systemrecon-class

systemrecon-class

Usage

label

Format

An object of class character of length 72.

Slots

Taxon_id

Taxonomy ID

NCBI_gene

Gene information from NCBI

Uniprot_gene

Gene information from Uniprot

Genetic_information

Genetic information

KEGG_reaction

Reactions in KEGG

MetaCyc_reaction

Reactions in MetaCyc

Metabolic_function

Metabolic function

Metabolic_reaction

Metabolic reaction

Metabolites_id

Metabolites ID

Reconstruction_data

Reconstruction data

Genome_sequence

Genome sequence

Genome_sequence_reference

Reference of genome sequence

Reconstruction_data_reference

Reference of reconstruction data

Data_statistics_metabolites

Data statistics of metabolites

PubChem_molecular_formula

Molecular formula in PubChem database

Brenda_molecular_formula

Molecular formula in Brenda database

Neutral_molecular_formula

Neutral molecular formula

Charged_molecular_formula

Charged molecular formula

Chebi_molecular_formula

Chebi molecular formula

Conservation_of_mass_and_charge

Conservation of mass and charge

Web_GCM_Gibbs

Web GCM Gibbs

Gibbs_free_energy_information

Information of gibbs free energy

Gene_id

Gene ID

Protein_id

Protein ID

Cellular_compartment

Information of cellualr compartment

Subsystem_information

Subsystem information

Uniform_identifier_metabolites

Uniform identifiers of metabollites

Spontaneous_reactions

Spontaneous reactions

Extracellular_and_periplasmic_transport_reactions

Extracellular and periplasmic transport reactions

Exchange_reactions

Exchange reactions

Intracellular_transport_reactions

ntracellular transport reactions

Amino_acid_weight

Amino acid weight

Amino_acid_molecular_weight

Amino acid_molecular weight

Dry_weight

Dry weight

Amino_acid_coefficient

Amino acid coefficient

Nucleotide_coefficient

Nucleotide coefficient

Nucleotide_weight

Nucleotide weight

Nucleotide_molecular_weight

Nucleotide molecular weight

Biomass_reactions

Biomass reactions

Demand_reactions

Demand reactions

Sink_reactions

Sink reactions

Scatter_plot_stoichiometric_matrix

Scatter plot of stoichiometric matrix

Objective_reaction

Objective reaction

Constraints

Constraints of the model

Mass_charge_conservation_assessment

assessment of conservation of mass and charge

Terminal_metabolites

Terminal metabolites

Gap_reactions

Gap reactions

Missing_exchange_reactions

Missing exchange reactions

Type_III_pathway

Type III pathway

Network_gaps

Network gaps

Biomass_metabolites

Biomass metabolites

miniaml_or_maxiaml

miniaml or maxiaml

Metabolic_flux_value

Value of metabolic flux

Growth

Prediction of the growth of model

Secretion_product

Product of secretion

Mutisecretion

Multisecretion

Rich_media

Environment of rich media

Block_reactions

Block reactions

Knockout

Knockout the single gene or reaction

Model_predict_correctly

Predict the model correctly

Model_growing_too_fast

Assess whether the model grow too fast

Cofactors

Cofactors

FBA

Flux balance analysis

GPR

Gene-protein reaction

Output

Output the file

Iteration

Iteration

Test

Test

Assessment

Assessment

Identifiers_metabolites

Identifiers of metabolites

Output_file

Output the file

Elemental_balance

Elemental balance

Biomass_metabolites_coefficient

Coefficients of biomass and metabolites