Guide strand secondary structure, thermodynamics, entropy and target secondary structure position specific correlation coefficients with RNA interference activities. Thermodynamics and entropy correlation measures comprise a 2 nucleotide sliding window. Secondary structures can be interpreted as the relative contribution of this position being within a secondary structure and that contribution leads to RNAi activity. Position 1 is the 5' most position of the guide strand.
Peek BMC Bioinformatics 2007 8:182 doi:10.1186/1471-2105-8-182