|miR2Gene: pattern discovery of single gene, multiple genes, and pathways by enrichment analysis of their microRNA regulators|
|Qiu, Chengxiang1,2,3; Wang, Juan1,2,3; Cui, Qinghua1,2,3|
|刊名||BMC SYSTEMS BIOLOGY|
|WOS标题词||Science & Technology|
|类目[WOS]||Mathematical & Computational Biology|
|研究领域[WOS]||Mathematical & Computational Biology|
|关键词[WOS]||INTEGRATED ANALYSIS ; EXPRESSION ; IMATINIB ; GENOMICS ; TARGETS ; TOOL|
Background: In recent years, a number of tools have been developed to explore microRNAs (miRNAs) by analyzing their target genes. However, a reverse problem, that is, inferring patterns of protein-coding genes through their miRNA regulators, has not been explored. As various miRNA annotation data become available, exploring gene patterns by analyzing the prior knowledge of their miRNA regulators is becoming more feasible.
Results: In this study, we developed a tool, miR2Gene, for this purpose. Various sets of miRNAs, according to prior rules such as function, associated disease, tissue specificity, family, and cluster, were integrated with miR2Gene. For given genes, miR2Gene evaluates the enrichment of the predicted miRNAs that regulate them in each miRNA set. This tool can be used for single genes, multiple genes, and KEGG pathways. For the KEGG pathway, genes with enriched miRNA sets are highlighted according to various rules. We confirmed the usefulness of miR2Gene through case studies.
Conclusions: miR2Gene represents a novel and useful tool that integrates miRNA knowledge for protein-coding gene analysis. miR2Gene is freely available at http://cmbi.hsc.pku.edu.cn/mir2gene.
|资助机构||Natural Science Foundation of China|
|作者单位||1.Peking Univ, Hlth Sci Ctr, Dept Biomed Informat, Beijing 100191, Peoples R China|
2.Peking Univ, MOE Key Lab Mol cardiovasc Sci, Beijing 100191, Peoples R China
3.Inst Chem Def, Dept Chem Def, Beijing 102205, Peoples R China
|Qiu, Chengxiang,Wang, Juan,Cui, Qinghua. miR2Gene: pattern discovery of single gene, multiple genes, and pathways by enrichment analysis of their microRNA regulators[J]. BMC SYSTEMS BIOLOGY,2011,suppl.2.|
|APA||Qiu, Chengxiang,Wang, Juan,&Cui, Qinghua.(2011).miR2Gene: pattern discovery of single gene, multiple genes, and pathways by enrichment analysis of their microRNA regulators.BMC SYSTEMS BIOLOGY,suppl.2.|
|MLA||Qiu, Chengxiang,et al."miR2Gene: pattern discovery of single gene, multiple genes, and pathways by enrichment analysis of their microRNA regulators".BMC SYSTEMS BIOLOGY suppl.2(2011).|
|art%3A10.1186%2F1752（1286KB）||期刊论文||作者接受稿||开放获取||CC BY-NC-SA||浏览 请求全文|