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Please use this identifier to cite or link to this item: http://ntour.ntou.edu.tw:8080/ir/handle/987654321/44248

Title: Identification of simple sequence repeat biomarkers through cross-species comparison in a tag cloud representation
Authors: Jhen-Li Huang
Hao-Teng Chang
Ronshan Cheng
Hui-Huang Hsu
Tun-Wen Pai
Contributors: 國立臺灣海洋大學:資訊工程學系
NTOU:Department of Computer Science and Engineering
Date: 2014-03
Issue Date: 2017-11-20T06:52:37Z
Publisher: Biomed Research International(SCI)
Abstract: Abstract:Simple sequence repeats (SSRs) are not only applied as genetic markers in evolutionary studies but they also play an important role in gene regulatory activities. Efficient identification of conserved and exclusive SSRs through cross-species comparison is helpful for understanding the evolutionary mechanisms and associations between specific gene groups and SSR motifs. In this paper, we developed an online cross-species comparative system and integrated it with a tag cloud visualization technique for identifying potential SSR biomarkers within fourteen frequently used model species. Ultraconserved or exclusive SSRs among cross-species orthologous genes could be effectively retrieved and displayed through a friendly interface design. Four different types of testing cases were applied to demonstrate and verify the retrieved SSR biomarker candidates. Through statistical analysis and enhanced tag cloud representation on defined functional related genes and cross-species clusters, the proposed system can correctly represent the patterns, loci, colors, and sizes of identified SSRs in accordance with gene functions, pattern qualities, and conserved characteristics among species.
Relation: pp.1-11
URI: http://ntour.ntou.edu.tw:8080/ir/handle/987654321/44248
Appears in Collections:[資訊工程學系] 期刊論文

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