injection_procedures.md

Injection_procedures

Model definitions

Injection

Description of an injection procedure

Field	Type	Title (Description)
injection_materials	List[ViralMaterial or NonViralMaterial]	Injection material
targeted_structure	Optional[MouseAnatomyModel]	Injection target (Use InjectionTargets)
relative_position	Optional[List[AnatomicalRelative]]	Relative position
dynamics	List[InjectionDynamics]	Injection dynamics (List of injection events, one per location/depth)
protocol_id	Optional[str]	Protocol ID (DOI for protocols.io)

InjectionDynamics

Description of the volume and rate of an injection

Field	Type	Title (Description)
profile	InjectionProfile	Injection profile
volume	Optional[float]	Injection volume
volume_unit	Optional[VolumeUnit]	Injection volume unit
duration	Optional[float]	Injection duration
duration_unit	Optional[TimeUnit]	Injection duration unit
injection_current	Optional[float]	Injection current (uA)
injection_current_unit	Optional[CurrentUnit]	Injection current unit
alternating_current	Optional[str]	Alternating current

InjectionProfile

Injection profile

Name	Value
BOLUS	Bolus
CONTINUOUS	Continuous
PULSED	Pulsed

NonViralMaterial

Description of a non-viral injection material

Field	Type	Title (Description)
concentration	Optional[float]	Concentration (Must provide concentration unit)
concentration_unit	Optional[str]	Concentration unit (For example, mg/mL)
name	str	Name
source	Organization	Source
rrid	Optional[PIDName]	Research Resource ID
lot_number	Optional[str]	Lot number
expiration_date	Optional[datetime.date]	Lot expiration date

TarsVirusIdentifiers

TARS data for a viral prep

Field	Type	Title (Description)
virus_tars_id	Optional[str]	Virus ID, usually begins 'AiV'
plasmid_tars_alias	Optional[List[str]]	List of plasmid aliases (Alias used to reference the plasmid, usually begins 'AiP')
prep_lot_number	str	Preparation lot number
prep_date	Optional[datetime.date]	Preparation lot date (Date this prep lot was titered)
prep_type	Optional[VirusPrepType]	Viral prep type
prep_protocol	Optional[str]	Prep protocol

ViralMaterial

Description of viral material for injections

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

VirusPrepType

Type of virus preparation

Name	Value
CRUDE	Crude
PURIFIED	Purified