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ECL`

ExperimentTotalProteinDetection

ExperimentTotalProteinDetection[Samples]⟹Protocol

generates a Protocol object for running a capillary electrophoresis-based total protein labeling and detection assay.

    
Total protein detection is an analytical molecular biology technique used to detect the presence of any proteins in a solution. ExperimentTotalProteinDetection is a capillary-based assay in which Analytes are electrophoretically separated through a gel matrix by molecular weight. The separated proteins are first labeled with an NHS-ester biotin conjugate, then with a streptavidin-horseradish peroxidase (HRP) conjugate. The presence of HRP, and thus protein, is detected by chemiluminescence. This technique is often used to qualitatively compare the abundance of proteins of discreet molecular weights in a mixture.
    

Experimental Principles

    Figure 1.1: Procedural overview of a Total Protein Detection experiment. Step 1: Input samples are mixed with the LoadingBuffer in the SamplePlate. The AssayPlate is loaded with the input samples, LabelingReagent, BlockingBuffer, PeroxidaseReagent, LuminescenceReagent, Ladder, LadderBlockingBuffer, and WashBuffer. Step 2: On the Instrument, the capillaries are loaded with separating matrix, stacking matrix, and input samples. Step 3: Voltage is applied across the capillaries as the analytes in the input samples are electrophoretically separated. Step 4: The analytes are immobilized on the inside surface of the capillaries with UV light. Step 5: The free amines on the immobilized proteins are tagged with an NHS ester-biotin conjugate (LabelingReagent). Step 6: The biotin tags bind to a Streptavidin-horseradish peroxidase conjugate (PeroxidaseReagent). Step 7: The capillaries are incubated with the LuminescenceReagent, a mixture of luminol and peroxide, and the chemiluminescent signal is detected by a CCD camera. Step 8: The output data is an electropherogram of relative signal intensity versus molecular weight.

Instrumentation

    Wes

    Figure 2.1: Instrument diagram for the Wes system: The instrument has an internal plate position and a slot for the CapillaryCartridge. The AssayPlate, containing input samples, LabelingReagent, BlockingBuffer, PeroxidaseReagent, LuminescenceReagent, WashBuffer, Ladder, LadderBlockingBuffer, and preloaded with the separation matrix, stacking matrix, and running buffer, is placed into the plate slot of the instrument. The CapillaryCartridge is placed into its slot. The instrument deck moved the AssayPlate position during the run so the capillaries can be placed into the appropriate wells. The instrument loads the various reagents into the capillaries by creating a pressure differential across the capillaries. With the bottom ends of the capillaries in the running buffer, analytes in each input sample and Ladder are electrophoretically separated as Voltage is applied across the capillaries. Chemiluminescent signal is produced from the interaction between the LuminescenceReagent and the horseradish peroxidase present on the PeroxidaseReagent. The signal is captured by a CCD camera and processed into an electropherogram for each capillary.

Experiment Options

    General

    MolecularWeightRange

    The range of protein sizes for which good resolution can be expected in this experiment. LowMolecularWeight corresponds to 2-40 kDa, MidMolecularWeight corresponds to 12-230 kDa, and HighMolecularWeight corresponds to 66-440 kDa. This molecular weight range determines which western assay plate, the specialized plate that is inserted into the western instrument, will be used in the experiment.
    Default Value: Automatic
    Default Calculation: In ExperimentWestern, the MolecularWeightRange is automatically set to be MidMolecularWeight if the average Expected MolecularWeight of the input PrimaryAntibodies are between 12 and 120 kDa, LowMolecularweight if between 0 and 12 kDa, and HighMolecularWeight if greater than 120 kDa. In ExperimentTotalProteinDetection, the MolecularWeightRange is automatically set depending on the Ladder option.
    Pattern Description: LowMolecularWeight, MidMolecularWeight, or HighMolecularWeight.
    Programmatic Pattern: WesternMolecularWeightRangeP | Automatic

