ISSN: 1367-4803
    Electronic ISSN: 1460-2059
    Topics: Biology , Computer Science , Medicine
    Published by Oxford University Press
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  • 7
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    Structural Basis of Natural Promoter Recognition by the Retinoid X Nuclear Receptor (2015)
    Springer Nature
    Details
    Publication Date: 2015-02-04
    Description: Retinoid X receptors (RXRs) act as homodimers or heterodimerisation partners of class II nuclear receptors. RXR homo- and heterodimers bind direct repeats of the half-site (A/G)G(G/T)TCA separated by 1 nucleotide (DR1). We present a structural characterization of RXR-DNA binding domain (DBD) homodimers on several natural DR1s and an idealized symmetric DR1. Homodimers displayed asymmetric binding, with critical high-affinity interactions accounting for the 3′ positioning of RXR in heterodimers on DR1s. Differing half-site and spacer DNA sequence induce changes in RXR-DBD homodimer conformation notably in the dimerization interface such that natural DR1s are bound with higher affinity than an idealized symmetric DR1. Subtle changes in the consensus DR1 DNA sequence therefore specify binding affinity through altered RXR-DBD-DNA contacts and changes in DBD conformation suggesting a general model whereby preferential half-site recognition determines polarity of heterodimer binding to response elements. Scientific Reports 5 doi: 10.1038/srep08216
    Electronic ISSN: 2045-2322
    Topics: Natural Sciences in General
    Published by Springer Nature
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  • 8
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    Release of vasoactive intestinal peptide from rat jejuno-ileum in vitro. Effect of various depolarizing agents (1983)
    Springer
    Details
    Publication Date: 1983-07-01
    Print ISSN: 0014-4754
    Topics: Biology , Medicine
    Published by Springer
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  • 9
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    Confero: an integrated contrast data and gene set platform for computational analysis and biological interpretation of omics data (2013)
    BioMed Central
    Details
    Publication Date: 2013-07-30
    Description: Background: High-throughput omics technologies such as microarrays and next-generation sequencing (NGS) have become indispensable tools in biological research. Computational analysis and biological interpretation of omics data can pose significant challenges due to a number of factors, in particular the systems integration required to fully exploit and compare data from different studies and/or technology platforms. In transcriptomics, the identification of differentially expressed genes when studying effect(s) or contrast(s) of interest constitutes the starting point for further downstream computational analysis (e.g. gene over-representation/enrichment analysis, reverse engineering) leading to mechanistic insights. Therefore, it is important to systematically store the full list of genes with their associated statistical analysis results (differential expression, t-statistics, p-value) corresponding to one or more effect(s) or contrast(s) of interest (shortly termed as " contrast data") in a comparable manner and extract gene sets in order to efficiently support downstream analyses and further leverage data on a long-term basis. Filling this gap would open new research perspectives for biologists to discover disease-related biomarkers and to support the understanding of molecular mechanisms underlying specific biological perturbation effects (e.g. disease, genetic, environmental, etc.). Results: To arrival of bioinformatics workflow management systems (e.g. Galaxy a transformation to enable cross-study and platform data comparison, and automatic extraction and storage of gene sets to build new a priori knowledge which is leveraged by integrated and extensible downstream computational analysis tools. Gene Set Enrichment Analysis (GSEA) and Over-Representation Analysis (ORA) are currently integrated as an analysis module as well as additional tools to support biological interpretation. Confero is a standalone system that also integrates with Galaxy, an open-source workflow management and data integration system.To illustrate Confero platform functionality we walk through major aspects of the Confero workflow and results using the Bioconductor estrogen package dataset. Conclusion: Confero provides a unique and flexible platform to support downstream computational analysis facilitating biological interpretation. The system has been designed in order to provide the researcher with a simple, innovative, and extensible solution to store and exploit analyzed data in a sustainable and reproducible manner thereby accelerating knowledge-driven research. Confero source code is freely available from http://sourceforge.net/projects/confero/.
    Electronic ISSN: 1471-2164
    Topics: Biology
    Published by BioMed Central
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  • 10
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    Frequent in-frame somatic deletions activate gp130 in inflammatory hepatocellular tumours (2008)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2008-11-21
    Description: Inflammatory hepatocellular adenomas are benign liver tumours defined by the presence of inflammatory infiltrates and by the increased expression of inflammatory proteins in tumour hepatocytes. Here we show a marked activation of the interleukin (IL)-6 signalling pathway in this tumour type; sequencing candidate genes pinpointed this response to somatic gain-of-function mutations in the IL6ST gene, which encodes the signalling co-receptor gp130. Indeed, 60% of inflammatory hepatocellular adenomas harbour small in-frame deletions that target the binding site of gp130 for IL-6, and expression of four different gp130 mutants in hepatocellular cells activates signal transducer and activator of transcription 3 (STAT3) in the absence of ligand. Furthermore, analysis of hepatocellular carcinomas revealed that rare gp130 alterations are always accompanied by beta-catenin-activating mutations, suggesting a cooperative effect of these signalling pathways in the malignant conversion of hepatocytes. The recurrent gain-of-function gp130 mutations in these human hepatocellular adenomas fully explains activation of the acute inflammatory phase observed in tumourous hepatocytes, and suggests that similar alterations may occur in other inflammatory epithelial tumours with STAT3 activation.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2695248/" 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/PMC2695248/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Rebouissou, Sandra -- Amessou, Mohamed -- Couchy, Gabrielle -- Poussin, Karine -- Imbeaud, Sandrine -- Pilati, Camilla -- Izard, Tina -- Balabaud, Charles -- Bioulac-Sage, Paulette -- Zucman-Rossi, Jessica -- AI055894/AI/NIAID NIH HHS/ -- AI067949/AI/NIAID NIH HHS/ -- GM071596/GM/NIGMS NIH HHS/ -- England -- Nature. 2009 Jan 8;457(7226):200-4. doi: 10.1038/nature07475. Epub 2008 Nov 19.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Inserm, U674, Genomique fonctionnelle des tumeurs solides, Paris F-75010, France.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19020503" target="_blank"〉PubMed〈/a〉
    Keywords: Adenoma, Liver Cell/*genetics/*pathology ; Cell Line, Tumor ; Cytokine Receptor gp130/*genetics/*metabolism ; Gene Expression Profiling ; Gene Expression Regulation, Neoplastic ; Humans ; Inflammation/genetics/pathology ; Interferons/metabolism ; Interleukin-6/metabolism ; STAT3 Transcription Factor/metabolism ; Sequence Deletion/*genetics ; Signal Transduction
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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