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ISA-TAB-Nano Extensions--- ISA-TAB-Nano extends the ISA-TAB Investigation File specification by introducing new fields, which are listed in TABLE 2 on the Investigation File Example Page. All fields are defined below.
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This section is used to define the vocabulary source from which a term is selected and referenced in the ISA-TAB-Nano files. TABLE 3 shows TABLE 1 on the Investigation File Examples page shows an example of the ONTOLOGY SOURCE REFERENCE section along with example data. This section uses four ISA-TAB concepts:
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This section is used to describe an investigation. An example of the INVESTIGATION section is in TABLE 4 along with example dataTABLE 2 on the Investigation File Examples page. The INVESTIGATION section uses nine concepts and includes concepts from ISA-TAB and extensions made in support of ISA-TAB-Nano:
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The INVESTIGATION PUBLICATIONS section allows for the identification of articles (published) associated with the investigation. TABLE 6 shows an An example of the INVESTIGATION PUBLICATIONS section along with example datais in TABLE 3 on the Investigation File Examples page. There are seven ISA-TAB concepts used in this section:
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The INVESTIGATION CONTACTS section allows for the identification of the point(s) of contact for an investigation. An example of the INVESTIGATION CONTACTS section of the spreadsheet is in TABLE 5 along with example datais in TABLE 4 on the Investigation File Examples page. There are 11 ISA-TAB concepts used as field names:
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The MATERIAL section allows for the identification of materials used in the investigation and associated studies. There are 2 concepts used in the MATERIAL section. An example of the MATERIAL section is in TABLE 5 on the Investigation File Examples page. The MATERIAL section is introduced in ISA-TAB-Nano. These concepts are described below:
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The STUDY section allows for the description of one or more studies conducted as part of an investigation. TABLE 7 shows an An example of the STUDY section along with example datais in TABLE 6 on the Investigation File Examples page. There are 11 concepts used in the STUDY section, seven of which are taken from ISA-TAB and four are introduced in ISA-TAB-Nano. These concepts are described below:
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The STUDY DESIGN DESCRIPTORS section allows for the identification of design type of the study. TABLE 8 shows an An example of the STUDY DESIGN DESCRIPTORS section along with example dataSTUDY DESIGN DESCRIPTORS section is in TABLE 7 on the Investigation File Examples page. There are 3 concepts used in the STUDY DESCRIPTORS section. These concepts are taken from ISA-TAB.
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The STUDY PUBLICATIONS section allows for the identification of articles (published) associated with the study. TABLE 10 shows an An example of the STUDY PUBLICATIONS section along with example datais in TABLE 8 on the Investigation File Examples page. . This section uses seven ISA-TAB concepts.
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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 dataAn example of the STUDY FACTORS section is in TABLE 9 on the Investigation File Examples page. This section has four concepts taken from ISA-TAB.
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The STUDY ASSAYS section allows for the identification of type of measurement and the type of technology used for the measurement in an assay that is part of a study. TABLE 11 shows an An example of the STUDY ASSAYS section along with example datais in TABLE 10 on the Investigation File Examples page. The STUDY ASSAYS section has 11 concepts. Out of these, 8 concepts are taken from ISA-TAB. The remaining concepts are introduced in ISA-TAB-Nano.
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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 An example of the STUDY PROTOCOLS section along with example datais in TABLE 11 on the Investigation File Examples page. There are 14 concepts in this section taken from ISA-TAB.
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The STUDY CONTACTS section allows the identification of the point of contact for a study. An example of the STUDY CONTACTS STUDY CONTACTS section is shown in TABLE 9 along with example datain TABLE 12 on the Investigation File Examples page. The STUDY CONTACTS section has 11 ISA-TAB concepts.
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