An algorithmic framework for network reconstruction

DOI10.1016/J.TCS.2010.08.016zbMATH Open1218.68104OpenAlexW2093312553MaRDI QIDQ548474FDOQ548474

Authors Markus Durzinsky, Robert Weismantel, Annegret K. Wagler

Publication date 28 June 2011

Published in Theoretical Computer Science (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.tcs.2010.08.016

zbMATH Keywords

computational biologyPetri netsreverse engineeringinteger decomposition

Mathematics Subject Classification ID

Systems biology, networks (92C42) Models and methods for concurrent and distributed computing (process algebras, bisimulation, transition nets, etc.) (68Q85)

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Cites work

• scientific article; zbMATH DE number 814403 (Why is no real title available?)
• A computational algebra approach to the reverse engineering of gene regulatory networks
• A mathematical approach to solve the network reconstruction problem
• Applications and Theory of Petri Nets 2004
• Petri nets as a framework for the reconstruction and analysis of signal transduction pathways and regulatory networks
• Reconstructing the regulatory network controlling commitment and sporulation in \textit{Physarum polycephalum} based on hierarchical Petri net modelling and simulation
• The combinatorics of modeling and analyzing biological systems

Cited in

(15)

• On minimality and equivalence of Petri nets
• A mathematical approach to solve the network reconstruction problem
• The combinatorics of modeling and analyzing biological systems
• A foundational framework for step-by-step model construction
• Network reconstruction of social networks based on the public information
• Petri nets as a framework for the reconstruction and analysis of signal transduction pathways and regulatory networks
• Identification of biological transition systems using meta-interpreted logic programs
• Reconstruction of extended Petri nets from time-series data by using logical control functions
• scientific article; zbMATH DE number 1950564 (Why is no real title available?)
• scientific article; zbMATH DE number 1950572 (Why is no real title available?)
• Constructing Petri net models using genetic search
• Reconstructing the regulatory network controlling commitment and sporulation in \textit{Physarum polycephalum} based on hierarchical Petri net modelling and simulation
• Network Reconstruction – A New Approach to the Traveling Salesman Problem and Complexity
• Preprocessing for network reconstruction: feasibility test and handling infeasibility
• A Petri-net-based framework for biomodel engineering

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