| accession_id |
A provider-assigned accession identifier for a given entity |
| anatomical_region |
Human-readable name for the anatomical region from which the cell was collect... |
| anatomical_region_ontology_term_id |
UBERON ontology term for anatomical region (e |
| annotations |
|
| assay |
Human-readable sequencing modality (e |
| assay_ontology_term_id |
EFO ontology term for assay (e |
| attribute_name |
The human-readable 'attribute name' can be set to a string which reflects its... |
| authority |
The organization responsible for publishing the data |
| batch_condition |
Cell metadata key(s) in obs that define batches for normalization or integrat... |
| brain_region_ontology_term_id |
Brain atlas region ID from DHBA/HBA/MBA for the anatomical region |
| category |
Name of the high level ontology class in which this entity is categorized |
| cell_type_ontology_term_id |
CL ontology term for this cell type; use CL:0000003 for native cell if unknow... |
| cell_type_set_type |
A tag denoting whether this grouping represents a taxonomic level or neighbor... |
| cellannotation_schema |
CAS annotation schema stored as JSON encoding labelset and annotation metadat... |
| checksum_algorithm |
The type of cryptographic hash function used to calculate the checksum value |
| chembl_chirality |
Tern indicating the chirality of the chemical entity |
| chembl_drug_warning |
Text describing warnings for use of chemicals as therapeutics |
| chembl_prodrug |
Flag indicating if a drug is a prodrug that is active only after being metabo... |
| cluster_algorithm |
Full description of clustering algorithm and parameters used to produce clust... |
| cluster_id |
Human-readable cluster label for the cluster assigned to this cell at a given... |
| cluster_info |
Summary table of cluster-level metadata including cluster sizes and represent... |
| color |
A string representing to hex triplet code of a color |
| content_url |
|
| creation_date |
date on which an entity was created |
| curated_markers_to_mouse |
Marker genes in the mouse species that are related to the respective cell typ... |
| curated_markers_to_primates |
Marker genes in the primate species that are related to the respective cell t... |
| default_embedding |
Key in obsm of the embedding to display by default; must match an X_-prefixed... |
| dendrogram |
JSON-formatted hierarchical clustering dendrogram encoding the taxonomy hiera... |
| deprecated |
A boolean flag indicating that an entity is no longer considered current or v... |
| description |
a human-readable description of an entity |
| digest |
Stores checksum information |
| embedding_key |
Key used to store the embedding in obsm; must be prefixed with X_ (e |
| embedding_matrix |
N-dimensional matrix of shape n_cells × n_dims representing the low-dimension... |
| equivalent_identifiers |
A set of identifiers that are considered equivalent to the primary identifier... |
| filter |
Per-mode boolean flags indicating cells to exclude (True means exclude) |
| format |
|
| full_name |
a long-form human readable name for a thing |
| genome_annotations |
|
| genome_assemblies |
|
| has_attribute |
connects any entity to an attribute |
| has_attribute_type |
connects an attribute to a class that describes it |
| has_biological_sequence |
connects a genomic feature to its sequence |
| has_numeric_value |
connects a quantity value to a number |
| has_qualitative_value |
connects an attribute to a value |
| has_quantitative_value |
connects an attribute to a value |
| has_taxonomic_rank |
|
| has_unit |
connects a quantity value to a unit |
| has_anatomical_annotation_set |
Reference to the anatomical annotation set component of the parcellation atla... |
| has_anatomical_space |
Reference to the anatomical space component of the parcellation atlas |
| has_embedding |
One or more dimensionality reductions associated with this taxonomy |
| has_expression_matrix |
One or more cell-by-gene matrices associated with this taxonomy (normalized a... |
| has_parcellation_terminology |
Reference to the parcellation terminology component of the parcellation atlas |
| has_parent |
|
| has_parent_parcellation_term |
Reference to the parent parcellation term for which the parcellation term is ... |
| has_parent_parcellation_term_set |
Reference to the parent parcellation term set for which the parcellation term... |
| has_variable |
One of the genes (variables) measured across all cells in this matrix; corres... |
| hierarchy |
Ordered mapping of annotation level names to integer ranks; lower rank means ... |
| id |
A unique identifier for an entity |
| in_taxon |
connects an entity to its taxonomic classification |
| in_taxon_label |
The human readable scientific name for the taxon of the entity |
| information_content |
Information content (IC) value for a term, primarily from Automats |
| internal_identifier |
