A generic framework to coarse-grain stochastic reaction networks by Abstract Interpretation
In the last decades, logical or discrete models have emerged as a successful paradigm for capturing and predicting the behaviors of systems of molecular interactions. Intuitively, they consist in sampling the abundance of each kind of biochemical entity within finite sets of intervals and deriving transitions accordingly. On one hand, formally proven sound derivation from more precise descriptions (such as from reaction networks) may include many fictitious behaviors. On the other hand, direct modeling usually favors dominant interactions with no guarantee on the behaviors that are neglected. In this paper, we formalize a sound coarse-graining approach for stochastic reaction networks. The originality of our approach relies on two main ingredients. Firstly, we abstract values by intervals that overlap in order to introduce a minimal effort for the system to go back to the previous interval, hence limiting fictitious oscillations in the coarse-grained models. Then, we compute for pairs of transitions (in the coarse-grained model) bounds on the probabilities on which one will occur first. We illustrate our ideas on two case studies and demonstrate how techniques from Abstract Interpretation can be used to construct more precise discretization methods, while providing a framework to further investigate the underlying structure of logical and discrete models.
Tue 17 JanDisplayed time zone: Eastern Time (US & Canada) change
11:00 - 12:30 | Neural networks and Abstract InterpretationVMCAI at Arlington Chair(s): Grigory Fedyukovich Florida State University | ||
11:00 15mTalk | Maximal Robust Neural Network Specifications via Oracle-guided Numerical OptimizationRecorded VMCAI | ||
11:15 15mTalk | SMT-Based Modeling and Verification of Spiking Neural Networks: A Case StudyRecorded VMCAI | ||
11:30 30mTalk | A generic framework to coarse-grain stochastic reaction networks by Abstract Interpretation VMCAI | ||
12:00 30mTalk | Sound Symbolic Execution via Abstract Interpretation and its Application to Security VMCAI Xavier Rival Inria; ENS; CNRS; PSL University, Ignacio Tiraboschi Inria, France / ENS, France, Tamara Rezk INRIA |