期刊
GENOMICS PROTEOMICS & BIOINFORMATICS
卷 20, 期 3, 页码 536-540出版社
ELSEVIER
DOI: 10.1016/j.gpb.2021.12.002
关键词
KaKs_Calculator; Selective pressure; Substitution; Coding; Non-coding
资金
- Strategic Priority Research Program of the Chinese Academy of Sciences [XDA19050302]
- National Natural Science Foundation of China [31871328, 32030021]
- National Key R&D Program of China [2017YFC0907502]
- International Partnership Program of the Chinese Academy of Sciences [153F11KYSB20160008]
KaKs_Calculator 3.0 is an updated toolkit for calculating selective pressure on coding and non-coding sequences, with great potential for genome-wide studies on natural selection.
KaKs_Calculator 3.0 is an updated toolkit that is capable of calculating selective pressure on both coding and non-coding sequences. Similar to the nonsynonymous/synonymous substitution rate ratio for coding sequences, selection on non-coding sequences can be quantified as the ratio of non-coding nucleotide substitution rate to synonymous substitution rate of adjacent coding sequences. As testified on empirical data, KaKs_Calculator 3.0 shows effectiveness to detect the strength and mode of selection operated on molecular sequences, accordingly demonstrating its great potential to achieve genome-wide scan of natural selection on diverse sequences and identification of potentially functional elements at a whole-genome scale. The package of KaKs_Calculator 3.0 is freely available for academic use only at https://ngdc.cncb.ac.cn/biocode/ tools/BT000001.
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