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Topic: Repeated Sequences

Related Topics

Sequence analysis

Sequence database

Sequence alignment

Sequence motif

Blast

Sequencing

Operon

Genetic code

Hidden Markov model

Lac operon

Markov process

Gene regulatory network

Bayesian network

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	Plant Genome Organization and Structure : Repeated Sequences (Site not responding. Last check: 2007-10-08)
		Furthermore, these sequences have undergone sequence divergence by the addition or deletion of sequences or by changes in the base pair sequence.
		An example of a highly repetitive sequence is the repeat found to be associated with the knob heterochromatin of corn.
		An example of a functional repeated sequence in plants is the corn storage proteins, zeins.
	www.ndsu.nodak.edu /instruct/mcclean/plsc731/genome/genome3.htm (241 words)

	Extragenic repeated DNA sequences and transposable elements
		Repeated DNA of this type is not transcribed and accounts for the bulk of the heterochromatic regions of the genome, being notably found in the vicinity of the centromeres (pericentromeric heterochromatin).
		Rare examples are known of human DNA sequences which appear to have been copied by a DNA-mediated transposition event (transposons) and a variety of sequences have been found in the human genome which resemble known DNA transposons such as the mariner transposon and others (Smit and Riggs, 1996).
		The typical Alu sequence is a tandemly repeated dimer, with the repeats sharing an approximately 120 bp sequence followed by a short sequence which is rich in A residues on one strand and T residues on the complementary strand.
	www.ncbi.nlm.nih.gov /books/bv.fcgi?rid=hmg.section.753 (2902 words)

	Environmental Health Perspectives 105, Supplement 4, June 1997: Article by Ramel
		Microsatellites are repetitive sequences of mostly 2 to 4 nucleotides with a widespread occurrence particularly in multicellular organisms.
		A repeated sequence of 220 bp in length was found to be a hot spot for point mutations, deletions, and insertions.
		The loss of AGG causes an increased uninterrupted length of CGG sequences and is therefore probably an important mutational event for the predisposition to fragile X. The mechanism of expansion of the trinucleotide sequence presumably rests on slippage during DNA replication.
	www.ehponline.org /members/1997/Suppl-4/ramel-full.html (8033 words)

	Repeated Sequences of Interspike Intervals in Baroresponsive Respiratory Related Neuronal Assemblies of the Cat Brain ...
		Repeated Sequences of Interspike Intervals in Baroresponsive Respiratory Related Neuronal Assemblies of the Cat Brain Stem.
		One of the interspike intervals sequences in the quantized pattern 4-3-6-4-3 (Fig.
		Significant sequences were found only at the times represented in the 2 underlined segments of the corresponding firing rate histogram; these periods occurred when baroreceptors were stimulated sufficiently to reduce the amplitude of integrated phrenic motoneuron activity (open arrows).
	jn.physiology.org /cgi/content/full/84/3/1136 (6279 words)

	Eukaryotic chromosome fine structure - Wikipedia, the free encyclopedia
		Repeated sequences are of two basic types: unique sequences that are repeated in one area; and repeated sequences that are interspersed throughout the genome.
		Interspersed sequences are tandem repeats, with sequences that are found interspersed across the genome.
		Retrotransposons are sequences in the DNA that are the result of retrotransposition of RNA.
	en.wikipedia.org /wiki/Eukaryotic_chromosome_fine_structure (765 words)

	Repeated foreshock sequences in the thrust faulting environment of eastern Taiwan
		Repeated foreshock sequences in the thrust faulting environment of eastern Taiwan
		Foreshock sequences have repeatedly been observed in the thrust faulting system of the Chengkung area in eastern Taiwan.
		Repeated foreshock sequences in this reverse-faulting environment are primarily associated with a higher degree of small-scale heterogeneity in the crust and might very well be considered as potential predictors of large earthquakes in the future.
	www.agu.org /pubs/crossref/2004/2004GL019833.shtml (252 words)

	Single Strand Annealing Induced by DNA Double Strand Break
		Single stranded regions are created adjacent to the break that extend to the repeated sequences such that the complementary strands can anneal to each other.
		Subsequently these deletion events were characterized and it was observed that as repeated sequences were moved farther apart, deletions occurred less frequently and arose at a later times.
		To do this, we have introduced mismatches between the repeated sequences such that the mismatch repair proteins will repair the heteroduplex to one or the other sequence.
	www.bio.brandeis.edu /haberlab/jehsite/ssa.html (1166 words)

	Molecular Characterization of a Family of Tandemly Repeated DNA Sequences, TR-1, in Heterochromatic Knobs of Maize and ...
		Molecular Characterization of a Family of Tandemly Repeated DNA Sequences, TR-1, in Heterochromatic Knobs of Maize and Its Relatives -- Hsu et al.
		Consensus sequences of components A, B, 2/3B, B', 2/3B', and C of TR-1 elements in maize and teosinte.
		Fluorescence in situ hybridization of repeated sequences to meiotic chromosomes of maize.
	www.genetics.org /cgi/content/full/164/3/1087 (5151 words)

