Injection_procedures¶

Model definitions¶

Injection¶

Description of an injection procedure

Field	Type	Description
`injection_materials`	List[ViralMaterial or NonViralMaterial]
`targeted_structure`	Optional[MouseAnatomyModel]	Use InjectionTargets
`relative_position`	Optional[List[AnatomicalRelative]]
`dynamics`	List[InjectionDynamics]	List of injection events, one per location/depth
`protocol_id`	`Optional[str]`	DOI for protocols.io

InjectionDynamics¶

Description of the volume and rate of an injection

Field	Type	Description
`profile`	InjectionProfile
`volume`	`Optional[float]`
`volume_unit`	Optional[VolumeUnit]
`rate`	`Optional[float]`
`rate_unit`	Optional[VolumeUnit]
`duration`	`Optional[float]`
`duration_unit`	Optional[TimeUnit]
`injection_current`	`Optional[float]`
`injection_current_unit`	Optional[CurrentUnit]
`alternating_current`	`Optional[str]`

InjectionProfile¶

Injection profile

Name	Value
`BOLUS`	`Bolus`
`CONTINUOUS`	`Continuous`
`PULSED`	`Pulsed`

NonViralMaterial¶

Description of a non-viral injection material

Field	Type	Description
`concentration`	`Optional[float]`	Must provide concentration unit
`concentration_unit`	`Optional[str]`	For example, mg/mL
`name`	`str`
`source`	Organization
`rrid`	Optional[PIDName]
`lot_number`	`Optional[str]`
`expiration_date`	`Optional[datetime.date]`

TarsVirusIdentifiers¶

TARS data for a viral prep

Field	Type	Description
`virus_tars_id`	`Optional[str]`
`plasmid_tars_alias`	`Optional[List[str]]`	Alias used to reference the plasmid, usually begins ‘AiP’
`prep_lot_number`	`str`
`prep_date`	`Optional[datetime.date]`	Date this prep lot was titered
`prep_type`	Optional[VirusPrepType]
`prep_protocol`	`Optional[str]`

ViralMaterial¶

Description of viral material for injections

Field	Type	Description
`name`	`str`	Full genome for virus construct
`tars_identifiers`	Optional[TarsVirusIdentifiers]	TARS database identifiers
`addgene_id`	Optional[PIDName]	Registry must be Addgene
`titer`	`Optional[int]`	Final titer of viral material, accounting for mixture/diliution
`titer_unit`	`Optional[str]`	For example, gc/mL

VirusPrepType¶

Type of virus preparation

Name	Value
`CRUDE`	`Crude`
`PURIFIED`	`Purified`