Bio2BEL miRBase

Bio2BEL miRBase converts miRBase resources to BEL.

Models

SQLAlchemy database models.

class bio2bel_mirbase.models.Sequence(**kwargs)[source]

Represents an miRBase sequence.

See https://www.ebi.ac.uk/miriam/main/datatypes/MIR:00000078

as_pybel() → pybel.dsl.node_classes.MicroRna[source]

Serialize this entity as a PyBEL microRNA.

mirbase_id

miRBase sequence matching MI\d{7}

class bio2bel_mirbase.models.MatureSequence(**kwargs)[source]

Represents a miRBase mature sequence.

See: https://www.ebi.ac.uk/miriam/main/datatypes/MIR:00000235

as_pybel() → pybel.dsl.node_classes.MicroRna[source]

Serialize this entity as a PyBEL microRNA.

mirbase_mature_id

miRBase mature sequence matching MIMAT\d{7}

class bio2bel_mirbase.models.Species(**kwargs)[source]

Represents a taxonomy.

division

Three letter division code

name

Three letter species code

organism

Organism code

taxonomy_id

NCBI taxonomy identifier

class bio2bel_mirbase.models.Base(**kwargs)

The most base type

Indices and tables