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  • American Association for the Advancement of Science (AAAS)
  • 1
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    [Report] Visualization and analysis of gene expression in tissue sections by spatial transcriptomics (2016)
    American Association for the Advancement of Science (AAAS)
    In: Science
    Details
    Publikationsdatum: 2016-07-01
    Beschreibung: Analysis of the pattern of proteins or messengerRNAs (mRNAs) in histological tissue sections is a cornerstone in biomedical research and diagnostics. This typically involves the visualization of a few proteins or expressed genes at a time. We have devised a strategy, which we call “spatial transcriptomics,” that allows visualization and quantitative analysis of the transcriptome with spatial resolution in individual tissue sections. By positioning histological sections on arrayed reverse transcription primers with unique positional barcodes, we demonstrate high-quality RNA-sequencing data with maintained two-dimensional positional information from the mouse brain and human breast cancer. Spatial transcriptomics provides quantitative gene expression data and visualization of the distribution of mRNAs within tissue sections and enables novel types of bioinformatics analyses, valuable in research and diagnostics. Authors: Patrik L. Ståhl, Fredrik Salmén, Sanja Vickovic, Anna Lundmark, José Fernández Navarro, Jens Magnusson, Stefania Giacomello, Michaela Asp, Jakub O. Westholm, Mikael Huss, Annelie Mollbrink, Sten Linnarsson, Simone Codeluppi, Åke Borg, Fredrik Pontén, Paul Igor Costea, Pelin Sahlén, Jan Mulder, Olaf Bergmann, Joakim Lundeberg, Jonas Frisén
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Geologie und Paläontologie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
    Standort Signatur Erwartet Verfügbarkeit
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  • 2
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    Rapid infection of oral mucosal-associated lymphoid tissue with simian immunodeficiency virus (1999)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 1999-08-24
    Beschreibung: The early events during infection with an immunodeficiency virus were followed by application of pathogenic simian immunodeficiency virus atraumatically to the tonsils of macaques. Analyses by virologic assays and in situ hybridization revealed that the infection started locally in the tonsils, a mucosal-associated lymphoid organ, and quickly spread to other lymphoid tissues. At day 3, there were few infected cells, but then the number increased rapidly, reaching a high plateau between days 4 and 7. The infection was not detected in the dendritic cell-rich squamous epithelium to which the virus was applied; instead, it was primarily in CD4+ tonsillar T cells, close to the specialized antigen-transporting epithelium of the tonsillar crypts. Transport of the virus and immune-activating stimuli across this epithelium would allow mucosal lymphoid tissue to function in the atraumatic transmission of immunodeficiency viruses.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Stahl-Hennig, C -- Steinman, R M -- Tenner-Racz, K -- Pope, M -- Stolte, N -- Matz-Rensing, K -- Grobschupff, G -- Raschdorff, B -- Hunsmann, G -- Racz, P -- AI 40874/AI/NIAID NIH HHS/ -- AI 40877/AI/NIAID NIH HHS/ -- AI 42129/AI/NIAID NIH HHS/ -- etc. -- New York, N.Y. -- Science. 1999 Aug 20;285(5431):1261-5.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉German Primate Center, 37077 Gottingen, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/10455052" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): Animals ; CD4-Positive T-Lymphocytes/virology ; Epithelium/virology ; Female ; In Situ Hybridization ; Leukocytes, Mononuclear/virology ; Lymph Nodes/virology ; Lymphoid Tissue/*virology ; Macaca mulatta ; Male ; Mouth Mucosa/*virology ; Palatine Tonsil/*virology ; Simian Acquired Immunodeficiency Syndrome/transmission/*virology ; Simian Immunodeficiency Virus/*physiology ; Viral Load ; Virus Replication
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
    Standort Signatur Erwartet Verfügbarkeit
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  • 3
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    Evolutionary dynamics of plant R-genes (2001)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 2001-06-26
