ecl-logo Documentation

ExperimentThermalShift

ExperimentThermalShift[Samples]⟹Protocol

creates a Protocol object for measuring sample fluorescence during heating and cooling (melting curve analysis) to determine shifts in thermal stability of Samples under varying conditions.

    
ExperimentThermalShift quantifies alterations in molecular structure through changes in fluorescence emission across a temperature gradient. This assay utilizes either extrinsic fluorescent dyes or intrinsic fluorescence to monitor conformational changes in nucleic acids or proteins. Additionally, sample aggregate formation across a temperature gradient can be measured using static light scattering whereby larger molecules scatter more light. The data generated by this experiment can be used to determine the samples’ melting point or aggregation point which is characteristic of the samples’ sequence, length, concentration, and solvent conditions. Resulting shifts in melting and aggregation points compared to a reference are indicative of sample thermal stability under varying conditions.
    

Experimental Principles

    Figure 1.1: Step1: Samples can be diluted, pooled, mixed, incubated, and/or annealed in preparation for thermal shift analysis. Sample dilution occurs prior to sample pooling. When all samples in a pool are diluted, the total number of dilutions of each sample in the pool must match. When one sample in a pool is diluted and its partner is not diluted, the undiluted pooling partner will be pooled with each dilution of its partner at the desired AliquotAmount. Step2: Prepared samples are transferred into instrument compatible containers. For the Uncle multimode spectrophotometer, samples are loaded into a 16 well quartz capillary strip. For the ViiA 7 Real-Time thermocycler, samples are loaded into a 384-well v-bottom optical assay plate. Step3: Prepared samples are loaded into the instrument and equilibrated to the starting temperature of the following thermal ramp. A total of three capillary strips can be loaded into the Uncle at once. Step4: Sample fluorescence (and static light scattering if desired) measurement during thermal ramp. For the Uncle, fluorescence and static light scattering are measured for each capillary independently. For the ViiA 7, fluorescence measurements are collected at each excitation wavelength simultaneously for all wells. Steps 3 & 4 are repeated for each heating and cooling cycle. Step5: Data is assessed using AnalyzeMeltingPoint to determine the melting temperature of samples. Static light scattering data from the Uncle can also be analyzed to determine relative changes in aggregation temperature of samples.

Instrumentation

    Uncle

    Figure 2.1.1: The Uncle is a multimode spectrophotometer with the capacity to interrogate forty eight samples in one run. Samples must be assayed in Uncle compatible capillary strips. Each strip contains 16 quartz capillaries and each capillary requires 9 uL of sample. Sample fluorescence and static light scattering intensity are excited by 266 nm and 473 nm long-life lasers and detected by a full-spectrum spectrometer consisting of a CCD camera pixel array. Excitation laser power can be specified from opaque to full power (0 - 100% respectively). Sample dynamic light scattering can be quantified by a 660 nm laser diode and detected using an avalanche photodiode module. For all measurements, each capillary is interrogated independently. Thermal profiles can be programmed into the instrument to interrogate samples at multiple temperatures. Capillary strip temperature is controlled by a thermoelectric heating and cooling plate and can range from 15°C to 95°C.

    ViiA 7

    Figure 2.2.1: The ViiA 7 offers real-time monitoring of target sequence amplification during 384-well plate-based PCR procedures. The thermocycling profile is programmable in the temperature range from 4 °C to 100 °C, with a maximum ramp rate of 3.4 °C/sec. The ViiA 7's excitation wavelengths of 470, 520, 550, 580, 640, and 662 nm and emission wavelengths of 520, 558, 586, 623, 682, and 711 nm allow monitoring of the amplification targets via a variety of dyes or reporters.

Experiment Options

    General

    Instrument

    The instrument used to perform the thermal shift experiment.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Instrument, Thermocycler, "ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] for nucleic acid samples and Model[Instrument, MultimodeSpectrophotometer, "Uncle"] for protein samples
    Pattern Description: An object of type or subtype Model[Instrument, Thermocycler], Object[Instrument, Thermocycler], Model[Instrument, MultimodeSpectrophotometer], or Object[Instrument, MultimodeSpectrophotometer]
    Programmatic Pattern: ObjectP[{Model[Instrument, Thermocycler], Object[Instrument, Thermocycler], Model[Instrument, MultimodeSpectrophotometer], Object[Instrument, MultimodeSpectrophotometer]}] | Automatic

    NumberOfReplicates

    The number of different analysis wells in which each nested index matching sample is measured.
    Default Value: Automatic
    Default Calculation: Automatically set to 2 if Instrument is set to a Model[Instrument, MultimodeSpectrophotometer] or Object[Instrument, MultimodeSpectrophotometer].
    Pattern Description: Greater than or equal to 2 in increments of 1 or Null.
    Programmatic Pattern: (GreaterEqualP[2, 1] | Automatic) | Null

    AnalyteType

    The type of molecule present in the nested index matching sample that is detected during instrument measurement.
    Default Value: Automatic
    Default Calculation: Automatically set to the type of specified analytes in the sample definition.
    Pattern Description: Oligomer or Protein.
    Programmatic Pattern: (Oligomer | Protein) | Automatic
    Index Matches to: experiment samples

    DynamicLightScatteringCapillaryLoading

    The loading method for capillaries when the instrument used is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] . When set to Robotic, capillaries are loaded by liquid handler. when set to Manual, capillaries are loaded by a multichannel pipette.
    Default Value: Automatic
    Default Calculation: If Automatic, set to Manual if the instrument is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] and to Null otherwise.
    Pattern Description: Automatic, Robotic, or Manual or Null.
    Programmatic Pattern: ((Automatic | Robotic | Manual) | Automatic) | Null

