DegSampler: Collapsed Gibbs sampler for detecting E3 binding sites

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

抄録

In this paper, we address the problem of finding sequence motifs in substrate proteins specific to E3 ubiquitin ligases (E3s). We formulated a posterior probability distribution of sites by designing a likelihood function based on amino acid indexing and a prior distribution based on the disorderness of protein sequences. These designs are derived from known characteristics of E3 binding sites in substrate proteins. Then, we devise a collapsed Gibbs sampling algorithm for the posterior probability distribution called DegSampler. We performed computational experiments using 36 sets of substrate proteins specific to E3s and compared the performance of DegSampler with those of popular motif finders, MEME and GLAM2. The results showed that DegSampler was superior to the others in finding E3 binding motifs. Thus, DegSampler is a promising tool for finding E3 motifs in substrate proteins.

本文言語英語
ホスト出版物のタイトルProceedings - 2018 IEEE 18th International Conference on Bioinformatics and Bioengineering, BIBE 2018
出版社Institute of Electrical and Electronics Engineers Inc.
ページ1-9
ページ数9
ISBN(電子版)9781538662168
DOI
出版ステータス出版済み - 12 6 2018
イベント18th IEEE International Conference on Bioinformatics and Bioengineering, BIBE 2018 - Taichung, 台湾省、中華民国
継続期間: 10 29 201810 31 2018

出版物シリーズ

名前Proceedings - 2018 IEEE 18th International Conference on Bioinformatics and Bioengineering, BIBE 2018

その他

その他18th IEEE International Conference on Bioinformatics and Bioengineering, BIBE 2018
Country台湾省、中華民国
CityTaichung
Period10/29/1810/31/18

All Science Journal Classification (ASJC) codes

  • Genetics(clinical)
  • Health Informatics
  • Oncology
  • Biomedical Engineering
  • Cardiology and Cardiovascular Medicine

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