Integrating heterogeneous knowledges for understanding biological behaviors: a probabilistic approach

Despite recent molecular technique improvements, biological knowledge remains incomplete. Reasoning on living systems hence implies to integrate heterogeneous and partial informations. Although current investigations successfully focus on qualitative behaviors of macromolecular networks, others approaches show partial quantitative informations like protein concentration variations over times. We consider that both informations, qualitative and quantitative, have to be combined into a modeling method to provide a better understanding of the biological system. We propose here such a method using a probabilistic-like approach. After its exhaustive description, we illustrate its advantages by modeling the carbon starvation response in Escherichia coli. In this purpose, we build an original qualitative model based on available observations. After the formal verification of its qualitative properties, the probabilistic model shows quantitative results corresponding to biological expectations which confirm the interest of our probabilistic approach.Comment: 10 page

Nonmonotonic Probabilistic Logics between Model-Theoretic Probabilistic Logic and Probabilistic Logic under Coherence

Recently, it has been shown that probabilistic entailment under coherence is weaker than model-theoretic probabilistic entailment. Moreover, probabilistic entailment under coherence is a generalization of default entailment in System P. In this paper, we continue this line of research by presenting probabilistic generalizations of more sophisticated notions of classical default entailment that lie between model-theoretic probabilistic entailment and probabilistic entailment under coherence. That is, the new formalisms properly generalize their counterparts in classical default reasoning, they are weaker than model-theoretic probabilistic entailment, and they are stronger than probabilistic entailment under coherence. The new formalisms are useful especially for handling probabilistic inconsistencies related to conditioning on zero events. They can also be applied for probabilistic belief revision. More generally, in the same spirit as a similar previous paper, this paper sheds light on exciting new formalisms for probabilistic reasoning beyond the well-known standard ones.Comment: 10 pages; in Proceedings of the 9th International Workshop on Non-Monotonic Reasoning (NMR-2002), Special Session on Uncertainty Frameworks in Nonmonotonic Reasoning, pages 265-274, Toulouse, France, April 200