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

[…] etabolic networks. It provides advantages when compared to the GSMN-TB server with respect to visualisation and implements a more convenient interface for model specification. Its main advantage over CycSim and WEbcoli is the implementation of the FVA and reaction essentiality scans. FVA is currently the only method, which allows the exploration of internal flux distribution in GSMN.s It is effici […]

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

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