学科主题基础医学
An upstream interacting context based framework for the computational inference of microRNA functions
Qiu, Chengxiang1; Wang, Dong1; Wang, Edwin2; Cui, Qinghua1,3,4
刊名MOLECULAR BIOSYSTEMS
2012
DOI10.1039/c2mb05469h
8期:5页:1492-1498
收录类别SCI
文章类型Article
WOS标题词Science & Technology
类目[WOS]Biochemistry & Molecular Biology
研究领域[WOS]Biochemistry & Molecular Biology
关键词[WOS]TRANSCRIPTION FACTOR ; REGULATORY NETWORK ; HUMAN-DISEASE ; EXPRESSION ; MOUSE ; PATHWAYS ; MIR-16 ; CANCER ; CELLS ; TOOL
英文摘要

With the rapid accumulation of microRNA (miRNAs), a class of newly identified small noncoding RNAs, in silico inference of miRNA functions has become one of the central tasks in miRNA bioinformatics. Traditional methods have helped in the understanding of miRNAs, but they also have limitations. In this paper, we first gave a brief review for the progress of bioinformatic methods in miRNA function inference and next presented a new framework (miRUPnet) for inferring the functions of miRNAs by functional analysis of a novel dimension of miRNA network, the context of its transcription factors (TFs) in a protein-protein interaction network. This dimension represents specific biological processes initiated by TF combinations and therefore differs from traditional methods in concept. To validate the accuracy of our method, we first comprehensively mined literature-reported miRNA functions and then made a comparison with the prediction result. The results show that even using the stringent TFBS rule, our method has independently predicted 68.2% of the literature reported miRNA functions, suggesting that miRUPnet has a high accuracy. Moreover, our approach successfully predicted specific functions that could not be inferred for given miRNAs using traditional methods. More importantly, it can distinguish miRNAs from the same family, as well as those present in multiple copies that cannot be differentiated through traditional methods. This study presents a new concept and dimension for miRNA function inference. miRUPnet represents an important and novel method for inferring the function of miRNAs. miRUPnet is available at http://cmbi.bjmu.edu.cn/mirupnet.

语种英语
WOS记录号WOS:000302368600014
引用统计
被引频次:6[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.bjmu.edu.cn/handle/400002259/67710
专题北京大学基础医学院_北京大学系统生物医学研究所
北京大学基础医学院
作者单位1.Sch Basic Med Sci, Dept Biomed Informat, Beijing 100191, Peoples R China
2.Peking Univ, Inst Syst Biomed, Beijing 100191, Peoples R China
3.Natl Res Council Canada, Biotechnol Res Inst, Montreal, PQ H4P 2R2, Canada
4.Peking Univ, MOE Key Lab Mol Cardiovasc Sci, Beijing 100191, Peoples R China
推荐引用方式
GB/T 7714
Qiu, Chengxiang,Wang, Dong,Wang, Edwin,et al. An upstream interacting context based framework for the computational inference of microRNA functions[J]. MOLECULAR BIOSYSTEMS,2012,8(5):1492-1498.
APA Qiu, Chengxiang,Wang, Dong,Wang, Edwin,&Cui, Qinghua.(2012).An upstream interacting context based framework for the computational inference of microRNA functions.MOLECULAR BIOSYSTEMS,8(5),1492-1498.
MLA Qiu, Chengxiang,et al."An upstream interacting context based framework for the computational inference of microRNA functions".MOLECULAR BIOSYSTEMS 8.5(2012):1492-1498.
条目包含的文件
文件名称/大小 文献类型 版本类型 开放类型 使用许可
c2mb05469h.pdf(2151KB)期刊论文作者接受稿开放获取CC BY-NC-SA浏览 请求全文
个性服务
推荐该条目
保存到收藏夹
查看访问统计
导出为Endnote文件
谷歌学术
谷歌学术中相似的文章
[Qiu, Chengxiang]的文章
[Wang, Dong]的文章
[Wang, Edwin]的文章
百度学术
百度学术中相似的文章
[Qiu, Chengxiang]的文章
[Wang, Dong]的文章
[Wang, Edwin]的文章
必应学术
必应学术中相似的文章
[Qiu, Chengxiang]的文章
[Wang, Dong]的文章
[Wang, Edwin]的文章
相关权益政策
暂无数据
收藏/分享
文件名: c2mb05469h.pdf
格式: Adobe PDF
此文件暂不支持浏览
所有评论 (0)
暂无评论
 

除非特别说明,本系统中所有内容都受版权保护,并保留所有权利。