    Sample Preparation

    ReactionVolume

    The total volume of the reaction including the sample, Buffer, DetectionReagent, and PassiveReference. For protocols using Model[Instrument,MultimodeSpectrophotometer], a minimum of 20 Microliter for the ReactionVolume is required.
    Default Value: Automatic
    Pattern Description: Greater than or equal to 5 microliters and less than or equal to 40 microliters.
    Programmatic Pattern: RangeP[5*Microliter, 40*Microliter] | Automatic

    PassiveReference

    A temperature insensitive fluorophore used to normalize melting curves.
    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

    PassiveReferenceVolume

    The volume of PassiveReference to add to the final reaction.
    Default Value: Automatic
    Default Calculation: Automatically set to the manufacturer recommended working concentration of the selected passive reference dye or Null if PassiveReference is not specified.
    Pattern Description: Greater than 0 microliters or Null.
    Programmatic Pattern: (GreaterP[0*Microliter] | Automatic) | Null

    DilutionCurve

    The collection of dilutions that are performed on sample prior to sample pooling (if desired) and thermal ramping.
    Figure 3.1: Use the DilutionCurve option to create a collection of dilutions that will be performed on the sample.
    Default Value: Null
    Pattern Description: Fixed Dilution Factor or Fixed Dilution Volume or Null.
    Programmatic Pattern: (Null | {{GreaterEqualP[0*Microliter], GreaterEqualP[0*Microliter]}..} | {{GreaterEqualP[0*Microliter], RangeP[0, 1]}..}) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    SerialDilutionCurve

    The collection of dilutions that are performed on sample prior to sample pooling (if desired) and thermal ramping. For Serial Dilution Volumes, the Transfer Volume is taken out of the sample and added to a second well with the Diluent Volume of the Diluent. It is mixed and then the Transfer Volume is taken out of that well to be added to a third well. This is repeated to make Number Of Dilutions diluted samples. For example, 100mM sample with a TransferVolume of 20 Microliters, a DiluentVolume of 60 Microliters and a NumberofDilutions of 3 is used, it will create a DilutionCurve of 100mM, 25mM, and 6.25mM with each dilution having a volume of 60 Microliters. For Serial Dilution Factors, the sample is diluted by the dilution factor at each transfer step.
    Figure 3.2: Use the SerialDilutionCurve option to create a collection of serial dilutions that will be performed on the sample.
    Default Value: Null
    Pattern Description: Serial Dilution Factor or Serial Dilution Volumes or Null.
    Programmatic Pattern: (Null | {GreaterP[0*Microliter], GreaterEqualP[0*Microliter], GreaterP[1, 1]} | {GreaterEqualP[0*Microliter], {RangeP[0, 1], GreaterP[1, 1]} | {RangeP[0, 1]..}}) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    Diluent

    The sample that is used to dilute the sample to make a DilutionCurve or SerialDilutionCurve.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample,"Nuclease-free Water"] for nucleic acid analytes and Model[Sample,StockSolution,"1x PBS from 10X stock, pH 7"] for protein analytes when SerialDilutionCurve or DilutionCurve are specified and Null when neither SerialDilutionCurve or DilutionCurve are specified.
    Pattern Description: An object of type or subtype Model[Sample] or Object[Sample] or a prepared sample or Null.
    Programmatic Pattern: ((Null | (ObjectP[{Model[Sample], Object[Sample]}] | _String)) | Automatic) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    DilutionContainer

    The containers in which each sample is diluted with the Diluent to make the concentration series, with indices indicating specific grouping of samples if desired.
    Default Value: Automatic
    Default Calculation: Automatically set as {1,Model[Container,Plate,"96-well 2mL Deep Well Plate"]}.
    Pattern Description: {Index, Container} or Null.
    Programmatic Pattern: ((Null | {GreaterEqualP[1, 1], ObjectP[{Model[Container], Object[Container]}] | _String}) | Automatic) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    DilutionStorageCondition

    The conditions under which any leftover samples from the DilutionCurve or SerialDilutionCurve should be stored after the samples are transferred to the measurement plate.
    Default Value: Automatic
    Default Calculation: Automatically set to Disposal.
    Pattern Description: {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
    Programmatic Pattern: ((Alternatives[SampleStorageTypeP | Disposal]) | Automatic) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    DilutionMixVolume

    The volume that is pipetted out of and in to the dilution to mix the sample with the Diluent to make the DilutionCurve or SerialDilutionCurve.
    Default Value: Automatic
    Default Calculation: Automatically set to the smallest dilution volume or half the largest dilution volume, whichever one is smaller.
    Pattern Description: Greater than or equal to 0 microliters or Null.
    Programmatic Pattern: ((Null | GreaterEqualP[0*Microliter]) | Automatic) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    DilutionNumberOfMixes

    The number of pipette out and in cycles that is used to mix the sample with the Diluent to make the DilutionCurve or SerialDilutionCurve.
    Default Value: Automatic
    Default Calculation: Automatically set to 5 when DilutionCurve or SerialDilutionCurve is specified.
    Pattern Description: Greater than or equal to 0 and less than or equal to 20 in increments of 1 or Null.
    Programmatic Pattern: ((Null | RangeP[0, 20, 1]) | Automatic) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    DilutionMixRate

    The speed at which the DilutionMixVolume is pipetted out and in of the dilution to mix the sample with the Diluent to make the DilutionCurve or SerialDilutionCurve.
    Default Value: Automatic
    Default Calculation: Automatically set to 100 Microliter/Second when DilutionCurve or SerialDilutionCurve is specified.
    Pattern Description: Greater than or equal to 0.4 microliters per second and less than or equal to 250 microliters per second or Null.
    Programmatic Pattern: ((Null | RangeP[0.4*(Microliter/Second), 250*(Microliter/Second)]) | Automatic) | Null
    Index Matches to: experiment samples
    Nested Index Matches to: experiment samples

