ExperimentDialysis
ExperimentDialysis[Objects]⟹Protocol
creates a dialysis Protocol which removes small molecules Objects by diffusion.
Dialysis is a separation technique that facilitates the removal of small, unwanted compounds from macromolecules in solution by diffusion through a semipermeable membrane. Diffusion is the random, thermal movement of molecules in solution that leads to the net movement of molecules from an area of higher concentration to a lower concentration until equilibrium is reached. The flux of the particles is proportional to the concentration gradient. Due to the pore size of the membrane, large molecules in the sample cannot pass through the membrane, while small molecules freely diffuse across the membrane and obtain equilibrium. This process is ideal for the purification of fragile proteins, viscous fluids and polymer gels. Three types of dialysis experiments exist: static, dynamic and equilibrium dialysis. Static dialysis is the standard way of placing a sample in a dialysis membrane inside a container of dialysate and swapping the dialysate to create fresh concentration gradients. The diffusion rate can be increased with the use of dynamic dialysis where fresh buffer is flowed across the sample. Equilibrium dialysis can be used to study the binding of small molecules and ions by proteins.
Experimental Principles
Figure 1.1: Procedural overview of an Dialysis experiment using Dynamic Dialysis. Step 1: The sample is loaded into the dialysis membrane and placed into the dialyzer. Step 2: Dialysate is flowed through the dialysis tank, removing small molecules from the sample.
Figure 1.2: Procedural overview of an Dialysis experiment using Static Dialysis. Step 1: The sample is loaded into the dialysis membrane and placed into a beaker of dialysate. Step 2: The setup is left to equilibrate with small molecules moving from the sample into the dialysate. Step 3: The old dialysate is swapped with fresh dialysate creating a larger concentration gradient. Step 4: The setup is left to equilibrate with small molecules moving from the sample into the dialysate.
Figure 1.3: Procedural overview of an Dialysis experiment using Equilibrium Dialysis. Step 1: The sample and dialysate are loaded into wells separated by a dialysis membrane. Step 2: The small unbound ligeands cross the dialysis membrane into the dialysate. The concentrations of ligands in the two wells can be used to calculate the percent of unbound ligands.
Instrumentation
SpectraFlo Process Dynamic Dialysis System
Figure 2.1.1: Instrument diagram for the Dynamic Dialysis System: Dialysate is pumped from a reservor to a dialysis tank which holds a sample inside a dialysis membrane. The dialysate either flows back to the reservoir in reciriculation mode or to the wste in single pass mode.
Microplate Genie
Microplate Incu-Mixer MP4
Figure 2.3.1: 4 SBS format plates can be vortexed in the MP4 at the same mixing speed (RPM). The cover of the MP4 is temperature controlled and can be set between 25C (Ambient) and 70C. All plates in the MP4 must be set to the same temperature.
AHP-1200CPV
Figure 2.4.1: The samples are placed inside of the instrument enclosure that is filled with heat-conductive Lab Armour. The instrument is set to the specified temperature until the time is reached.
MINISTAR 40 with C-MAG HS 10 Hot Plate
Figure 2.5.1: Samples will be mixed via stirring using an impeller that attaches to the IKA MINISTAR 40 unit (top). An appropriate impeller will be chosen depending on the Aperture and InternalDimensions of the container that is being mixed. The sample makes direct contact with the C MAG HS 10 hot plate. If the container is not SelfStanding, a thermally conductive tube stand will be used to transfer the heat from the hot plate to the sample (ex. 50mL Tube). The container is physically secured in place using a clamp to prevent movement during mixing.
Experiment Options
General
DialysisMethod
The type of dialysis method that should be used to separate the sample. In DynamicDialysis fresh Dialysate continuously flows across the sample and in StaticDialysis the Dialysate is stagnant. In EquilibiumDialysis, the dialsyate is retained and is used for the study of the binding of small molecules and ions by proteins.
Default Calculation: Automatically set to StaticDialysis if the sample volume is less than 30 Milliliter and DynamicDialysis otherwise.
Instrument
Default Calculation: Automatically set to an instrument appropriate for the DialysisMethod, DialysateContainer and DialysateTemperature (Model[Instrument,Dialyzer] for Dynamic Dialysis, Model[Instrument, HeatBlock] for dialysis with no mixing, Model[Instrument,Vortex] with a MaxTemperature and MinTemperature appropriate for the DialysateTemperature for EquilibriumDialysis, Model[Instrument,OverheadStirrer] for StaticDialysis)
Pattern Description: An object of type or subtype Model[Instrument, Dialyzer], Object[Instrument, Dialyzer], Model[Instrument, Vortex], Object[Instrument, Vortex], Model[Instrument, OverheadStirrer], Object[Instrument, OverheadStirrer], Model[Instrument, HeatBlock], or Object[Instrument, HeatBlock] or Null.
Programmatic Pattern: (ObjectP[{Model[Instrument, Dialyzer], Object[Instrument, Dialyzer], Model[Instrument, Vortex], Object[Instrument, Vortex], Model[Instrument, OverheadStirrer], Object[Instrument, OverheadStirrer], Model[Instrument, HeatBlock], Object[Instrument, HeatBlock]}] | Automatic) | Null
DynamicDialysisMethod
Default Calculation: Automatically set to a SinglePass if the FlowRate multiplied by DialysisTime is greater than the DialysateVolume or Recirculation if the dialysis Method is Dynamic and Null otherwise.
