Computational prediction of nucleosome positioning by calculating the relative fragment frequency index of nucleosomal sequences

Ryu Ogawa, Noriyuki Kitagawa, Hiroki Ashida, Rintaro Saito, Masaru Tomita

研究成果: Article査読

13 被引用数 (Scopus)

抄録

We developed an accurate method to predict nucleosome positioning from genome sequences by refining the previously developed method of Peckham et al. (2007) [19]. Here, we used the relative fragment frequency index we developed and a support vector machine to screen for nucleosomal and linker DNA sequences. Our twofold cross-validation revealed that the accuracy of our method based on the area under the receiver operating characteristic curve was 81%, whereas that of Peckham's method was 75% when both of two nucleosomal sequence data obtained from independent experiments were used for validation. We suggest that our method is more effective in predicting nucleosome positioning.

本文言語English
ページ(範囲)1498-1502
ページ数5
ジャーナルFEBS Letters
584
8
DOI
出版ステータスPublished - 2010 4 1

ASJC Scopus subject areas

  • 生物理学
  • 構造生物学
  • 生化学
  • 分子生物学
  • 遺伝学
  • 細胞生物学

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