    NestedIndexMatchingMix

    Indicates if mixing of the nested index matching samples occur inside the destination plate.
    Default Value: Automatic
    Default Calculation: Automatically set based on whether pooling of the source samples is performed.
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null
    Index Matches to: experiment samples

    NestedIndexMatchingMixType

    Indicates the style of motion used to mix the nested index matching samples inside the AliquotContainer.
    Default Value: Automatic
    Default Calculation: Automatically set to Pipette when NestedIndexMatchingMix is True.
    Pattern Description: Pipette or Invert or Null.
    Programmatic Pattern: ((Pipette | Invert) | Automatic) | Null
    Index Matches to: experiment samples

    NestedIndexMatchingNumberOfMixes

    The number of times each nested index matching sample is mixed by pipetting or inversion.
    Default Value: Automatic
    Default Calculation: Automatically set to 5.
    Pattern Description: Greater than or equal to 1 and less than or equal to 50 in increments of 1 or Null.
    Programmatic Pattern: (RangeP[1, 50, 1] | Automatic) | Null
    Index Matches to: experiment samples

    NestedIndexMatchingMixVolume

    The volume of each nested index matching sample is pipetted up and down to mix.
    Default Value: Automatic
    Default Calculation: Automatically set to half the total nested index matching volume.
    Pattern Description: Greater than or equal to 1 microliter and less than or equal to 50 milliliters or Null.
    Programmatic Pattern: (RangeP[1*Microliter, 50*Milliliter] | Automatic) | Null
    Index Matches to: experiment samples

    NestedIndexMatchingIncubate

    Indicates if thermal incubation of the nested index matching samples occur prior to measurement.
    Default Value: Automatic
    Default Calculation: Automatically set to False if NestedIndexMatchingIncubationTime, NestedIndexMatchingIncubationTemperature, and NestedIndexMatchingAnnealingTime are not specified. Automatically set to True if either NestedIndexMatchingIncubationTime, NestedIndexMatchingIncubationTemperature, or NestedIndexMatchingAnnealingTime are specified.
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null
    Index Matches to: experiment samples

    PooledIncubationTime

    Duration for which the nested index matching samples are thermally incubated prior to measurement.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if NestedIndexMatchingIncubate is False and 5 minutes if NestedIndexMatchingIncubate is True.
    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

    NestedIndexMatchingIncubationTemperature

    Temperature at which the nested index matching samples are thermally incubated prior to measurement.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if NestedIndexMatchingIncubate is False and 85 Celsius if NestedIndexMatchingIncubate is True.
    Pattern Description: Ambient or greater than or equal to 22 degrees Celsius and less than or equal to 90 degrees Celsius or Null.
    Programmatic Pattern: ((RangeP[22*Celsius, 90*Celsius] | Ambient) | Automatic) | Null
    Index Matches to: experiment samples

    NestedIndexMatchingAnnealingTime

    Duration for which the nested index matching samples remain in the thermal incubation instrument before being removed, allowing the system to settle to room temperature after the NestedIndexMatchingIncubationTime has passed.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if NestedIndexMatchingIncubate is False and 3 Hour if NestedIndexMatchingIncubate is True.
    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

    SampleVolume

    The volume of the sample containing the main analyte used in the experiment.
    Default Value: Automatic
    Default Calculation: Automatically set to 20uL if the instrument is Model[Instrument,Thermocycler,"ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models and 10uL if the instrument is Model[Instrument,MultimodeSpectrophotometer,"Uncle"] or an object with this model.
    Pattern Description: Greater than or equal to 0 microliters and less than or equal to 40 microliters.
    Programmatic Pattern: RangeP[0*Microliter, 40*Microliter] | Automatic
    Index Matches to: experiment samples

    Buffer

    A sample used to bring each reaction to its reaction volume once all other components have been added.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample,"Nuclease-free Water"] for nucleic acid analytes and Model[Sample,StockSolution,"1x PBS from 10X stock, pH 7"] for protein analytes.
    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

    BufferVolume

    The volume, of Buffer added to bring the reaction volume up to ReactionVolume.
    Default Value: Automatic
    Default Calculation: Automatically set to the volume difference between the sum of the reaction components and the reaction volume.
    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
    Index Matches to: experiment samples

    DetectionReagent

    The fluorophore or fluorescent dye used to detect melting of the analyte.
    Default Value: Automatic
    Default Calculation: Automatically set to Model[Sample, StockSolution, "10X SYBR Gold in filtered 1X TBE Alternative Preparation"] for nucleic acid analytes. Automatically set to Model[Sample,StockSolution,"10X SYPRO Orange"] for protein analytes if the instrument is Model[Instrument,Thermocycler,"ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models and Null if the instrument is Model[Instrument,MultimodeSpectrophotometer,"Uncle"] or an object with this model.
    Pattern Description: An object of type or subtype Object[Sample] or Model[Sample] or a prepared sample or Null.
    Programmatic Pattern: ((ObjectP[{Object[Sample], Model[Sample]}] | _String) | Automatic) | Null
    Index Matches to: experiment samples

    DetectionReagentVolume

    The volume of the DetectionReagent to add to the reaction.
    Default Value: Automatic
    Default Calculation: Automatically set to the manufacturer's recommendation for the working concentration of the selected detection reagent. In the case of Model[Sample,StockSolution,"10X SYPRO Orange"], the default working concentration is set to 5X.
    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
    Index Matches to: experiment samples

    Melting Curve

    MinTemperature

    The low temperature of the heating or cooling cycle.
    Default Value: 15 degrees Celsius
    Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 100 degrees Celsius.
    Programmatic Pattern: RangeP[4*Celsius, 100*Celsius]