SampleVolume
Default Calculation: Is automatically set to All or the maximum recommended volume of the DialysisMembrane.
Pattern Description: All or greater than or equal to 10 microliters and less than or equal to 130 milliliters or Null.
DialysisMembrane
Figure 3.1: Left: Samples are loaded into dialysis tubes, Model[Container, Vessel, Dialysis]. They are placed in a floating rack in beaker containing dialysate. The set-up is left to equilibrate while being mixed with a magnetic stir bar. Middle: Samples are loaded into dialysis membrane tubing, Model[Item, DialysisMembrane]. In StaticDialysis, they are placed in a beaker containing dialysate and left to equilibrate while being mixed with a magnetic stir bar. Right: Samples and dialysates are loaded into a wells separated by a membrane, Model[Container, Plate, Dialysis]. The set-up is left to equilibrate while being shaked.
Default Calculation: Automatically set to a dialysis membrane appropriate for the DialysisMethod (Model[Item,DialysisMembrane] for DynamicDialysis, Model[Container,Vessel,Dialysis] or Model[Item,DialysisMembrane] for StaticDialysis, Model[Container,Plate,Dialysis] for EquilibriumDialysis) and the specified MolecularWeightCutoff and SampleVolume.
Pattern Description: An object of type or subtype Model[Container, Plate, Dialysis], Object[Container, Plate, Dialysis], Model[Container, Vessel, Dialysis], Object[Container, Vessel, Dialysis], or Model[Item, DialysisMembrane] or a prepared sample.
Programmatic Pattern: (ObjectP[{Model[Container, Plate, Dialysis], Object[Container, Plate, Dialysis], Model[Container, Vessel, Dialysis], Object[Container, Vessel, Dialysis], Model[Item, DialysisMembrane]}] | _String) | Automatic
MolecularWeightCutoff
The molecular weight cutoff of the DialysisMembrane; all particles larger than this should be kept during dialysis.
Pattern Description: 3.5 kilograms per mole, 8 kilograms per mole, 10 kilograms per mole, or 14 kilograms per mole or Null.
NumberOfReplicates
Number of times each of the input samples should be analyzed using identical experimental parameters.
Equilibration
FlowRate
The average rate in which the Dialysate will be flowed across the sample, as controlled by a peristaltic pump during Dynamic Dialysis.
Default Calculation: Automatically set to a flow rate appropriate for the DialysateVolume and DialysateTime if these options are given and the DynamicDialysisMethod is SinglePass, 25 Milliliter/Minute for all other cases of DynamicDialysis and Null otherwise.
Pattern Description: Greater than or equal to 5 milliliters per minute and less than or equal to 184 milliliters per minute or Null.
ShareDialysateContainer
Indicates if the samples should use the same DialysateContainer if possible. If set to true, multiple samples will use the same Dialysate.
Default Calculation: Automatically set to a True if DialysisMethod is StaticDialysis and Null otherwise.
NumberOfDialysisRounds
The amount of times the sample will dialyzed in fresh Dialysate. For example, if set to 3, the Dialysate will be changed twice during the experiment.
Default Calculation: Automatically set to 3 for StaticDialysis and 1 EquilibriumDialysis and SinglePass DynamicDialysis.
ImageSystem
Default Calculation: Automatically set to False if the DialysisMethod is DynamicDialysis and Null otherwise.
DialysisTime
Default Calculation: Automatically set to 2Hour for StaticDialysis, 4Hour for EquilibriumDialysis, 8Hour for Recirculating Dynamic Dialysis and 9Liter divided by the FlowRate for SinglePass DynamicDialysis.
SecondaryDialysisTime
The minimum duration of time for which the samples will be dialysed after the Dialysate is replaced with SecondaryDialysate.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than two, 16 hours if the NumberOfDialysisRounds is two and 2 hours otherwise.
TertiaryDialysisTime
The minimum duration of time for which the samples will be dialysed after the Dialysate is replaced with TertiaryDialysate.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than three, 16 hours if the NumberOfDialysisRounds is three and 2 hours otherwise.
QuaternaryDialysisTime
The minimum duration of time for which the samples will be dialysed after the Dialysate is replaced with QuaternaryDialysate.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than four, 16 hours if the NumberOfDialysisRounds is four and 2 hours otherwise.
QuinaryDialysisTime
The minimum duration of time for which the samples will be dialysed after the Dialysate is replaced with QuinaryDialysate.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than five and 16 hours if the NumberOfDialysisRounds otherwise.
Dialysate
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample.
SecondaryDialysate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than two and the Dialysate otherwise.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
TertiaryDialysate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than three and the Dialysate otherwise.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
QuaternaryDialysate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than four and the Dialysate otherwise.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
QuinaryDialysate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than five and the Dialysate otherwise.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
DialysateVolume
Default Calculation: Automatically set a 10 liters if the DialysisMethod is DynamicDialysis, the SampleVolume*100 for StaticDialysis and the SampleVolume + 250 Microliters for EquilibriumDialysis.
SecondaryDialysateVolume
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than two and the DialysateVolume or the recommended volume of the SecondaryDialysateContainer otherwise.
Pattern Description: Greater than or equal to 300 microliters and less than or equal to 10 liters or Null.
TertiaryDialysateVolume
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than three and the DialysateVolume or the recommended volume of the TertiaryDialysateContainer otherwise.
