Accurate Identification of Exon-Intron Boundaries by SVM based on Three-tuple Encoding and Base-repetition Ratio

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  • 塩基列の長さと重複率に基づくSVMを用いたエクソン領域抽出精度の向上法
  • 塩基列の長さと重複率に基づくSVMを用いたエクソン領域注出精度の向上法
  • エンキレツ ノ ナガサ ト チョウフクリツ ニ モトヅク SVM オ モチイタ エクソン リョウイキ チュウシュツ セイド ノ コウジョウホウ

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ABSTRACT In this report, we evaluate the base-encoding methods to identify Exon-Intron boundaries by Sup- port Vector Machine. In conventional experiments, 2-bits for 4-bits binary encoding was employed to describe bases. We focuced on that only the euclidean distance is used in Support Vector Machine, then propose three-tuple encoding which has the same euclidean distance among four encoded bases with small dimensions. In addition, we also show a new method how to decide the shortest sequence of bases to identify boundaries. Experiments showed that our method could achieve good identification ratio.

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