The single-node potential (the prior) of node t is given by ψ t ( x t ) = 1, within b. box 0, otherwise.
For the three calibration nodes, mean posterior estimates were consistent with prior node ages, suggesting that the calibration points were sufficiently concordant [ 29, 30].
The same phenomenon was observed with the prior sentinel node procedure (31.2% of the adjuvant group, but 64.6% of re-excisions) and axillary lymphadenectomy (65.5% of the adjuvant group, but 18.2% of re-excisions).
Importantly, ER does not require any prior node location or node moving information.
Combined analyses are expected to reduce uncertainty in prior node ages as compared to traditional analysis based on simplistic fossil-based constraints [ 71, 72].
Therefore, the Bayesian majority-rule consensus trees inferred from non-gap-coded datasets were chosen as the primary trees for the present discussion, support values of the other two categories of analysis being superimposed on the prior Bayesian nodes.
There is however no consensus about which methods provide the most reliable results, and for the Bayesian methods the priors on node ages (as well as priors affecting e.g. topology) are highly debated.
Vector w, which encodes the prior knowledge of node-to-node similarity between the input pair of networks, defines the search space of potential orthologs and can be computed using sequence, structural, or functional similarity of the proteins corresponding to node pairs.
As is shown in Table 2, the prior probability of node Des-HE is obviously lower than node Man-HE, which means that the probability of Des-HE is less than that of Man-HE.
Compared to the indirect calibration approach, the prior age of node 9 is substantially younger in analysis [D] (mean age: 10.9 My) than the posterior age inferred from analysis [A] (mean age: 34.5 My).
