Causal interactions from proteomic profiles: Molecular data meet pathway knowledge.

ABSTRACT: We present a computational method to infer causal mechanisms in cell biology by analyzing changes in high-throughput proteomic profiles on the background of prior knowledge captured in biochemical reaction knowledge bases. The method mimics a biologist's traditional approach of explaining changes in data using prior knowledge but does this at the scale of hundreds of thousands of reactions. This is a specific example of how to automate scientific reasoning processes and illustrates the power of mapping from experimental data to prior knowledge via logic programming. The identified mechanisms can explain how experimental and physiological perturbations, propagating in a network of reactions, affect cellular responses and their phenotypic consequences. Causal pathway analysis is a powerful a

SUBMITTER: Babur O 

PROVIDER: S-EPMC8212145 | biostudies-literature | 2021 Jun

REPOSITORIES: biostudies-literature