    Instrument

    The Western instrument used for this experiment. The instrument loads the input samples into the capillaries, and performs the sample separation, antibody or biotin labeling reagent incubation, and signal detection after being loaded with a specialized western assay plate containing the input samples, antibodies or biotin labeling reagent, buffers, and other detection reagents.
    Default Value: Model[Instrument, Western, Wes]
    Pattern Description: An object of type or subtype Object[Instrument, Western] or Model[Instrument, Western]
    Programmatic Pattern: ObjectP[{Object[Instrument, Western], Model[Instrument, Western]}]

    NumberOfReplicates

    The number of capillaries each input sample will be run though. For example, ExperimentFunction[{input2,input2}, NumberOfReplicates->2] is equivalent to ExperimentFunction[{input1,input1,input2,input2}].
    Default Value: Null
    Pattern Description: Greater than or equal to 2 in increments of 1 or Null.
    Programmatic Pattern: GreaterEqualP[2, 1] | Null

    Denaturation

    Denaturing

    Indicates if the mixture of input samples and prepared master mix will be denatured by heating before preparing the samples for loading. The Denaturation options control the temperature and duration of this denaturation.
    Default Value: Automatic
    Default Calculation: The Denaturing is automatically set to False if DenaturingTemperature, DenaturingTime, or Denaturant is specified to be Null. Otherwise, the option is set to True.
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP | Automatic

    DenaturingTemperature

    The temperature which the mixture of input samples and loading buffer will be heated to before being transferred to the western assay plate (the specialized plate that is inserted into the western instrument).
    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 mixture of input samples and loading buffer will be heated to DenaturingTemperature before being transferred to the western assay plate (the specialized plate that is inserted into the western instrument).
    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

    Matrix & Sample Loading

    SeparatingMatrixLoadTime

    The duration for which the separating matrix will be loaded into the capillary. The Matrix and Sample Loading options determine the composition of the matrix inside the capillary, the sample preparation parameters, and the amount of sample loaded into the capillary.
    Default Value: 200 seconds
    Pattern Description: Greater than or equal to 1 second and less than or equal to 300 seconds.
    Programmatic Pattern: RangeP[1*Second, 300*Second]

    StackingMatrixLoadTime

    The duration for which the stacking matrix will be loaded into the capillary.
    Default Value: Automatic
    Default Calculation: The StackingMatrixLoadTime is automatically set to 15 seconds if the MolecularWeightRange is MidMolecularWeight, and to 12 seconds otherwise.
    Pattern Description: Greater than or equal to 1 second and less than or equal to 25 seconds.
    Programmatic Pattern: RangeP[1*Second, 25*Second] | Automatic

    SampleVolume

    The amount of each input sample that will be mixed with the LoadingBuffer before the mixture is denatured, and a portion of the mixture, the LoadingVolume, is loaded into the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 8 microliters
    Pattern Description: Greater than or equal to 7 microliters and less than or equal to 10 microliters.
    Programmatic Pattern: RangeP[7*Microliter, 10*Microliter]
    Index Matches to: experiment samples

    ConcentratedLoadingBuffer

    The control protein and sample buffer-containing solution, provided by the instrument supplier, that will be mixed with either the Denaturant or deionized water to make the LoadingBuffer, before a portion of the mixture, the LoadingBufferVolume, is mixed with the SampleVolumes.
    Default Value: Automatic
    Default Calculation: The ConcentratedLoadingBuffer is automatically set to be a Simple Western 10X Sample Buffer and Fluorescent Standards Solution from the same kit as the Ladder if the Ladder is set. If the Ladder is not set, the ConcentratedLoadingBuffer is automatically set to be a Simple Western 10X Sample Buffer and Fluorescent Standards Solution which covers the molecular weight span of the MolecularWeightRange.
    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

    ConcentratedLoadingBufferVolume

    The amount of the ConcentratedLoadingBuffer that will be mixed with either the Denaturant or deionized water, depending on if Denaturing is True or False.
    Default Value: 40 microliters
    Default Calculation: The ConcentratedLoadingBufferVolume is automatically set to be 40 uL.
    Pattern Description: Greater than or equal to 0 microliters and less than or equal to 40 microliters.
    Programmatic Pattern: RangeP[0*Microliter, 40*Microliter]

