Cited in
(56)- Algorithms for topology-free and alignment network queries
- ModEnzA: accurate identification of metabolic enzymes using function specific profile HMMs with optimised discrimination threshold and modified emission probabilities
- Systems Biology: The Next Frontier for Bioinformatics
- Searching and inferring colorful topological motifs in vertex-colored graphs
- Efficient reconstruction of metabolic pathways by bidirectional chemical search
- BRENDA
- Petri nets for modelling metabolic pathways: a survey
- PetriNets
- GEPASI
- gNCA
- TRANSPATH
- Cytoscape
- Celldesigner
- Bow
- LTR_FINDER
- BioModels
- Ernest
- KEGG
- JSBML
- KEGGtranslator
- QNet
- Reactome
- COBRApy
- Hybrid metabolic network completion
- IntAct
- UniProt
- Mixnet
- TANDEM
- FANMOD
- SuBliMinaL
- HMDB
- Graemlin
- Kavosh
- NeMoFinder
- PathBLAST
- fastGapFill
- meneco
- ESSYNS
- GraMoFoNe
- SIMBio
- CellPublisher
- EFICAz
- Dizzy
- QPath
- WinBEST-KIT
- A large-scale assessment of exact lumping of quantitative models in the biomodels repository
- VisANT
- TAMBIS
- GNA
- Recent developments in parameter estimation and structure identification of biochemical and genomic systems
- Hypothesizing about signaling networks
- Metabolic networks are NP-hard to reconstruct
- Computational challenges in systems biology
- Distributed and sequential algorithms for bioinformatics
- Incorporating biological information into linear models: a Bayesian approach to the selection of pathways and genes
- PoCaB: A Software Infrastructure to Explore Algebraic Methods for Bio-chemical Reaction Networks
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