OWL ontology generated by the xsd2owl XML Style Sheet (modified by for MultiCellDS)
True
True
True
True
True
True
True
True
True
True
True
True
True
unbounded
2
basement.basement_edge#edge
basement#egdes.basement#edge
basement.basement_face#face
basement#faces.basement#face
basement.egdes#edges
basement#basement_membrane.basement#edges
basement.faces#faces
basement#basement_membrane.basement#faces
basement.nodes#nodes
basement#basement_membrane.basement#nodes
3
unbounded
cell.cell#cell
cell#cell_population_individual.cell#cell
unbounded
cell.cell_population_aggregate#cell_population
cell#population_vector.cell#cell_population
cell.cell_population_individual#cell_population
cell#cell_populations.cell#cell_population
cell.cell_populations#cell_populations
cell#cellular_information.cell#cell_populations
unbounded
cell.population_definition#population_definition
cell#population_definitions.cell#population_definition
cell.population_definitions#population_definitions
cell#cellular_information.cell#population_definitions
unbounded
cell.population_vector#population_vector
cell#cell_populations.cell#population_vector
This should be a choice between value and cell_population. Removed
because custom should be allowed with value and to make
C++ API easier.
cell_cycle.arrest_condition#condition
cell_cycle#cell_cycle_arrest.cell_cycle#condition
unbounded
cell_cycle.cell_cycle#cell_cycle
cell_cycle#cycles_and_deaths.cell_cycle#cell_cycle
cell_cycle.cell_cycle_arrest#cell_cycle_arrest
cell_cycle#cell_cycle_phase.cell_cycle#cell_cycle_arrest
unbounded
cell_cycle.cell_cycle_phase#cell_cycle_phase
cell_cycle#cell_cycle.cell_cycle#cell_cycle_phase
unbounded
cell_cycle.cell_death#cell_death
cell_cycle#cell_cycle.cell_cycle#cell_death
cell_cycle#cycles_and_deaths.cell_cycle#cell_death
3
cell_cycle.death_rate_type#death_rate
cell_cycle#summary_elements_group.cell_cycle#death_rate
cell_cycle.summary_elements#summary_elements
cell_cycle#cell_cycle.cell_cycle#summary_elements
unbounded
cell_cycle.transition#transition
cell_cycle#cell_cycle_phase.cell_cycle#transition
unbounded
0
cell_line.cell_line#cell_line
cell_line#DCLs.cell_line#cell_line
MCDS:0000001
common.custom#input_configuration
metadata#software.metadata#input_configuration
common.custom#software_input_configuration
metadata#software.metadata#software_input_configuration
common.units_decimal#acidity
variables#physical_conditions.variables#acidity
common.units_decimal#adhesion_bond_breaking_rate
phenotype_common#adhesion.phenotype_common#adhesion_bond_breaking_rate
common.units_decimal#adhesion_bond_formation_rate
phenotype_common#adhesion.phenotype_common#adhesion_bond_formation_rate
common.units_decimal#adhesion_force_per_surface_area
phenotype_common#adhesion.phenotype_common#adhesion_force_per_surface_area
common.units_decimal#apoptotic_duration
pkpd#response_observation.pkpd#apoptotic_duration
common.units_decimal#birth_inhibition_recovery_rate
pkpd#response.pkpd#birth_inhibition_recovery_rate
common.units_decimal#checkpoint_failure_probability
cell_cycle#transition.cell_cycle#checkpoint_failure_probability
common.units_decimal#death_recovery_rate
pkpd#response.pkpd#death_recovery_rate
common.units_decimal#decay_rate
variables#physical_parameter_set.variables#decay_rate
common.units_decimal#depth
phenotype_common#indentation_observation.phenotype_common#depth
common.units_decimal#diffusion_coefficient
phenotype_common#motility_types.phenotype_common#diffusion_coefficient
variables#physical_parameter_set.variables#diffusion_coefficient
common.units_decimal#duration
cell_cycle#cell_death.cell_cycle#duration
common.units_decimal#elapsed_time
state#phase.state#elapsed_time
common.units_decimal#export_rate
phenotype_common#transport_variable.phenotype_common#export_rate
common.units_decimal#export_rate_per_unit_surface_area
phenotype_common#transport_variable.phenotype_common#export_rate_per_unit_surface_area
common.units_decimal#fluid_flow_velocity
vascular#boundary_node.vascular#fluid_flow_velocity
vascular#endpoint.vascular#fluid_flow_velocity
vascular#surface_properties.vascular#fluid_flow_velocity
vascular#volume_properties.vascular#fluid_flow_velocity
common.units_decimal#half_life
pkpd#pharmacokinetics.pkpd#half_life
common.units_decimal#import_rate
phenotype_common#transport_variable.phenotype_common#import_rate
