| PureCultureSamplingActivity |
Collection of samples from a culture containing a single organism |
no |
| ControlledTermValue |
|
no |
| EcoplatePlateSetupActivity |
Ecoplate-specific plate setup |
no |
| OtherUndescribedSample |
A sample that does not fit into any of the other described sample types |
no |
| PlateDataGenerationActivity |
Abstract base for plate measurement activities |
no |
| CultureEnvironmentalSample |
A sample containing organisms cultured from an environmental sample |
no |
| SedimentSample |
A sample of sediment collected from the environment |
no |
| SitePhoto |
A data product representing a photo of a site, typically taken during samplin... |
no |
| NucleotideSequencing |
A lab activity in which DNA or RNA that was extracted from a sample is sequen... |
no |
| MassSpectrometryDataProcessingActivity |
Concrete mass spectrometry workflow run |
no |
| MixedCultureSample |
A sample containing multiple cultured organisms |
no |
| MassSpectrometryConfiguration |
Instrument configuration and setup for a mass spectrometry run |
no |
| TerraformSample |
A sample collected from a Terraform experiment |
no |
| ContainerType |
|
no |
| Study |
A study or research project, typically associated with a proposal and a set o... |
no |
| ElementalAnalysisDataGenerationActivity |
|
no |
| DataProduct |
Abstract base class for raw or processed data accessible in S3 storage |
no |
| QuantityValue |
A quantity value with numeric value and optional unit |
no |
| CalibrationStandardRun |
A record of a standard run with a batch of samples, which is used for calibra... |
no |
| DataGenerationActivity |
Abstract base for any data generation activity (physical to digital) |
no |
| CommerciallyPurchasedSamplingActivity |
Collection of samples that were purchased by the user |
no |
| XRFDataGenerationActivity |
X-ray Fluorescence (XRF) elemental analysis activity |
no |
| CultureGrowth |
Abstract activity for growing cultures from samples or other cultures |
no |
| MetagenomicsDataProcessingActivity |
Concrete metagenomics workflow run |
no |
| PureCultureSample |
A sample of a culture containing a single organism |
no |
| AMP2UserSample |
A user-submitted microbial sample for AMP2 workflows |
no |
| MetagenomicsBinningProduct |
Top-level archive (zip/tar) for binning results stored in MinIO |
no |
| UVDataGenerationActivity |
Ultraviolet spectroscopy acquisition activity |
no |
| NormalizationProcess |
A process that adjusts sample amounts (e |
no |
| ProcessedData |
A data product generated by a workflow execution |
no |
| PHDataGenerationActivity |
|
no |
| WaterSample |
A sample of water collected from the environment |
no |
| AerosolArmSamplingActivity |
A sampling activity where aerosol samples were collected by ARM |
no |
| ProcessedSample |
A sample that has undergone processing |
no |
| FieldDeployedTerraformSample |
A sample collected from a field-deployed Terraform experiment |
no |
| FractionationProcess |
A fractionation process (e |
no |
| PoolingProcess |
A laboratory pooling process that physically mixes multiple input samples int... |
no |
| XRayDataProduct |
Abstract base class for X-ray analytical data products |
no |
| StandardSampleProcessing |
A concrete SampleProcessing subclass for well-documented standard protocols t... |
no |
| MassSpectrometryDataGenerationActivity |
A record of the mass spectrometry run that generates a raw data product |
no |
| EnzymeProduct |
Enzyme activity analysis product, typically derived via colorimetric assay of... |
no |
| SynthesizedMaterialSamplingActivity |
Collection of samples of a synthesized material |
no |
| RIDataGenerationActivity |
Refractive Index (RI) measurement activity |
no |
| SoilSamplingActivity |
Collection of soil samples from the environment |
no |
| NitrogenAnalysisProduct |
Nitrogen analysis product, typically derived via colorimetric assay of soil e... |
no |
| MonetSoilSamplingActivity |
Collection of soil cores according to the MONet soil sampling protocol |
no |
| MonetSoilSample |
