Literature DB >> 11500106

Stochastic generator of chemical structure. 3. Reaction network generation.

J L Faulon1, A G Sault.   

Abstract

A new method to generate chemical reaction network is proposed. The particularity of the method is that network generation and mechanism reduction are performed simultaneously using sampling techniques. Our method is tested for hydrocarbon thermal cracking. Results and theoretical arguments demonstrate that our method scales in polynomial time while other deterministic network generators scale in exponential time. This finding offers the possibility of investigating complex reacting systems such as those studied in petroleum refining and combustion.

Entities:  

Year:  2001        PMID: 11500106     DOI: 10.1021/ci000029m

Source DB:  PubMed          Journal:  J Chem Inf Comput Sci        ISSN: 0095-2338


  7 in total

1.  Can topological indices transmit information on properties but not on structures?

Authors:  Alexandru T Balaban
Journal:  J Comput Aided Mol Des       Date:  2005-11-23       Impact factor: 3.686

2.  Using Equation-Free Computation to Accelerate Network-Free Stochastic Simulation of Chemical Kinetics.

Authors:  Yen Ting Lin; Lily A Chylek; Nathan W Lemons; William S Hlavacek
Journal:  J Phys Chem B       Date:  2018-06-08       Impact factor: 2.991

Review 3.  Modeling for (physical) biologists: an introduction to the rule-based approach.

Authors:  Lily A Chylek; Leonard A Harris; James R Faeder; William S Hlavacek
Journal:  Phys Biol       Date:  2015-07-16       Impact factor: 2.583

4.  Generalizing Gillespie's Direct Method to Enable Network-Free Simulations.

Authors:  Ryan Suderman; Eshan D Mitra; Yen Ting Lin; Keesha E Erickson; Song Feng; William S Hlavacek
Journal:  Bull Math Biol       Date:  2018-03-28       Impact factor: 1.758

5.  Metabolome-scale de novo pathway reconstruction using regioisomer-sensitive graph alignments.

Authors:  Yoshihiro Yamanishi; Yasuo Tabei; Masaaki Kotera
Journal:  Bioinformatics       Date:  2015-06-15       Impact factor: 6.937

6.  Simultaneous prediction of enzyme orthologs from chemical transformation patterns for de novo metabolic pathway reconstruction.

Authors:  Yasuo Tabei; Yoshihiro Yamanishi; Masaaki Kotera
Journal:  Bioinformatics       Date:  2016-06-15       Impact factor: 6.937

Review 7.  Metabolic pathway reconstruction strategies for central metabolism and natural product biosynthesis.

Authors:  Masaaki Kotera; Susumu Goto
Journal:  Biophys Physicobiol       Date:  2016-07-15
  7 in total

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