Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures

Hsien Da Huang; Shu Fen Fang; Jorng Tzong Horng; Cheng Yan Kao

doi:10.1109/BIBE.2001.974418

Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures

Hsien Da Huang, Shu Fen Fang, Jorng Tzong Horng, Cheng Yan Kao

Department of Computer Science and Information Engineering

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Abstract

Some structural motifs, like tetra-loops, in ribosomal RNA are known to functionally implicate in virtually every aspect of protein synthesis. Our aim in this study is to discover common structural motifs (CSMs), which are related to specific domains or functions, within the secondary structures of ribosomal RNAs in a data set constructed. After applying data mining techniques to mine the common structural motifs, a machine learning approach is used to find significant discriminating common structural motifs from groups of organisms. By applying to several data sets constructed in this study, it suggests that the CSMs can provide effective information to classify organisms and help biologists understand the functions of ribosomal RNA. From the experiments of the classification of organisms and the construction of phylogenetic trees by CSMs mined, we find our approach is promising.

Original language	English
Title of host publication	Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	104-111
Number of pages	8
ISBN (Electronic)	0769514235, 9780769514239
DOIs	https://doi.org/10.1109/BIBE.2001.974418
State	Published - 2001
Event	2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001 - Bethesda, United States Duration: 4 Nov 2001 → 6 Nov 2001

Publication series

Name	Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001

Conference

Conference	2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001
Country/Territory	United States
City	Bethesda
Period	4/11/01 → 6/11/01

Access to Document

10.1109/BIBE.2001.974418

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Huang, H. D., Fang, S. F., Horng, J. T., & Kao, C. Y. (2001). Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures. In Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001 (pp. 104-111). Article 974418 (Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/BIBE.2001.974418

Huang, Hsien Da ; Fang, Shu Fen ; Horng, Jorng Tzong et al. / Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures. Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001. Institute of Electrical and Electronics Engineers Inc., 2001. pp. 104-111 (Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001).

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title = "Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures",

abstract = "Some structural motifs, like tetra-loops, in ribosomal RNA are known to functionally implicate in virtually every aspect of protein synthesis. Our aim in this study is to discover common structural motifs (CSMs), which are related to specific domains or functions, within the secondary structures of ribosomal RNAs in a data set constructed. After applying data mining techniques to mine the common structural motifs, a machine learning approach is used to find significant discriminating common structural motifs from groups of organisms. By applying to several data sets constructed in this study, it suggests that the CSMs can provide effective information to classify organisms and help biologists understand the functions of ribosomal RNA. From the experiments of the classification of organisms and the construction of phylogenetic trees by CSMs mined, we find our approach is promising.",

author = "Huang, {Hsien Da} and Fang, {Shu Fen} and Horng, {Jorng Tzong} and Kao, {Cheng Yan}",

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Huang, HD, Fang, SF, Horng, JT & Kao, CY 2001, Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures. in Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001., 974418, Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001, Institute of Electrical and Electronics Engineers Inc., pp. 104-111, 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001, Bethesda, United States, 4/11/01. https://doi.org/10.1109/BIBE.2001.974418

Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures. / Huang, Hsien Da; Fang, Shu Fen; Horng, Jorng Tzong et al.
Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001. Institute of Electrical and Electronics Engineers Inc., 2001. p. 104-111 974418 (Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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AB - Some structural motifs, like tetra-loops, in ribosomal RNA are known to functionally implicate in virtually every aspect of protein synthesis. Our aim in this study is to discover common structural motifs (CSMs), which are related to specific domains or functions, within the secondary structures of ribosomal RNAs in a data set constructed. After applying data mining techniques to mine the common structural motifs, a machine learning approach is used to find significant discriminating common structural motifs from groups of organisms. By applying to several data sets constructed in this study, it suggests that the CSMs can provide effective information to classify organisms and help biologists understand the functions of ribosomal RNA. From the experiments of the classification of organisms and the construction of phylogenetic trees by CSMs mined, we find our approach is promising.

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Huang HD, Fang SF, Horng JT, Kao CY. Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures. In Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001. Institute of Electrical and Electronics Engineers Inc. 2001. p. 104-111. 974418. (Proceedings - 2nd Annual IEEE International Symposium on Bioinformatics and Bioengineering, BIBE 2001). doi: 10.1109/BIBE.2001.974418

Discovering common structural motifs from SSU 16 S ribosomal RNA secondary structures

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