lnschema_bionty.Gene#
- class lnschema_bionty.Gene(symbol: Optional[str], stable_id: Optional[str], ensembl_gene_id: Optional[str], ncbi_gene_ids: Optional[str], biotype: Optional[str], description: Optional[str], synonyms: Optional[str], organism: Optional[Organism], bionty_source: Optional[BiontySource])#
Bases:
BioRegistry
Notes
Bulk create Gene records via
from_values
.Examples
>>> record = lb.Gene.from_bionty(symbol="TCF7", organism="human")
Fields
- id AutoField
Internal id, valid only in one DB instance.
- uid CharField
A universal id (hash of selected field).
- symbol CharField
A unique short form of gene name.
- stable_id CharField
Stable ID of a gene that doesn’t have ensembl_gene_id, e.g. a yeast gene.
- ensembl_gene_id CharField
Ensembl gene stable ID, in the form ENS[organism prefix][feature type prefix][a unique eleven digit number].
- ncbi_gene_ids TextField
Bar-separated (|) NCBI Gene IDs that correspond to this Ensembl Gene ID. NCBI Gene ID, also known as Entrez Gene ID, in the form of numeric string, 1 to 9 digits.
- biotype CharField
Type of the gene.
- description TextField
Description of the gene.
- synonyms TextField
Bar-separated (|) synonyms that correspond to this gene.
- organism ForeignKey
Organism
this gene associates with.
- bionty_source ForeignKey
BiontySource
this gene associates with.
- created_at DateTimeField
Time of creation of record.
- updated_at DateTimeField
Time of last update to record.
- created_by ForeignKey
Creator of record, a
User
.
- files ManyToManyField
Files linked to the gene.
- datasets ManyToManyField
Datasets linked to the gene.
- feature_sets ManyToManyField
Featuresets linked to this gene.
Methods