Amino acid sequence analysis method using mass spectrometry, amino acid sequence analyzer, amino acid sequence analysis program, and recording medium recording the amino acid sequence analysis program
JP2008145221A · Shimadzu (Japan) · priority 2006
| Patent | JP2008145221A ↗ |
| Status | Granted |
| Priority date | 2006-12-08 |
| Filed | 2006-12-08 |
| Published | 2008-06-26 |
| Assignee | Shimadzu (Japan) (printed Shizuoka University; Shimadzu Corp) |
| Also published as | JP4841414B2 |
Abstract
Translated from Japanese 【課題】デノボ・シーケンスによるアミノ酸配列の推定の信頼性を向上させる。 【解決手段】マススペクトルデータに基づいてアミノ酸配列候補を選定する際に、その信頼度を示すスコアを最大化するアミノ酸配列候補を見い出す問題を、一方向の軸がアミノ酸配列上の位置、他方向の軸がマススペクトルの質量である２次元的な非巡回的グラフ上の最長路問題として定式化する。そして、被検ペプチドに由来するピークの質量と強度とを集めたピークリストに基づいて経路探索を実行することでピーク強度を加算したスコアを求め、スコアの大きなものを選択して経路を逆に辿りながら各アミノ酸を特定し、アミノ酸配列を求める。この方法によれば、高速の演算処理が可能であるため、正しいアミノ酸配列が漏れないように多数の候補を挙げることができる。 【選択図】図３ An object of the present invention is to improve the reliability of estimation of an amino acid sequence by a de novo sequence. When selecting amino acid sequence candidates based on mass spectral data, the problem of finding amino acid sequence candidates that maximizes the score indicating the reliability is as follows. Is formulated as a longest path problem on a two-dimensional acyclic graph where the axis is the mass of the mass spectrum. Then, the route search is performed based on the peak list that collects the mass and intensity of the peak derived from the test peptide, and the score obtained by adding the peak intensities is obtained. Trace each amino acid and determine the amino acid sequence. According to this method, since high-speed arithmetic processing is possible, a large number of candidates can be listed so that correct amino acid sequences are not leaked. [Selection] Figure 3
Why it is here
Shizuoka University: de novo sequencing as a longest path in an acyclic graph by dynamic programming, with candidates ranked by likelihood.
Inventors (8)
Shigeki Kajiwara, 茂樹 梶原, Naoichi Yamaki, 直一 八巻, Kazutoshi Ando, 和敏 安藤, Kazuyuki Sekiya, 和之 関谷
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Catalogued patents it cites (2)
- US6582965B1 Method for de novo peptide sequence determination
- JP4541122B2 Amino acid sequence identification method using mass spectrometry
Cited by (1 patent families, 1 organisations)
- 云南民族大学 academic: CN104076115B
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