Searching the coding region for microRNA targets.

  title={Searching the coding region for microRNA targets.},
  author={Ray M. Mar{\'i}n and Miroslav Sulc and Jiř{\'i} Van{\'i}{\vc}ek},
  volume={19 4},
Finding microRNA targets in the coding region is difficult due to the overwhelming signal encoding the amino acid sequence. Here, we introduce an algorithm (called PACCMIT-CDS) that finds potential microRNA targets within coding sequences by searching for conserved motifs that are complementary to the microRNA seed region and also overrepresented in comparison with a background model preserving both codon usage and amino acid sequence. Precision and sensitivity of PACCMIT-CDS are evaluated… CONTINUE READING