common.units_decimal#import_rate_per_unit_surface_area
phenotype_common#transport_variable.phenotype_common#import_rate_per_unit_surface_area
common.units_decimal#inactivation_rate
pkpd#pharmacokinetics.pkpd#inactivation_rate
common.units_decimal#maximum_birth_inhibition
pkpd#response.pkpd#maximum_birth_inhibition
common.units_decimal#maximum_birth_inhibition_time
pkpd#response.pkpd#maximum_birth_inhibition_time
common.units_decimal#maximum_cell_deformation
phenotype_common#mechanics.phenotype_common#maximum_cell_deformation
common.units_decimal#maximum_death_rate
pkpd#response.pkpd#maximum_death_rate
common.units_decimal#maximum_death_time
pkpd#response.pkpd#maximum_death_time
common.units_decimal#mean_path_length
phenotype_common#motility_types.phenotype_common#mean_path_length
common.units_decimal#mean_speed
phenotype_common#motility_types.phenotype_common#mean_speed
common.units_decimal#mechanical_pressure
phenotype_common#mechanics.phenotype_common#mechanical_pressure
variables#physical_conditions.variables#mechanical_pressure
common.units_decimal#net_birth_rate
cell_cycle#summary_elements_group.cell_cycle#net_birth_rate
pkpd#response_observation.pkpd#net_birth_rate
common.units_decimal#net_death_rate
pkpd#response_observation.pkpd#net_death_rate
common.units_decimal#net_displacement
phenotype_common#motility_types.phenotype_common#net_displacement
common.units_decimal#net_speed
phenotype_common#motility_types.phenotype_common#net_speed
common.units_decimal#pH
variables#physical_conditions.variables#pH
common.units_decimal#percent_cell_viability
pkpd#response_observation.pkpd#percent_cell_viability
common.units_decimal#permeability
vascular#surface_properties.vascular#permeability
common.units_decimal#persistence
phenotype_common#motility_types.phenotype_common#persistence
common.units_decimal#poisson_ratio
phenotype_common#mechanics_observations.phenotype_common#poisson_ratio
common.units_decimal#rolling_velocity
phenotype_common#rolling_observation.phenotype_common#rolling_velocity
common.units_decimal#saturation_density
phenotype_common#transport_variable.phenotype_common#saturation_density
common.units_decimal#shear_stress
phenotype_common#rolling_observation.phenotype_common#shear_stress
common.units_decimal#surface_binding_energy
phenotype_common#adhesion.phenotype_common#surface_binding_energy
common.units_decimal#temperature
variables#physical_conditions.variables#temperature
common.units_decimal#time
pkpd#response_observation.pkpd#time
common.units_decimal#transition_rate
cell_cycle#transition.cell_cycle#transition_rate
common.units_decimal#value
cell#cell_population_aggregate.cell#value
vascular#boundary_condition.vascular#value
common.units_decimal#youngs_modulus
phenotype_common#mechanics_observations.phenotype_common#youngs_modulus
common.units_decimal_nonnegative#ECM
phenotype_common#friction.phenotype_common#ECM
common.units_decimal_nonnegative#adhered_surface_area
phenotype_common#adhesion.phenotype_common#adhered_surface_area
common.units_decimal_nonnegative#adhesion_receptor_density
phenotype_common#adhesion.phenotype_common#adhesion_receptor_density
common.units_decimal_nonnegative#adhesion_spring_constant
phenotype_common#adhesion.phenotype_common#adhesion_spring_constant
common.units_decimal_nonnegative#aspect_ratio
phenotype_common#geometrical_parameters.phenotype_common#aspect_ratio
common.units_decimal_nonnegative#biomass
phenotype_common#mass.phenotype_common#biomass
common.units_decimal_nonnegative#birth_rate
cell_cycle#summary_elements_group.cell_cycle#birth_rate
pkpd#response_observation.pkpd#birth_rate
common.units_decimal_nonnegative#circularity
phenotype_common#geometrical_parameters.phenotype_common#circularity
common.units_decimal_nonnegative#compression
phenotype_common#friction.phenotype_common#compression
common.units_decimal_nonnegative#contact_area
state#adhered_cell.state#contact_area
common.units_decimal_nonnegative#current_runtime
metadata#metadata.metadata#current_runtime
common.units_decimal_nonnegative#current_time
metadata#metadata.metadata#current_time
common.units_decimal_nonnegative#death_rate
pkpd#response_observation.pkpd#death_rate
common.units_decimal_nonnegative#diameter
phenotype_common#lengths.phenotype_common#diameter
common.units_decimal_nonnegative#duration