    MaxTemperature

    The high temperature of the heating or cooling cycle.
    Default Value: 95 degrees Celsius
    Pattern Description: Greater than or equal to 4 degrees Celsius and less than or equal to 100 degrees Celsius.
    Programmatic Pattern: RangeP[4*Celsius, 100*Celsius]

    TemperatureRampOrder

    The order of temperature ramping to be performed in each cycle.
    Default Value: {Heating, Cooling}
    Pattern Description: {Heating, Cooling} or {Cooling, Heating}
    Programmatic Pattern: ThermodynamicCycleP

    NumberOfCycles

    The number of repeated melting and cooling cycles to be performed.
    Default Value: Automatic
    Default Calculation: Automatically set to 0.5 cycles. Half cycles represent a monotonically ascending or descending temperature ramp and is determined by the first entry in TemperatureRampOrder. More than 0.5 cycles can only be measured on Model[Instrument,MultimodeSpectrophotometer,"Uncle"].
    Pattern Description: 0.5, 1, 1.5, 2, 2.5, or 3.
    Programmatic Pattern: (0.5 | 1 | 1.5 | 2 | 2.5 | 3) | Automatic

    EquilibrationTime

    The time between each melting and cooling cycle during which the samples are held at the starting temperature of the next thermal ramp.
    Default Value: 1 minute
    Pattern Description: Greater than or equal to 0 seconds and less than or equal to 5999 seconds.
    Programmatic Pattern: RangeP[0*Second, 99*Minute + 59*Second]

    TemperatureRamping

    The type of temperature ramp. Linear temperature ramps increase temperature at a constant rate given by TemperatureRampRate. Step temperature ramps increase the temperature by TemperatureRampStep/TemperatureRampStepTime and holds the temperature constant for TemperatureRampStepHold before measurement.
    Default Value: Automatic
    Default Calculation: Automatically set to Linear if no stepped temperature ramp options are specified. Automatically set to Step if any stepped temperature ramp options are specified.
    Pattern Description: Linear or Step.
    Programmatic Pattern: (Linear | Step) | Automatic

    TemperatureRampRate

    The rate at which the temperature is changed in the course of one heating and/or cooling cycle.
    Default Value: Automatic
    Default Calculation: If TemperatureRamping is Linear, automatically set to 1 Celsius/Minute. If TemperatureRamping is Step, automatically set to the max ramp rate available on the instrument.
    Pattern Description: Greater than or equal to 0.0015 degrees Celsius per second and less than or equal to 3.4 degrees Celsius per second.
    Programmatic Pattern: RangeP[0.0015*(Celsius/Second), 3.4*(Celsius/Second)] | Automatic

    TemperatureResolution

    The amount by which the temperature is changed between each data point and the subsequent data point for a given sample during the melting and/or cooling curves.
    Figure 3.3: Linear thermal profiles programmed into the ExperimentThermalShift instruments can be customized using the following options: 1) MinTemperature and MaxTemperature set the lower and upper values of the thermal profile respectively and can range from 4 to 100 Celsius. 2) TemperatureRampRate defines the rate at which the temperature changes with time and can range from 0.0015 to 3.4 Celsius per second. 3) EquilibrationTime sets the interval preceding each heating or cooling ramp during which the samples are held at the starting temperature of the heating or cooling ramp. 4) TemperatureResolution determines the change in temperature between measurement reads. The maximum resolution depends on the total number of samples. This option is only available on the Uncle instrument. 5) TemperatureRampOrder sets the order of the heating and cooling ramps and can either start with a heating ramp or a cooling ramp. 6) NumberOfCycles determines how many times the heating and cooling ramps are repeated during the experiment and can range from 0.5 to 3 cycles. The ViiA 7 thermocycler is limited to 0.5 cycles. Each cycle is considered to be a heating ramp plus a cooling ramp in any order.
    Default Value: Automatic
    Default Calculation: Automatically set to highest possible resolution if the instrument is Model[Instrument,MultimodeSpectrophotometer,"Uncle"] or an object with this model. Automatically set to Null if the instrument is Model[Instrument,Thermocycler,"ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models because temperature resolution is not tunable on this instrument type.
    Pattern Description: Greater than or equal to 0 degrees Celsius and less than or equal to 100 degrees Celsius or Null.
    Programmatic Pattern: (RangeP[0*Celsius, 100*Celsius] | Automatic) | Null

    NumberOfTemperatureRampSteps

    The number of step changes in temperature for a heating or cooling cycle.
    Figure 3.4: Step thermal profiles programmed into the ExperimentThermalShift instruments can be customized using the following options: 1) MinTemperature and MaxTemperature set the lower and upper values of the thermal profile respectively and can range from 4 to 100 Celsius. 2) TemperatureRampRate defines the rate at which the temperature changes between each step temperature and can range from 0.0015 to 3.4 Celsius per second. 3) NumberOfTemperatureRampSteps sets the number of temperature steps taken between the MinTemperature and MaxTemperature for each heating or cooling ramp. 4) EquilibrationTime sets the interval preceding each heating or cooling ramp during which the samples are held at the starting temperature of the heating or cooling ramp. 5) StepHoldTime sets the length of time samples are held at each temperature during a stepped temperature ramp prior to measurement. 6) TemperatureRampOrder sets the order of the heating and cooling ramps and can either start with a heating ramp or a cooling ramp. 7) NumberOfCycles determines how many times the heating and cooling ramps are repeated during the experiment and can range from 0.5 to 3 cycles. The ViiA 7 thermocycler is limited to 0.5 cycles. Each cycle is considered to be a heating ramp plus a cooling ramp in any order.
    Default Value: Automatic
    Default Calculation: If TemperatureRamping is Step, automatically set to the absolute value of the difference in MinTemperature and MaxTemperature rounded to the nearest integer. If TemperatureRamping is Linear, automatically set to Null.
    Pattern Description: Greater than or equal to 1 and less than or equal to 100 or Null.
    Programmatic Pattern: (RangeP[1, 100] | Automatic) | Null