    Beschreibung: Plant R-genes involved in gene-for-gene interactions with pathogens are expected to undergo coevolutionary arms races in which plant specificity and pathogen virulence continually adapt in response to each other. Lending support to this idea, the solvent-exposed amino acid residues of leucine-rich repeats, a region of R-genes involved in recognizing pathogens, often evolve at unusually fast rates. But within-species polymorphism is also common in R-genes, implying that the adaptive substitution process is not simply one of successive selective sweeps. Here we document these features in available data and discuss them in light of the evolutionary dynamics they likely reflect.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bergelson, J -- Kreitman, M -- Stahl, E A -- Tian, D -- R01 GM057994/GM/NIGMS NIH HHS/ -- New York, N.Y. -- Science. 2001 Jun 22;292(5525):2281-5.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Ecology and Evolution, University of Chicago, 1101 East 57th Street, Chicago, IL 60637, USA. jbergels@midway.uchicago.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/11423651" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): Alleles ; Amino Acid Substitution ; Arabidopsis/genetics ; *Evolution, Molecular ; *Genes, Plant ; Mutation ; *Plant Diseases ; Plant Proteins/chemistry/*genetics ; Plants/*genetics ; Polymorphism, Genetic ; Repetitive Sequences, Nucleic Acid
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
    Standort Signatur Erwartet Verfügbarkeit
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  • 4
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    Regulatory role for GTP-binding proteins in endocytosis (1989)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 1989-06-23
    Beschreibung: Guanosine 5'-triphosphate (GTP)-binding proteins have been implicated in the transport of newly synthesized proteins along the secretory pathway of yeast and mammalian cells. Early vesicle fusion events that follow receptor-mediated endocytosis as measured by three in vitro assays were blocked by guanosine 5'-O-(3-thiotriphosphate) and aluminum fluoride. The effect was specific for guanosine nucleotides and depended on the presence of cytosolic factors. Thus, GTP-binding proteins may also have a role in the transport of molecules along the endocytic pathway.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Mayorga, L S -- Diaz, R -- Stahl, P D -- AI 20015/AI/NIAID NIH HHS/ -- CA 12858/CA/NCI NIH HHS/ -- New York, N.Y. -- Science. 1989 Jun 23;244(4911):1475-7.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Cell Biology and Physiology, Washington University School of Medicine, St. Louis, MO 63110.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/2499930" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): Biological Transport/drug effects ; Cell Line ; Cell-Free System ; Cytosol/physiology ; Dinitrophenols/immunology/metabolism ; *Endocytosis/drug effects ; Exocytosis ; GTP-Binding Proteins/*physiology ; Glucuronidase/metabolism ; Guanosine 5'-O-(3-Thiotriphosphate) ; Guanosine Triphosphate/analogs & derivatives/pharmacology ; Immunoglobulin G/metabolism ; Immunosorbent Techniques ; Intracellular Membranes/physiology ; Macrophages/metabolism/ultrastructure ; Membrane Fusion/drug effects ; Organelles/ultrastructure ; Thionucleotides/pharmacology
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
    Standort Signatur Erwartet Verfügbarkeit
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  • 5
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    Regulation of gliogenesis in the central nervous system by the JAK-STAT signaling pathway (1997)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 1997-10-23
    Beschreibung: A mechanism by which members of the ciliary neurotrophic factor (CNTF)-leukemia inhibitory factor cytokine family regulate gliogenesis in the developing mammalian central nervous system was characterized. Activation of the CNTF receptor promoted differentiation of cerebral cortical precursor cells into astrocytes and inhibited differentiation of cortical precursors along a neuronal lineage. Although CNTF stimulated both the Janus kinase-signal transducer and activator of transcription (JAK-STAT) and Ras-mitogen-activated protein kinase signaling pathways in cortical precursor cells, the JAK-STAT signaling pathway selectively enhanced differentiation of these precursors along a glial lineage. These findings suggest that cytokine activation of the JAK-STAT signaling pathway may be a mechanism by which cell fate is controlled during mammalian development.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bonni, A -- Sun, Y -- Nadal-Vicens, M -- Bhatt, A -- Frank, D A -- Rozovsky, I -- Stahl, N -- Yancopoulos, G D -- Greenberg, M E -- NIHP30-HD 18655/HD/NICHD NIH HHS/ -- R01 CA43855/CA/NCI NIH HHS/ -- New York, N.Y. -- Science. 1997 Oct 17;278(5337):477-83.