cell_cycle#summary_elements_group.cell_cycle#duration
common.units_decimal_nonnegative#eccentricity
phenotype_common#geometrical_parameters.phenotype_common#eccentricity
common.units_decimal_nonnegative#fluid_mass
phenotype_common#mass.phenotype_common#fluid_mass
common.units_decimal_nonnegative#fluid_volume
phenotype_common#volumes.phenotype_common#fluid_volume
common.units_decimal_nonnegative#free_surface_area
phenotype_common#areas_3D.phenotype_common#free_surface_area
common.units_decimal_nonnegative#major_axis
phenotype_common#lengths.phenotype_common#major_axis
common.units_decimal_nonnegative#maximum_adhered_surface_area
phenotype_common#adhesion.phenotype_common#maximum_adhered_surface_area
common.units_decimal_nonnegative#mean_square_displacement
phenotype_common#motility_types.phenotype_common#mean_square_displacement
common.units_decimal_nonnegative#minor_axis
phenotype_common#lengths.phenotype_common#minor_axis
common.units_decimal_nonnegative#number_of_adhered_cells
phenotype_common#adhesion.phenotype_common#number_of_adhered_cells
common.units_decimal_nonnegative#perimeter
phenotype_common#lengths.phenotype_common#perimeter
common.units_decimal_nonnegative#population_doubling_time
cell_cycle#summary_elements_group.cell_cycle#population_doubling_time
common.units_decimal_nonnegative#radius
phenotype_common#lengths.phenotype_common#radius
common.units_decimal_nonnegative#shear
phenotype_common#friction.phenotype_common#shear
common.units_decimal_nonnegative#solid_calcified_volume
phenotype_common#volumes.phenotype_common#solid_calcified_volume
common.units_decimal_nonnegative#solid_volume
phenotype_common#volumes.phenotype_common#solid_volume
common.units_decimal_nonnegative#sphericity
phenotype_common#geometrical_parameters.phenotype_common#sphericity
common.units_decimal_nonnegative#tensile_strength
basement#basement_edge.basement#tensile_strength
common.units_decimal_nonnegative#thickness
basement#basement_face.basement#thickness
common.units_decimal_nonnegative#total_area
phenotype_common#areas_2D.phenotype_common#total_area
common.units_decimal_nonnegative#total_displacement
phenotype_common#motility_types.phenotype_common#total_displacement
common.units_decimal_nonnegative#total_mass
phenotype_common#mass.phenotype_common#total_mass
common.units_decimal_nonnegative#total_surface_area
phenotype_common#areas_3D.phenotype_common#total_surface_area
common.units_decimal_nonnegative#total_volume
phenotype_common#volumes.phenotype_common#total_volume
common.units_decimal_nonnegative#volume
mesh#voxel.mesh#volume
common.units_double_list#center
mesh#voxel.mesh#center
common.units_double_list#position
mesh#node.mesh#position
state#state_base.state#position
common.units_double_list#value
cell#population_vector.cell#value
common.units_double_list#velocity
state#state_base.state#velocity
common.units_double_list#x_coordinates
mesh#mesh.mesh#x_coordinates
common.units_double_list#y_coordinates
mesh#mesh.mesh#y_coordinates
common.units_double_list#z_coordinates
mesh#mesh.mesh#z_coordinates
common.units_fraction#adhesion_probability
phenotype_common#adhesion.phenotype_common#adhesion_probability
common.units_fraction#detachment_proability
phenotype_common#adhesion.phenotype_common#detachment_proability
common.units_fraction#fluid_volume_fraction
phenotype_common#volumes.phenotype_common#fluid_volume_fraction
common.units_fraction#solid_volume_fraction
phenotype_common#volumes.phenotype_common#solid_volume_fraction
common.units_unsignedShort#maximum_number_of_adhered_cells
phenotype_common#adhesion.phenotype_common#maximum_number_of_adhered_cells
2
mesh.bounding_box#bounding_box
mesh#mesh.mesh#bounding_box
mesh.int_list_xpath#voxels
state#state_base.state#voxels
vascular#vascular_network.vascular#voxels
mesh.list_of_voxels#voxels
mesh#mesh.mesh#voxels
unbounded
mesh.voxel#voxel
mesh#list_of_voxels.mesh#voxel
0
1
metadata.LicenseDocument#LicenseDocument
metadata#license.metadata#LicenseDocument
We follow the DCMI term for LicenseDocument
metadata.MultiCellDB#MultiCellDB
metadata#metadata.metadata#MultiCellDB
unbounded
metadata.cell_origin#cell_origin
metadata#metadata.metadata#cell_origin
unbounded
metadata.citation#citation
metadata#data_analysis.metadata#citation
metadata#data_origin.metadata#citation
metadata#metadata.metadata#citation
metadata#software.metadata#citation
