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ExperimentPAGE

ExperimentPAGE[Samples]⟹Protocol

generates a Protocol object for running polyacrylamide gel electrophoresis on Samples.

    
Polyacrylamide gel electrophoresis (PAGE) is an analytical technique used to separate biological macromolecules in a sample. Samples are placed in individual wells of a gel made from polymerized acrylamide monomers, then analytes are separated by their electrophoretic mobility as a voltage is applied across the gel. The size, charge, and three-dimensional conformation of a molecule affects its electrophoretic mobility. Shorter analytes migrate across the gel towards the anode faster than longer analytes. Unique analytes are separated into distinct bands on the gel, which can be visualized after staining. PAGE is typically used to analyze oligomers that are shorter in length than those run on agarose gels.
    

Experimental Principles

    Figure 1.1: Procedural overview of a PAGE experiment. Step 1: A robotic liquid handler is used to place Samples, Ladder, and LoadingBuffer into the LoadingPlate. Step 2: The Loading plate is mixed and centrifuged. Step 3: The contents of the LoadingPlate are transferred to the Gels on the robotic electrophoresis rig. Step 4: Voltage is applied across the gel and Analytes in the Samples are separated based on their electrophoretic mobility. Step 5: Gels are stained with the StainingSolution. Step 6: Gels are rinsed with the RinsingSolution to remove the StainingSolution before imaging. Step 7: Stained Gels are imaged with a CCD camera.

Instrumentation

    Ranger

    Figure 2.1.1: Instrument diagram for the Ranger system. The electrophoresis rig is on the deck of a specialized robotic liquid handler. Pipette tips attached to a robotic arm are used to move samples from the LoadingPlate to individual wells of the Gels. Eletrophoretic separation occurs by applying a voltage across the Gels on the electrophoresis rig. LED arrays and a CCD camera are used to visualize Analyte bands. The deck is capable of running up to four gels. These gel cassettes are a proprietary form factor optimized for on-deck electrophoresis to interface with the liquid handler's gel positions. As such, typical, commercially available gel formats are incompatible with the deck, and all gels are ordered direct from the instrument manufacturer.
    Figure 2.1.2: Imaging system of the Ranger instrument. Fluorescence imaging is used to visualize Analytes in the Gel. Blue and red light pass through the ExcitationFilters to reach the Gel. Fluorescence emitted by Gel passes through the EmissionFilters and is captured with a CCD Camera.

Experiment Options

    General

    Gel

    The polyacrylamide gel(s) that the input samples are run through.
    Figure 3.1: Available Polyacrylamide Gels
    Default Value: Model[Item, Gel, 10% polyacrylamide TBE-Urea cassette, 20 channel]
    Pattern Description: An object of type or subtype Model[Item, Gel] or Object[Item, Gel] or list of one or more an object of type or subtype Object[Item, Gel] entries.
    Programmatic Pattern: ObjectP[{Model[Item, Gel], Object[Item, Gel]}] | {ObjectP[Object[Item, Gel]]..}

    DenaturingGel

    If set to True, the Gel will contain 7M Urea. If set to False, PAGE will be run under native conditions, without any denaturant in the gel.
    Default Value: Automatic
    Default Calculation: Automatically set to the value of the Denaturing field of the input Gel option.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic

    Instrument

    The electrophoresis instrument used for this experiment.
    Default Value: Model[Instrument, Electrophoresis, Ranger]
    Pattern Description: An object of type or subtype Object[Instrument, Electrophoresis] or Model[Instrument, Electrophoresis]
    Programmatic Pattern: ObjectP[{Object[Instrument, Electrophoresis], Model[Instrument, Electrophoresis]}]

    NumberOfReplicates

    The number of wells each input sample is loaded into. For example {input 1, input 2} with NumberOfReplicates->2 will act like {input 1, input 1, input 2, input 2}.
    Default Value: Null
    Pattern Description: Greater than or equal to 2 in increments of 1 or Null.
    Programmatic Pattern: GreaterEqualP[2, 1] | Null

    ReservoirBuffer

    The buffer that is used in the gel cassette reservoirs during electrophoresis.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample, StockSolution, "1x TBE Buffer"] if the Gel is a TBE oligomer gel, to Model[Sample,StockSolution,"1x Tris-Glycine Buffer"] if the Gel is a native Tris/Glycine protein gel, and to Model[Sample,StockSolution,"1x Tris-Glycine-SDS Buffer"] otherwise.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample.
    Programmatic Pattern: (ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic

    GelBuffer

    The buffer that is applied to the gel during electrophoresis.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample, StockSolution, "1x TBE Buffer"] if the Gel is a native TBE oligomer gel, to Model[Sample, StockSolution, "1X TBE buffer with 7M Urea"] if the Gel is a denaturing TBE-Urea oligomer gel, to Model[Sample,StockSolution,"1x Tris-Glycine Buffer"] if the Gel is a native Tris/Glycine protein gel, and to Model[Sample,StockSolution,"1x Tris-Glycine-SDS Buffer"] otherwise.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample.
    Programmatic Pattern: (ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic

    Loading

    SampleVolume

    The amount of each input sample that is mixed with the LoadingBuffer before a portion of the mixture (the SampleLoadingVolume) is loaded into the gel.
    Default Value: Automatic
    Default Calculation: Automatically set to 12 uL if the Gel is a native TBE oligomer gel, to 3 uL if the Gel is a denaturing TBE-Urea oligomer gel, and to 7.5 uL otherwise.
    Pattern Description: Greater than or equal to 1 microliter and less than or equal to 15 microliters.
    Programmatic Pattern: RangeP[1*Micro*Liter, 15*Micro*Liter] | Automatic
    Index Matches to: experiment samples

    LoadingBufferVolume

    The amount of LoadingBuffer that is mixed with each input sample before a portion of the mixture (the SampleLoadingVolume) is loaded into the gel.
    Default Value: Automatic
    Default Calculation: Automatically set to 3 uL if the Gel is a native TBE oligomer gel, to 40 uL if the Gel is a denaturing TBE-Urea oligomer gel, and to 7.5 uL otherwise.
    Pattern Description: Greater than or equal to 1 microliter and less than or equal to 40 microliters.
    Programmatic Pattern: RangeP[1*Micro*Liter, 40*Micro*Liter] | Automatic
    Index Matches to: experiment samples

    Ladder

    The sample or model of ladder used as a standard reference in the Experiment.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample,StockSolution,Standard,"GeneRuler dsDNA 10-300 bp, 11 bands, 167 ng/uL"] if the Gel is a TBE oligomer gel, to Model[Sample,StockSolution,Standard,"NativeMark Unstained Protein Standards, 20-1236 kDa"] if the Gel is a native Tris/Glycine protein gel, and to Model[Sample,StockSolution,Standard,"Precision Plus Unstained Protein Standards, 10-200 kDa"] otherwise.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample.
    Programmatic Pattern: (ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic

    LoadingBuffer

    The buffer that is mixed with samples before they are loaded into the gel.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample, "PAGE SYBR Gold non-denaturing loading buffer, 25% Ficoll"] if the Gel is a native TBE oligomer gel, to Model[Sample, "PAGE denaturing loading buffer, 22% Ficoll"] if the Gel is a denaturing TBE-Urea oligomer gel, to Model[Sample, "Native Sample Buffer for Protein Gels"] if the Gel is a native Tris/Glycine protein gel, and to Model[Sample, "Sample Buffer, Laemmli 2x Concentrate"] otherwise.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample.
    Programmatic Pattern: (ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic

    LadderVolume

    The amount of reference ladder that is loaded into each of the control ladder wells on the sides of the gel.
    Default Value: Automatic
    Default Calculation: Automatically set to the Mean of the SampleVolumes.
    Pattern Description: Greater than or equal to 1 microliter and less than or equal to 15 microliters.
    Programmatic Pattern: RangeP[1*Microliter, 15*Microliter] | Automatic

    LadderLoadingBuffer

    The buffer that is mixed with the Ladder before a portion of the mixture, the SampleLoadingVolume, is loaded into each of the gel wells used as a standard reference in the experiment.
    Default Value: Automatic
    Default Calculation: Automatically set to the LoadingBuffer, unless the LadderLoadingBufferVolume has been specified as Null, in which case the LadderLoadingBuffer is also set to Null.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
    Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null

    LadderLoadingBufferVolume

    The amount of LadderLoadingBuffer that is that is mixed with the Ladder before a portion of the mixture, the SampleLoadingVolume, is loaded into each of the gel wells used as a standard reference in the experiment.
    Default Value: Automatic
    Default Calculation: Automatically set to the Mean of the LoadingBufferVolume option, unless the LadderLoadingBuffer has been specified as Null, in which case the LadderLoadingBufferVolume is also set to Null
    Pattern Description: Greater than or equal to 1 microliter and less than or equal to 40 microliters or Null.
    Programmatic Pattern: (RangeP[1*Microliter, 40*Microliter] | Automatic) | Null