Pattern Description: Greater than or equal to 300 microliters and less than or equal to 10 liters or Null.
QuaternaryDialysateVolume
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than four and the DialysateVolume or the recommended volume of the QuaternaryDialysateContainer otherwise.
Pattern Description: Greater than or equal to 300 microliters and less than or equal to 10 liters or Null.
QuinaryDialysateVolume
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than five and the DialysateVolume or the recommended volume of the QuinaryDialysateContainer otherwise.
Pattern Description: Greater than or equal to 300 microliters and less than or equal to 10 liters or Null.
DialysateTemperature
Pattern Description: Ambient or greater than or equal to 4 degrees Celsius and less than or equal to 60 degrees Celsius or Null.
SecondaryDialysateTemperature
The temperature at which the Dialysis system will be heated or cooled to during the second round of dialysis.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than two and the DialysateTemperature otherwise.
Pattern Description: Ambient or greater than or equal to 4 degrees Celsius and less than or equal to 60 degrees Celsius or Null.
TertiaryDialysateTemperature
The temperature at which the Dialysis system will be heated or cooled to during the third round of dialysis.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than three and the DialysateTemperature otherwise.
Pattern Description: Ambient or greater than or equal to 4 degrees Celsius and less than or equal to 60 degrees Celsius or Null.
QuaternaryDialysateTemperature
The temperature at which the Dialysis system will be heated or cooled to during the fourth round of dialysis.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than four and the DialysateTemperature otherwise.
Pattern Description: Ambient or greater than or equal to 4 degrees Celsius and less than or equal to 60 degrees Celsius or Null.
QuinaryDialysateTemperature
The temperature at which the Dialysis system will be heated or cooled to during the fifth round of dialysis.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than five and the DialysateTemperature otherwise.
Pattern Description: Ambient or greater than or equal to 4 degrees Celsius and less than or equal to 60 degrees Celsius or Null.
DialysisMixType
Default Calculation: Automatically set to resolves to Stir for StaticDialysis, Vortex for EquilibriumDialysis and Null for Dynamic dialysis methods.
DialysisMixRate
Default Calculation: Automatically set to 250RPM of the MixType is Stir, 500RPM if the MixType is Vortex and Null otherwise.
Pattern Description: Greater than or equal to 0.2 revolutions per minute and less than or equal to 3200 revolutions per minute or Null.
SecondaryDialysisMixRate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than two and the DialysisMixRate otherwise.
Pattern Description: Greater than or equal to 0.2 revolutions per minute and less than or equal to 3200 revolutions per minute or Null.
TertiaryDialysisMixRate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than three and the DialysisMixRate otherwise.
Pattern Description: Greater than or equal to 0.2 revolutions per minute and less than or equal to 3200 revolutions per minute or Null.
QuaternaryDialysisMixRate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than four and the DialysisMixRate otherwise.
Pattern Description: Greater than or equal to 0.2 revolutions per minute and less than or equal to 3200 revolutions per minute or Null.
QuinaryDialysisMixRate
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than five and the DialysisMixRate otherwise.
Pattern Description: Greater than or equal to 0.2 revolutions per minute and less than or equal to 3200 revolutions per minute or Null.
DialysateContainer
Default Calculation: Automatically set to a beaker capable of holding the DialysateVolume and Null is the DialysisMethod is not StaticDialysis.
Pattern Description: An object of type or subtype Model[Container, Vessel] or Object[Container, Vessel] or a prepared sample or Null.
Programmatic Pattern: ((ObjectP[{Model[Container, Vessel], Object[Container, Vessel]}] | _String) | Automatic) | Null
SecondaryDialysateContainer
The dialysis container that should be used to hold the SecondaryDialysate and sample when using Static dialysis.
Default Calculation: Automatically set to the DialysateContainer or a container capable of holding the volume of SecondaryDialysate being used.
Pattern Description: An object of type or subtype Model[Container, Vessel] or Object[Container, Vessel] or a prepared sample or Null.
Programmatic Pattern: ((ObjectP[{Model[Container, Vessel], Object[Container, Vessel]}] | _String) | Automatic) | Null
TertiaryDialysateContainer
The dialysis container that should be used to hold the TertiaryDialysate and sample when using Static dialysis.
Default Calculation: Automatically set to the DialysateContainer or a container capable of holding the volume of TertiaryDialysate being used.
Pattern Description: An object of type or subtype Model[Container, Vessel] or Object[Container, Vessel] or a prepared sample or Null.
Programmatic Pattern: ((ObjectP[{Model[Container, Vessel], Object[Container, Vessel]}] | _String) | Automatic) | Null
QuaternaryDialysateContainer
The dialysis container that should be used to hold the QuaternaryDialysate and sample when using Static dialysis.
Default Calculation: Automatically set to the DialysateContainer or a container capable of holding the volume of QuaternaryDialysate being used.
Pattern Description: An object of type or subtype Model[Container, Vessel] or Object[Container, Vessel] or a prepared sample or Null.
Programmatic Pattern: ((ObjectP[{Model[Container, Vessel], Object[Container, Vessel]}] | _String) | Automatic) | Null
QuinaryDialysateContainer
The dialysis container that should be used to hold the QuinaryDialysate and sample when using Static dialysis.
Default Calculation: Automatically set to the DialysateContainer or a container capable of holding the volume of QuinaryDialysate being used.
Pattern Description: An object of type or subtype Model[Container, Vessel] or Object[Container, Vessel] or a prepared sample or Null.