metadata.classification#classification
metadata#curation.metadata#classification
metadata.curation#curation
metadata#metadata.metadata#curation
unbounded
metadata.data_analysis#data_analysis
metadata#metadata.metadata#data_analysis
unbounded
metadata.data_origin#data_origin
metadata#data_origins.metadata#data_origin
metadata.data_origins#data_origins
metadata#metadata.metadata#data_origins
metadata.disease#disease
metadata#cell_origin.metadata#disease
unbounded
metadata.license#license
metadata#rights.metadata#license
We follow the DCMI term for license
unbounded
metadata.orcid-identifier#orcid-identifier
metadata#orcid-person.metadata#orcid-identifier
Eventually, replace with the ORCID XSDs.
metadata.orcid-person#creator
metadata#curation.metadata#creator
metadata#software.metadata#creator
metadata.orcid-person#curator
metadata#curation.metadata#curator
metadata.orcid-person#current_contact
metadata#curation.metadata#current_contact
metadata.orcid-person#last_modified_by
metadata#curation.metadata#last_modified_by
metadata.orcid-person#user
metadata#software.metadata#user
metadata.patient_derived#patient_derived
metadata#cell_origin.metadata#patient_derived
metadata.rights#rights
metadata#metadata.metadata#rights
We follow the DCMI term for rights
metadata.software#software
metadata#data_analysis.metadata#software
metadata#metadata.metadata#software
metadata.species#species
metadata#cell_origin.metadata#species
0
2
unbounded
microenvironment.domain#domain
microenvironment#microenvironment.microenvironment#domain
3
1
unbounded
phenotype_base.cell_parts#cell_part
cell_cycle#cell_cycle_phase.cell_cycle#cell_part
cell_cycle#cell_death.cell_cycle#cell_part
phenotype_base#cell_parts.phenotype_base#cell_part
phenotype_dataset#phenotype_dataset.phenotype_dataset#cell_part
phenotype_base.expected_timescale#timescale
phenotype_base#phenotype_base_elements.phenotype_base#timescale
3
phenotype_base.phenotype_base#phenotype
phenotype_base#cell_parts.phenotype_base#phenotype
0
1
2
2
3
4
7
phenotype_common.areas_2D#areas
phenotype_common#cross_section.phenotype_common#areas
vascular#endpoint.vascular#areas
phenotype_common.areas_3D#areas
phenotype_common#geometrical_properties.phenotype_common#areas
vascular#surface_properties.vascular#areas
phenotype_common.cross_section#contact
state#adhered_cell.state#contact
unbounded
phenotype_common.cross_section#cross_section
phenotype_common#geometrical_properties.phenotype_common#cross_section
phenotype_common.friction#friction
phenotype_common#mechanics.phenotype_common#friction
phenotype_common.geometrical_parameters#parameters
phenotype_common#cross_section.phenotype_common#parameters
phenotype_common#geometrical_properties.phenotype_common#parameters
unbounded
phenotype_common.indentation_observation#indentation_observation
phenotype_common#mechanics.phenotype_common#indentation_observation
phenotype_common.lengths#lengths
phenotype_common#cross_section.phenotype_common#lengths
phenotype_common#geometrical_properties.phenotype_common#lengths
unbounded
phenotype_common.motility_types#restricted
phenotype_common#motility.phenotype_common#restricted
unbounded
phenotype_common.motility_types#unrestricted
phenotype_common#motility.phenotype_common#unrestricted
unbounded
phenotype_common.rolling_observation#rolling_observation
phenotype_common#adhesion.phenotype_common#rolling_observation
phenotype_common.timescale#timescale
phenotype_common#motility_types.phenotype_common#timescale
unbounded
phenotype_common.transport_variable#variable
phenotype_common#transport_processes.phenotype_common#variable
phenotype_common.volumes#volumes
phenotype_common#geometrical_properties.phenotype_common#volumes
unbounded
0
1
5
pkpd.dose#dose
pkpd#drug.pkpd#dose
pkpd#drug_dose.pkpd#dose
unbounded
pkpd.drug_dose#drug
pkpd#therapy.pkpd#drug
unbounded
pkpd.drug_pk#drug
pkpd#PKPD.pkpd#drug
pkpd.pharmacodynamics#pharmacodynamics
pkpd#PKPD.pkpd#pharmacodynamics
pkpd.pharmacokinetics#pharmacokinetics
pkpd#drug.pkpd#pharmacokinetics
pkpd#drug_pk.pkpd#pharmacokinetics
pkpd.response#response
pkpd#therapy_measurement_set.pkpd#response
unbounded
pkpd.response_observation#response_observation
pkpd#response.pkpd#response_observation
notes xmlns="">
Birth rate and death rate elements are measurements for the "live_apoptotic" cell cycle model.
