Computing parametric alignment of RNA structures: Visualization and practice

Wangsen Feng; Bei Zhang; Lusheng Wang

doi:10.1109/ICFCSA.2011.11

Computing parametric alignment of RNA structures: Visualization and practice

Wangsen Feng, Bei Zhang, Lusheng Wang

Department of Computer Science

Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review

Abstract

Alignment of RNA structures is very important in biological research. Similar to pair-wise sequence alignment, there is often disagreement about how to weight matches, mismatches, indels and gaps when comparing two RNA structures. Here, we develop a visual tool for computing parametric alignment of two RNA structures. With this tool, users can see explicitly and completely the effect of parameter choices on the optimal alignments of RNA structures. The software is available for academic use (http://www.cs.cityu.edu.hk/~lwang/ software/ParaRNA/). © 2011 IEEE.

Original language	English
Title of host publication	Proceedings - 2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011
Pages	16-18
DOIs	https://doi.org/10.1109/ICFCSA.2011.11
Publication status	Published - 2011
Event	2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011 - Hong Kong, China Duration: 18 Jun 2011 → 19 Jun 2011

Conference

Conference	2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011
Place	China
City	Hong Kong
Period	18/06/11 → 19/06/11

Research Keywords

Parametric alignment
RNA structures

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10.1109/ICFCSA.2011.11

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title = "Computing parametric alignment of RNA structures: Visualization and practice",

abstract = "Alignment of RNA structures is very important in biological research. Similar to pair-wise sequence alignment, there is often disagreement about how to weight matches, mismatches, indels and gaps when comparing two RNA structures. Here, we develop a visual tool for computing parametric alignment of two RNA structures. With this tool, users can see explicitly and completely the effect of parameter choices on the optimal alignments of RNA structures. The software is available for academic use (http://www.cs.cityu.edu.hk/~lwang/ software/ParaRNA/). {\textcopyright} 2011 IEEE.",

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year = "2011",

doi = "10.1109/ICFCSA.2011.11",

language = "English",

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pages = "16--18",

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note = "2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011 ; Conference date: 18-06-2011 Through 19-06-2011",

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Feng, W, Zhang, B & Wang, L 2011, Computing parametric alignment of RNA structures: Visualization and practice. in Proceedings - 2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011., 5968016, pp. 16-18, 2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011, Hong Kong, China, 18/06/11. https://doi.org/10.1109/ICFCSA.2011.11

Computing parametric alignment of RNA structures: Visualization and practice. / Feng, Wangsen; Zhang, Bei; Wang, Lusheng.
Proceedings - 2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011. 2011. p. 16-18 5968016.

Research output: Chapters, Conference Papers, Creative and Literary Works › RGC 32 - Refereed conference paper (with host publication) › peer-review

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N2 - Alignment of RNA structures is very important in biological research. Similar to pair-wise sequence alignment, there is often disagreement about how to weight matches, mismatches, indels and gaps when comparing two RNA structures. Here, we develop a visual tool for computing parametric alignment of two RNA structures. With this tool, users can see explicitly and completely the effect of parameter choices on the optimal alignments of RNA structures. The software is available for academic use (http://www.cs.cityu.edu.hk/~lwang/ software/ParaRNA/). © 2011 IEEE.

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M3 - RGC 32 - Refereed conference paper (with host publication)

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BT - Proceedings - 2011 International Conference on Future Computer Sciences and Application, ICFCSA 2011

Y2 - 18 June 2011 through 19 June 2011

ER -

Computing parametric alignment of RNA structures: Visualization and practice

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