Identification of Simple Sequence Repeat Biomarkers through Cross-Species Comparison in a Tag Cloud Representation

doi:10.1155/2014/678971

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題名:	Identification of Simple Sequence Repeat Biomarkers through Cross-Species Comparison in a Tag Cloud Representation
作者:	Huang, Jhen-Li;Chang, Hao-Teng;Cheng, Ronshan;Hsu, Hui-Huang;Pai, Tun-Wen
貢獻者:	淡江大學資訊工程學系
日期:	2014-03-31
上傳時間:	2015-01-28 11:07:33 (UTC+8)
出版者:	America: Hindawi Publishing Corporation
摘要:	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.
關聯:	BioMed Research International 2014(2014), 678971(11pages)
DOI:	10.1155/2014/678971
顯示於類別:	[資訊工程學系暨研究所] 期刊論文

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