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Object[Data, AgaroseGelElectrophoresis]

Data from separation of nucleic acids as determined by electrochemical motility, obtained by running Agarose Gel Electrophoresis.

Organizational Information

    Name

    Name of this Object.
    Format: Single
    Class: String
    Programmatic Pattern: _String
    Pattern Description: A string.

    ID

    ID of this Object.
    Format: Single
    Class: String
    Programmatic Pattern: _String
    Pattern Description: The ID of this object.

    Object

    Object of this Object.
    Format: Single
    Class: Expression
    Programmatic Pattern: Object[Data, AgaroseGelElectrophoresis, _String]
    Pattern Description: The object reference of this object.

    Type

    Type of this Object.
    Format: Single
    Class: Expression
    Programmatic Pattern: Object[Data, AgaroseGelElectrophoresis]
    Pattern Description: Object[Data, AgaroseGelElectrophoresis]

    Notebook

    Notebook this object belongs to.
    Format: Single
    Class: Link
    Programmatic Pattern: _Link
    Pattern Description: An object of that matches ObjectP[Object[LaboratoryNotebook]].
    Relation: Object[LaboratoryNotebook][Objects]

    Replicates

    Data acquired under replicated experimental conditions to this data.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Data][Replicates]

General

Imaging

    ExposureTimes

    The amounts of time for which a camera shutter stays open for each set of gel images.
    Format: Multiple
    Class: Real
    Unit: 1 millisecond
    Programmatic Pattern: GreaterP[0 Milli Second]

    ExcitationWavelengths

    The wavelengths of light that are used to excite the gel for fluorescence images.
    Format: Multiple
    Class: Real
    Unit: 1 nanometer
    Programmatic Pattern: GreaterP[0 Meter Nano]

    ExcitationBandwidths

    For each member of ExcitationWavelengths, the range in wavelengths centered around the ExcitationWavelength that the excitation filter allows through at 50% of the maximum transmission.
    Format: Multiple
    Class: Real
    Unit: 1 nanometer
    Programmatic Pattern: GreaterP[0 Meter Nano]

    EmissionWavelengths

    The wavelengths at which fluorescence emitted from the gels is detected for fluorescence images.
    Format: Multiple
    Class: Real
    Unit: 1 nanometer
    Programmatic Pattern: GreaterP[0 Meter Nano]

    EmissionBandwidths

    For each member of EmissionWavelengths, the range in wavelengths centered around the EmissionWavelength that the emission filter allows to pass through at 50% of the maximum transmission.
    Format: Multiple
    Class: Real
    Unit: 1 nanometer
    Programmatic Pattern: GreaterP[0 Meter Nano]

Experimental Results

    SampleElectropherogram

    Trace of Oligomer lengths versus fluorescence intensity that is calculated by the Instrument software from the blue gel images and the known lengths of the LoadingDye markers. This trace is created when the LoadingDye of shorter length has migrated 75% of the way across the gel (as seen in the red gel images).
    Format: Single
    Class: QuantityArray
    Unit: ['1 Basepairs', '1 Rfus']
    Programmatic Pattern: QuantityCoordinatesP[{BasePair, RFU}]

    MarkerElectropherogram

    Trace of LoadingDye marker lengths versus fluorescence intensity that is calculated by the Instrument software from the red-light gel images. This trace is created when the LoadingDye of shorter length has migrated 75% of the way across the gel.
    Format: Single
    Class: QuantityArray
    Unit: ['1 Basepairs', '1 Rfus']
    Programmatic Pattern: QuantityCoordinatesP[{BasePair, RFU}]

    PostSelectionElectropherogram

    Estimated trace of the Oligomer lengths versus fluorescence intensity of the SampleOut, calculated by the Instrument software.
    Format: Single
    Class: QuantityArray
    Unit: ['1 Basepairs', '1 Rfus']
    Programmatic Pattern: QuantityCoordinatesP[{BasePair, RFU}]

    BlueFluorescenceImageFiles

    For each member of ExposureTimes, files containing the full-sized uncropped blue-light images of the entire gel after electrophoresis. The SamplesIn and Ladder are visible in these images. In Preparative runs, the BlueFluorescenceImageFiles only contain the Oligomer bands still present on the gels after sample extraction. The SampleElectropherogram has a more complete set of Oligomers present in the input sample.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[EmeraldCloudFile]

    RedFluorescenceImageFiles

    For each member of ExposureTimes, files containing the full-sized uncropped red-light images of the entire gel after electrophoresis. The marker LoadingDyes are visible in these gel images. In Preparative runs, the RedFluorescenceImageFiles only contain the LoadingDye bands still present on the gels after sample extraction. The MarkerElectropherogram has the complete set of LoadingDyes and lengths.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[EmeraldCloudFile]

    BlueFluorescenceGelImages

    For each member of ExposureTimes, the full-sized uncropped blue-light images of the entire gel after electrophoresis. The SamplesIn and Ladder are visible in these images. In Preparative runs, the BlueFluorescenceGelImages only contain the Oligomer bands still present on the gels after sample extraction. The SampleElectropherogram has a more complete set of Oligomers present in the input sample.
    Format: Computable
    Programmatic Pattern: _Image
    Expression: SafeEvaluate[{Field[BlueFluorescenceImageFiles]}, ImportCloudFile[Field[BlueFluorescenceImageFiles]]]

    RedFluorescenceGelImages

    For each member of ExposureTimes, the full-sized uncropped red-light images of the entire gel after electrophoresis. The marker LoadingDyes are visible in these gel images. In Preparative runs, the RedFluorescenceGelImages only contain the LoadingDye bands still present on the gels after sample extraction. The MarkerElectropherogram has the complete set of LoadingDyes and lengths.
    Format: Computable
    Programmatic Pattern: _Image
    Expression: SafeEvaluate[{Field[RedFluorescenceImageFiles]}, ImportCloudFile[Field[RedFluorescenceImageFiles]]]

    DataType

    Indicates if this data represents a Ladder or an Analyte sample.
    Format: Single
    Class: Expression
    Programmatic Pattern: PAGEDataTypeP

    LaneNumber

    The lane index starting from the left most lane of the gel.
    Format: Single
    Class: Integer
    Programmatic Pattern: GreaterP[0, 1]

    NeighboringLanes

    Data from any Analytes and Ladder that are run on the same gel.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Data, AgaroseGelElectrophoresis][NeighboringLanes]

Analysis & Reports

    LadderData

    The data generated from the Ladder present in the same gel as this analyte.
    Format: Single
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Data, AgaroseGelElectrophoresis][Analytes]

    Analytes

    The samples that are run on an agarose gel in this AgaroseGelElectrophoresis experiment alongside this ladder.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Data, AgaroseGelElectrophoresis][LadderData]

    SampleElectropherogramPeaks Analyses

    Peak-picking analysis conducted on these data.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Analysis][Reference]

    MarkerElectropherogramPeaks Analyses

    Peak-picking analysis conducted on these data.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Analysis][Reference]

    PostSelectionPeaksAnalyses

    Peak-picking analysis conducted on these data.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Analysis][Reference]

    SmoothingAnalyses

    Smoothing analysis performed on this data.
    Format: Multiple
    Class: Link
    Programmatic Pattern: _Link
    Relation: Object[Analysis][Reference]
Last modified on Mon 26 Sep 2022 15:43:44
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