    StepHoldTime

    The length of time samples are held at each temperature during a stepped temperature ramp prior to fluorescence or static light scattering measurement.
    Default Value: Automatic
    Default Calculation: Automatically set to 30 Second when TemperatureRamping is "Step" and Null when TemperatureRamping is "Linear".
    Pattern Description: Greater than or equal to 1 second and less than or equal to 13500 seconds or Null.
    Programmatic Pattern: (RangeP[1*Second, 13500*Second] | Automatic) | Null

    Detection

    FluorescenceLaserPower

    The fluorescence laser power filter used in the experiment. If OptimizeFluorescenceLaserPower is True, this is the laser power at which the optimization starts.
    Default Value: Automatic
    Default Calculation: Automatically set to 50 Percent if the instrument is Model[Instrument,MultimodeSpectrophotometer,"Uncle"] or an object with this model and Null if the instrument is Model[Instrument,Thermocycler,"ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models.
    Pattern Description: 0 percent, 13 percent, 25 percent, 32 percent, 50 percent, or 100 percent or Null.
    Programmatic Pattern: (LaserPowerFilterP | Automatic) | Null
    Index Matches to: experiment samples

    StaticLightScatteringLaserPower

    The static light scattering laser power filter used in the experiment. A laser power of 25% is recommended for most proteins. Higher laser powers may be necessary for smaller particles that do not scatter as much light. If OptimizeStaticLightScatteringLaserPower is True, the laser power used in the experiment will match the optimized fluorescence laser power setting.
    Default Value: Automatic
    Default Calculation: Automatically set to 25 Percent if the instrument is Model[Instrument,MultimodeSpectrophotometer,"Uncle"] or an object with this model and Null if the instrument is Model[Instrument,Thermocycler,"ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models.
    Pattern Description: 0 percent, 13 percent, 25 percent, 32 percent, 50 percent, or 100 percent or Null.
    Programmatic Pattern: (LaserPowerFilterP | Automatic) | Null
    Index Matches to: experiment samples

    OptimizeFluorescenceLaserPower

    Indicates if prior to thermal ramping, the fluorescence laser power filter should be adjusted such that the sample's spectra at or between LaserOptimizationEmissionWavelengthRange has a peak intensity that falls within the LaserOptimizationTargetEmissionIntensityRange.
    Default Value: False
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP
    Index Matches to: experiment samples

    OptimizeStaticLightScatteringLaserPower

    Indicates if prior to thermal ramping, the static light scattering laser power filter should be adjusted to match the optimized fluorescence laser power filter.
    Default Value: False
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP
    Index Matches to: experiment samples

    LaserOptimizationEmissionWavelengthRange

    Indicates the wavelength range of the sample's spectra used to evaluate optimal laser setting when OptimizeFluorescenceLaserPower is True.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if OptimizeFluorescenceLaserPower is False. If OptimizeFluorescenceLaserPower is True, automatically set to {300*Nanometer,450*Nanometer}.
    Pattern Description: A span from anything greater than or equal to 250 nanometers and less than or equal to 719 nanometers in increments of 1 nanometer to anything greater than or equal to 251 nanometers and less than or equal to 750 nanometers in increments of 1 nanometer or Null.
    Programmatic Pattern: (RangeP[250*Nanometer, 719*Nanometer, 1*Nanometer] ;; RangeP[251*Nanometer, 750*Nanometer, 1*Nanometer] | Automatic) | Null
    Index Matches to: experiment samples

    LaserOptimizationTargetEmissionIntensityRange

    Indicates the optimal signal intensity range, expressed as a percentage of the detector saturation intensity, used to evaluate optimal laser setting when OptimizeFluorescenceLaserPower is True.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if OptimizeFluorescenceLaserPower is False. If OptimizeFluorescenceLaserPower is True, set to {5 Percent, 20 Percent}.
    Pattern Description: A span from anything greater than or equal to 0.1 percent and less than or equal to 99.9 percent in increments of 0.1 percent to anything greater than or equal to 0.2 percent and less than or equal to 100 percent in increments of 0.1 percent or Null.
    Programmatic Pattern: (RangeP[0.1*Percent, 99.9*Percent, 0.1*Percent] ;; RangeP[0.2*Percent, 100*Percent, 0.1*Percent] | Automatic) | Null
    Index Matches to: experiment samples

    ExcitationWavelength

    The wavelength of light used to excite the reporter component of the detection reagent.
    Default Value: Automatic
    Default Calculation: Automatically set to the available excitation wavelength closest to the excitation maximum of the corresponding detection reagent if the instrument is Model[Instrument, Thermocycler, "ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models. Automatically set to 266 nm if the instrument is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] or an object with this model
    Pattern Description: Greater than or equal to 266 nanometers and less than or equal to 670 nanometers.
    Programmatic Pattern: RangeP[266*Nanometer, 670*Nanometer] | Automatic
    Index Matches to: experiment samples

    EmissionWavelength

    The wavelength of emitted light recorded.
    Default Value: Automatic
    Default Calculation: Automatically set to the available emission wavelength closest to the emission maximum of the corresponding detection reagent if the instrument is Model[Instrument, Thermocycler, "ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models. Automatically set to Null if the instrument is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] or an object with this model
    Pattern Description: Greater than or equal to 250 nanometers and less than or equal to 720 nanometers or Null.
    Programmatic Pattern: (RangeP[250*Nanometer, 720*Nanometer] | Automatic) | Null
    Index Matches to: experiment samples