Programmatic Pattern: ((ObjectP[{Model[Container, Vessel], Object[Container, Vessel]}] | _String) | Automatic) | Null
DialysateSampling
Indicates if a sampling volume should be removed from the dialysate after the first round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True for EquilibriumDialysis or if any of the dialysate sampling options are set and Null otherwise.
SecondaryDialysateSampling
Indicates if a sampling volume should be removed from the dialysate after the second round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the secondary dialysate sampling options are set and Null otherwise.
TertiaryDialysateSampling
Indicates if a sampling volume should be removed from the dialysate after the third round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the tertiary dialysate sampling options are set and Null otherwise.
QuaternaryDialysateSampling
Indicates if a sampling volume should be removed from the dialysate after the fouth round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the quaternary dialysate sampling options are set and Null otherwise.
QuinaryDialysateSampling
Indicates if a sampling volume should be removed from the dialysate after the fifth round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the quinary dialysate sampling options are set and Null otherwise.
DialysateSamplingVolume
Default Calculation: Automatically set as All for Equilibrium Dialysis or 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if DialysateSampling is True and Null otherwise.
Pattern Description: All or greater than or equal to 0 microliters and less than or equal to 2 liters or Null.
SecondaryDialysateSamplingVolume
Default Calculation: Automatically set 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if SecondaryDialysateSampling is True and Null otherwise.
Pattern Description: All or greater than or equal to 0 microliters and less than or equal to 2 liters or Null.
TertiaryDialysateSamplingVolume
Default Calculation: Automatically set 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if TertiaryDialysateSampling is True and Null otherwise.
Pattern Description: All or greater than or equal to 0 microliters and less than or equal to 2 liters or Null.
QuaternaryDialysateSamplingVolume
Default Calculation: Automatically set 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if QuaternaryDialysateSampling is True and Null otherwise.
Pattern Description: All or greater than or equal to 0 microliters and less than or equal to 2 liters or Null.
QuinaryDialysateSamplingVolume
Default Calculation: Automatically set 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if QuinaryDialysateSampling is True and Null otherwise.
Pattern Description: All or greater than or equal to 0 microliters and less than or equal to 2 liters or Null.
DialysateStorageCondition
The non-default conditions under which the DialysateSamplingVolume should be stored after the protocol is completed.
Pattern Description: AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, or UVVisLightTesting or Null.
SecondaryDialysateStorageCondition
The non-default conditions for which the SecondaryDialysateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
TertiaryDialysateStorageCondition
The non-default conditions for which the TertiaryDialysateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
QuaternaryDialysateStorageCondition
The non-default conditions for which the QuaternaryDialysateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
QuinaryDialysateStorageCondition
The non-default conditions for which the QuinaryDialysateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
DialysateContainerOut
Default Calculation: Automatically set as the PreferredContainer for the DialysateSamplingVolume of the sample if the DialysateSamplingVolume is not Null, Model[Container, Plate, "96-well 1mL Deep Well Plate"] for equilibrium dialysis and Null otherwise.
SecondaryDialysateContainerOut
The container the SecondaryDialysateSamplingVolume should be transferred into by the end of the experiment.
Default Calculation: Automatically set as the PreferredContainer for the SecondaryDialysateSamplingVolume of the sample if the SecondaryDialysateSamplingVolume is not Null and Null otherwise.
TertiaryDialysateContainerOut
The container the TertiaryDialysateSamplingVolume should be transferred into by the end of the experiment.
Default Calculation: Automatically set as the PreferredContainer for the TertiaryDialysateSamplingVolume of the sample if the TertiaryDialysateSamplingVolume is not Null and Null otherwise.
QuaternaryDialysateContainerOut
The desired container QuaternaryDialysateSamplingVolume should be transferred into by the end of the experiment.
Default Calculation: Automatically set as the PreferredContainer for the QuaternaryDialysateSamplingVolume of the sample if the QuaternaryDialysateSamplingVolume is not Null and Null otherwise.
QuinaryDialysateContainerOut
The container the QuinaryDialysateSamplingVolume should be transferred into by the end of the experiment.
Default Calculation: Automatically set to Null if the NumberOfDialysisRounds is less than five and the QuinaryDialysateContainerOut or the PreferredContainer for the QuinaryDialysateSamplingVolume otherwise.
RetentateSampling
Indicates if the a sampling volume should be removed from the sample after the first round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the retentate sampling options are set and Null otherwise.
SecondaryRetentateSampling
Indicates if the a sampling volume should be removed from the sample after the second round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the secondary retentate sampling options are set and Null otherwise.
TertiaryRetentateSampling
Indicates if the a sampling volume should be removed from the sample after the third round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the tertiary retentate sampling options are set and Null otherwise.
QuaternaryRetentateSampling
Indicates if the a sampling volume should be removed from the sample after the fourth round of dialysis to be used for further analysis.
Default Calculation: Automatically set as True if any of the quaternary retentate sampling options are set and Null otherwise.
RetentateSamplingVolume
Default Calculation: Automatically set as 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if RetentateSampling is True and Null otherwise.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 120 milliliters or Null.
SecondaryRetentateSamplingVolume
Default Calculation: Automatically set as 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if SecondaryRetentateSampling is True and Null otherwise.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 120 milliliters or Null.
