DegSampler3: Pairwise dependency model in degradation motif site prediction of substrate protein sequences

研究成果: Chapter in Book/Report/Conference proceedingConference contribution

抄録

In the ubiquitin-proteasome system, E3 ubiquitin ligase (E3s for short) selectively recognize and bind specific regions of their substrate proteins. Sequence motifs whose sites are bound by E3 ubiquitin ligases are called degrons. Because much remains unclear about the relationship between substrate proteins of E3s and their binding sites, there is a need to computationally identify such binding sites from the substrate proteins. For this motif identification problem, in our previous works, we have proposed a series of collapsed Gibbs sampling algorithms, called DegSampler1 and DegSampler2, both of which use position-specific prior information. In this work, we propose a new collapsed Gibbs sampling algorithm, called DegSampler3, by integrating intra-motif pair-wise dependency model into the posterior probability distribution of DegSampler2. In our preliminary experiments, we found that DegSampler3 has the ability of finding more various degron sites than DegSampler2 while keeping the prediction accuracy almost the same as that of the previous method, DegSampler2.

本文言語英語
ホスト出版物のタイトルProceedings - 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering, BIBE 2019
出版社Institute of Electrical and Electronics Engineers Inc.
ページ11-17
ページ数7
ISBN(電子版)9781728146171
DOI
出版ステータス出版済み - 10 2019
イベント19th International Conference on Bioinformatics and Bioengineering, BIBE 2019 - Athens, ギリシャ
継続期間: 10 28 201910 30 2019

出版物シリーズ

名前Proceedings - 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering, BIBE 2019

会議

会議19th International Conference on Bioinformatics and Bioengineering, BIBE 2019
国/地域ギリシャ
CityAthens
Period10/28/1910/30/19

All Science Journal Classification (ASJC) codes

  • 情報システム
  • 生体医工学
  • 健康情報学

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