Results 1 to 10 of about 90,014 (157)

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   +7 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

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

Comparative synthesis of tandem repeats in the control region of Epinephelus mitogenomes (Peciformes: Epinephelidae) [PDF]

Genetics and Molecular Biology
In this study, we analyzed the evolutionary patterns of tandem repeats in the mitochondrial Control Region (CR) of groupers of the genus Epinephelus.
Carla Bessa-Brito, Rodrigo Petry Corrêa de Sousa, Wanny Gomes de Lima, Renata Furtado do Rosário, Luan Pinto Rabelo, Yrlan Sousa Oliveira, Iracilda Sampaio, Grazielle Fernanda Evangelista Gomes, Marcelo Vallinoto   +8 more
doaj   +3 more sources

Repeat or not repeat?—Statistical validation of tandem repeat prediction in genomic sequences [PDF]

Nucleic Acids Research, 2012
Tandem repeats (TRs) represent one of the most prevalent features of genomic sequences. Due to their abundance and functional significance, a plethora of detection tools has been devised over the last two decades. Despite the longstanding interest, TR detection is still not resolved. Our large-scale tests reveal that current detectors produce different,
Maria Anisimova, Andrey Kajava, Elke Schaper   +2 more
exaly   +7 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

Human tandem repeat sequences in forensic DNA typing [PDF]

Legal Medicine, 2005
It has been 20 years since the first development of DNA fingerprinting and the start of forensic DNA typing. Ever since, human tandem repeat DNA sequences have been the main targets for forensic DNA analysis. These repeat sequences are classified into minisatellites (or VNTRs) and microsatellites (or STRs).
Keiji Tamaki, Alec J Jeffreys
exaly   +3 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

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

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

Genome Res
Abstract A 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   +4 more sources