The Gurdon Institute and Department of Genetics, University of Cambridge, Cambridge, CB2 1QN, UK.
F1000Res. 2021 Feb 24;10:141. doi: 10.12688/f1000research.51143.1. eCollection 2021.
Periodic occurrences of oligonucleotide sequences can impact the physical properties of DNA. For example, DNA bendability is modulated by 10-bp periodic occurrences of WW (W = A/T) dinucleotides. We present periodicDNA, an R package to identify k-mer periodicity and generate continuous tracks of k-mer periodicity over genomic loci of interest, such as regulatory elements. periodicDNA will facilitate investigation and improve understanding of how periodic DNA sequence features impact function.
寡核苷酸序列的周期性出现会影响 DNA 的物理性质。例如，由 10 个碱基对周期性出现的 WW（W = A/T）二核苷酸调节 DNA 的弯曲性。我们介绍了 periodicDNA，这是一个 R 包，用于识别 k-mer 的周期性，并在感兴趣的基因组区域（如调控元件）上生成 k-mer 周期性的连续轨迹。periodicDNA 将有助于研究和提高对周期性 DNA 序列特征如何影响功能的理解。