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Neuroscience, Children's Hospital, and Department of Neurobiology, Harvard Medical School, Boston, MA 02115, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/9334309" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): Animals ; Antigens, CD/metabolism ; Astrocytes/*cytology/drug effects/metabolism ; Cell Differentiation ; Cell Division ; Cell Lineage ; Cells, Cultured ; Cerebral Cortex/*cytology/embryology ; Ciliary Neurotrophic Factor ; Cytokine Receptor gp130 ; DNA-Binding Proteins/*metabolism ; Dimerization ; Glial Fibrillary Acidic Protein/biosynthesis ; Growth Inhibitors/metabolism/pharmacology ; *Interleukin-6 ; Janus Kinase 1 ; Leukemia Inhibitory Factor ; Leukemia Inhibitory Factor Receptor alpha Subunit ; Lymphokines/metabolism/pharmacology ; Membrane Glycoproteins/metabolism ; Nerve Growth Factors/pharmacology ; Nerve Tissue Proteins/metabolism/pharmacology ; Platelet-Derived Growth Factor/pharmacology ; Protein-Tyrosine Kinases/*metabolism ; Rats ; Receptor Protein-Tyrosine Kinases/metabolism ; Receptor, Ciliary Neurotrophic Factor ; Receptors, Cytokine/metabolism ; Receptors, Nerve Growth Factor/metabolism ; Receptors, OSM-LIF ; STAT1 Transcription Factor ; STAT3 Transcription Factor ; *Signal Transduction ; Stem Cells/cytology ; Trans-Activators/*metabolism
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
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  • 6
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    Chemistry. Palladium-catalyzed oxidation of organic chemicals with O2 (2005)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 2005-09-17
    Beschreibung: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Stahl, Shannon S -- New York, N.Y. -- Science. 2005 Sep 16;309(5742):1824-6.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Chemistry, University of Wisconsin, 1101 University Avenue, Madison, WI 53706, USA. stahl@chem.wisc.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/16166508" target="_blank"〉PubMed〈/a〉
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
    Standort Signatur Erwartet Verfügbarkeit
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  • 7
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    Botany. Plant cells CLEave their way to differentiation (2006)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 2006-08-12
    Beschreibung: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Simon, Rudiger -- Stahl, Yvonne -- New York, N.Y. -- Science. 2006 Aug 11;313(5788):773-4.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institut fur Genetik, Heinrich Heine Universitat, 40225 Dusseldorf, Germany. ruediger.simon@uni-duesseldorf.de〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/16902118" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): Amino Acid Motifs ; Arabidopsis/cytology ; Arabidopsis Proteins/*chemistry/metabolism ; Asteraceae/cytology ; *Cell Communication ; *Cell Differentiation ; Cells, Cultured ; Meristem/*cytology ; Oligopeptides/chemistry/isolation & purification/*metabolism ; Plant Leaves/cytology ; Plant Roots/cytology ; Plant Shoots/cytology ; Plant Structures/cytology ; *Signal Transduction ; Stem Cells/*cytology
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
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  • 8
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    Emergent properties of reduced-genome Escherichia coli (2006)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 2006-04-29
    Beschreibung: With the use of synthetic biology, we reduced the Escherichia coli K-12 genome by making planned, precise deletions. The multiple-deletion series (MDS) strains, with genome reductions up to 15%, were designed by identifying nonessential genes and sequences for elimination, including recombinogenic or mobile DNA and cryptic virulence genes, while preserving good growth profiles and protein production. Genome reduction also led to unanticipated beneficial properties: high electroporation efficiency and accurate propagation of recombinant genes and plasmids that were unstable in other strains. Eradication of stress-induced transposition evidently stabilized the MDS genomes and provided some of the new properties.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Posfai, Gyorgy -- Plunkett, Guy 3rd -- Feher, Tamas -- Frisch, David -- Keil, Gunther M -- Umenhoffer, Kinga -- Kolisnychenko, Vitaliy -- Stahl, Buffy -- Sharma, Shamik S -- de Arruda, Monika -- Burland, Valerie -- Harcum, Sarah W -- Blattner, Frederick R -- GM35682/GM/NIGMS NIH HHS/ -- New York, N.Y. -- Science. 2006 May 19;312(5776):1044-6. Epub 2006 Apr 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Institute of Biochemistry, Biological Research Center, H-6726 Szeged, Hungary. posfaigy@nucleus.szbk.u-szeged.hu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/16645050" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): DNA Transposable Elements ; DNA, Bacterial ; Escherichia coli K12/*genetics ; *Gene Deletion ; Genetic Engineering ; *Genome, Bacterial ; Mutagenesis ; Plasmids/genetics ; Species Specificity
