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Study assay measurement name term source REF--- The name which identifies the source from where the term for study assay measurement name is selected. This concept is taken from ISA-TAB.

Study assay measurement unitfile name--- The standard of measurement used to express the value of a dimensional quantity obtained from the assay.  This concept is introduced in Name of the ISA-TAB-Nano Assay file corresponding to identify the unit associated with a measurement.

Study assay measurement unit term accession number--- Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study measurement unit.  This concept is introduced in ISA-TAB-Nano to identify the source from where the unit of a measurement is selected and referenced in the study or assay files.

Study assay measurement unit term source REF--- The name which identifies the source from where the term for study assay measurement unit is selected.  This concept is introduced in ISA-TAB-Nano to identify the source from where the unit of a measurement is selected and referenced in the study or assay files.

Study assay measurement statistic--- The types of statistical measures reported in the assay data (e.g., mean, standard deviation, etc.).  This concept is introduced in ISA-TAB-Nano.

the study assay.  This is a required field. There can be only one assay file name per cell. This concept is taken from ISA-TAB.

Study Factors

The STUDY FACTORS section allows for the identification of factors associated with the study.  TABLE 12 shows an example of the STUDY FACTORS section along with example data. This section has nine concepts.  Out of these, 6 concepts are taken from ISA-TAB. The other 3 concepts are introduced in ISA-TAB-Nano and are indicated in the definitions below:

Study factor name---The name of one independent variable (factor) manipulated by the experimentalist with the intention to affect the subject of study (i.e. Stressor).  This is a required field, if there are factors in an assay study. Only one factor name is allowed per cell.  The value of a factor is given either in the study or in the assay file.   

Study factor name Study assay measurement statistic term accession number---Identification number of a the term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study assay measurement statistic.  This concept is introduced in ISA-TAB-Nano.factor name.

Study factor name term source Study assay measurement statistic term source REF---The name which identifies the source from where the term for study assay measurement statisticfactor name is selected.     This name should match one of the names entered in the term source name field. This concept is taken from ISA-TAB.

Study assay file namefactor type--- Name of the ISA-TAB-Nano Assay file corresponding to the study assay.  A term used for the classification of factors associated with the study (e.g. condition). This is a required field . There can be only one assay file name per cell. This concept is taken from ISA-TAB.

Study Factors

The STUDY FACTORS section allows for the identification of factors associated with the study.  TABLE 12 shows an example of the STUDY FACTORS section along with example data. This section has nine concepts.  Out of these, 6 concepts are taken from ISA-TAB. The other 3 concepts are introduced in ISA-TAB-Nano and are indicated in the definitions below:

Study factor name---The name of one independent variable (factor) manipulated by the experimentalist with the intention to affect the subject of study (i.e. Stressor).  This is a required field, if there are factors in an assay study. Only one factor name is allowed per cell.  The value of a factor is given either in the study or in the assay file.   

Study factor name term accession number---Identification number of the term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study factor name.

Study factor name term source REF---The name which identifies the source from where the term for study factor name is selected.   This name should match one of the names entered in the term source name field.

Study factor unit---The standard of measurement used to express the value of a quantitative and dimensional factor.  This concept is introduced in ISA-TAB-Nano to identify the unit of every quantitative factor.

Study factor unit term accession number---Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study factor unit.  This concept is introduced in ISA-TAB-Nano to identify the source from where the unit  of a factor is selected and referenced in the study or assay files.

Study factor unit term source REF---The name which identifies the source from where the term for study factor unit is selected.  This name should match one of the names entered in the term source name field. This concept is introduced in ISA-TAB-Nano to identify the source from where the unit of a factor is selected and referenced in the study or assay files.

Study factor type---A term used for the classification of factors associated with the study (e.g. condition). This is a required field if there are factors in an assay study. More than one term is allowed per cell; multiple terms are separated by semicolons. 

Study factor type term accession number---Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study factor type.

Study factor type term source REF---The name which identifies the source from where the term for study factor type is selected.  This name should match one of the names entered in the term source name field. 

Study Protocols

The STUDY PROTOCOLS section allows for the identification of the type of protocols, and the parameters and components of a protocol used in a study.  A protocol describes the formal plan of an experiment or research activity, including the objective, rationale, design, materials and methods for the conduct of the study; intervention description, and method of data analysis.  TABLE 13 shows an example of the STUDY PROTOCOLS section along with example data. There are 17 concepts in this section; 14 concepts are taken from ISA-TAB and the other three concepts are introduced in ISA-TAB-Nano (indicated in the defintion).