    SampleLoadingVolume

    The volume of the sample and loading buffer mixture that is loaded into each gel well.
    Default Value: Automatic
    Default Calculation: Automatically set to 10.5 uL if the Gel has 10 lanes and to 5 uL otherwise.
    Pattern Description: Greater than or equal to 2 microliters and less than or equal to 14 microliters.
    Programmatic Pattern: RangeP[2*Microliter, 14*Microliter] | Automatic

    PrewashVolume

    The volume of the PrewashingSolution that is used to rinse the gel after electrophoresis, before staining.
    Default Value: Automatic
    Default Calculation: Automatically set to 12 mL if the PrewashingSolution option is specified and to Null otherwise.
    Pattern Description: Greater than or equal to 5 milliliters and less than or equal to 15 milliliters or Null.
    Programmatic Pattern: (RangeP[5*Milliliter, 15*Milliliter] | Automatic) | Null

    Denaturation

    SampleDenaturing

    Indicates if the mixture of input samples and loading buffer is denatured by heating before electrophoresis. The Denaturation options control the temperature and duration of this denaturation.
    Default Value: Automatic
    Default Calculation: Automatically set to True if the Gel is a denaturing Tris/Glycine/SDS protein gel, and to False otherwise.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic

    DenaturingTemperature

    The temperature which the mixtures of input samples and loading buffer are heated to before being transferred to the Gel for electrophoresis.
    Default Value: Automatic
    Default Calculation: The DenaturingTemperature is automatically set to 95 Celsius if Denaturing is True, and to Null if Denaturing is False.
    Pattern Description: Greater than or equal to 25 degrees Celsius and less than or equal to 95 degrees Celsius or Null.
    Programmatic Pattern: (RangeP[$AmbientTemperature, 95*Celsius] | Automatic) | Null

    DenaturingTime

    The duration which the mixtures of input samples and loading buffer are heated to DenaturingTemperature before being transferred to the Gel for electrophoresis.
    Default Value: Automatic
    Default Calculation: The DenaturingTime is automatically set to 5 minutes if Denaturing is True, and to Null if Denaturing is False.
    Pattern Description: Greater than or equal to 1 minute and less than or equal to 120 minutes or Null.
    Programmatic Pattern: (RangeP[1*Minute, 120*Minute] | Automatic) | Null

    Separation

    SeparationTime

    The amount of time voltage is applied across the gel before staining and imaging.
    Default Value: Automatic
    Default Calculation: The SeparationTime is automatically set to 2 hours if the Gel is a TBE gel and to 133 minutes otherwise.
    Pattern Description: Greater than or equal to 1 minute and less than or equal to 4 hours.
    Programmatic Pattern: RangeP[Minute, 4*Hour] | Automatic

    Voltage

    The voltage that is applied across the gel for the duration of the SeparationTime.
    Default Value: 50 volts
    Pattern Description: Greater than or equal to 1 volt and less than or equal to 100 volts.
    Programmatic Pattern: RangeP[Volt, 100*Volt]

    DutyCycle

    The percent of the SeparationTime that the Voltage is applied across the gel.
    Default Value: 100 percent
    Pattern Description: Greater than or equal to 1 percent and less than or equal to 100 percent.
    Programmatic Pattern: RangeP[Percent, 100*Percent]

    Imaging

    PostRunStaining

    Indicates if the gel is incubated with the StainingSolution after electrophoresis in order to visualize the analytes.
    Default Value: Automatic
    Default Calculation: Automatically set to True if any of the StainingSolution, RinsingSolution, or PrewashingSolution options are specified, set to False if the Gel is a native TBE oligomer gel, and to True otherwise.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic

    PrewashingSolution

    The solution used to rinse the gel after electrophoresis, before staining.
    Default Value: Null
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
    Programmatic Pattern: (ObjectP[{Model[Sample], Object[Sample]}] | _String) | Null

    PrewashingTime

    The length of time the gel is soaked in PrewashingSolution after the electrophoresis is complete and before the StainingSolution is applied.
    Default Value: Automatic
    Default Calculation: Automatically set to 6 minutes if the PrewashingSolution option is specified and to Null otherwise.
    Pattern Description: Greater than or equal to 6 minutes and less than or equal to 1 hour or Null.
    Programmatic Pattern: (RangeP[6*Minute, Hour] | Automatic) | Null