    Denaturant

    The solution, containing the protein denaturing agent used to denature proteins present in the input samples, that will be mixed with ConcentratedLoadingBuffer to make the LoadingBuffer.
    Default Value: Automatic
    Default Calculation: The Denaturant is automatically set to be a Model[Sample,StockSolution,"Simple Western 400 mM DTT"] from the same kit as the ConcentratedLoadingBuffer if the ConcentratedLoadingBuffer is set. Otherwise, it automatically resolves to be the 400mM DTT solution from EZ Standard Pack 1, 3 or 5, depending on the MolecularWeightRange.
    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

    DenaturantVolume

    The amount of Denaturant that will be mixed with ConcentratedLoadingBuffer.
    Default Value: Automatic
    Default Calculation: The DenaturantVolume is automatically set to be Null if the Denaturant is Null, or to 40 uL otherwise.
    Pattern Description: Greater than or equal to 0 microliters and less than or equal to 40 microliters or Null.
    Programmatic Pattern: (RangeP[0*Microliter, 40*Microliter] | Automatic) | Null

    WaterVolume

    The amount of deionized water that will be mixed with the ConcentratedLoadingBuffer in lieu of the Denaturant if Denaturing is set to False.
    Default Value: Automatic
    Default Calculation: The WaterVolume is automatically set to be 40 uL if Denaturing is False, and Null otherwise.
    Pattern Description: Greater than or equal to 0 microliters and less than or equal to 40 microliters or Null.
    Programmatic Pattern: (RangeP[0*Microliter, 40*Microliter] | Automatic) | Null

    LoadingBufferVolume

    The amount of prepared LoadingBuffer (with ConcentratedLoadingBuffer and either Denaturant or deionized water already added) that will be mixed with each input sample before the mixture is denatured, and a portion of the mixture, the LoadingVolume, is loaded into the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 2 microliters
    Pattern Description: Greater than or equal to 1 microliter and less than or equal to 2.5 microliters.
    Programmatic Pattern: RangeP[1*Microliter, 2.5*Microliter]
    Index Matches to: experiment samples

    LoadingVolume

    The amount of each mixture of input sample and LoadingBuffer that will be loaded into the western assay plate after sample denaturation.
    Default Value: 6 microliters
    Pattern Description: Greater than or equal to 5 microliters and less than or equal to 9 microliters.
    Programmatic Pattern: RangeP[5*Microliter, 9*Microliter]

    Ladder

    The biotinylated ladder, provided by the instrument supplier, which will be used as a standard reference ladder in the Experiment. After electrophoretic separation, the ladder will be labeled with the LadderPeroxidaseReagent in ExperimentWestern or the PeroxidaseReagent in ExperimentTotalProteinDetection so that each protein band is visible during the signal detection step.
    Default Value: Automatic
    Default Calculation: The Ladder is automatically set to be a Simple Western Biotinylated Ladder Solution from the same kit as the ConcentratedLoadingBuffer if the ConcentratedLoadingBuffer is set. If the ConcentratedLoadingBuffer is not set, the Ladder is automatically set to be a Simple Western Biotinylated Ladder Solution which covers the molecular weight span of the MolecularWeightRange.
    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 volume of the Ladder to be aliquotted into its well in the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 7 microliters
    Pattern Description: Greater than or equal to 3 microliters and less than or equal to 10 microliters.
    Programmatic Pattern: RangeP[3*Microliter, 10*Microliter]

    SampleLoadTime

    The duration for which the samples and ladder will be loaded into their respective capillaries.
    Default Value: Automatic
    Default Calculation: The SampleLoadTime is automatically set to 8 seconds if the MolecularWeightRange is HighMolecularWeight, and to 9 seconds otherwise. For more information on how the SampleLoadTime affects the experiment, please refer to Object[Report, Literature, "Simple Western Size Assay Development Guide"].
    Pattern Description: Greater than or equal to 1 second and less than or equal to 15 seconds.
    Programmatic Pattern: RangeP[1*Second, 15*Second] | Automatic