A soil sample that has been collected according to the MONet soil sampling pr... |
no |
| Entity |
Base identifiable thing |
no |
| XASLCFProduct |
XAS Linear Combination Fitting (LCF) processed result |
no |
| TextValue |
A text value with optional description and language |
no |
| ProteinQuantification |
A protein quantification assay (e |
no |
| TextureDataGenerationActivity |
|
no |
| BulkDensityProduct |
Bulk density analysis product, typically derived via oven-drying and weighing... |
no |
| SampleProcessingRun |
One concrete execution of a sample processing chain: the instance-level count... |
no |
| StrainPurity |
Purity check of a strain culture |
no |
| NucleotideSequencingInstrumentData |
Data generated by a nucleotide sequencing instrument (e |
no |
| XASLCFDataProcessingActivity |
Athena or Larch Linear Combination Fitting (LCF) processing activity for |
no |
| TOCTNDataGenerationActivity |
|
no |
| SoftwareControlledTermValue |
|
no |
| TimestampValue |
A timestamp value with optional description |
no |
| StockCulturePreparation |
Preparation of a stock culture from user samples for long-term storage |
no |
| UVSpectroscopyProduct |
A compound and its measurements resulting from a |
no |
| SubsamplingProcess |
A laboratory subsampling process that takes a portion of an existing sample ... |
no |
| WaterSamplingActivity |
Collection of water samples |
no |
| FiltrationProcess |
The process of segregation of phases; e |
no |
| SoilSample |
A sample of soil collected from the environment |
no |
| FieldDeployedTerraformSamplingActivity |
Collection of samples from a field-deployed Terraform device |
no |
| MicrobialBiomassDataGenerationActivity |
|
no |
| MediaPreparation |
Activity that prepares a batch of growth media |
no |
| IonsAnalysisProduct |
Ions analysis product, typically derived via ICP-OES or similar instrument |
no |
| Organism |
Reference data representing a biological identity (strain, isolate, |
no |
| AMP2PlateSetupActivity |
AMP2-specific plate setup |
no |
| MassSpectrometryInstrumentData |
Raw data files output from a mass spectrometry instrument |
no |
| XRDDataGenerationActivity |
X-ray Diffraction (XRD) mineralogical analysis activity |
no |
| RespirationDataGenerationActivity |
Data generation activity for soil respiration analysis |
no |
| RespirationProduct |
Soil respiration analysis product |
no |
| AerosolSamplingActivity |
A sampling activity where aerosol samples were collected |
no |
| PlantSamplingActivity |
Collection of samples associated with plants |
no |
| LabDevice |
A lab device is a physical instrument or equipment used in a laboratory setti... |
no |
| ChromatographyConfiguration |
Configuration and settings for a chromatography run |
no |
| EngineeredStrainSamplingActivity |
Collection of samples from a culture of an engineered organism |
no |
| MolecularIdentificationProduct |
a file containing molecular formula identifications that was output from a ma... |
no |
| MixedCultureSamplingActivity |
Collection of samples from a mixed culture |
no |
| XASDataGenerationActivity |
X-ray Absorption Spectroscopy (XAS) acquisition activity |
no |
| Extraction |
The removal and isolation of a desired analyte from other material in a samp... |
no |
| XRayDataGenerationActivity |
Abstract base class for X-ray analytical methods including XRF (elemental), |
no |
| SedimentSamplingActivity |
Collection of sediment samples from the environment |
no |
| OntologyClass |
|
no |
| TextureProduct |
Soil texture analysis product, typically derived via hydrometer or similar in... |
no |
| PlantSample |
A sample containing plant material |
no |
| ChemicalConversionProcess |
A chemical conversion process used in sample preparation |
no |
| EcoplateDataGenerationActivity |
Ecoplate absorbance measurement at a single timepoint |
no |
| CultureEnvironmentalSamplingActivity |
Collection of samples from a culture of organisms taken from the environment |
no |
| Configuration |
Record of configuration and/or settings for an activity |
no |
| GravimetricWaterContentDataGenerationActivity |
|
no |
