<i>In-silico</i> DFs import results for permutations on DFs interactions, tested for <i>Xrn1^D208A</i> mutation.

The Xrn1D208A mutation forces the factors that directly or indirectly interact with Xrn1D208A to stay in the cytoplasm and not import into the nucleus. Using this mutation, we initiated our model with various permutations on decay factors interactions, executed the model for each such permutation to predict the import status of each decay factor and compared it to our in-vivo observations. There are 4096 (212) possible permutations for the interactions of the decay factors. We chose to execute 11 permutations (columns 1–11), where 3 of them (column 4, 6, 7) were verified by the model to match the experimental findings. Two of these options are presented graphically in Figure S2 in File S1. The executions in column 1, 2 and 3 includes our initial conjectures and do not match the experimental findings. In the executions presented in columns 4–11, the direct interactions between Pat1 and Edc3, and Lsm1-7 were eliminated, since our experiments argued against them (see Figure 4). The “Model Initiation” rows represent the model initiations with various possible decay factors interactions and “Model Predictions” rows represent the model outcomes of decay factors import status. The (*) sign in the “Model Predictions” rows highlights the in-silico outcomes that contradict our in-vivo observations presented in Figure 4 and Table 1 (i.e., for Xrn1D208A we observed that Xrn1 = no import, Dcp1 = no import, Dcp2 = no import, Pat1 = no import, Lsm1 = import and Edc3 = import). In-silico DFs import results for permutations on DFs interactions, tested for Xrn1D208A mutation.