    Separation & Immobilization

    Voltage

    The voltage applied during the electrophoretic separation step. The separation and immobilization options set the instrument parameters that control the size-dependent separation of proteins present in the input samples and ladder, and the UV light-induced crosslinking of proteins to the capillary after separation.
    Default Value: Automatic
    Default Calculation: The Voltage is automatically set to 475 volts if the MolecularWeightRange is HighMolecularWeight, and to 375 volts otherwise.
    Pattern Description: Greater than or equal to 1 volt and less than or equal to 500 volts in increments of 1 volt.
    Programmatic Pattern: RangeP[1*Volt, 500*Volt, 1*Volt] | Automatic

    SeparationTime

    The duration for which the Voltage is applied during electrophoretic sample separation.
    Default Value: Automatic
    Default Calculation: The SeparationTime is automatically set to 1620 seconds, 1500 seconds, or 1800 seconds if the MolecularWeightRange is set to LowMolecularWeight, MidMolecularWeight, or HighMolecularWeight, respectively. For more information on how the SeparationTime affects the experiment, please refer to Object[Report, Literature, "Simple Western Size Assay Development Guide"].
    Pattern Description: Greater than or equal to 1 second and less than or equal to 3600 seconds.
    Programmatic Pattern: RangeP[1*Second, 3600*Second] | Automatic

    UVExposureTime

    The duration for which the capillary will be exposed to UV-light for protein cross-linking to the capillary.
    Default Value: Automatic
    Default Calculation: The UVExposureTime is automatically set to 150 seconds if the MolecularWeightRange is HighMolecularWeight, and to 200 seconds otherwise.
    Pattern Description: Greater than or equal to 1 second and less than or equal to 400 seconds.
    Programmatic Pattern: RangeP[1*Second, 400*Second] | Automatic

    WashBuffer

    The buffer that will be incubated with the capillary between blocking and labeling steps to remove excess reagents.
    Default Value: Model[Sample, Simple Western Wash Buffer]
    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

    WashBufferVolume

    The amount of WashBuffer to be loaded into each of the 15 appropriate wells of the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 500 microliters
    Pattern Description: Greater than or equal to 250 microliters and less than or equal to 500 microliters.
    Programmatic Pattern: RangeP[250*Microliter, 500*Microliter]

    Total Protein Labeling

    LabelingReagent

    The biotin-containing reagent used to label all proteins present in the input sample(s) The Total Protein Labeling Options describe the biotin and streptavidin-HRP labeling of the protein population present in the input sample(s).
    Default Value: Model[Sample, StockSolution, Simple Western Total Protein Labeling Solution - Total Protein Kit]
    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

    LabelingReagentVolume

    The amount of LabelingReagent that will be aliquotted into each appropriate well of the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 10 microliters
    Pattern Description: Greater than or equal to 5 microliters and less than or equal to 11 microliters.
    Programmatic Pattern: RangeP[5*Microliter, 11*Microliter]

    LabelingTime

    The duration for which the capillary is incubated with the LabelingReagent.
    Default Value: 1800 seconds
    Pattern Description: Greater than or equal to 0 seconds and less than or equal to 7200 seconds.
    Programmatic Pattern: RangeP[0*Second, 7200*Second]

    BlockingBuffer

    The buffer to be incubated with the capillary after LabelingWashTime.
    Default Value: Model[Sample, Simple Western Antibody Diluent 2 - Total Protein Kit]
    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

    BlockingBufferVolume

    The amount of BlockingBuffer that will be aliquotted into the appropriate wells of the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 10 microliters
    Pattern Description: Greater than or equal to 5 microliters and less than or equal to 20 microliters.
    Programmatic Pattern: RangeP[5*Microliter, 20*Microliter]

    BlockingTime

    The duration of the BlockingBuffer incubation after the LabelingWashTime.
    Default Value: 1800 seconds
    Pattern Description: Greater than or equal to 0 seconds and less than or equal to 7200 seconds.
    Programmatic Pattern: RangeP[0*Second, 7200*Second]

    PeroxidaseReagent

    The sample or model of streptavidin-containing HRP solution which will bind to proteins that have been labeled with biotin and the biotinylated ladder.
    Default Value: Model[Sample, Simple Western Total Protein Streptavidin-HRP - Total Protein Kit]
    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