TertiaryRetentateSamplingVolume
Default Calculation: Automatically set as 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if TertiaryRetentateSampling is True and Null otherwise.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 120 milliliters or Null.
QuaternaryRetentateSamplingVolume
Default Calculation: Automatically set as 1 percent of the sample up to 1 Milliliter and down to 1 Microliter if QuaternaryRetentateSampling is True and Null otherwise.
Pattern Description: Greater than or equal to 0 microliters and less than or equal to 120 milliliters or Null.
RetentateSamplingContainerOut
The desired container the RetentateSamplingVolume should be transferred into after the first round of dialysis.
Default Calculation: Automatically set as the PreferredContainer for the RetentateSamplingVolume of the sample if RetentateSampling is True and Null otherwise.
SecondaryRetentateSamplingContainerOut
The desired container the SecondaryRetentateSamplingVolume should be transferred into after the second round of dialysis.
Default Calculation: Automatically set as the PreferredContainer for the SecondaryRetentateSamplingVolume of the sample if SecondaryRetentateSampling is True and Null otherwise.
TertiaryRetentateSamplingContainerOut
The desired container the TertiaryRetentateSamplingVolume should be transferred into after the third round of dialysis.
Default Calculation: Automatically set as the PreferredContainer for the TertiaryRetentateSamplingVolume of the sample if TertiaryRetentateSampling is True and Null otherwise.
QuaternaryRetentateSamplingContainerOut
The desired container the QuaternaryRetentateSamplingVolume should be transferred into after the fourth round of dialysis.
Default Calculation: Automatically set as the PreferredContainer for the QuaternaryRetentateSamplingVolume of the sample if QuaternaryRetentateSampling is True and Null otherwise.
RetentateSamplingStorageCondition
The non-default conditions for which the RetentateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
SecondaryRetentateSamplingStorageCondition
The non-default conditions for which the SecondaryRetentateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
TertiaryRetentateSamplingStorageCondition
The non-default conditions for which the TertiaryRetentateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
QuaternaryRetentateSamplingStorageCondition
The non-default conditions for which the QuaternaryRetentateSamplingVolume should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
RetentateStorageCondition
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
RetentateContainerOut
Default Calculation: Automatically set to the PreferredContainer for the SampleVolume and Model[Container, Plate, "96-well 1mL Deep Well Plate"] for equilibrium dialysis.
Membrane Preparation
DialysisMembraneSoak
Default Calculation: Automatically set to True if the manufacturer of the DialysisMembrane recommends soaking.
DialysisMembraneSoakSolution
Default Calculation: Automatically set to the solution recommended by the manufacturer of the DialysisMembrane if DialysisMembraneSoak is True and Null otherwise.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
DialysisMembraneSoakVolume
The volume of DialysisMembraneSoakSolution the DialysisMembrane will soak in to remove the membrane's preservation solution.
Default Calculation: Automatically set to the volume of solution recommended by the manufacturer of the DialysisMembrane if DialysisMembraneSoak is True and Null otherwise.
Pattern Description: Greater than or equal to 0 milliliters and less than or equal to 2 liters or Null.
DialysisMembraneSoakTime
The amount of time the DialysisMembrane should be soaked to remove the membrane's preservation solution.
Default Calculation: Automatically set to the time recommended by the manufacturer of the DialysisMembrane if DialysisMembraneSoak is True and Null otherwise.
Post Experiment
SamplesInStorageCondition
The non-default conditions under which the SamplesIn of this experiment should be stored after the protocol is completed. If left unset, SamplesIn will be stored according to their current StorageCondition.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
Model Input
PreparedModelAmount
Indicates the amount of a Model[Sample] specified as input to the experiment function that will be prepared in the PreparedModelContainer. When set to All and the input model sample is not preparable, the entire amount of the input model sample that comes from one of the Products is prepared. The selected product must have both Amount and DefaultContainerModel populated, and it must not be a KitProduct. When set to All and the input model is preparable such as water, 1 Milliliter of the input model sample is prepared.
Programmatic Pattern: ((Null | (RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All)) | Automatic) | Null
PreparedModelContainer
Indicates the container in which a Model[Sample] specified as input to the experiment function will be prepared.
Default Calculation: If PreparedModelAmount is set to All and the input model has a product associated with both Amount and DefaultContainerModel populated, automatically set to the DefaultContainerModel value in the product. Otherwise, automatically set to Model[Container, Plate, "96-well 2mL Deep Well Plate"].
Sample Prep Options
Sample Preparation
PreparatoryUnitOperations
Specifies a sequence of transferring, aliquoting, consolidating, or mixing of new or existing samples before the main experiment. These prepared samples can be used in the main experiment by referencing their defined name. For more information, please reference the documentation for ExperimentSamplePreparation.
Pattern Description: List of one or more unit Operation ManualSamplePreparation or RoboticSamplePreparation or unit Operation must match SamplePreparationP entries or Null.
Programmatic Pattern: {((ManualSamplePreparationMethodP | RoboticSamplePreparationMethodP) | SamplePreparationP)..} | Null
Preparatory Incubation
Incubate
Indicates if the SamplesIn should be incubated at a fixed temperature prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.
IncubationTemperature
Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -20 degrees Celsius and less than or equal to 500 degrees Celsius or Null.
Programmatic Pattern: ((Ambient | RangeP[$MinIncubationTemperature, $MaxIncubationTemperature]) | Automatic) | Null
IncubationTime
Duration for which SamplesIn should be incubated at the IncubationTemperature, prior to starting the experiment.
