David T. Carreon Bradley

Residues Neighboring an SH3-Binding Motif Participate in the Interaction In Vivo

The paper measures how mutations in residues near an SH3-binding motif affect binding strength in vivo and proposes a model involving interactions outside the canonical binding pocket.

Cryptic genetic variation shapes the fate of gene duplicates in a protein interaction network

The paper shows that mutations in protein binding domains, combined with regulatory divergence, determine the fate of gene duplicates in a protein interaction network.

The fitness cost of spurious phosphorylation

The paper quantifies the fitness cost of spurious phosphorylation in yeast by expressing tyrosine kinases and analyzing phosphoproteomes, finding a strong correlation between spurious phosphorylation and decreased growth.

Protein context shapes the specificity of domain-peptide interactions in vivo

The paper shows that SH3 domain specificity in PPIs is influenced by host protein identity and domain position, not just intrinsic domain properties.

Proteome-wide inference of protein kinase regulatory circuits

The paper predicts human kinase-kinase regulatory relationships and their effects using data-driven methods, revealing a sparse but denser network than typically considered.