    PeroxidaseReagentStorageCondition

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

    PeroxidaseReagentVolume

    The amount of PeroxidaseReagent that will be added to the appropriate well(s) of the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 8 microliters
    Pattern Description: Greater than or equal to 5 microliters and less than or equal to 100 microliters.
    Programmatic Pattern: RangeP[5*Microliter, 100*Microliter]

    PeroxidaseIncubationTime

    The duration for which the capillary is incubated with the PeroxidaseReagent.
    Default Value: 1800 seconds
    Pattern Description: Greater than or equal to 0 seconds and less than or equal to 7200 seconds.
    Programmatic Pattern: RangeP[0*Second, 7200*Second]

    Blocking

    LadderBlockingBuffer

    The buffer that will be incubated with the capillary containing the Ladder during both the LabelingTime and the BlockingTime.
    Default Value: Model[Sample, Simple Western Antibody Diluent 2 - Total Protein Kit]
    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

    LadderBlockingBufferVolume

    The amount of LadderBlockingBuffer that will be aliquotted into each of the two appropriate wells of the western assay plate (the specialized plate that is inserted into the western instrument).
    Default Value: 10 microliters
    Pattern Description: Greater than or equal to 0 microliters and less than or equal to 20 microliters.
    Programmatic Pattern: RangeP[0*Microliter, 20*Microliter]

    Imaging

    LuminescenceReagent

    The solution, which defaults to a mixture of luminol and peroxide, that reacts with the horseradish peroxidase (HRP) attached to the SecondaryAntibody in ExperimentWestern or the PeroxidaseReagent in ExperimentTotalProteinLabeling to give off chemiluminesence which is observed during the SignalDetectionTimes.
    Default Value: Automatic
    Default Calculation: In ExperimentWestern, the LuminescenceReagent is automatically set to Model[Sample,StockSolution,"SimpleWestern Luminescence Reagent"]. In ExperimentTotalProteinDetection, the LuminescenceReagent is automatically set to Model[Sample,StockSolution,"SimpleWestern Luminescence Reagent - Total Protein Kit"].
    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

    LuminescenceReagentVolume

    The amount of the LuminescenceReagent that will be aliquotted into each of the 25 appropriate wells of the western assay plate (the specialized plate that is inserted into the western instrument). The LuminescenceReagent reacts with the horseradish peroxidase (HRP) attached to the SecondaryAntibody in ExperimentWestern or the PeroxidaseReagent in ExperimentTotalProteinLabeling to give off chemiluminesence which is observed during the SignalDetectionTimes.
    Default Value: 15 microliters
    Pattern Description: Greater than or equal to 5 microliters and less than or equal to 15 microliters.
    Programmatic Pattern: RangeP[5*Microliter, 15*Microliter]

    SignalDetectionTimes

    The list of (9) exposure times in seconds for chemiluminescent signal. It is highly recommended to leave the SignalDetectionTimes as the default times, as these are the only times from which the High Dynamic Range (HDR) Detection Profile can be calculated. The HDR Detection Profile increases the dynamic range of the experiment by two orders of magnitude.
    Default Value: {1 second, 2 seconds, 4 seconds, 8 seconds, 16 seconds, 32 seconds, 64 seconds, 128 seconds, 512 seconds}
    Pattern Description: {First Exposure, Second Exposure, Third Exposure, Fourth Exposure, Fifth Exposure, Sixth Exposure, Seventh Exposure, Eighth Exposure, Ninth Exposure}
    Programmatic Pattern: {RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second], RangeP[1*Second, 512*Second]}

    Model Input

    PreparedModelContainer

    Indicates the container in which a Model[Sample] specified as input to the experiment function will be prepared.
    Default Value: Automatic
    Default Calculation: If PreparedModelAmount is set to All and when the input model has a product associated with both Amount and DefaultContainerModel populated, automatically set to the DefaultContainerModel value in the product. Otherwise set to Model[Container, Vessel, "2mL Tube"].
    Pattern Description: An object of type or subtype Model[Container] or Null.
    Programmatic Pattern: (ObjectP[Model[Container]] | Automatic) | Null
    Index Matches to: experiment samples

