miRanda software

Supplementary Material for:
'Human microRNA targets'

John B¹, Enright AJ^1,4, Aravin A², Tuschl T², Sander C¹ and Marks DS³
PLoS Biology (2004)

• PDF of the article
  
  
• Supplementary tables
  
  1. Human miRNAs in introns (XLS)
  2. Predicted mammalian miRNA targets by gene. (XLS)
  3. Predicted mammalian miRNA targets by miRNA. (XLS)
  4. Predicted fish targets by gene. (XLS)
  5. Predicted fish targets by miRNA. (XLS)
  6. High scoring miRNA matches in human cDNAs. (XLS)
  7. High scoring miRNA matches in human coding regions. (XLS)
  8. Estimate of false positives. (XLS)
  9. Predicted targets that are associated with FMRP (updated*) (XLS)
  10. Function of targets by Interpro and GO mapping. (XLS)
  11. Target genes that contain predicted CPE motifs. (XLS)
  12. Conserved vertebrate target genes. (XLS)
  13. Overlap of the predicted targets with validated gene targets (Lewis et al. 2003, Kiriakidou et al. 2004). (XLS)
  
  
• Supplementary Figure
  
  1. The over representation of the GO and Interpro domains (PDF)
  
  
• Figures
  
  Figure 1: Target prediction pipeline for microRNA targets in vertebrates. (PDF)
  Figure 2: Distribution of transcripts with cooperativity of target sites and estimated number of false positives (PDF)
  Figure 3: Multiplicity and cooperativity in miRNA-target interactions. (PDF)
  Figure 4 :Potential miRNA target sites in the 3' UTRs of selected genes. (PDF)
  Figures 1-4 (PDF)
  
  
• Data
  
  Human 3' UTR dataset in fasta format:(TXT)
  Mouse 3' UTR dataset in fasta format:(TXT)
  Rat 3' UTR dataset in fasta format:(TXT)
  
  
  *Details of the updates
  
  
  ¹Computational Biology Center, Memorial Sloan-Kettering Cancer Center, 307 East 63rd St, New York, NY 10021, USA.
  
  ²Laboratory of RNA Molecular Biology, The Rockefeller University, 1230 York Ave., New York, NY 10021, USA.
  
  ³Department of Systems Biology, Harvard Medical School, Boston, MA, USA
  
  ⁴Wellcome Trust Sanger Institute, Cambridge, UK, EU.
  
  

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