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CycSim specifications


Unique identifier OMICS_05181
Name CycSim
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained No

Publication for CycSim

CycSim citations


Construction and completion of flux balance models from pathway databases

PMCID: 3268246
PMID: 22262672
DOI: 10.1093/bioinformatics/btr681

[…] , WEBcoli () (only for E.coli) and Model SEED (). The capabilities of these systems are as follows. Ability to model essential genes and reactions: COBRA, FASIMU, BioMet, SimPheny, Acorn, Model SEED, CycSim, MetaFlux. Flux variability analysis: COBRA, FASIMU, Acorn. Inference of reactome and metabolic pathways from genome: Model SEED, Pathway Tools. Gap-filling (): Model SEED, COBRA, MetaFlux. Mul […]


Acorn: A grid computing system for constraint based modeling and visualization of the genome scale metabolic reaction networks via a web interface

BMC Bioinformatics
PMCID: 3116490
PMID: 21609434
DOI: 10.1186/1471-2105-12-196

[…] ne or two linear programming optimizations for each reaction in the model. All of the gene names in the model are linked to Tuberculist [], a functional genomics portal dedicated to Mycobacteria. The CycSim [] system allows the computation of the maximal theoretical flux towards selected metabolites and does not implement the iterative protocols described above. However, it implements a sophistica […]

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CycSim institution(s)
CEA, DSV, IG, Genoscope, UMR 8030, Evry, France

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