    MinEmissionWavelength

    The minimum wavelength of emitted light recorded for the sample fluorescence spectra.
    Default Value: Automatic
    Default Calculation: Automatically set to 250nm if the instrument is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] or an object with this model and Null if the instrument is Model[Instrument, Thermocycler, "ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models.
    Pattern Description: Greater than or equal to 250 nanometers and less than or equal to 720 nanometers or Null.
    Programmatic Pattern: (RangeP[250*Nanometer, 720*Nanometer] | Automatic) | Null
    Index Matches to: experiment samples

    MaxEmissionWavelength

    The maximum wavelength of emitted light recorded for the sample fluorescence spectra.
    Default Value: Automatic
    Default Calculation: Automatically set to 720nm if the instrument is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] or an object with this model and Null if the instrument is Model[Instrument, Thermocycler, "ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models.
    Pattern Description: Greater than or equal to 250 nanometers and less than or equal to 720 nanometers or Null.
    Programmatic Pattern: (RangeP[250*Nanometer, 720*Nanometer] | Automatic) | Null
    Index Matches to: experiment samples

    StaticLightScatteringExcitationWavelength

    The wavelength(s) of light used to illuminate static light scattering measurements.
    Default Value: Automatic
    Default Calculation: Automatically set to {266 Nanometer, 473 Nanometer} if the instrument is Model[Instrument, MultimodeSpectrophotometer, "Uncle"] or an object with this model and Null if the instrument is Model[Instrument, Thermocycler, "ViiA 7"] or Model[Instrument, Thermocycler, "QuantStudio 7 Flex"] or an object with these models.
    Pattern Description: A selection of one or more of 266 nanometers or 473 nanometers or Null.
    Programmatic Pattern: (DuplicateFreeListableP[266*Nanometer | 473*Nanometer] | Automatic) | Null
    Index Matches to: experiment samples

    DynamicLightScattering

    Indicates if at least one DLS measurement of each sample is made during the experiment.
    Default Value: False
    Pattern Description: True or False.
    Programmatic Pattern: BooleanP

    DynamicLightScatteringMeasurements

    Describes if a DLS measurement of each sample will be made before thermal ramping, after thermal ramping, or both before and after thermal ramping.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if DynamicLightScattering is False and to {Before,After} otherwise.
    Pattern Description: {Before}, {After}, or {Before, After} or Null.
    Programmatic Pattern: (({Before} | {After} | {Before, After}) | Automatic) | Null

    DynamicLightScatteringMeasurementTemperatures

    Indicates the temperatures at which DLS measurements will be acquired. If only a single measurement is required, provide only one temperature. If DynamicLightScatteringMeasurements->{Before,After}, provide a matched list of temperatures.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if DynamicLightScattering is False and to the temperature of the adjacent thermal ramp otherwise.
    Pattern Description: {Before, After} or greater than or equal to 15 degrees Celsius and less than or equal to 95 degrees Celsius or Null.
    Programmatic Pattern: ((RangeP[15*Celsius, 95*Celsius] | {RangeP[15*Celsius, 95*Celsius], RangeP[15*Celsius, 95*Celsius]}) | Automatic) | Null

    NumberOfDynamicLightScatteringAcquisitions

    For each DLS measurement, the number of series of speckle patterns that are each collected over the AcquisitionTime to create the measurement's autocorrelation curve.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if DynamicLightScattering is False and to 4 if DynamicLightScattering is True.
    Pattern Description: Greater than or equal to 1 and less than or equal to 20 in increments of 1 or Null.
    Programmatic Pattern: (RangeP[1, 20, 1] | Automatic) | Null

    DynamicLightScatteringAcquisitionTime

    For each DLS measurement, the length of time that each acquisition generates speckle patterns to create the measurement's autocorrelation curve.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if DynamicLightScattering is False and to 5 seconds if DynamicLightScattering is True.
    Pattern Description: Greater than or equal to 1 second and less than or equal to 30 seconds or Null.
    Programmatic Pattern: (RangeP[1*Second, 30*Second] | Automatic) | Null

    AutomaticDynamicLightScatteringLaserSettings

    Indicates if the DynamicLightScatteringLaserPower and DynamicLightScatteringDiodeAttenuation are automatically set at the beginning of the assay by the Instrument to levels ideal for the samples.
    Default Value: Automatic
    Default Calculation: Automatically set to Null if DynamicLightScattering is False. If DynamicLightScattering is True and either the DynamicLightScatteringLaserPower or DynamicLightScatteringDiodeAttenuation is specified, the option is set to False. Otherwise, AutomaticDynamicLightScatteringLaserSettings is set to True.
    Pattern Description: True or False or Null.
    Programmatic Pattern: (BooleanP | Automatic) | Null

    DynamicLightScatteringLaserPower

    The percent of the max dynamic light scattering laser power that is used to make DLS measurements. The laser level is optimized at run time by the instrument software when AutomaticDynamicLightScatteringLaserSettings is True and LaserLevel is Null.
    Default Value: Automatic
    Default Calculation: Automatically set to 100% if AutomaticDynamicLightScatteringLaserSettings is False and to Null otherwise.
    Pattern Description: Greater than or equal to 1 percent and less than or equal to 100 percent or Null.
    Programmatic Pattern: (RangeP[1*Percent, 100*Percent] | Automatic) | Null

    DynamicLightScatteringDiodeAttenuation

    The percent of scattered light signal that is allowed to reach the avalanche photodiode for DLS measurements. The attenuator level is optimized at run time by the instrument software when AutomaticDynamicLightScatteringLaserSettings is True and DiodeAttenuation is Null.
    Default Value: Automatic
    Default Calculation: Automatically set to 100% if AutomaticDynamicLightScatteringLaserSettings is False and to Null otherwise.
    Pattern Description: Greater than or equal to 1 percent and less than or equal to 100 percent or Null.
    Programmatic Pattern: (RangeP[1*Percent, 100*Percent] | Automatic) | Null