    StainingSolution

    The solution applied to the gel after electrophoresis to view the analytes.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if the PostRunStaining is False, to Model[Sample, StockSolution, "10X SYBR Gold in 1X TBE"] if the Gel is a TBE oligomer gel, and to Model[Sample,StockSolution,"1x SYPRO Orange Protein Gel Stain in 7.5% acetic acid"] otherwise.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
    Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null

    StainVolume

    The volume of the StainingSolution that is applied to the gel after electrophoresis to view the analytes.
    Default Value: Automatic
    Default Calculation: Automatically set to 12 mL if the StainingSolution option is specified and to Null otherwise.
    Pattern Description: Greater than or equal to 5 milliliters and less than or equal to 15 milliliters or Null.
    Programmatic Pattern: (RangeP[5*Milliliter, 15*Milliliter] | Automatic) | Null

    StainingTime

    The length of time the gel is soaked in StainingSolution after the electrophoresis is complete.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if the StainingSolution is Null, to 36 minutes if the Gel is a TBE oligomer gel and to 1 hour otherwise.
    Pattern Description: Greater than or equal to 6 minutes and less than or equal to 2 hours or Null.
    Programmatic Pattern: (RangeP[6*Minute, 2*Hour] | Automatic) | Null

    RinsingSolution

    The buffer used to rinse the gel after staining, before imaging.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if the PostRunStaining is False, to Model[Sample, StockSolution, "1x TBE Buffer"] if the Gel is a TBE oligomer gel, and to Model[Sample,StockSolution,"7.5% acetic acid in water"] otherwise.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
    Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null

    RinseVolume

    The volume of the RinsingSolution that is applied to the gel after staining to remove excess StainingSolution from the gel before imaging.
    Default Value: Automatic
    Default Calculation: Automatically set to 12 mL if the RinsingSolution option is specified and to Null otherwise.
    Pattern Description: Greater than or equal to 5 milliliters and less than or equal to 15 milliliters or Null.
    Programmatic Pattern: (RangeP[5*Milliliter, 15*Milliliter] | Automatic) | Null

    RinsingTime

    The length of time the gel is soaked in RinsingSolution after the staining is complete. The gel is only soaked for the RinsingTime if the NumberOfRinses is larger than 1, otherwise, the images are taken directly after the RinsingSolution is added.
    Default Value: Automatic
    Default Calculation: Automatically set 6 minutes if the RinsingSolution is specified and to Null otherwise.
    Pattern Description: Greater than or equal to 6 minutes and less than or equal to 1 hour or Null.
    Programmatic Pattern: (RangeP[6*Minute, Hour] | Automatic) | Null

    NumberOfRinses

    The number of times the RinsingSolution is added to the gel and incubated for the RinsingTime before imaging occurs.
    Default Value: Automatic
    Default Calculation: Automatically set to 1 if the RinsingSolution is specified and to Null otherwise.
    Pattern Description: Greater than or equal to 1 and less than or equal to 4 in increments of 1 or Null.
    Programmatic Pattern: (RangeP[1, 4, 1] | Automatic) | Null

    FilterSet

    Indicates which excitation/emission filter sets are used to capture the gel images in this experiemnt. BlueFluorescence indicates that a 470/35 nm bandpass excitation filter and a 540/20 nm bandpass emission filter are used. RedFluorescence indicates that a 625/15 nm bandpass excitation filter and a 677/23 nm bandpass emission filter are used.
    Default Value: BlueFluorescence
    Pattern Description: BlueFluorescence or RedFluorescence.
    Programmatic Pattern: BlueFluorescence | RedFluorescence

    Sample Storage

    LadderStorageCondition

    The non-default storage condition under which the Ladder of this experiment should be stored after the protocol is completed. If left unset, the Ladder will be stored according to its current StorageCondition.
    Default Value: Null
    Pattern Description: {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, BacteriaIncubation, MammalianIncubation, TissueCultureCellsIncubation, MicrobialCellsIncubation, MicrobialCellsShakingIncubation, YeastCellsIncubation, YeastCellsShakingIncubation, ViralIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or list of one or more {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, BacteriaIncubation, MammalianIncubation, TissueCultureCellsIncubation, MicrobialCellsIncubation, MicrobialCellsShakingIncubation, YeastCellsIncubation, YeastCellsShakingIncubation, ViralIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal entries or Null.
    Programmatic Pattern: ((SampleStorageTypeP | Disposal) | {(SampleStorageTypeP | Disposal)..}) | Null

    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.
    Default Value: Null
    Pattern Description: {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, BacteriaIncubation, MammalianIncubation, TissueCultureCellsIncubation, MicrobialCellsIncubation, MicrobialCellsShakingIncubation, YeastCellsIncubation, YeastCellsShakingIncubation, ViralIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
    Programmatic Pattern: (Alternatives[SampleStorageTypeP | Disposal]) | Null
    Index Matches to: experiment samples