Mix
Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.
MixType
Default Calculation: Automatically resolves based on the container of the sample and the Mix option.
Pattern Description: Roll, Vortex, Sonicate, Pipette, Invert, Stir, Shake, Homogenize, Swirl, Disrupt, or Nutate or Null.
MixUntilDissolved
Indicates if the mix should be continued up to the MaxIncubationTime or MaxNumberOfMixes (chosen according to the mix Type), in an attempt dissolve any solute. Any mixing/incubation will occur prior to starting the experiment.
Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.
MaxIncubationTime
Maximum duration of time for which the samples will be mixed while incubated in an attempt to dissolve any solute, if the MixUntilDissolved option is chosen. This occurs prior to starting the experiment.
Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.
IncubationInstrument
Default Calculation: Automatically resolves based on the options Mix, Temperature, MixType and container of the sample.
Pattern Description: An object of type or subtype Model[Instrument, Roller], Model[Instrument, OverheadStirrer], Model[Instrument, Vortex], Model[Instrument, Shaker], Model[Instrument, BottleRoller], Model[Instrument, Roller], Model[Instrument, Sonicator], Model[Instrument, HeatBlock], Model[Instrument, Homogenizer], Model[Instrument, Disruptor], Model[Instrument, Nutator], Model[Instrument, Thermocycler], Model[Instrument, EnvironmentalChamber], Model[Instrument, Pipette], Object[Instrument, Roller], Object[Instrument, OverheadStirrer], Object[Instrument, Vortex], Object[Instrument, Shaker], Object[Instrument, BottleRoller], Object[Instrument, Roller], Object[Instrument, Sonicator], Object[Instrument, HeatBlock], Object[Instrument, Homogenizer], Object[Instrument, Disruptor], Object[Instrument, Nutator], Object[Instrument, Thermocycler], Object[Instrument, EnvironmentalChamber], or Object[Instrument, Pipette] or Null.
AnnealingTime
Minimum duration for which the SamplesIn should remain in the incubator allowing the system to settle to room temperature after the IncubationTime has passed but prior to starting the experiment.
IncubateAliquotContainer
The desired type of container that should be used to prepare and house the incubation samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
IncubateAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
IncubateAliquot
The amount of each sample that should be transferred from the SamplesIn into the IncubateAliquotContainer when performing an aliquot before incubation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Preparatory Centrifugation
Centrifuge
Indicates if the SamplesIn should be centrifuged prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Centrifuge options are set. Otherwise, resolves to False.
CentrifugeInstrument
Pattern Description: An object of type or subtype Model[Instrument, Centrifuge] or Object[Instrument, Centrifuge] or Null.
Programmatic Pattern: (ObjectP[{Model[Instrument, Centrifuge], Object[Instrument, Centrifuge]}] | Automatic) | Null
CentrifugeIntensity
The rotational speed or the force that will be applied to the samples by centrifugation prior to starting the experiment.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration]) | Automatic) | Null
CentrifugeTime
CentrifugeTemperature
The temperature at which the centrifuge chamber should be held while the samples are being centrifuged prior to starting the experiment.
Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius or Null.
CentrifugeAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
CentrifugeAliquotContainer
The desired type of container that should be used to prepare and house the centrifuge samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
CentrifugeAliquot
The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
Preparatory Filtering
Filtration
Indicates if the SamplesIn should be filter prior to starting the experiment or any aliquoting. Sample Preparation occurs in the order of Incubation, Centrifugation, Filtration, and then Aliquoting (if specified).
Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.
FiltrationType
Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.
FilterInstrument
Default Calculation: Will automatically resolved to an instrument appropriate for the filtration type.
Pattern Description: An object of type or subtype Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], or Object[Instrument, SyringePump] or Null.
Programmatic Pattern: (ObjectP[{Model[Instrument, FilterBlock], Object[Instrument, FilterBlock], Model[Instrument, PeristalticPump], Object[Instrument, PeristalticPump], Model[Instrument, VacuumPump], Object[Instrument, VacuumPump], Model[Instrument, Centrifuge], Object[Instrument, Centrifuge], Model[Instrument, SyringePump], Object[Instrument, SyringePump]}] | Automatic) | Null
Filter
The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Will automatically resolve to a filter appropriate for the filtration type and instrument.
Pattern Description: An object of type or subtype Model[Container, Plate, Filter], Model[Container, Vessel, Filter], or Model[Item, Filter] or Null.
Programmatic Pattern: (ObjectP[{Model[Container, Plate, Filter], Model[Container, Vessel, Filter], Model[Item, Filter]}] | Automatic) | Null
FilterMaterial
The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
PrefilterMaterial
The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.
Pattern Description: Cellulose, Cotton, Polyethylene, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina or Null.
FilterPoreSize
The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.
Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
PrefilterPoreSize
The pore size of the filter; all particles larger than this should be removed during the filtration.
Pattern Description: 0.008 micrometers, 0.02 micrometers, 0.1 micrometers, 0.2 micrometers, 0.22 micrometers, 0.45 micrometers, 1. micrometer, 1.1 micrometers, 2.5 micrometers, 6. micrometers, 20. micrometers, 30. micrometers, or 100. micrometers or Null.
FilterSyringe
Default Calculation: Resolves to an syringe appropriate to the volume of sample being filtered, if Filtration is set to True.
