Method for Analyzing Switching and Regulation Processes

Simple SummaryContent extracted from patent full text and abstract with AI.

This invention provides a method for analyzing switching and regulation processes in biological or chemical systems by measuring key parameters over time, discretizing the changes, and representing the results as directed graphs (e.g., Petri nets) for in-depth correlation and structural analysis. The method enables the identification and quantification of temporally correlated state transitions in subsets of system components, such as genes or proteins, within cells or reaction systems.

Use CasesContent extracted from patent full text and abstract with AI.

• Analyzing gene regulatory networks in single cells or cell populations to study cell differentiation processes.
• Studying temporal patterns of gene expression during biological events such as differentiation, response to stimuli, or disease progression.
• Evaluating the impact of perturbations (e.g., drugs, light stimulus) on cell signaling networks.
• Characterizing dynamic interactions among multiple biomolecules in biochemical assays.
• Identifying key gene or protein hubs for biotechnological or pharmaceutical targeting.
• Modeling regulatory mechanisms in systems biology research.

BenefitsContent extracted from patent full text and abstract with AI.

• Provides true time-series insights into molecular switching and regulation, overcoming limitations of snapshot or pseudo-time analyses.
• Enables identification of both sequential and concurrent (parallel) regulatory events in complex systems.
• Facilitates quantitative comparison and correlation of state transitions across multiple system components.
• Uncovers key network motifs, such as hubs and regulatory pathways, enabling better understanding of regulatory architectures.
• Applicable to both eukaryotic and prokaryotic systems, and adaptable to a variety of experimental designs.
• Supports data-driven modeling of dynamic biological networks, aiding research in developmental biology, disease, and drug response.

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Patent Abstract

The present invention relates to a method for analysing switching and regulation processes, the method comprising the following steps: a) providing at least one reaction system; b) measuring and selecting at least one parameter of at least one reaction system from step a); c) repeating step b) at least once; d) creating at least one time series by means of at least one parameter selected in step b); e) discretising the measured parameter values from step b) in the time series from step d) in order to generate a sequence of micro-states; f) generating a directed graph of macro-states from the at least one discretised time series in step e); g) performing a structural analysis of the directed graph from step f) for combined determination of the number of temporally correlated changes to the micro-states in a subset of randomly selected system components.