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
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  • 9
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    Evidence of a role for heterotrimeric GTP-binding proteins in endosome fusion (1992)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 1992-03-27
    Beschreibung: Guanosine triphosphate (GTP)-binding proteins are required for intracellular vesicular transport. Mastoparan is a peptide component of wasp venom that increases nucleotide exchange in some classes of G alpha subunits of regulatory heterotrimeric GTP-binding proteins (G proteins). Mastoparan and other compounds that increase nucleotide exchange by G proteins inhibited endosome fusion in vitro and reversed the effects of guanosine 5'-O-(3-thiotriphosphate) (GTP-gamma-S), a nonhydrolyzable GTP analog. Addition of beta gamma subunits of G proteins to the fusion assay antagonized the stimulatory effect of GTP-gamma-S, confirming the participation of G proteins. These results indicate that GTP-binding proteins are required for endosome fusion and in particular that a G protein is involved. Given the function of G proteins in signal transduction, these findings may provide insight into the mechanism by which endosomal vesicles become competent for fusion after their formation at the cell surface.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Colombo, M I -- Mayorga, L S -- Casey, P J -- Stahl, P D -- AI 20015/AI/NIAID NIH HHS/ -- GM 42259/GM/NIGMS NIH HHS/ -- New York, N.Y. -- Science. 1992 Mar 27;255(5052):1695-7.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Cell Biology and Physiology, Washington University, School of Medicine, St. Louis, MO 63110.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/1348148" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): Biological Transport ; Endocytosis ; Endosomes/*physiology ; GTP-Binding Proteins/chemistry/*physiology ; Guanosine 5'-O-(3-Thiotriphosphate)/pharmacology ; Guanosine Diphosphate/pharmacology ; Guanosine Triphosphate/metabolism ; Intracellular Membranes/*metabolism ; Macromolecular Substances ; *Membrane Fusion/drug effects ; Organelles/*physiology ; Peptides ; Wasp Venoms/pharmacology
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
    Standort Signatur Erwartet Verfügbarkeit
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  • 10
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    A regulatory role for ARF6 in receptor-mediated endocytosis (1995)
    American Association for the Advancement of Science (AAAS)
    Details
    Publikationsdatum: 1995-02-24
    Beschreibung: Adenosine diphosphate-ribosylation factor 6 (ARF6), ARF6 mutants, and ARF1 were transiently expressed in Chinese hamster ovary cells, and the effects on receptor-mediated endocytosis were assessed. Overexpressed ARF6 localized to the cell periphery and led to a redistribution of transferrin receptors to the cell surface and a decrease in the rate of uptake of transferrin. Similar results were obtained when a mutant defective in guanosine triphosphate hydrolysis was expressed. Expression of a dominant negative mutant, ARF6(T27N), resulted in an intracellular distribution of transferrin receptors and an inhibition of transferrin recycling to the cell surface. In contrast, overexpression of ARF1 had little or no effect on these parameters of endocytosis.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉D'Souza-Schorey, C -- Li, G -- Colombo, M I -- Stahl, P D -- New York, N.Y. -- Science. 1995 Feb 24;267(5201):1175-8.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Cell Biology and Physiology, Washington University School of Medicine, St. Louis, MO 63110.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/7855600" target="_blank"〉PubMed〈/a〉
    Schlagwort(e): ADP-Ribosylation Factor 1 ; ADP-Ribosylation Factors ; Amino Acid Sequence ; Animals ; Base Sequence ; CHO Cells ; Cell Membrane/metabolism ; Cricetinae ; *Endocytosis ; GTP-Binding Proteins/analysis/genetics/*physiology ; Golgi Apparatus/metabolism/ultrastructure ; Kinetics ; Molecular Sequence Data ; Mutation ; Receptors, Transferrin/metabolism ; Transferrin/metabolism
    Print ISSN: 0036-8075
    Digitale ISSN: 1095-9203
    Thema: Biologie , Chemie und Pharmazie , Informatik , Medizin , Allgemeine Naturwissenschaft , Physik
    Publiziert von American Association for the Advancement of Science (AAAS)
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