Results 1 to 10 of about 87,488 (261)

Typing Clostridium difficile strains based on tandem repeat sequences [PDF]

BMC Microbiology, 2009
Background Genotyping of epidemic Clostridium difficile strains is necessary to track their emergence and spread. Portability of genotyping data is desirable to facilitate inter-laboratory comparisons and epidemiological studies.
Harmanus Celine, Kuijper Ed J, Rupnik Maja, Zaiß N Henning, Michielsen Dolf, Janssens Koen, Nübel Ulrich   +6 more
doaj   +5 more sources

TRviz: a Python library for decomposing and visualizing tandem repeat sequences. [PDF]

Bioinform Adv, 2023
Abstract Summary TRviz is an open-source Python library for decomposing, encoding, aligning and visualizing tandem repeat (TR) sequences. TRviz takes a collection of alleles (TR containing sequences) and one or more motifs as input and generates a plot showing the motif composition of the TR sequences.
Park J, Kaufman E, Valdmanis PN, Bafna V.   +3 more
europepmc   +5 more sources

A comprehensive tandem repeat catalog of the human genome [PDF]

Nature Communications
With the increasing availability of long-read sequencing data, high-quality human genome assemblies, and software for fully characterizing tandem repeats, genome-wide genotyping of tandem repeat loci on a population scale is becoming more feasible.
Readman Chiu, Indhu-Shree Rajan-Babu, Jan M. Friedman, Inanc Birol   +3 more
doaj   +2 more sources

Statistical approaches to detecting and analyzing tandem repeats in genomic sequences [PDF]

Frontiers in Bioengineering and Biotechnology, 2015
Tandem repeats (TRs) are frequently observed in genomes across all domains of life. Evidence suggests that some TRs are crucial for proteins with fundamental biological functions, and can be associated with virulence, resistance and infectious ...
Maria eAnisimova, Julia ePecerska, Elke eSchaper, Elke eSchaper   +3 more
doaj   +4 more sources

APE1 incision activity at abasic sites in tandem repeat sequences. [PDF]

J Mol Biol, 2014
Repetitive DNA sequences, such as those present in microsatellites and minisatellites, telomeres, and trinucleotide repeats (linked to fragile X syndrome, Huntington disease, etc.), account for nearly 30% of the human genome. These domains exhibit enhanced susceptibility to oxidative attack to yield base modifications, strand breaks, and abasic sites ...
Li M, Völker J, Breslauer KJ, Wilson DM.   +3 more
europepmc   +6 more sources

Diverse short tandem repeat sequences influence gene regulation in human populations [PDF]

Genome Biology
Background Short tandem repeat (STR) length is a known determinant of pathogenicity in a variety of human disorders. The repeat sequence itself can modulate disease severity and penetrance; however, the broader impact of STR sequence variation on gene ...
Aleksandra Mitina, Worrawat Engchuan, Brett Trost, Giovanna Pellecchia, Stephen W. Scherer, Ryan K. C. Yuen   +5 more
doaj   +2 more sources

Accurate detection of tandem repeats from error-prone sequences with EquiRep. [PDF]

Genome Res
AbstractA tandem repeat is a sequence of nucleotides that occurs as multiple contiguous and near-identical copies positioned next to each other. These repeats play critical roles in genetic diversity, gene regulation, and are strongly linked to various neurological and developmental disorders.
Song Z, Zahin T, Li X, Shao M.
europepmc   +3 more sources

Totally Mutant Telomeres: Single-Step Mutagenesis of Tandem Repeat DNA Sequences [PDF]

BioTechniques, 2001
Dana Hager Underwood, Michael J. McEachern   +1 more
doaj   +3 more sources

Finding approximate tandem repeats in genomic sequences [PDF]

Proceedings of the eighth annual international conference on Computational molecular biology - RECOMB '04, 2004
An efficient algorithm is presented for detecting approximate tandem repeats in genomic sequences. The algorithm is based on a flexible statistical model which allows a wide range of definitions of approximate tandem repeats. The ideas and methods underlying the algorithm are described and its effectiveness on genomic data is demonstrated.
Ydo, Wexler, Zohar, Yakhini, Yechezkel, Kashi, Dan, Geiger   +3 more
openaire   +2 more sources

STRING: finding tandem repeats in DNA sequences [PDF]

Bioinformatics, 2003
Abstract Motivation and results: The importance of Tandem Repeats in some genomes is now well established. We have reported elsewhere some interesting new results obtained by means of a preliminary program for finding Tandem Repeats in DNA sequences, together with a brief description of the basic ideas of the algorithm.
ALUFFI PENTINI, Filippo, PARISI, Valerio, V. De Fonzo   +2 more
openaire   +3 more sources