RIP-Chip analysis supports different roles for AGO2 and GW182 proteins in recruiting and processing microRNA targets

Table 1 Definition of variables used to model miRNA activity

Variable name	Formula	BS
F1	∑_iexpr(miRNA_i) × BS_ij × expr(mRNA_j)	number in 3’UTR
F2	∑_iexpr(miRNA_i) × BS_ij	number in 3’UTR
F3	∑_iBS_ij × expr(mRNA_j)	number in 3’UTR
F4	∑_iBS_ij	number in 3’UTR
F1d	∑_iexpr(miRNA_i) × dBS_ij × expr(mRNA_j)	density in 3’UTR
F2d	∑_iexpr(miRNA_i) × dBS_ij	density in 3’UTR
F3d	∑_idBS_ij × expr(mRNA_j)	density in 3’UTR
F4d	∑_idBS_ij	density in 3’UTR
F5	∑_iexpr(miRNA_i) × BS_ij × expr(mRNA_j)	number in coding region
F6	∑_iexpr(miRNA_i) × BS_ij	number in coding region
F7	∑_iBS_ij × expr(mRNA_j)	number in coding region
F8	∑_iBS_ij	number in coding region
F5d	∑_iexpr(miRNA_i) × dBS_ij × expr(mRNA_j)	density in coding region
F6d	∑_iexpr(miRNA_i) × dBS_ij	density in coding region
F7d	∑_idBS_ij × expr(mRNA_j)	density in coding region
F8d	∑_idBS_ij	density in coding region
F9	expr(mRNA_j)	Not applicable
L1	length of 3’UTR	Not applicable
L2	length of coding region	Not applicable

The column BS provides details about the miRNA predicted binding sites used to compute BS_ij (the binding sites matrix). For each variable, the Formula defines the values associated to each mRNA_j

ISSN: 1471-2105