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Topic: Silencer (DNA)

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DNA replication

DNA sequences

mitochondrial DNA

DNA DNA hybridisation

DNA polymerases

DNA testing

junk DNA

DNA analysis

DNA motif

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Noncoding DNA

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	Ordered Nucleation and Spreading of Silenced Chromatin in Saccharomyces cerevisiae -- Rusché et al. 13 (7): 2207 ... (Site not responding. Last check: 2007-10-08)
		1/23,000 of the input DNA or 1/50 or 1/100 of immunoprecipitated DNA was analyzed.
		1/7500 and 1/15,000 of the input DNA or 1/100, 1/200, or 1/400 of the immunoprecipitated DNA was analyzed.
		1/7500, 1/15,000, or 1/30,000 of the input DNA or 1/100, 1/200, or 1/400 of the immunoprecipitated DNA was analyzed.
	www.molbiolcell.org /cgi/content/full/13/7/2207 (7990 words)

	RNA-directed DNA methylation in Arabidopsis -- Aufsatz et al. 99 (Supplement 4): 16499 -- Proceedings of the National ...
		DNA methylation is presumed to be responsible for the methylation
		The transcribed NOSpro IR at the unaltered silencing locus is
		genes that are silenced by a methylation-independent pathway and,
	www.pnas.org /cgi/content/full/99/suppl_4/16499 (5982 words)

	David H. Rivier (Site not responding. Last check: 2007-10-08)
		DNA replication is perhaps the most precisely regulated protein-nucleic acid interaction in biology; each base pair of each chromosome is replicated once per cell cycle and only once per cell cycle.
		Silencers are regulatory control elements that can simultaneously repress transcription of multiple genes throughout a region of a chromosome.
		We are exploiting this relationship between silencing and replication to identify genetically the genes that regulate replication.
	www.life.uiuc.edu /cdb/faculty/rivier.html (672 words)

	Interactive Fly, Drosophila
		Silencing of the cryptic mating-type loci HMR and HML requires the recognition of DNA sequence elements called silencers by the Sir1p, one of four proteins dedicated to the assembly of silenced chromatin in Saccharomyces cerevisiae.
		Epitope-tagged protein is nuclear in G1 and cytoplasmic in S-phase cells, suggesting that DNA replication may be regulated by either the translocation of this protein between the nucleus and the cytoplasm or the selective degradation of the protein in the nucleus.
		The presence of DNA replication structures correlates with activation of the Cds1p checkpoint protein kinase and the S-phase checkpoint pathway.
	www.sdbonline.org /fly/newgene/orc1-2.htm (6926 words)

	The Sir1 protein's association with a silenced chromosome domain -- Gardner and Fox 15 (2): 147 -- Genes and Development
		Silencing is a form of transcriptional repression in yeast that requires the assembly of a repressive chromatin structure
		Silencing of the cryptic mating-type loci, HMR and HML, in the yeast Saccharomyces cerevisiae is an example of the role repressive
		(HMR-SS[acs-]), the silencer DNA was not enriched in the immunoprecipitate
	www.genesdev.org /cgi/content/full/15/2/147 (6418 words)

	Functional Diversity of Silencers in Budding Yeasts -- Sjöstrand et al. 1 (4): 548 -- Eukaryotic Cell
		The unbound silencer is indicated by the solid arrowhead.
		Characterization of a "silencer" in yeast: a DNA sequence with properties opposite to those of a transcriptional enhancer.
		Purification and cloning of a DNA binding protein from yeast that binds to both silencer and activator elements.
	ec.asm.org /cgi/content/full/1/4/548 (5585 words)

	Ambion, Inc. - Trademarks and Legal Notices
		Silencer® Cy3 labeled siRNAs, siPORT siRNA Electroporation Kit: This product or portions thereof is manufactured under license from Carnegie Mellon University under DE3943862 and GE Healthcare under U.S. Patent Numbers 5,808,044 and 5,556,959 and related Patents.
		Silencer® siRNA Labeling Kits: The Cy3 and Fluorescein Labeling Reagents are manufactured for Ambion by Mirus Bio Corporation.
		SuperTaq™ Plus DNA Polymerase: Use of this product is covered by one or more of the following US patents and corresponding patent claims outside the US: 5,079,352, 5,789,224, 5,618,711, 6,127,155, 5,677,152 (claims 1-23 only) and 5,773,258 (claims 1 and 6 only), and claims outside the US corresponding to US Patent No. 4,889,818.
	www.ambion.com /main/trademarks.html (1436 words)

	Orion Genomics - News and Investors
		Sharon Begley explores imprinting, a process by which normal genes are regulated (silenced) by a tag that sits on top of the DNA.
		Begley discusses Orion's technology and molecular diagnostics that can detect the 'second genetic code,' or the pattern of silencers on DNA and how this technology is important for the early warning of disease.
		Using a technology called MethylScope ("methyl" is the DNA silencer), "we will map this second genetic code to see which genes are imprinted and identify any differences between normal and cancerous cells," says Nathan Lakey, chief executive of Orion Genomics, a closely held biotechnology concern.
	www.oriongenomics.com /news-in_the_news.html (574 words)