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 ExperimentSampleManipulation.
    Default Value: Null
    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

    PreparatoryPrimitives

    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 ExperimentSampleManipulation.
    Default Value: Null
    Pattern Description: List of one or more a primitive with head Define, Transfer, Mix, Aliquot, Consolidation, FillToVolume, Incubate, Filter, Wait, Centrifuge, or Resuspend entries or Null.
    Programmatic Pattern: {SampleManipulationP..} | 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 Value: Automatic
    Default Calculation: Resolves to True if any of the corresponding Incubation options are set. Otherwise, resolves to False.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic
    Index Matches to: experiment samples

    IncubationTemperature

    Temperature at which the SamplesIn should be incubated for the duration of the IncubationTime prior to starting the experiment.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    IncubationTime

    Duration for which SamplesIn should be incubated at the IncubationTemperature, prior to starting the experiment.
    Default Value: Automatic
    Pattern Description: Greater than or equal to 1 minute and less than or equal to 72 hours or Null.
    Programmatic Pattern: (RangeP[1*Minute, $MaxExperimentTime] | Automatic) | Null
    Index Matches to: experiment samples

    Mix

    Indicates if this sample should be mixed while incubated, prior to starting the experiment.
    Default Value: Automatic
    Default Calculation: Automatically resolves to True if any Mix related options are set. Otherwise, resolves to False.
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null
    Index Matches to: experiment samples

    MixType

    Indicates the style of motion used to mix the sample, prior to starting the experiment.
    Default Value: Automatic
    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.
    Programmatic Pattern: (MixTypeP | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    Default Calculation: Automatically resolves to True if MaxIncubationTime or MaxNumberOfMixes is set.
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    Default Calculation: Automatically resolves based on MixType, MixUntilDissolved, and the container of the given sample.
    Pattern Description: Greater than or equal to 1 minute and less than or equal to 72 hours or Null.
    Programmatic Pattern: (RangeP[1*Minute, $MaxExperimentTime] | Automatic) | Null
    Index Matches to: experiment samples

    IncubationInstrument

    The instrument used to perform the Mix and/or Incubation, prior to starting the experiment.
    Default Value: Automatic
    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.
    Programmatic Pattern: (ObjectP[Join[MixInstrumentModels, MixInstrumentObjects]] | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Pattern Description: Greater than or equal to 0 minutes and less than or equal to 72 hours or Null.
    Programmatic Pattern: (RangeP[0*Minute, $MaxExperimentTime] | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Pattern Description: An object of type or subtype Model[Container] or {Index, Container} or Null.
    Programmatic Pattern: ((ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
    Index Matches to: experiment samples

    IncubateAliquotDestinationWell

    The desired position in the corresponding IncubateAliquotContainer in which the aliquot samples will be placed.
    Default Value: Automatic
    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 Null.
    Programmatic Pattern: (WellPositionP | Automatic) | Null
    Index Matches to: experiment samples

    IncubateAliquot

    The amount of each sample that should be transferred from the SamplesIn into the IncubateAliquotContainer when performing an aliquot before incubation.
    Default Value: Automatic
    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.
    Programmatic Pattern: ((RangeP[1*Microliter, 20*Liter] | All) | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    Default Calculation: Resolves to True if any of the corresponding Centrifuge options are set. Otherwise, resolves to False.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic
    Index Matches to: experiment samples

    CentrifugeInstrument

    The centrifuge that will be used to spin the provided samples prior to starting the experiment.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    CentrifugeIntensity

    The rotational speed or the force that will be applied to the samples by centrifugation prior to starting the experiment.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    CentrifugeTime

    The amount of time for which the SamplesIn should be centrifuged prior to starting the experiment.
    Default Value: Automatic
    Pattern Description: Greater than 0 minutes or Null.
    Programmatic Pattern: (GreaterP[0*Minute] | Automatic) | Null
    Index Matches to: experiment samples

    CentrifugeTemperature

    The temperature at which the centrifuge chamber should be held while the samples are being centrifuged prior to starting the experiment.
    Default Value: Automatic
    Pattern Description: Ambient or greater than or equal to -10 degrees Celsius and less than or equal to 40 degrees Celsius or Null.
    Programmatic Pattern: ((Ambient | RangeP[-10*Celsius, 40*Celsius]) | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Pattern Description: An object of type or subtype Model[Container] or {Index, Container} or Null.
    Programmatic Pattern: ((ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
    Index Matches to: experiment samples