    Sample Storage

    ContainerOut

    The container which the assay samples are transferred into after the experiment.
    Default Value: Null
    Pattern Description: An object of type or subtype Model[Container] or Null.
    Programmatic Pattern: ObjectP[Model[Container]] | Null

    SamplesOutStorageCondition

    The condition under which the assay samples in ContainerOut should be stored after the protocol is completed.
    Default Value: Null
    Pattern Description: {AmbientStorage, Refrigerator, Freezer, DeepFreezer, CryogenicStorage, YeastIncubation, YeastShakingIncubation, BacterialIncubation, BacterialShakingIncubation, MammalianIncubation, ViralIncubation, CrystalIncubation, AcceleratedTesting, IntermediateTesting, LongTermTesting, UVVisLightTesting} or Disposal or Null.
    Programmatic Pattern: (SampleStorageTypeP | Disposal) | Null

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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested Index Matches to: experiment samples

    IncubateAliquotDestinationWell

    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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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, Silica, or HLB or Null.
    Programmatic Pattern: (FilterMembraneMaterialP | Automatic) | Null
    Index Matches to: experiment samples
    Nested 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, Silica, or HLB or Null.
    Programmatic Pattern: (FilterMembraneMaterialP | Automatic) | Null
    Index Matches to: experiment samples
    Nested 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, 0.2 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
    Nested 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, 0.2 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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
    Nested 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).
    Figure 3.5: Prior to measurement in ExperimentThermalShift any number of samples may be pooled to create new assay samples with the following steps. Step1: Samples are pooled in liquid handler compatible AliquotContainer. Step2: After pooling, pooled samples can optionally be mixed either by pipetting or vortexing. Step3: After pooling and mixing (if desired), pooled samples can be optionally incubated at a desired temperature for a period of time. Step4: After incubation, pooled samples can remain in the thermal incubation instrument before being removed, allowing the system to settle to room temperature.
    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
    Nested 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
    Nested 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
    Nested 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 in increments of 1 or Null.
    Programmatic Pattern: (GreaterEqualP[1, 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, 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

    Linear and Stepped Thermal Profiles

    Indicate the rate of temperature change during a linear thermal profile from 25 Celsius to 95 Celsius.
    Indicate the rate of temperature change during a stepped thermal profile from 30 Celsius to 90 Celsius with measurements every 2.5 degrees.
    Indicate data collection over 2 {Heating, Cooling} cycles.

    Singleton and pooled samples

    Generate a thermal shift protocol to analyze a list of singleton sample inputs:
    Generates a thermal shift protocol from a nested list of inputs by pooling inputs within the same nested list:
    Generates a thermal shift protocol from a list of singleton containers by treating each well inside the container as an independent input sample:
    Generates a thermal shift protocol from a nested list of containers by pooling all the samples in the container:

    Dilution and Serial Dilution Curves

    Indicate the type and number of serial dilutions of a single sample. Provide the volume of the sample that should be transferred, the volume of diluent the sample should be added to and the number of times the sample should be diluted. This should be used if you want give the volumes the sample will be diluted by with instead of dilution factors. The example call below will create a series of samples with dilution factors of (0.5, 0.25, 0.125, 0.0625, 0.03125) and a volume of 25 Microliters.
    Generate a serial dilution curve to dilute the sample. Provide the volume of the sample, a dilution factor and the number of times the sample should be diluted. This should be used if you want the sample to be diluted by the same factor at each step of the serial dilution. The volume of the sample will be the final volume of the sample after the dilution is performed. The example call below will create a series of samples with dilution factors of (0.7, 0.49, 0.34, 0.24, 0.17, 0.12) and a volume of 60 Microliters.
    Generate a serial dilution curve to dilute the sample. Provide the volume of the sample and a series of dilution factors the sample should be diluted by at each step. This should be used if you want the sample to be diluted by different factors at each step of the serial dilution. The volume of the sample will be the final volume of the sample after the dilution is performed. The example call below will create a series of samples with dilution factors of (0.7, 0.49, 0.34, 0.31, 0.28, 0.25) and a volume of 60 Microliters.
    Indicate the type and number of dilutions of a single sample.
    Indicate the type and number of serial dilutions of each sample within a pooled sample.
    Indicate the type and number of dilutions of each sample within a pooled sample.

Preferred Input Containers

    The ViiA 7 accepts MicroAmp EnduraPlate optical 384-well clear reaction plates.
    The Uncle accepts capillary strips.

Warnings and Errors

    Messages  (50)

    ConflictingDLSMeasurementRequestedTemperatures  (1)

    DynamicLightScatteringMeasurementTemperatures must be defined for each DynamicLightScatteringMeasurements:

    ConflictingThermalShiftAutomaticDLSLaserOptions  (1)

    If AutomaticDynamicLightScatteringLaserSettings is True, neither the DynamicLightScatteringLaserPower nor the DynamicLightScatteringDiodeAttenuation options can be specified:

    ConflictingThermalShiftDLSOptions  (1)

    If DynamicLightScattering is False, none of the DLS-related options can be specified:

    ConflictingThermalShiftDynamicLightScatteringInstrument  (1)

    If DynamicLightScattering is True, the Instrument must be a MultimodeSpectrophotometer:

    ConflictingThermalShiftNullDLSOptions  (1)

    If DynamicLightScattering is True, none of the DynamicLightScatteringMeasurements, NumberOfDynamicLightScatteringAcquisitions, or DynamicLightScatteringAcquisitionTime options can be Null:

    IncompatibleAnalytes  (1)

    Analytes types must be compatible with this assay, either nucleotide or protein analytes:

    IncompatibleDetectionReagentOptions  (1)

    DetectionReagent and DetectionReagentVolume cannot conflict:

    IncompatibleDilutionCurveOptions  (1)

    SerialDilutionCurve and DilutionCurve cannot conflict with dilution options:

    IncompatibleEmissionOptions  (1)

    Return an error if the specified emission options are not within the operating range of the resolved instrument:

    IncompatibleEmissionRangeOptions  (1)

    MinEmissionWavelength and MaxEmissionWavelength cannot conflict:

    IncompatibleExcitationWavelength  (1)

    Return an error if the specified excitation wavelength is not within the operating range of the resolved instrument:

    IncompatibleMixOptions  (1)

    NestedIndexMatchingMix Options cannot be in conflict:

    IncompatibleSampleStorageOptions  (1)

    ContainerOut and SamplesOutStorageCondition cannot conflict:

    IncompatibleTemperatureRamp  (1)

    If TemperatureRamping is Linear, step ramp options cannot be specified:

    IncompatibleTemperatureResolution  (1)

    Return an error if the specified temperature resolution option is not within the operating limits of the instrument:

    InvalidBufferVolumes  (1)

    Return an error if the resolved buffer volume is negative:

    InvalidContainerOut  (1)

    Return an error if a ContainerOut is specified but the resolved instrument is a multimodespectrophotometer:

    InvalidDetectionReagentVolumes  (1)

    Return an error if the specified detection reagent volume cannot be resolved:

    InvalidDilutionContainers  (1)

    Return an error if the resolved dilution container fill volume is less than the largest dilution volume:

    InvalidDilutionMixVolumes  (1)

    Return an error if the resolved dilution mix volume is greater than the smallest dilution volume:

    InvalidEmissionOptions  (1)

    EmissionWavelength, MinEmissionWavelength, and MaxEmissionWavelength cannot conflict:

    InvalidEmissionRange  (1)

    Return an error if an emission range is specified and the instrument is a Thermocycler:

    InvalidLaserOptimization  (3)

    Return a warning if the instrument is a Thermocycler and LaserOptimizationEmissionWavelengthRange is not Null:

    Return a warning if the instrument is a Thermocycler and LaserOptimizationTargetEmissionIntensityRange is not Null:

    Return a warning if the instrument is a Thermocycler and OptimizeFluorescenceLaserPower is True:

    InvalidMaxTemperature  (1)

    Return an error if the specified maximum temperature is not within the operating limits of the instrument:

    InvalidMinTemperature  (1)

    Return an error if the specified minimum temperature is not within the operating limits of the instrument:

    InvalidMultiModeSpectrometerOptions  (1)

    Return an error if the instrument is a MultimodeSpectrophotometer and any of the laser power or static light scatter options are Null:

    InvalidNestedIndexMatchingIncubateOptions  (1)

    NestedIndexMatchingIncubate and incubation options cannot conflict:

    InvalidNestedIndexMatchingMixOptions  (1)

    NestedIndexMatchingMix and mixing options cannot conflict:

    InvalidNullTemperatureRampOptions  (2)

    If TemperatureRamping is Linear, the TemperatureResolution cannot be Null:

    If TemperatureRamping is Step, the NumberOfTemperatureRampSteps or StepHoldTime cannot be Null:

    InvalidNumberOfCycles  (1)

    Return an error if the number of cycles is greater than 0.5 but the resolved instrument is a thermocycler:

    InvalidPassiveReferenceOptions  (1)

    PassiveReference and PassiveReferenceVolume cannot conflict:

    InvalidPoolMixVolumes  (1)

    Return an error if the specified pool mix volume is greater than the available pool volume:

    InvalidRampRate  (1)

    Return an error if the specified temperature ramp rate is not within the operating limits of the instrument:

    InvalidSampleVolumes  (1)

    Return an error if the resolved sample volume is negative:

    InvalidTemperatureRamp  (1)

    MinTemperature cannot be less than MaxTemperature:

    InvalidTemperatureResolution  (1)

    Return an error if the specified temperature resolution option is specified but the resolved instrument in a thermocycler:

    InvalidThermocyclerOptions  (1)

    Return an error if detection parameters are specified that are not compatible with the Thermocycler:

    MoreThanOneTypeOfAnalyte  (1)

    Give a warning if more than one type of analyte present:

    RecommendedInstrument  (1)

    Give a warning if the specified instrument is not recommended for the type of analyte:

    TooFewTemperatureRampOptions  (1)

    If TemperatureRamping is Automatic, both linear and step options cannot be Null:

    TooManyDilutionCurveOptions  (1)

    Both SerialDilutionCurve and DilutionCurve options cannot be specified for a given sample:

    TooManySamples  (1)

    Return an error if the total number of samples exceeds the instrument container capacity:

    TooManyTemperatureRampOptions  (1)

    Temperature ramp options for both linear and step ramps cannot be specified:

    UnknownAnalytes  (1)

    Give a warning if analytes cannot be identified:

    UnusedOptimizationParameters  (3)

    Return a warning if the OptimizeFluorescenceLaserPower is False but LaserOptimizationEmissionWavelengthRange is not Null:

    Return a warning if the OptimizeFluorescenceLaserPower is False but LaserOptimizationTargetEmissionIntensityRange is not Null:

    Return a warning if the OptimizeFluorescenceLaserPower is False but OptimizeStaticLightScatteringLaserPower is True:

Last modified on Sat 13 Apr 2024 23:30:55


EMERALD CLOUD LAB
15500 Wells Port Drive
Austin, TX 78728
© 2023 Emerald Cloud Lab, Inc.