    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.
    Default Value: Automatic
    Default Calculation: Automatically set to 1 Milliliter.
    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

    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, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, 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 ExperimentSamplePreparation.
    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

    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, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina 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, Polypropylene, PTFE, Nylon, PES, PLUS, PVDF, GlassFiber, GHP, UHMWPE, EPDM, DuraporePVDF, GxF, ZebaDesaltingResin, NickelResin, AgaroseResin, CobaltResin, Silica, HLB, or AnoporeAlumina 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, 0.02 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.
    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, 0.02 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.
    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 ConcentratedBufferDilutionFactor 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, EnclosedAmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, 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.
    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

    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] 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.
    Default Value: Null
    Pattern Description: A string or Null.
    Programmatic Pattern: _String | 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

    Target Mass Range

    Run a TotalProteinDetection assay ideal for the 12-230 kDa analyte size range:

    Denaturation Parameters

    Specify non-default denaturation reaction time and temperature:

    Separation and Biotin Labeling Parameters

    Specify non-default electrophoresis and biotin labeling parameters:

Preferred Input Containers

    The plates which are used in this experiment can be loaded from all robotic liquid handler compatible containers.

Data Processing

    Plot a TotalProteinDetection Data Object:
    Plot a TotalProteinDetection Data Object with its ladder data object:

Warnings and Errors

    Messages  (19)

    ConflictingWesDenaturingOptions  (1)

    The Denaturing, DenaturingTemperature, and DenaturingTime options must not conflict:

    DiscardedSamples  (1)

    The input sample cannot have a Status of Discarded:

    DuplicateName  (1)

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

    InputContainsTemporalLinks  (1)

    A Warning is thrown if any inputs contain temporal links:

    NotEnoughWesLoadingBuffer  (1)

    The sum of the ConcentratedLoadingBufferVolume and DenaturantVolume or WaterVolume options should be larger than the LoadingBuffer required for the experiment (all 24 potential sample capillaries):

    NumberOfReplicatesTooHighForNumberOfWesInputSamples  (1)

    The number of input samples times the NumberOfReplicates cannot be larger than 24:

    ObjectDoesNotExist  (6)

    Throw a message if we have a sample that does not exist (name 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 container that does not exist (ID form):

    Do NOT throw a message if we have a simulated sample but a simulation is specified that indicates that it is simulated:

    Do NOT throw a message if we have a simulated container but a simulation is specified that indicates that it is simulated:

    TooManyInputsForWes  (1)

    A maximum of 24 input samples can be run in one protocol:

    WesConcentratedLoadingBufferNotOptimal  (1)

    The supplied ConcentratedLoadingBuffer should be the default ConcentratedLoadingBuffer for the MolecularWeightRange:

    WesHighDynamicRangeImagingNotPossible  (1)

    The supplied SignalDetectionTimes need to be the default values for High Dynamic Range (HDR) image processing to occur:

    WesInputsShouldBeDiluted  (1)

    If a lysate input sample has a TotalProteinConcentration greater than 3 mg/mL, it should be diluted with Model[Sample,StockSolution,"Simple Western 0.1X Sample Buffer"] using the sample preparation aliquot options:

    WesLadderNotOptimalForMolecularWeightRange  (1)

    The supplied Ladder should be the default Ladder for the MolecularWeightRange:

    WesternLoadingVolumeTooLarge  (1)

    For each input, the LoadingVolume must be smaller than the sum of the SampleVolume and the LoadingBufferVolume:

    WesWashBufferNotOptimal  (1)

    The supplied WashBuffer should be the default WashBuffer:

Possible Issues

    Overloading

    Effect of sample overloading on sizing accuracy. The maximum recommended TotalProteinConcentration for input lysate samples is between 2 and 3 mg/mL. It is recommended to dilute concentrated lysate inputs with Model[Sample, StockSolution, "Simple Western 0.1X Sample Buffer"] using the Aliquot-related sample preparation options. Please see the AssayBuffer option for an example.
Last modified on Fri 3 Oct 2025 18:40:55

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