Net birth rate and net death rate elements are measurements for the "total cell" cell cycle model.
/notes>
pkpd.therapy#therapy
pkpd#therapy_measurement_set.pkpd#therapy
unbounded
pkpd.therapy_measurement_set#therapy_measurement_set
pkpd#pharmacodynamics.pkpd#therapy_measurement_set
1
unbounded
state.adhered_cell#adhered_cell
state#list_of_adhered_cells.state#adhered_cell
unbounded
state.cell_parts#cell_part
state#cell_parts.state#cell_part
state#state.state#cell_part
state.list_of_adhered_cells#adhered_cells
state#state.state#adhered_cells
state.orientation#orientation
state#state_base.state#orientation
Dimensionality is handled via //domain//dimensionality
state.phase#phase
state#state.state#phase
state.phase_name#phase_name
state#phase.state#phase_name
3
unbounded
variables.data_vector#data_vector
variables#data.variables#data_vector
variables.experimental_conditions#experimental_condition
microenvironment#domain.microenvironment#experimental_condition
variables.experimental_conditions#restriction
phenotype_common#motility_types.phenotype_common#restriction
variables.list_of_variables#surface_proteins
vascular#surface_properties.vascular#surface_proteins
variables.list_of_variables#variables
microenvironment#domain.microenvironment#variables
vascular#boundary_node.vascular#variables
vascular#volume_properties.vascular#variables
variables.material_amount#material_amount
variables#variable.variables#material_amount
variables.physical_conditions#conditions
variables#physical_parameter_set.variables#conditions
variables.physical_parameter_set#physical_parameter_set
variables#list_of_variables.variables#physical_parameter_set
variables#variable.variables#physical_parameter_set
See Schematron to recommend using another circumstance if at all possible
unbounded
variables.transition_threshold#threshold
cell_cycle#transition.cell_cycle#threshold
unbounded
variables.variable#surface_variable
variables#experimental_conditions.variables#surface_variable
unbounded
variables.variable#variable
variables#list_of_variables.variables#variable
unbounded
1
unbounded
vascular.boundary_condition#boundary_condition
vascular#boundary_conditions.vascular#boundary_condition
vascular.boundary_conditions#boundary_conditions
vascular#boundary_node.vascular#boundary_conditions
unbounded
vascular.boundary_node#boundary_node
vascular#list_of_boundary_nodes.vascular#boundary_node
vascular.endpoint#endpoint_1
vascular#vascular_segment.vascular#endpoint_1
vascular.endpoint#endpoint_2
vascular#vascular_segment.vascular#endpoint_2
vascular.list_of_boundary_nodes#boundary_nodes
vascular#vascular_network.vascular#boundary_nodes
vascular.list_of_vascular_nodes#vascular_nodes
vascular#vascular_network.vascular#vascular_nodes
vascular.surface_properties#surface
vascular#vascular_segment.vascular#surface
unbounded
vascular.vascular_node#vascular_node
vascular#list_of_vascular_nodes.vascular#vascular_node
unbounded
vascular.vascular_segment#vascular_segment
vascular#vascular_segments.vascular#vascular_segment
vascular.vascular_segments#vascular_segments
vascular#vascular_network.vascular#vascular_segments
vascular.volume_properties#interior
vascular#vascular_segment.vascular#interior
unbounded
2
MCDS:0000001
MultiCellDS
Multicellular root element type.