	Toward Biochemical Understanding of a Transcriptionally Silenced Chromosomal Domain in Saccharomyces cerevisiae -- Fox ...
		The SPC consists of HMR-E silencer DNA bound to ORC, Rap1p, and Abf1p.
		Sir2–4-dependent silent chromatin emanates from the silencer (not shown) toward the telomere.
		Suz12 binds to silenced regions of the genome in a cell-type-specific manner
	www.jbc.org /cgi/content/full/280/10/8629 (3349 words)

	Localization of Upstream Elements Involved in Transcriptional Regulation of the Rat Testis-Specific Histone H1t Gene in ...
		Alignment of the rat and mouse H1t DNA silencer regions.
		The DNA sequencing reactions for the footprinted region are in lanes labeled G, A, T, and C. Lanes labeled with F are DNase I digestions of protein-free "Free" DNA.
		DNA- and chromatin-condensing properties of rat testes H1a and H1t compared to those of rat liver H1bdec; H1t is a poor condenser of chromatin.
	www.biolreprod.org /cgi/content/full/61/4/1005 (5390 words)

	Junk DNA" - Over 95 percent of DNA has largely unknown function
		Presently, only the function of a few percent of the DNA is known, the rest has been believed to be useless garbage, commonly called "Junk DNA" by molecular biologists.
		It has been reported that the sequences of this unknown DNA are inherited and that some repetitive patterns in it seem to be associated with increased risk for cancer.
		He thinks this DNA may be essential for increasing the plasticity of the hereditary substance.
	www.psrast.org /junkdna.htm (1531 words)

	Differential DNA affinity specifies roles for the origin recognition complex in budding yeast heterochromatin -- ...
		Increasing concentrations of cold HMR-E substrate DNA (lanes 2-5) or ARS1 substrate DNA (as in B; lanes 6-9) were added to identical reactions to determine the concentrations needed to compete the binding of ORC to radiolabeled HMR-E. (Lane 10) Ano-ATP control experiment.
		The concentrations of cold DNA substrate were 0.6 nM (lanes 2,6), 1 nM (lanes 3,7), 2 nM (lanes 4,8), and 20 nM (lanes 5,9).
		Rivier, D.H. and Rine, J. An origin of DNA replication and a transcriptional silencer require a common element.
	www.genesdev.org /cgi/content/full/17/15/1817 (4181 words)

	Diversity in the Sir2 family of protein deacetylases -- Buck et al. 75 (6): 939 -- Journal of Leukocyte Biology
		HM loci in the absence of a silencer is sufficient to establish
		Sir2 is paradoxically responsible for the silencing of Pol II-transcribed
		that the mechanism of silencing is distinct from the silencing
	www.jleukbio.org /cgi/content/full/75/6/939 (6448 words)

	An exonic splicing silencer in the testes-specific DNA ligase III {beta} exon -- Chew et al. 28 (2): 402 -- Nucleic ...
		An exonic splicing silencer in the testes-specific DNA ligase III ß exon
		silence splicing in the absence of the polyadenylation signal,
		silencer was in the context of a downstream AUUAAA.
	nar.oxfordjournals.org /cgi/content/full/28/2/402 (4459 words)

	Definition of T-cell specific DNA-binding factors that interact with a 3'-silencer in the CD4+ T-cell gene Rpt-1. (Site not responding. Last check: 2007-10-08)
		Formation of this complex was selectively inhibited by the region in HIV-1 containing a silencer element.
		Functional silencer activity in vivo was associated with the presence of a specific silencer-DNA-protein complex in electrophoretic mobility shift assays with T-cell extracts.
		Analysis of the region 3' to the CD4+ T-cell gene Rpt-1 (encoding regulatory protein T-lymphocyte 1) led to the definition of a silencer element that inhibits heterologous gene expression in certain CD4+ T-cell lines but not in B-cell or non-lymphoid cell lines.
	www.ihop-net.org /UniPub/iHOP/gp/6740.html (135 words)

	DNA Lounge: Source Code: MP3 Archives
		This is a program that deletes silence from MP3 files.
		I wrote this program because the time ranges covered by our audio archives are driven by the hours of operation listed on the calendar; so if an event starts late, or if it ends early, then silence slips into the files.
		silencer on each of the MP3 files in the archive that have not already been stripped.
	www.dnalounge.com /backstage/src/archiver (584 words)

	Neurological Disease: Listening to Gene Silencers -- Roopra et al. 1 (4): 219 -- Molecular Interventions (Site not responding. Last check: 2007-10-08)
		Consensus sequence of the NRSE deduced from functional analysis of silencer elements in nineteen genes (57).
		HDAC deacetylates lysine residues of nucleosomal core histones, which consequently limits the accessibility of DNA to transcription factors; the resulting inhibition of RNA polymerase activity (RNA PII) is indicated schematically by an X. In addition, a zinc-finger domain proximal to the C terminus of NRSF interacts with CoREST.
		Bessis, A., Champtiaux, N., Chatelin, L., and Changeux, J.P. The neuron-restrictive silencer element: a dual enhancer/silencer crucial for patterned expression of a nicotinic receptor gene in the brain.
	molinterv.aspetjournals.org /cgi/content/full/1/4/219 (4642 words)

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