    CentrifugeAliquotDestinationWell

    The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
    Default Value: Automatic
    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 Null.
    Programmatic Pattern: (WellPositionP | Automatic) | Null
    Index Matches to: experiment samples

    CentrifugeAliquot

    The amount of each sample that should be transferred from the SamplesIn into the CentrifugeAliquotContainer when performing an aliquot before centrifugation.
    Default Value: Automatic
    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.
    Programmatic Pattern: ((RangeP[1*Microliter, 20*Liter] | All) | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    Default Calculation: Resolves to True if any of the corresponding Filter options are set. Otherwise, resolves to False.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic
    Index Matches to: experiment samples

    FiltrationType

    The type of filtration method that should be used to perform the filtration.
    Default Value: Automatic
    Default Calculation: Will automatically resolve to a filtration type appropriate for the volume of sample being filtered.
    Pattern Description: PeristalticPump, Centrifuge, Vacuum, Syringe, or AirPressure or Null.
    Programmatic Pattern: (FiltrationTypeP | Automatic) | Null
    Index Matches to: experiment samples

    FilterInstrument

    The instrument that should be used to perform the filtration.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    Filter

    The filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    FilterMaterial

    The membrane material of the filter that should be used to remove impurities from the SamplesIn prior to starting the experiment.
    Default Value: Automatic
    Default Calculation: Resolves to an appropriate filter material for the given sample is Filtration is set to True.
    Pattern Description: Cellulose, Cotton, Polyethylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, Silica, or HLB or Null.
    Programmatic Pattern: (FilterMembraneMaterialP | Automatic) | Null
    Index Matches to: experiment samples

    PrefilterMaterial

    The material from which the prefilter filtration membrane should be made of to remove impurities from the SamplesIn prior to starting the experiment.
    Default Value: Automatic
    Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.
    Pattern Description: Cellulose, Cotton, Polyethylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, Silica, or HLB or Null.
    Programmatic Pattern: (FilterMembraneMaterialP | Automatic) | Null
    Index Matches to: experiment samples

    FilterPoreSize

    The pore size of the filter that should be used when removing impurities from the SamplesIn prior to starting the experiment.
    Default Value: Automatic
    Default Calculation: Resolves to an appropriate filter pore size for the given sample is Filtration is set to True.
    Pattern Description: 0.008 micrometers, 0.1 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.
    Programmatic Pattern: (FilterSizeP | Automatic) | Null
    Index Matches to: experiment samples

    PrefilterPoreSize

    The pore size of the filter; all particles larger than this should be removed during the filtration.
    Default Value: Automatic
    Default Calculation: By default, no prefiltration is performed on samples, even when Filter->True.
    Pattern Description: 0.008 micrometers, 0.1 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.
    Programmatic Pattern: (FilterSizeP | Automatic) | Null
    Index Matches to: experiment samples

    FilterSyringe

    The syringe used to force that sample through a filter.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    FilterHousing

    The filter housing that should be used to hold the filter membrane when filtration is performed using a standalone filter membrane.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    FilterIntensity

    The rotational speed or force at which the samples will be centrifuged during filtration.
    Default Value: Automatic
    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
    Index Matches to: experiment samples

    FilterTime

    The amount of time for which the samples will be centrifuged during filtration.
    Default Value: Automatic
    Default Calculation: Will automatically resolve to 5 Minute if FiltrationType is Centrifuge and Filtration is True.
    Pattern Description: Greater than 0 minutes or Null.
    Programmatic Pattern: (GreaterP[0*Minute] | Automatic) | Null
    Index Matches to: experiment samples

    FilterTemperature

    The temperature at which the centrifuge chamber will be held while the samples are being centrifuged during filtration.
    Default Value: Automatic
    Default Calculation: Will automatically resolve to 22 Celsius if FiltrationType is Centrifuge and Filtration is True.
    Pattern Description: Greater than or equal to 4 degrees Celsius or Null.
    Programmatic Pattern: ((Alternatives[GreaterEqualP[4*Celsius]]) | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    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
    Index Matches to: experiment samples

    FilterAliquotDestinationWell

    The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
    Default Value: Automatic
    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 Null.
    Programmatic Pattern: (WellPositionP | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Pattern Description: An object of type or subtype Model[Container] or {Index, Container} or Null.
    Programmatic Pattern: ((ObjectP[Model[Container]] | {GreaterEqualP[1, 1] | (Automatic | Null), (ObjectP[{Model[Container], Object[Container]}] | _String) | Automatic}) | Automatic) | Null
    Index Matches to: experiment samples