	Developmentally Regulated Chromosome Fragmentation Linked to Imprecise Elimination of Repeated Sequences in Paramecia ...
		The 1.6-kb fragment revealed by the G surface antigen gene probe in lane m (arrowhead) indicates that the G surface antigen gene is present at one copy per haploid genome in macronuclear DNA; weaker bands arise from paralogous genes that cross-hybridize with the probe under the low-stringency conditions used.
		Micronucleus-specific repeated sequences in a chromosome fragmentation region.
		Transgene-mediated post-transcriptional gene silencing is inhibited by 3' non-coding sequences in Paramecium.
	ec.asm.org /cgi/content/full/2/5/1076 (8948 words)

	BioMed Central \| Full text \| Browsing repeats in genomes: Pygram and an application to non-coding region analysis
		By proposing a new visualization environment to analyse repeated sequences, this application aims to increase the efficiency of laboratories involved in investigating repeat organization in single genomes or across several genomes.
		Revealing the structure of sequences as an assembly of elementary repeated sequences is thus a task of utmost importance.
		Their remarkably constant structure consists of short sequences from 21 to 37 nucleotides long, repeated almost exactly, and referred to as 'units', separated by similarly sized non-repetitive sequences, called 'spacers' (Figure 2D).
	www.biomedcentral.com /1471-2105/7/477 (7211 words)

	Sequential-Context-Dependent Hippocampal Activity Is Not Necessary to Learn Sequences with Repeated Elements -- Bower ...
		The "Novel" sequence shows the disruption in performance during delayed-cue segment traversals when rats were exposed to a sequence with which they had no previous experience (for details, see Materials and Methods).
		The "Rotated" sequence shows the disruption in performance during delayed-cue segment traversals when rats were exposed to a rotated version of a previously learned sequence.
		Sequence tasks were grouped according to whether the discriminant analysis (as summarized in Fig.
	www.jneurosci.org /cgi/content/full/25/6/1313 (8592 words)

	Algorithms for Molecular Biology \| Full text \| Finding the region of pseudo-periodic tandem repeats in biological ...
		Landau and Schmidt [4] studied the problem of finding the two consecutive copies in a sequence of length n such that the edit distance (a match costs 0 and a mismatch/indel costs 1) between the two copies is at most k.
		Note that, the normalization of the edit distance is important for finding repeated patterns since otherwise, one can give a partition in which each pattern has one letter and the edit distance is at most 1 (small).
		The sequence of the LbH domain of members of the LpxA family consists of the imperfect tandem repetition of hexapeptide units [9-11].
	www.almob.org /content/1/1/2 (3426 words)

	The Role of Striatum in Initiation and Execution of Learned Action Sequences in Rats -- Bailey and Mair 26 (3): 1016 -- ...
		All groups were faster initiating single nose pokes than five nose poke sequences and sequences that were unpracticed (random) than those that were well practiced (repeat).
		Results are plotted separately for the first (A) and last (B) nose pokes in the sequence to show the increase in RT to initiate and decrease in RT to complete repeated sequences.
		Results are reported for the transition from the fifth session with sequence A to the second random session (A5/R2), the 10th session with sequence A to the third random session (A10/R3), the fifth session with sequence B to the fourth random session (B5/R4), and the average of these three transitions.
	www.jneurosci.org /cgi/content/full/26/3/1016 (7261 words)

	RAP: a new computer program for de novo identification of repeated sequences in whole genomes -- Campagna et al. 21 ...
		Repeated sequences are a common feature of most prokaryotic
		Only a small fraction of the sequences recognized by RM and TRF were not recognized by RAP (0.5 and 0.1%, respectively).
		is suitable for the identification of repeated regions.
	bioinformatics.oxfordjournals.org /cgi/content/full/21/5/582 (4056 words)

	Domain organization within repeated DNA sequences: application to the study of a family of transposable elements -- ...
		Domain organization within repeated DNA sequences: application to the study of a family of transposable elements -- Tempel et al.
		Domain organization within repeated DNA sequences: application to the study of a family of transposable elements
		Repeated sequences are abundant in eukaryotic genomes and, in
	bioinformatics.oxfordjournals.org /cgi/content/full/22/16/1948 (4509 words)