Study protocol name---The name of the protocols used within a study and will be referenced in the ISA-TAB-Nano Study or Assay files. 

Study protocol type---The term used to classify the protocol (e.g., synthesis, assay, etc.).

Study protocol type term accession number--- Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study protocol type

Study protocol type term source REF---Name of the ontology or controlled vocabulary from which a term is selected and entered as a value for study protocol type.

Study protocol description---A textual description of the protocol.

Study protocol URI---Pointer to protocol documents or resources external to ISA-TAB-Nano, which can be accessed by their Uniform Resource Identifier (URI).  If URI is not available, enter the protocol document file name and make the protocol document available along with ISA-TAB-Nano files.

if there are factors in an assay study. More than one term is allowed per cell; multiple terms are separated by semicolons. 

Study factor type term accession number---Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study factor type.

Study factor type term source REF---The name which identifies the source from where the term for study factor type is selected.  This name should match one of the names entered in the term source name field. 

Study Protocols

The STUDY PROTOCOLS section allows for the identification of the type of protocols, and the parameters and components of a protocol used in a study.  A protocol describes the formal plan of an experiment or research activity, including the objective, rationale, design, materials and methods for the conduct of the study; intervention description, and method of data analysis.  TABLE 13 shows an example of the STUDY PROTOCOLS section along with example data. There are 17 concepts in this section; 14 concepts are taken from ISA-TAB and the other three concepts are introduced in ISA-TAB-Nano (indicated in the defintion).

Study protocol name---The name of the protocols used within a study and will be referenced Study protocol version---A semicolon-delimited (";") list of parameter names used as an identifier in the ISA-TAB-Nano Study or Assay files.  A protocol parameter is a constant associated with a protocol, which is not varied as part of an experiment.

Study protocol parameter name---A semicolon-delimited (";") list of parameter names used as an identifier in the ISA-TAB-Nano Study or Assay files.  A protocol parameter is a constant associated with a protocol, which is not varied as part of an experiment.

Study protocol parameter name term accession number---Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for the study protocol parameter name.

Study protocol parameter name term source REF---The name which identifies the source from where the term for study protocol parameter name.  This name should match one of the names entered in the term source name field.

Study protocol parameter unit--- The standard of measurement used to express the value of a quantitative and dimensional parameter.  This concept is introduced in ISA-TAB-Nano to identify the unit of a parameter.

Study protocol type---The term used to classify the protocol (e.g., synthesis, assay, etc.).

Study protocol type term accession number--- Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value for study protocol type

Study protocol type term source REF---Name of the ontology or controlled vocabulary from which a term is selected and entered as a value for study protocol type.

Study protocol description---A textual description of the protocol.

Study protocol URI---Pointer to protocol documents or resources external to ISA-TAB-Nano, which can be accessed by their Uniform Resource Identifier (URI).  If URI is not available, enter the protocol document file name and make the protocol document available along with ISA-TAB-Nano files.

Study protocol version---A semicolon-delimited (";") list of parameter names used as an identifier in the ISA-TAB-Nano Study or Assay files.  A protocol parameter is a constant associated with a protocol, which is not varied as part of an experiment.

Study protocol parameter name---A semicolon-delimited (";") list of parameter names used as an identifier in the ISA-TAB-Nano Study or Assay files.  A protocol parameter is a constant associated with a protocol, which is not varied as part of an experiment.

Study protocol parameter name Study protocol parameter unit term accession number---Identification number of a term selected from an ontology or a controlled vocabulary, if the term is entered as a value study protocol parameter unit.  This concept is introduced in ISA-TAB-Nano to identify the source from where the unit of a parameter is selected and referenced in the study or assay filesa controlled vocabulary, if the term is entered as a value for the study protocol parameter name.

Study protocol parameter unit name term source REF---The name which identifies the source from where the term for study protocol parameter unit is selectedname. This concept is introduced in ISA-TAB-Nano to identify the source from where the unit of a parameter is selected and referenced in the study or assay files  This name should match one of the names entered in the term source name field.

Study protocol component name--- A semicolon-delimited (";") list of names identifying the components of a protocol.  Component names include instrument names, software names, and reagent names.

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