title: Predicted trans-acting siRNAs in the human brain.
abstract: Endogenous small non-coding RNAs play pivotal roles in regulating gene expression in eukaryotes. Many studies have investigated the function and molecular mechanism of microRNAs in the development and disease of various organisms via mRNA repression of protein-coding genes. Recent findings indicate microRNAs might trigger the generation of trans-acting small interfering RNAs (ta-siRNAs). The interaction among different types of small RNA molecules reveals an even more complicated and elaborate pattern of RNA regulation during gene expression than previously thought. We developed a method for mining ta-siRNA sequences and evaluated the performance of our novel method using data from Arabidopsis thaliana. Additionally, using small RNA and degradome data for the human brain, we identified 155 small RNAs that satisfied ta-siRNA characteristics. The DRAXIN and ATCAY genes, which are preferentially expressed in the human brain, were predicted to be the targets of 12 potential ta-siRNAs.
authors: The State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210093, China. xsliunju@sina.com.
authors: Xiaoshuang
authors: X
authors: Liu
authors: The State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210093, China. zhangguangxin1234@126.com.
authors: Guangxin
authors: G
authors: Zhang
authors: College of Horticulture, Jinling Institute of Technology, Nanjing 210038, China. zcq@jit.edu.cn.
authors: Changqing
authors: C
authors: Zhang
authors: The State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210093, China. jwang@nju.edu.cn.
authors: Jin
authors: J
authors: Wang
mesh_terms: D000818:Animals; D020029:Base Pairing; D001483:Base Sequence; D001665:Binding Sites; D001921:Brain / Q000378:metabolism*; D019295:Computational Biology / Q000379:methods; D066264:Datasets as Topic; D005786:Gene Expression Regulation; D006801:Humans; D051379:Mice; D034622:RNA Interference; D034741:RNA, Small Interfering / Q000737:chemistry / Q000235:genetics*
chemical_list: D034741:RNA, Small Interfering
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