    FilterAliquot

    The amount of each sample that should be transferred from the SamplesIn into the FilterAliquotContainer when performing an aliquot before filtration.
    Default Value: Automatic
    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.
    Programmatic Pattern: ((RangeP[1*Microliter, 20*Liter] | All) | Automatic) | Null
    Index Matches to: experiment samples

    FilterSterile

    Indicates if the filtration of the samples should be done in a sterile environment.
    Default Value: Automatic
    Default Calculation: Resolve to False if Filtration is indicated. If sterile filtration is desired, this option must manually be set to True.
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null
    Index Matches to: experiment samples

    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).
    Default Value: Automatic
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic
    Index Matches to: experiment samples

    AliquotAmount

    The amount of a sample that should be transferred from the input samples into aliquots.
    Default Value: Automatic
    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.
    Pattern Description: All or Count or Count or Mass or Volume or Null.
    Programmatic Pattern: ((RangeP[1*Microliter, 20*Liter] | RangeP[1*Milligram, 20*Kilogram] | GreaterP[0*Unit, 1*Unit] | GreaterP[0., 1.] | All) | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Default Calculation: Automatically calculated based on aliquot and buffer volumes.
    Pattern Description: Greater than 0 molar or greater than 0 grams per liter or Null.
    Programmatic Pattern: ((GreaterP[0*Molar] | GreaterP[0*(Gram/Liter)]) | Automatic) | Null
    Index Matches to: experiment samples

    TargetConcentrationAnalyte

    The substance whose final concentration is attained with the TargetConcentration option.
    Default Value: Automatic
    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.
    Programmatic Pattern: (ObjectP[IdentityModelTypes] | Automatic) | Null
    Index Matches to: experiment samples

    AssayVolume

    The desired total volume of the aliquoted sample plus dilution buffer.
    Default Value: Automatic
    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.
    Programmatic Pattern: (RangeP[1*Microliter, 20*Liter] | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
    Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    Default Calculation: If ConcentratedBuffer is specified, automatically set to the ConcentrationFactor of that sample; otherwise, set to Null.
    Pattern Description: Greater than or equal to 1 or Null.
    Programmatic Pattern: (GreaterEqualP[1] | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    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.
    Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null
    Index Matches to: experiment samples

    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 Value: Automatic
    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.
    Programmatic Pattern: ((ObjectP[{Model[Sample], Object[Sample]}] | _String) | Automatic) | Null
    Index Matches to: experiment samples

    AliquotSampleStorageCondition

    The non-default conditions under which any aliquot samples generated by this experiment should be stored after the protocol is completed.
    Default Value: Automatic
    Pattern Description: {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, BacteriaIncubation, MammalianIncubation, TissueCultureCellsIncubation, MicrobialCellsIncubation, MicrobialCellsShakingIncubation, YeastCellsIncubation, YeastCellsShakingIncubation, ViralIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
    Programmatic Pattern: ((SampleStorageTypeP | Disposal) | Automatic) | Null
    Index Matches to: experiment samples

    DestinationWell

    The desired position in the corresponding AliquotContainer in which the aliquot samples will be placed.
    Default Value: Automatic
    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 Value: Automatic
    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 or Null.
    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

    Indicates the desired scale at which liquid handling used to generate aliquots will occur.
    Default Value: Automatic
    Default Calculation: Automatic resolution will occur based on manipulation volumes and container types.
    Pattern Description: Manual or Robotic or Null.
    Programmatic Pattern: (PreparationMethodP | Automatic) | Null

    ConsolidateAliquots

    Indicates if identical aliquots should be prepared in the same container/position.
    Default Value: Automatic
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null

Protocol Options

    Organizational Information

    Name

    A object name which should be used to refer to the output object in lieu of an automatically generated ID number.
    Default Value: Null
    Pattern Description: A string or Null.
    Programmatic Pattern: _String | Null

    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.
    Default Value: Null
    Pattern Description: An object of type or subtype Object[Protocol, PAGE] or from an object of type Object[Protocol, PAGE] followed by one of the fields: UnresolvedOptions or ResolvedOptions or Null.
    Programmatic Pattern: (ObjectP[Object[Protocol, PAGE]] | FieldReferenceP[Types[Object[Protocol, PAGE]], {UnresolvedOptions, ResolvedOptions}]) | Null

    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.
    Default Value: Automatic
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null

    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.
    Default Value: Automatic
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null

