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

Bioinformatics

Volumn 29, Issue 15, 2013, Pages 1900-1901

  Hon, Jiří ^a   Martínek, Tomáš ^a   Rajdl, Kamil ^b   Lexa, Matej ^b  

^a BRNO UNIVERSITY OF TECHNOLOGY   (Czech Republic)

^b MASARYK UNIVERSITY   (Czech Republic)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; TRIPLEX DNA;

ALGORITHM; ARTICLE; CHEMISTRY; COMPUTER GRAPHICS; COMPUTER PROGRAM; DNA SEQUENCE; GENOMICS;

ALGORITHMS; COMPUTER GRAPHICS; DNA; GENOMICS; SEQUENCE ANALYSIS, DNA; SOFTWARE;

EID: 84880520624     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btt299     Document Type: Article

References (8)

1. Buske, F.A. et al. (2012) Triplexator: detecting nucleic acid triple helices in genomic and transcriptomic. Genome Res., 22, 1372-1381.
2. Cer, R. et al. (2012) Searching for Non-B DNA-Forming Motifs Using nBMST (Non-B DNA Motif Search Tool). Curr. Protoc. Hum. Genet., Chapter 18. Unit 18.7.1-22.
3. Hoyne, P.R. et al. (2000) Searching genomes for sequences with the potential to form intrastrand triple helices. J. Mol. Biol., 302, 797-809.
4. Htun, H. and Dahlberg, J.E. (1989) Topology and formation of triple-stranded H-DNA. Science, 243, 1571-1576. (Pubitemid 19090505)
5. Lexa, M. et al. (2011) A dynamic programming algorithm for identification of triplex-forming sequences. Bioinformatics, 27, 2510-2517.
6. Rooney, S.M. and Moore, P.D. (1995) Antiparallel, intramolecular triplex DNA stimulates homologous recombination in human cells. Proc. Natl Acad. Sci. USA, 92, 2141-2144.
7. Soyfer, V.N. and Potaman, V.N. (1995) Triple-Helical Nucleic Acids. SpringerVerlag, New York.
8. Walter, A. et al. (2001) Evidence for a DNA triplex in a recombination-like motif: I. recognition of Watson-Crick base pairs by natural bases in a high-stability triplex. J. Mol. Recognit., 14, 122-139. (Pubitemid 32418040)