کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
1938909 | 1050749 | 2007 | 5 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Construction of phylogenetic profiles based on the genetic distance of hundreds of genomes
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کلمات کلیدی
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
زیست شیمی
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چکیده انگلیسی
Phylogenetic profiles have been widely applied in functional genomics research, especially in the prediction of protein-protein interactions (PPIs). A key issue in phylogenetic profiling is how to effectively select reference organisms from the available hundreds of genomes. In this study, we performed an assessment of reference organism selection based on the genetic distance between the target organism and 167 reference organisms. We found that inclusion of reference organisms from all distance levels had better performance in the prediction of PPIs than that at each distance level. The PPI prediction reached an optimal level when 70% of the reference organisms at all distance levels were selected; and this performance was similar to that in the optimal condition based on the taxonomy tree in our previous study. Because measurement of genetic distance is direct and simple compared to the topology of the taxonomy tree, we suggest selecting reference organisms based on genetic distance in the construction of phylogenetic profiles.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Biochemical and Biophysical Research Communications - Volume 355, Issue 3, 13 April 2007, Pages 849-853
Journal: Biochemical and Biophysical Research Communications - Volume 355, Issue 3, 13 April 2007, Pages 849-853
نویسندگان
Jingchun Sun, Zhongming Zhao,