Pattern Description: An object of type or subtype Model[Container, Syringe] or Object[Container, Syringe] or a prepared sample or Null.
Programmatic Pattern: ((ObjectP[{Model[Container, Syringe], Object[Container, Syringe]}] | _String) | Automatic) | Null
FilterHousing
The filter housing that should be used to hold the filter membrane when filtration is performed using a standalone filter membrane.
Default Calculation: Resolve to an housing capable of holding the size of the membrane being used, if filter with Membrane FilterType is being used and Filtration is set to True.
Pattern Description: An object of type or subtype Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], or Object[Instrument, FilterBlock] or Null.
Programmatic Pattern: (ObjectP[{Model[Instrument, FilterHousing], Object[Instrument, FilterHousing], Model[Instrument, FilterBlock], Object[Instrument, FilterBlock]}] | Automatic) | Null
FilterIntensity
Default Calculation: Will automatically resolve to 2000 GravitationalAcceleration if FiltrationType is Centrifuge and Filtration is True.
Pattern Description: Greater than 0 revolutions per minute or greater than 0 standard accelerations due to gravity on the surface of the earth or Null.
Programmatic Pattern: ((GreaterP[0*RPM] | GreaterP[0*GravitationalAcceleration]) | Automatic) | Null
FilterTime
Default Calculation: Will automatically resolve to 5 Minute if FiltrationType is Centrifuge and Filtration is True.
FilterTemperature
The temperature at which the centrifuge chamber will be held while the samples are being centrifuged during filtration.
Default Calculation: Will automatically resolve to 22 Celsius if FiltrationType is Centrifuge and Filtration is True.
FilterContainerOut
The desired container filtered samples should be produced in or transferred into by the end of filtration, with indices indicating grouping of samples in the same plates, if desired.
Default Calculation: Automatically set as the PreferredContainer for the Volume of the sample. For plates, attempts to fill all wells of a single plate with the same model before using another one.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or {Index, Container} or Null.
Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | {GreaterEqualP[1, 1] | Automatic, (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
FilterAliquotDestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
FilterAliquotContainer
The desired type of container that should be used to prepare and house the filter samples which should be used in lieu of the SamplesIn for the experiment.
Programmatic Pattern: ((ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
FilterAliquot
The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container.
Pattern Description: All or greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
FilterSterile
Default Calculation: Resolve to False if Filtration is indicated. If sterile filtration is desired, this option must manually be set to True.
Aliquoting
Aliquot
Indicates if aliquots should be taken from the SamplesIn and transferred into new AliquotSamples used in lieu of the SamplesIn for the experiment. Note that if NumberOfReplicates is specified this indicates that the input samples will also be aliquoted that number of times. Note that Aliquoting (if specified) occurs after any Sample Preparation (if specified).
AliquotAmount
Default Calculation: Automatically set as the smaller between the current sample volume and the maximum volume of the destination container if a liquid, or the current Mass or Count if a solid or counted item, respectively.
Programmatic Pattern: ((RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All) | Automatic) | Null
TargetConcentration
The desired final concentration of analyte in the AliquotSamples after dilution of aliquots of SamplesIn with the ConcentratedBuffer and BufferDiluent which should be used in lieu of the SamplesIn for the experiment.
TargetConcentrationAnalyte
Default Calculation: Automatically set to the first value in the Analytes field of the input sample, or, if not populated, to the first analyte in the Composition field of the input sample, or if none exist, the first identity model of any kind in the Composition field.
Pattern Description: An object of type or subtype Model[Molecule], Model[Molecule, cDNA], Model[Molecule, Oligomer], Model[Molecule, Transcript], Model[Molecule, Protein], Model[Molecule, Protein, Antibody], Model[Molecule, Carbohydrate], Model[Molecule, Polymer], Model[Resin], Model[Resin, SolidPhaseSupport], Model[Lysate], Model[ProprietaryFormulation], Model[Virus], Model[Cell], Model[Cell, Mammalian], Model[Cell, Bacteria], Model[Cell, Yeast], Model[Tissue], Model[Material], or Model[Species] or Null.
AssayVolume
Default Calculation: Automatically determined based on Volume and TargetConcentration option values.
Pattern Description: Greater than or equal to 1 microliter and less than or equal to 20 liters or Null.
ConcentratedBuffer
The concentrated buffer which should be diluted by the BufferDilutionFactor in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
BufferDilutionFactor
The dilution factor by which the concentrated buffer should be diluted in the final solution (i.e., the combination of the sample, ConcentratedBuffer, and BufferDiluent). The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentratedBufferDilutionFactor of that sample; otherwise, set to Null.
BufferDiluent
The buffer used to dilute the aliquot sample such that ConcentratedBuffer is diluted by BufferDilutionFactor in the final solution. The ConcentratedBuffer and BufferDiluent will be combined and then mixed with the sample, where the combined volume of these buffers is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
AssayBuffer
The buffer that should be added to any aliquots requiring dilution, where the volume of this buffer added is the difference between the AliquotAmount and the total AssayVolume.
Default Calculation: Automatically resolves to Model[Sample, "Milli-Q water"] if ConcentratedBuffer is not specified; otherwise, resolves to Null.
Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
AliquotSampleStorageCondition
The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.
Pattern Description: {AmbientStorage, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
DestinationWell
The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
Default Calculation: Automatically resolves to A1 in containers with only one position. For plates, fills wells in the order provided by the function AllWells.
