Research article
Clustered microRNAs' coordination in regulating protein-protein interaction network
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* Corresponding author: Yi Zhao biozy@ict.ac.cn
- † Equal contributors
1 Bioinformatics Group, Center for Advanced Computing Research, Institute of Computing Technology, Chinese Academy of Sciences, Beijing, PR China
2 Graduate School of Chinese Academy of Sciences, Beijing, PR China
3 Department of Parasitology, Zhongshan School of Medicine, Sun Yat-sen University, Guangzhou, PR China
BMC Systems Biology 2009, 3:65 doi:10.1186/1752-0509-3-65
Published: 26 June 2009Additional files
Additional file 1:
Novel miRNA loci in human, mouse and rat genomes. This files contains the novel miRNA loci we found in human, mouse and rat genomes. We found them through blasting all pre-miRNA sequences of the three species on their whole genomes. These novel loci were used later to identify miRNA clusters.
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Additional file 2:
miRNA clusters found in human, mouse and rat genomes. This files contains two parts. Table 2a contains the miRNA clusters we found in human, mouse and rat genomes and their positions. Table 2b contains the miRNA clusters in which miRNAs have been mapped to their families according to miRBase's assignment. In this table 17 miRNA clusters, in which we have found significant coordination among miRNAs, are marked with red asterisk. Literature supports for the function of 15 of them are also listed.
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Additional file 3:
miRNA clusters' conservation among human, mouse and rat. This file contains miRNA clusters conserved or partially conserved among human, mouse and rat.
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Additional file 4:
Robustness on other data sets. This file contains the analysis performed on PicTar, TargetScan and PicTar overlapping, as well as miRanda predicted target set. It also contains significant KEGG human pathways that are enriched with target genes of miRNA clusters.
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