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Computational approaches to predict the noncanonical DNAs

Author(s):

Nazia Parveen, Amen Shamim, Seunghee Cho and Kyeong Kyu Kim*  

Abstract:


While most nucleotides in the genome form a canonical double stranded B-DNA, many repeated sequences transiently present as noncanonical conformation (non-B DNA) such as triplexes, quadruplexes, Z-DNA, cruciforms and slipped/hairpins. Those noncanonical DNA (ncDNA) are not only associated with many genetic events such as replication, transcription and recombination, but also related to genetic instability that results in predisposition to diseases. Due to their crucial roles in the cellular and genetic functionalities, various computational methods have been implemented to predict sequence motifs that generate ncDNA. Here we review the strategies for the identification of ncDNA motifs across the whole genome, which is necessary for further understanding and investigation of the structure and function of ncDNAs.

Keywords:

DNA, Bioinformatics, prediction, structure

Affiliation:

Department of Molecular Cell Biology, Institute for Antimicrobial Research and Therapeutics, Sungkyunkwan University School of Medicine, Suwon 16419, Department of Molecular Cell Biology, Institute for Antimicrobial Research and Therapeutics, Sungkyunkwan University School of Medicine, Suwon 16419, Department of Molecular Cell Biology, Institute for Antimicrobial Research and Therapeutics, Sungkyunkwan University School of Medicine, Suwon 16419, Department of Molecular Cell Biology, Institute for Antimicrobial Research and Therapeutics, Sungkyunkwan University School of Medicine, Suwon 16419



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