Pattern Description: Any well from A1 to H12 or list of one or more any well from A1 to H12 or any well from A1 to H12 entries or Null.
Programmatic Pattern: ((WellPositionP | {((Automatic | Null) | WellPositionP)..}) | Automatic) | Null
AliquotContainer
The desired type of container that should be used to prepare and house the aliquot samples, with indices indicating grouping of samples in the same plates, if desired. This option will resolve to be the length of the SamplesIn * NumberOfReplicates.
Default Calculation: Automatically set as the PreferredContainer for the AssayVolume of the sample. For plates, attempts to fill all wells of a single plate with the same model before aliquoting into the next.
Pattern Description: An object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null or {Index, Container} or list of one or more an object of type or subtype Model[Container] or Object[Container] or a prepared sample or Automatic or Null entries or list of one or more Automatic or Null or {Index, Container} entries.
Programmatic Pattern: (((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null) | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | {((ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null))..} | {({GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | (Automatic | Null)} | (Automatic | Null))..}) | Automatic) | Null
AliquotPreparation
Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.
ConsolidateAliquots
Protocol Options
Organizational Information
Template
A template protocol whose methodology should be reproduced in running this experiment. Option values will be inherited from the template protocol, but can be individually overridden by directly specifying values for those options to this Experiment function.
Pattern Description: An object of type or subtype Object[Protocol] or an object of type or subtype of Object[Protocol] with UnresolvedOptions, ResolvedOptions specified or Null.
Programmatic Pattern: (ObjectP[Object[Protocol]] | FieldReferenceP[Object[Protocol], {UnresolvedOptions, ResolvedOptions}]) | Null
Name
A object name which should be used to refer to the output object in lieu of an automatically generated ID number.
Post Experiment
MeasureWeight
Indicates if any solid samples that are modified in the course of the experiment should have their weights measured and updated after running the experiment. Please note that public samples are weighed regardless of the value of this option.
MeasureVolume
Indicates if any liquid samples that are modified in the course of the experiment should have their volumes measured and updated after running the experiment. Please note that public samples are volume measured regardless of the value of this option.
ImageSample
Example Calls
Dialysis Methods
Samples with volumes over 30mL can be dialyzed with the dynamic dialysis setup, specifing the how the instrument should setup, the rate at which the dialysate is flow through the system and the amount of time it should be dialyzed:
Samples with volumes up to 30mL can be dialyzed with the static dialysis setup, specifying the rate at which the magnetic stir bar is rotated, the temperature of the dialysate and the amount of time it should be dialyzed:
Samples can be dialyzed in an equilibrium dialysis plate, specifying the rate at which the plate is shaked, the temperature of the dialysate and the amount of time it should be dialyzed:
Membrane Preparation
Membrane Selection
Use the MolecularWeightCutOff option to select a memebrane will remove particles smaller than the chosen size:
Sample and Dialysate Volumes
Use the Dialysate and DialysateVolume options to specify which and how much dialysate should be used to dialyze the sample:
Number of Dialysis Rounds
Use the NumberOfDialysisRounds option to specify how many times the sample will be dialyzed. The Dialysate will be changed between rounds:
Sample Recovery
Use the RetentateContainerOut option to specify how many the container the sample will be moved to after dialysis:
Sampling
Warnings and Errors
Messages (51)
ConfictingEquilibriumDialysateVolume (1)
ConflictingDialysateContainerMixType (1)
ConflictingDialysateContainerOut (1)
ConflictingDialysateSamplingVolume (1)
ConflictingDialysisMethodMixType (2)
ConflictingDynamicDialysisOptions (2)
ConflictingNullDynamicDialysisOptions (1)
ConflictingNullStaticDialysisOptions (1)
ConflictingRetentateContainerOut (1)
ConflictingRetentateContainerOutPlate (1)
ConflictingRetentateSamplingContainerOutPlate (1)
ConflictingStaticDialysisOptions (1)
DialysateContainerVolume (1)
DialysateSamplingMismatch (1)
DialysisMembraneMWCOMismatch (1)
DialysisMembraneSoakMismatch (1)
IncompatibleDialysisMembraneTemperature (1)
InstrumentPrecision (6)
Dialysis times and measurement intervals may only be specified in increments of 1 Minute:
Flow rates may only be specified in increments of 0.1 Milliliter/Minute:
Mix rates may only be specified in increments of 1 RPM:
Soak times may only be specified in increments of 1 Second:
Temperature may only be specified in increments of 1 Celsius:
Volumes may only be specified in increments of 1 Microliter:
InsufficientDialysateVolume (1)
InsufficientStaticDialysateVolume (1)
NoAvailableDialysisMembrane (1)
NumberOfDialysisRoundsEquilibriumMismatch (1)
NumberOfDialysisRoundsMismatch (1)
NumberOfDialysisRoundsNullMismatch (1)
ObjectDoesNotExist (6)
Do NOT throw a message if we have a simulated container but a simulation is specified that indicates that it is simulated:
Do NOT throw a message if we have a simulated sample but a simulation is specified that indicates that it is simulated:
Throw a message if we have a container that does not exist (ID form):
Throw a message if we have a container that does not exist (name form):
Throw a message if we have a sample that does not exist (ID form):
Throw a message if we have a sample that does not exist (name form):
RetentateSamplingMismatch (1)
UnachievableDialysisFlowRate (1)
Last modified on Mon 18 Aug 2025 14:30:17