A lexical framework for semantic annotation of positive and negative regulation relations in biomedical pathways

Knowledge of regulation relations is widely applied by biomedical researchers in for example experiment design on regulatory pathways and in systems biology. In the work presented here, we analyze in total 28 verbs and in dept 6 frequently used verbs denoting the regulation relations regulates, positively regulates and negatively regulates through corpus analysis. We propose a formal representation of the acquired knowledge as domain specific semantic frames and the semantic types of the relata of the resulting relationships. We suggest that the acquired knowledge patterns can be used to identify and reason over knowledge represented in texts from the