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BRÁZDA, V. KOLOMAZNÍK, J. LÝSEK, J. HÁRONÍKOVÁ, L. COUFAL, J. ŠŤASTNÝ, J.
Original Title
Palindrome analyser – A new web-based server for predicting and evaluating inverted repeats in nucleotide sequences
Type
journal article in Web of Science
Language
English
Original Abstract
DNA cruciform structures play an important role in the regulation of natural processes including gene replication and expression, as well as nucleosome structure and recombination. They have also been implicated in the evolution and development of diseases such as cancer and neurodegenerative disorders. Cruciform structures are formed by inverted repeats, and their stability is enhanced by DNA supercoiling and protein binding. They have received broad attention because of their important roles in biology. Computational approaches to study inverted repeats have allowed detailed analysis of genomes. However, currently there are no easily accessible and user-friendly tools that can analyse inverted repeats, especially among long nucleotide sequences. We have developed a web-based server, Palindrome analyser, which is a user-friendly application for analysing inverted repeats in various DNA (or RNA) sequences including genome sequences and oligonucleotides. It allows users to search and retrieve desired gene/nucleotide sequence entries from the NCBI databases, and provides data on length, sequence, locations and energy required for cruciform formation.
Keywords
Palindrome analyser, web-based server, inverted repeats, nucleotide sequences, DNA sequences
Authors
BRÁZDA, V.; KOLOMAZNÍK, J.; LÝSEK, J.; HÁRONÍKOVÁ, L.; COUFAL, J.; ŠŤASTNÝ, J.
Released
30. 9. 2016
ISBN
0006-291X
Periodical
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
Year of study
479
Number
2
State
United States of America
Pages from
1739
Pages to
1745
Pages count
7
URL
http://www.sciencedirect.com/science/article/pii/S0006291X16314620
BibTex
@article{BUT128435, author="Václav {Brázda} and Jan {Kolomazník} and Jiří {Lýsek} and Jan {Coufal} and Jiří {Šťastný}", title="Palindrome analyser – A new web-based server for predicting and evaluating inverted repeats in nucleotide sequences", journal="BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS", year="2016", volume="479", number="2", pages="1739--1745", doi="10.1016/j.bbrc.2016.09.015", issn="0006-291X", url="http://www.sciencedirect.com/science/article/pii/S0006291X16314620" }