	Matching Diagrams: Introduction (Site not responding. Last check: 2007-10-08)
		Informal experimentation suggests the best way to go is to break a sequence of repetition into the smallest possible units, so the diagram for this sequence would look like the picture below, with the sequence parsed as "10" repeated 8 times.
		To make a diagram for a complex sequence, we overlay all the appropriate arcs, but with a degree of translucency so no match is completely obscured.
		Of course, this is not the first attempt to visualize sequences; I've written a quick summary of some other methods.
	www.bewitched.com /match (557 words)

	Repeated Sequences in Linear GP Genomes (Site not responding. Last check: 2007-10-08)
		Evolution of length of longest repeated sequence of instructions in the best Mackey-Glass prediction program produced by the first run with two-point crossover (2XO) and fitness selection.
		Instructions that are part of repeated sequences longer than 10 are plotted in blue.
		Distribution of repeated sequences along length of best Mackey-Glass predictor at end of first 2XO run.
	www.cs.ucl.ac.uk /staff/W.Langdon/gecco2004lb/poster/index.html (180 words)

	Reconstructing the Duplication History of Tandemly Repeated Genes -- Elemento et al. 19 (3): 278 -- Molecular Biology ...
		Tandemly repeated sequences are often termed paralogous sequences
		Corbett S., I. Tomlinson, E. Sonnhammer, D. Buck, G. Winter, 1997 Sequence of the human immunoglobulin diversity (D) segment locus: a systematic analysis provides no evidence for the use of DIR segments, inverted D segments, "minor" D segments or D-D recombination J. Mol.
		Vijverberg K., K. Bachmann, 1999 Molecular evolution of a tandemly repeated trnF(GAA) gene in the chloroplast genomes of Microseris (Asteraceae) and the use of structural mutations in phylogenetic analyses Mol.
	mbe.oxfordjournals.org /cgi/content/full/19/3/278 (5856 words)

	Extrachromosomal Circular DNA of Tandemly Repeated Genomic Sequences in Drosophila -- Cohen et al. 13 (6): 1133 -- ...
		Extrachromosomal Circular DNA of Tandemly Repeated Genomic Sequences in Drosophila
		sequences, and hence are believed to be derived from the chromosomes.
		Livak, K.J. Organization and mapping of a sequence on the Drosophila melanogaster X and Y chromosomes that is transcribed during spermatogenesis.
	www.genome.org /cgi/content/full/13/6a/1133 (7217 words)

	Use of Genome Selected Repeated Sequences Increases the Sensitivity of PCR Detection of Tropheryma whipplei -- Fenollar ...
		Use of Genome Selected Repeated Sequences Increases the Sensitivity of PCR Detection of Tropheryma whipplei -- Fenollar et al.
		Use of Genome Selected Repeated Sequences Increases the Sensitivity of PCR Detection of Tropheryma whipplei
		Reassessment of the phylogenetic position of the bacterium associated with Whipple's disease and determination of the 16S-23S ribosomal intergenic spacer sequence.
	jcm.asm.org /cgi/content/full/42/1/401 (1527 words)

	DNA repeat sequences
		Repeat sequence length: Varies from 1 nucleotide to whole gene
		6 to 10 base pair sequences may be repeated 100,000 to 1,000,000 times
		Mutant (Large) repeat sequences not perfect: SCA 3 and Huntington's
	www.neuro.wustl.edu /neuromuscular/mother/dnarep.htm (736 words)

	Novel Repeated DNA Sequences in Safflower (Carthamus tinctorius L.) (Asteraceae): Cloning, Sequencing, and Physical ...
		Novel Repeated DNA Sequences in Safflower (Carthamus tinctorius L.) (Asteraceae): Cloning, Sequencing, and Physical Mapping by Fluorescence in situ Hybridization -- Raina et al.
		Novel Repeated DNA Sequences in Safflower (Carthamus tinctorius L.) (Asteraceae): Cloning, Sequencing, and Physical Mapping by Fluorescence in situ Hybridization
		From the Kihara Institute for Biological Research and Graduate School of Integrated Sciences, Yokohama City University, 641-12 Maioka-cho, Totsuka-ku, Yokohama 244-0813, Japan (Raina, Sasakuma, and Kishii); and Laboratory of Cellular and Molecular Cytogenetics, Department of Botany, University of Delhi, Delhi 110007, India (Sharma and Vaishnavi)
	jhered.oxfordjournals.org /cgi/content/abstract/96/4/424 (357 words)

	Repeated Sequences in Linear Genetic Programming Genomes (Site not responding. Last check: 2007-10-08)
		First studies find copious repeated sequences, which can be hierarchically decomposed into shorter sequences, in programs evolved using both homologous and two point crossover but not with headless chicken crossover or other mutations.
		In bloated programs the small number of effective or expressed instructions appear in both repeated and non-repeated code.
		Hinting that building-blocks or code reuse may evolve in unplanned ways.
	www.cs.bham.ac.uk /~wbl/biblio/gp-html/langdon_2005_CS.html (139 words)

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