modos-schema
Metadata schema for the SMOC Multi-Omics Digital Object System
URI: https://w3id.org/sdsc-ordes/modos-schema
Name: modos-schema
Classes
| Class |
Description |
| MODOCollection |
A holder for Multi-Omics Digital Objects |
| NamedThing |
A generic grouping for any identifiable entity |
| Assay |
A coordinated set of actions designed to generate data from samples. |
| DataEntity |
An entity containing data. |
| AlignmentSet |
A data entity consisting of genomic intervals aligned to a reference. |
| Array |
Data entity consisting of an N-dimensional array. |
| MassSpectrometryResults |
A data entity consisting of quantitative results from a mass spectrometry experiment. |
| VariantSet |
A data entity consisting of genomic variants relative to a reference. |
| MODO |
Represents the Multi-Omics Digital Object. It encapsulates omics and other datasets and their metadata. |
| ReferenceGenome |
Reference assembly of a given genome, consisting of a collection of congiguous sequences (contigs). |
| ReferenceSequence |
A contiguous sequence of DNA part of a reference coordinate system (genome assembly). |
| Sample |
A biological sample used in assays. Examples include a whole organism, tissue or cell line. |
Slots
| Slot |
Description |
| cell_type |
The cell type of the sample, if applicable |
| collector |
The organization responsible for collecting a given sample |
| creation_date |
The date on which something was created |
| data_format |
Data/file format associated with a data entity |
| data_path |
The path to access a resource, on a network or local filesystem |
| description |
A human-readable description for a thing |
| entries |
|
| has_assay |
An assay that was performed as part of a given thing |
| has_data |
Data entity included in a given collection |
| has_part |
Indicates an item that is part of this item |
| has_reference |
Specifies the reference coordinate system used by an omics dataset |
| has_sample |
Biological sample included or described by a given thing |
| has_sequence |
Denotes that a sequence belongs to a collection (e |
| id |
A unique identifier for a thing |
| last_update_date |
The date on which the thing was last modified |
| name |
A human-readable name for a thing |
| omics_type |
The type of omics considered |
| sample_processing |
Codes describing sample processing, preparation or handling steps |
| sequence_md5 |
The pre-computed hash uniquely representing a biological sequence |
| sex |
The biological sex of a sample |
| source_material |
The biological source from which the sample was isolated (tissue, organ) |
| source_uri |
The URI from which a resource or dataset was obtained or derived |
| taxon_id |
The NCBI taxon code from [ncbitaxon](https://obofoundry |
| version |
A string specifying the release or version of a software or resource |
Enumerations
Types
| Type |
Description |
| Boolean |
A binary (true or false) value |
| Curie |
a compact URI |
| Date |
a date (year, month and day) in an idealized calendar |
| DateOrDatetime |
Either a date or a datetime |
| Datetime |
The combination of a date and time |
| Decimal |
A real number with arbitrary precision that conforms to the xsd:decimal speci... |
| Double |
A real number that conforms to the xsd:double specification |
| Float |
A real number that conforms to the xsd:float specification |
| Integer |
An integer |
| Jsonpath |
A string encoding a JSON Path |
| Jsonpointer |
A string encoding a JSON Pointer |
| Ncname |
Prefix part of CURIE |
| Nodeidentifier |
A URI, CURIE or BNODE that represents a node in a model |
| Objectidentifier |
A URI or CURIE that represents an object in the model |
| Sparqlpath |
A string encoding a SPARQL Property Path |
| String |
A character string |
| Time |
A time object represents a (local) time of day, independent of any particular... |
| Uri |
a complete URI |
| Uriorcurie |
a URI or a CURIE |
Subsets