    ImageSample

    Indicates if any samples that are modified in the course of the experiment should be freshly imaged after running the experiment. Please note that public samples are imaged regardless of the value of this option.
    Default Value: Automatic
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null

Example Calls

    Separate input samples though a 10% polyacrylamide gel

    Run parameters such as Voltage, DutyCycle, and SeparationTime can be specified:

    Specify gel to be used

    Gel can be specified:

    Specify non-default ladder to be used

    Ladder can be specified:

    Specify loading parameters

    loading parameters can be specified:

    Specify non-default separation parameters

    Run parameters such as Voltage, DutyCycle, and SeparationTime can be specified:

    Specify post-run staining parameters

    Specify whether post-run staining should be performed:
    Specify post-run staining parameters:

Preferred Input Containers

    The LoadingPlate which is placed on the Ranger can be loaded from all Hamilton robot-compatible containers.

Data Processing

    Plot sample data with its associated Ladder for comparison:

Warnings and Errors

    Messages  (21)

    ConflictingPAGEDenaturingGelOptions  (1)

    The DenaturingGel option must match the Denaturing field of the Gel option:

    ConflictingPAGELadderLoadingBufferOptions  (1)

    The LadderLoadingBuffer and LadderLoadingBufferVolume options must both be specified or both be Null:

    ConflictingPAGEPostRunRinsingSolutionOptions  (1)

    The PostRunStaining option cannot be in conflict with the RinsingSolution option:

    ConflictingPAGEPostRunStainingSolutionOptions  (1)

    The PostRunStaining option cannot be in conflict with the StainingSolution option:

    ConflictingPAGESampleDenaturingOptions  (1)

    The SampleDenaturing option cannot be in conflict with either the DenaturingTime or DenaturingTemperature options

    ConflictingPAGESampleLoadingVolumeGelOptions  (1)

    The SampleLoadingVolume cannot be larger than the MaxWellVolume of the Gel option:

    DiscardedSamples  (1)

    If the input samples are discarded, they cannot be used:

    DuplicateName  (1)

    If the Name option is specified, it cannot be identical to an existing Object[Protocol,PAGE] Name:

    DuplicatePAGEGelObjects  (1)

    If the Gel input is a list of Objects, each Gel Object in the list must be unique:

    InvalidNumberOfPAGEGels  (1)

    If the Gel input is an Object, the number of input samples must be compatible with the number of Gels:

    InvalidPAGEGelMaterial  (1)

    If specified, the Gel option must have a GelMaterial of Polyacrylamide:

    InvalidPAGENumberOfLanes  (1)

    The specified Gel must have a NumberOfLanes of either 10 or 20:

    MismatchedPAGEPrewashingOptions  (1)

    The PrewashingSolution, PrewashVolume, and PrewashingTime options cannot be in conflict:

    MismatchedPAGERinsingOptions  (1)

    The RinsingSolution, RinseVolume, RinsingTime, and NumberOfRinses options cannot be in conflict:

    MismatchedPAGEStainingOptions  (1)

    The StainingSolution, StainVolume, and StainingTime options cannot be in conflict:

    MoreThanOnePAGEGelModel  (1)

    If the Gel option is supplied as a list of Objects, all must be of the same Model:

    NotEnoughLadderVolumeToLoadPAGE  (1)

    The sum of the LadderVolume and the LadderLoadingBufferVolume must be larger than the SampleLoadingVolume:

    NotEnoughVolumeToLoadPAGE  (1)

    The sum of the SampleVolume and LoadingBufferVolume must be greater than or equal to the SampleLoadingVolume for each input sample:

    ObjectDoesNotExist  (1)

    Any specified input samples or options which are Objects must exist in the database:

    TooManyPAGEInputs  (1)

    A maximum of 72 input samples can be run in one protocol:

    TooMuchPAGEWasteVolume  (1)

    A maximum of 400 mL of post-run staining waste can be generated in one experiemnt:

Possible Issues

    Underloading

    Underloading of input sample will lead to low or no signal. The optimal amount of oligomer samples is between 45 to 150 ng of total material in the SampleVolume. An input sample concentration between 15 and 50 ng/uL and a SampleVolume of 3 uL is recommended.

    Overloading

    Overloading of input sample will lead to saturated signal and poor size resolution. The optimal amount of oligomer samples is between 45 to 150 ng of total material in the SampleVolume. An input sample concentration between 15 and 50 ng/uL and a SampleVolume of 3 uL is recommended.
Last modified on Mon 19 Dec 2022 10:26:27
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