Triplex: an R/Bioconductor package for identification and visualization of potential intramolecular triplex patterns in DNA sequences

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14330%2F13%3A00068371" target="_blank" >RIV/00216224:14330/13:00068371 - isvavai.cz</a>

Alternative codes found

RIV/00216305:26230/13:PU106424

Result on the web

<a href="http://bioinformatics.oxfordjournals.org/content/29/15/1900.abstract.html" target="_blank" >http://bioinformatics.oxfordjournals.org/content/29/15/1900.abstract.html</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1093/bioinformatics/btt299" target="_blank" >10.1093/bioinformatics/btt299</a>

Result language

angličtina

Original language name

Triplex: an R/Bioconductor package for identification and visualization of potential intramolecular triplex patterns in DNA sequences

Original language description

Upgrade and integration of triplex software into the R/Bioconductor framework. We combined a previously published implementation of a triplex DNA search algorithm with visualization to create a versatile R/Bioconductor package triplex. The new package provides functions that can be used to search Bioconductor genomes and other DNA sequence data for occurrence of nucleotide patterns capable of forming intramolecular triplexes (H-DNA). Functions producing 2-D and 3-D diagrams of the identified triplexes allow instant visualization of the search results. Leveraging the power of Biostrings and GRanges classes, the results get fully integrated into the existing Bioconductor framework, allowing their passage to other Genome visualization and annotation packages, such as GenomeGraphs, rtracklayer or Gviz. R package triplex is available from Bioconductor (bioconductor.org).

Czech name

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Czech description

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Type

J_x - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)

CEP classification

IN - Informatics

OECD FORD branch

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Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2013

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Bioinformatics

ISSN

1367-4803

e-ISSN

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Volume of the periodical

29

Issue of the periodical within the volume

15

Country of publishing house

CZ - CZECH REPUBLIC

Number of pages

2

Pages from-to

1900-1901

UT code for WoS article

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EID of the result in the Scopus database

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