Table 2 Identification of Indicator Prey Proteins ${\widehat{\mathit{Q}}}^{\mathit{C}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathbf{C}}\right)$ , ${\widehat{\mathit{Q}}}^{\mathit{B}}\left({\tilde{\mathit{p}}}_{\mathbf{min}}^{\mathit{B}}\right)$ and Reproducible Experimental Replicates ${\widehat{\mathit{L}}}^{\mathit{C}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{C}}\right)$ , ${\widehat{\mathit{L}}}^{\mathit{B}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{B}}\right)$ , and joint inclusion probabilities ${\widehat{\mathit{p}}}_{\mathit{\text{J}}}^{\mathit{C}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{C}}\right)$ , ${\widehat{\mathit{p}}}_{\mathbf{\text{J}}}^{\mathit{B}}\left({\tilde{\mathit{p}}}_{\text{min}}^{\mathit{B}}\right)$ for a range of marginal inclusion probability thresholds ${\tilde{\mathit{p}}}_{\text{min}}^{\mathit{C}}\mathit{\in }\left[\mathbf{0},1\right]$ and ${\tilde{\mathit{p}}}_{\text{min}}^{\mathit{B}}\mathit{\in }\left[0,1\right]$ in the control and CTNNBIP1 bait experiments respectively

${\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{C}}$Marginal Inclusion Probability Threshold

${\widehat{\mathit{Q}}}^{\mathit{C}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{C}}\right)$

# Selected Indicator Prey Proteins

(% of${\widehat{\mathit{\hspace{0.17em}Q}}}^{\mathit{C}}$)

${\widehat{\mathit{L}}}^{\mathit{C}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{C}}\right)$

# Reproducible Experimental Replicates

(% of${\mathit{K}}^{\mathit{C}}\mathbf{=}\mathbf{200}$)

${\widehat{\mathit{p}}}_{\text{J}}^{\mathit{C}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{C}}\right)$

Joint Inclusion Probability

${\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{B}}$

Marginal Inclusion Probability Threshold

${\widehat{\mathit{Q}}}^{\mathit{B}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{B}}\right)$

# Selected Indicator Prey Proteins

(% of${\widehat{\mathit{\hspace{0.17em}Q}}}^{\mathit{B}}$)

${\widehat{\mathit{L}}}^{\mathit{B}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{B}}\right)$

Reproducible Experimental Replicates

(% of${\mathbf{K}}^{\mathbf{B}}\mathbf{=}\mathbf{9}$)

${\widehat{\mathit{p}}}_{\mathit{\text{J}}}^{\mathit{B}}\left({\tilde{\mathit{p}}}_{\mathit{min}}^{\mathit{B}}\right)$

Joint Inclusion Probability