| MicrobialBiomassProduct |
Microbial biomass analysis product, typically derived via chloroform fumigati... |
no |
| MetagenomicsProduct |
Abstract base for all metagenomics data products |
no |
| SampleProcessingProtocol |
A sample processing protocol: the recipe, not an execution of it |
no |
| MetaproteomicsProduct |
A tabular data file containing peptide-level, protein-level, or aggregation r... |
no |
| XCTProduct |
X-ray computed tomography (XCT) analysis product for pore geometry and flow p... |
no |
| AerosolSample |
An aerosol sample collected from the environment |
no |
| XASInstrumentData |
Raw XAS sweep file ( |
no |
| SolidPhaseExtractionProcess |
A solid phase extraction (SPE) step (e |
no |
| XRDPhaseProduct |
X-ray Diffraction (XRD) mineral phase identification and quantification data |
no |
| MetagenomicsAnnotationProduct |
Top-level archive for functional annotation outputs (zip/tar stored in MinIO) |
no |
| MassSpectrometryDataProduct |
Abstract base for all mass spectrometry data products |
no |
| AerosolArmSample |
An aerosol sample collected by the ARM facility |
no |
| InstrumentData |
An abstract parent class for raw data files generated by different kinds of ... |
yes |
| ExperimentalCulture |
Growth of an experimental culture for downstream analysis |
no |
| EngineeredStrainSample |
A sample containing a strain of an organism that has been subjected to geneti... |
no |
| PHProduct |
Soil pH analysis product, typically derived via pH meter or similar instrumen... |
no |
| SynthesizedMaterialSample |
A sample containing synthetically generated material |
no |
| PlateSetupActivity |
Abstract base for 96-well plate setup activities |
no |
| PhosphorusAnalysisProduct |
Phosphorus analysis product, typically derived via colorimetric assay of soil... |
no |
| SampleProcessing |
Abstract base for any sample processing activity (physical to physical): one |
no |
| Activity |
Something that happens over time and can use equipment |
no |
| MetagenomicsGenePhylogenyProduct |
Top-level archive for gene-based phylogeny outputs (zip/tar stored in MinIO) |
no |
| XCTDataGenerationActivity |
|
no |
| HydraulicPropertiesProduct |
Soil hydraulic parameters derived from HYPROP evaporation-experiment data |
no |
| Site |
Site-level metadata for a specific location from which a set of samples are c... |
no |
| CommerciallyPurchasedSample |
A sample containing commercially purchased material |
no |
| RIProduct |
A compound and its measurements resulting from a |
no |
| Sample |
A physical sample collected from an environment |
no |
| EnzymeActivityDataGenerationActivity |
|
no |
| UVChannelConfig |
Configuration for a single UV-Vis detector channel |
no |
| PurchasedMaterial |
[NEW ABSTRACT CLASS] Lightweight base for non-sample physical lab materials |
no |
| SamplingActivity |
An activity that involves the collection of a sample |
no |
| TerraformSamplingActivity |
Collection of samples from a Terraform device |
no |
| ElementalAnalysisProduct |
Elemental analysis product, typically derived via combustion or similar instr... |
no |
| GWCMoistureProduct |
Gravimetric water content (GWC) analysis product, typically derived via oven-... |
no |
| PreCultureGrowth |
Growth of a pre-culture to establish viable inoculum before |
no |
| CoreSection |
A section of a core sample (TOP, MID, BTM) |
no |
| KuoDataGenerationActivity |
|
no |
| HydraulicPropertiesDataGenerationActivity |
|
no |
| DataProcessingActivity |
Abstract base for any data processing activity (digital to digital) |
yes |
| MSImageProduct |
one or more image(s) output from a mass spec data processing workflow (eg |
no |
| BulkDensityDataGenerationActivity |
|
no |
| OtherUndescribedSamplingActivity |
Collection of samples from source that does not fit into any of the other cat... |
no |
| ResuspensionProcess |
Resuspension of an analyte (e |
no |
| AMP2DataGenerationActivity |
AMP2 plate measurement (OD, fluorescence, flow cytometry) |
no |
| XRFElementalProduct |
X-ray Fluorescence (XRF) elemental concentration data |
no |