From: MicroRNA target prediction using thermodynamic and sequence curves
Δ G site (t) | Thermodynamic binding curve centered at the target site obtained by fitting a smooth curve through the vector observation Δ G site. |
Δ G seed (t) | Finer resolution thermodynamic binding curve centered at the seed match region obtained by fitting a smooth curve through the vector observation Δ G seed. |
Δ Δ G site (t) | Accessibility curve centered at the target site obtained by fitting a smooth curve through the vector observation Δ Δ G site. |
Δ Δ G site (t) | Finer resolution accessibility curve centered at the seed match region obtained by fitting a smooth curve through the vector observation Δ Δ G seed. |
a u site (t) | Local AU content curve centered at the target site region obtained by fitting a smooth curve through vector observation a u site. |
a u seed (t) | Finer resolution local AU content curve computed at the seed match region obtained by fitting a smooth curve through vector observation a u seed. |
Seed enrichment | A scalar feature indicating the extent to which a seed match pattern in enriched in the set of positive miRNA-mRNA interactions set on a scale of 0 to 1. |
Site conservation | The extent to which the mRNA site nucleotides are conserved across different species. |
Seed conservation | The extent to which the nucleotides in the mRNA site that are paired with the miRNA seed region are conserved across different species. This is only used when there is a canonical seed match. |
Off seed conservation | Average conservation score of mRNA nucleotides that are not paired with the seed region of the miRNA. This is only used when there is a canonical seed match. |
Target site length | Length of the mRNA target site |
Target region | mRNA region where the target site is present, namely, 3’ UTR, CDS or 5’ UTR |
Relative position of target site | Relative position of a target site within one of the 3 regions above on a scale of 0 to 1, with 0 indicating the 5’ end and 1 indicating the 3’ end. |