Table 1 Packages and classes
From: Design and implementation of microarray gene expression markup language (MAGE-ML)
Logical | DesignElement | BioAssay | HigherLevelAnalysis |
|---|---|---|---|
Extendable | DesignElement | BioAssay | BioAssayDataCluster |
Describable | Feature | PhysicalBioAssay | Node |
Identifiable | Reporter | BioAssayTreatment | NodeContents |
NameValueType | CompositeSequence | ImageAcquisition | NodeValue |
| Â | Position | BioAssayCreation | Â |
AuditAndSecurity | FeatureLocation | Hybridization | Measurement |
Audit | CompositeCompositeMap | Image | Measurement |
Contact | ReporterCompositeMap | Channel | Unit |
Organization | FeatureReporterMap | FeatureExtraction | TemperatureUnit |
Person | CompositePosition | MeasuredBioAssay | MassUnit |
Security | ReporterPosition | DerivedBioAssay | VolumeUnit |
SecurityGroup | FeatureInformation | Â | DistanceUnit |
| Â | MismatchInformation | BioAssayData | TimeUnit |
Description | Â | BioAssayData | QuantityUnit |
Description | Array | Transformation | ConcentrationUnit |
OntologyEntry | ArrayManufacture | DerivedBioAssayData | Â |
ExternalReference | Array | MeasuredBioAssayData | Protocol |
DatabaseEntry | ArrayGroup | BioAssayDimension | Protocol |
Database | Fiducial | QuantitationTypeDimension | Hardware |
| Â | ArrayManufactureDeviation | DesignElementDimension | Software |
BioSequence | FeatureDefect | FeatureDimension | Parameterizable |
BioSequence | ZoneDefect | ReporterDimension | Parameter |
SeqFeature | PositionDelta | CompositeSequenceDimension | ProtocolApplication |
SeqFeatureLocation | ManufactureLIMS | BioDataCube | HardwareApplication |
SequencePosition | ManufactureLIMSBioMaterial | BioDataTuples | SoftwareApplication |
CompositePosition | Â | BioAssayDatum | ParameterizableApplication |
ReporterPosition | BioMaterial | QuantitationTypeMapping | ParameterValue |
| Â | BioMaterial | QuantitationTypeMap | Â |
ArrayDesign | BioSource | DesignElementMapping | QuantitationType |
ArrayDesign | BioSample | DesignElementMap | QuantitationType |
CompositeGroup | LabeledExtract | BioAssayMapping | StandardQuantitationType |
ReporterGroup | Treatment | BioAssayMap | SpecializedQuantitationType |
DesignElementGroup | BioMaterialMeasurement | Â | PresentAbsent |
FeatureGroup | CompoundMeasurement | Experiment | MeasuredSignal |
PhysicalArrayDesign | Compound | Experiment | DerivedSignal |
ZoneGroup | Â | ExperimentDesign | Ratio |
ZoneLayout | Â | ExperimentFactor | ConfidenceIndicator |
Zone | Â | FactorValue | Pvalue |
| Â | Â | Â | Error |
| Â | Â | Â | ExpectedValue |