An identifier that uniquely denotes a specific parcellation annotation within... |
| iri |
An IRI for an entity |
| is_primary_data |
True if this is the canonical instance of this cellular observation; False fo... |
| license |
|
| load_id |
Identifier for the sequencing library from which molecular measurements were ... |
| macromolecular_machine_mixin_name |
genes are typically designated by a short symbol and a full name |
| matrix_type |
Whether this matrix contains normalized expression values or raw counts |
| measures |
Reference to the specific image dataset used to define the anatomical space |
| mode |
Active taxonomy mode controlling which subset of cells and analysis component... |
| molecular_type |
|
| name |
A human-readable name for an attribute or entity |
| named_thing_category |
Name of the high level ontology class in which this entity is categorized |
| node_property |
A grouping for any property that holds between a node and a value |
| number_of_cells |
The aggregated number of cells that defines this cell type taxon |
| number_of_observations |
Number of cells assigned to this cluster |
| order |
The priority or display order of an entity among all other entities of the sa... |
| ordinal |
|
| organism_taxon_has_taxonomic_rank |
|
| parameterizes |
Reference to the anatomical space for which the anatomical annotation set is ... |
| part_of_anatomical_annotation_set |
|
| part_of_cluster |
The cluster to which this cell has been assigned by the clustering algorithm |
| part_of_parcellation_color_scheme |
Reference to the parcellation color scheme for which the color assignment is ... |
| part_of_parcellation_term_set |
Reference to the parcellation term set for which the parcellation term is par... |
| part_of_parcellation_terminology |
Reference to the parcellation terminology for which the parcellation term set... |
| part_of_set |
|
| part_of_taxonomy |
The taxonomy for which this annotation level is defined |
| provided_by |
The value in this node property represents the knowledge provider that create... |
| quality_control_markers |
Marker gene expression data for patchseq quality control analysis |
| reference_assembly |
The reference genome assembly that this genome annotation was created from |
| referenced_in |
The genome annotation that this gene was referenced from |
| related_to |
A relationship that is asserted between two named things |
| related_to_at_instance_level |
Represents a relationship held between two instances of a data classes |
| revision_of |
|
| rights |
|
| schema_version |
Version of the AIT schema used to produce this file (e |
| source_id |
The authority specific identifier |
| specialization_of |
Reference to the general (non versioned) parcellation atlas for which the par... |
| strain |
The genetic variant or subtype of a species or organism |
| subject_parcellation_annotation |
Reference to the parcellation annotation that is the subject of the associati... |
| subject_parcellation_term |
Reference to the parcellation term that is the subject of the association |
| subject_parcellation_terminology |
Reference to the parcellation terminology for which the parcellation color sc... |
| suspension_type |
Whether the measurement was performed on intact cells, nuclei, or is not appl... |
| symbol |
Symbol for a particular thing |
| synonym |
Alternate human-readable names for a thing |
| title |
Description differentiating this taxonomy from others in the same collection;... |
| type |
|
| unit |
A controlled vocabulary attribute defining the length unit of the x, y, and z... |
| used |
Usage is the beginning of utilizing an entity by an activity |
| value |
The checksum value obtained from a specific cryotographic hash function |
| version |
|
| voxel_count |
The number of voxels (3D pixels) spanned by the parcellation annotation (opti... |
| was_derived_from |
A derivation is a transformation of an entity into another, an update of an e... |
| was_generated_by |
Generation is the completion of production of a new entity by an activity |
| x_direction |
A controlled vocabulary attribute defining the x axis direction in terms of a... |
| x_resolution |
The resolution (length / pixel) in along the x axis (numerical value part) |
| x_size |
The number of pixels/voxels (size) along the x axis |
| xref |
A database cross reference or alternative identifier for a NamedThing or edge... |
| y_direction |
A controlled vocabulary attribute defining the y axis direction in terms of a... |
| y_resolution |
The resolution (length / pixel) in along the y axis (numerical value part) |
| y_size |
The number of pixels/voxels (size) along the y axis |
| z_direction |
A controlled vocabulary attribute defining the z axis direction in terms of a... |
| z_resolution |
The resolution (length / pixel) in along the z axis (numerical value part) |
| z_size |
The number of pixels/voxels (size) along the y axis |