A list of customized dataset files for downloading

1. Holistic view of gene-miRNA interactions: These files are created to provide a holistic view of cooperativity and multiplicity of miRNA-target interactions within the complete sequence of human, mouse and rat genomes. The first row contains the heading of columns: Gene, EntrezIDs, NmiRs and miRNA names. Therefore, the first three columns depict gene symbols, their entrez identifiers and number of miRNAs predicted to target a given gene by considering at least 2 different prediction programs out of 13. The columns with 1 and 0 values indicate whether a given miRNA-target interaction is "found" or "not found", respectively. Only the first 50 rows are presented in all the html files, however, the entire holistic view files can be downloaded by clicking the "Download" link.
2. Datasets for R-statistical package: These files are created to foster large-scale stand-alone enrichment analysis. The putative target genes predicted with at least 2 different prediction programs out of 13 are utilized to generate these files. Two different type of identifier-based: gene-, Entrez- and Refseq-based Rdata files are available for downloading.
3. Datasets for GSEA package: These files are generated in a similar manner as depicted for "Datasets for R-statistical package", however, the only difference is the file format (*.gmt).

Species Promoter 5-UTR CDS 3-UTR
Gene-miRNA interactions holistic view files
Human View  Download View  Download View  Download View  Download
Mouse View  Download View  Download View  Download View  Download
Rat View  Download View  Download View  Download View  Download
Predicted target genes on each miRNA (Rdata files)
Human Gene-based  Entrez-based Gene-based  Entrez-based  Refseq-based Gene-based  Entrez-based  Refseq-based Gene-based  Entrez-based  Refseq-based
Mouse Gene-based   Entrez-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based
Rat Gene-based  Entrez-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based
Predicted target genes on each miRNA (GSEA files)
Human Gene-based   Entrez-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based
Mouse Gene-based   Entrez-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based
Rat Gene-based   Entrez-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based Gene-based   Entrez-based  Refseq-based
LncRNA-miRNA interaction predictions with at least 2 out of 4 algorithms
Rdata files GSEA files Text files
Human Gene-based    Ensembl-based    Gene-based    Ensembl-based    All-info
Mouse Gene-based    Ensembl-based    Gene-based    Ensembl-based    All-info
Rat Noncode-based    Noncode-based    All-info
CLIP datasets of human and mouse
Rdata files GSEA files Text files
Human Refseq-based    Refseq-based    All-info
Mouse Refseq-based    Refseq-based    All-info
Validated miRNA-target interactions
Species Rdata files GSEA files
Human Gene-based   Entrez-based Gene-based   Entrez-based
Mouse Gene-based   Entrez-based Gene-based   Entrez-based
Rat Gene-based   Entrez-based Gene-based   Entrez-based
Validated miRNA-target interactions on pathways, GOs, gene- and protein-classes, DOs, HPOs
KEGG human    mouse    rat
WikiPath human    mouse    rat
PantherDB human    mouse    rat
GOBP human    mouse    rat
GOMF human    mouse    rat
GOCC human    mouse    rat
gClass human    mouse    rat
pClass human    mouse    rat
DOs human   
HPOs human