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The Material file looks similar to the Study and Assay files. It is a horizontally oriented spreadsheet containing tab delimited row values representing multiple values. The file consists of three sections: MATERIAL, MATERIAL RELATIONSHIP, and MATERIAL FILE. TABLE 17 shows an the example subset of the material file.
TABLE 17 Example Subset of the Material File Format
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A
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B
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C
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D
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E
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F
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G
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H
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Material Source Identifier
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Material Name
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Material Description
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Material Synthesis
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Material Design Rationale
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Material Intended Application
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Material Intended Application Term Accession Number
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Material Intended Application Term Source REF
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LAB-1
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g4.5_carboxyl-terminated dendrimer
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g4.5 carboxyl-terminated dendrimer
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delivery of image contrast agent
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LAB-1
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g4.5_core
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LAB-1
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g4.5_branch
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LAB-1
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g4.5_carboxyl_group
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I
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J
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K
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L
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M
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N
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Material Type
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Material Type Term Accession Number
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Material Type Term Source REF
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Material Chemical Name
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Material Chemical Name Term Accession Number
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Material Chemical Name Term Source REF
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nanoparticle sample; dendrimer
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NPO_1404;NPO_735
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NPO;NPO
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dendrimer core molecule
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NPO_803
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NPO
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diaminobutane
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dendrimer branch
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NPO_776
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NPO
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poly(amidoamine)
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53199
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CHEBI
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terminal group
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NPO_695
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NPO
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carboxyl group
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46883
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CHEBI
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O
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P
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Q
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R
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S
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<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="9d14b4a3-3f43-4ee8-a503-bcae1bbe8053"><ac:plain-text-body><![CDATA[
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Material Characteristic [dendrimer generation]
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Material Characteristic [molecular weight]
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Material Characteristic [molecular weight] Unit
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Material Characteristic [molecular weight] Unit Term Accession
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]]></ac:plain-text-body></ac:structured-macro>
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4.5
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27
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kDa
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UO_0000222
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UO
Fields
ISA-TAB-Nano Extensions---Since the material file does not exist in the ISA-TAB specification, the entire file is considered an extension.
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(4) Intended application of the materialAn Example Material File is shown in TABLE 18.
Material source identifier--- The unique identification name of the source from which the material sample is derived. Its value is used as the value for source name in ISA-TAB-Nano study files, thereby linking the ISA-TAB-Nano material file and the study file. For example, NCL-23 (see TABLE 18) is the name that identifies a material characterized by the Nanotechnology Characterization Laboratory (NCL). This example indicates that the sample NCL-23 is a complex formed out of NCL-22 (a G4.5 PAMAM dendrimer terminated with carboxyl groups) and NCL-24 (magnevist).
Material name---The unique identification name for the sample and its different components. This name is used to identify or reference the different components across the ISA-TAB-Nano files.
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Material intended application term source REF---The name which identifies the source from where the term for material intended application is selected. This name should match one of the names entered in the terms source name field in the investigation file.
TABLE 17 Example Subset of the Material File Format
A | B | C | D | E | F | G | H |
Material Source Identifier | Material Name | Material Description | Material Synthesis | Material Design Rationale | Material Intended Application | Material Intended Application Term Accession Number | Material Intended Application Term Source REF |
LAB-1 | g4.5_carboxyl-terminated dendrimer | g4.5 carboxyl-terminated dendrimer | delivery of image contrast agent | ||||
LAB-1 | g4.5_core | ||||||
LAB-1 | g4.5_branch | ||||||
LAB-1 | g4.5_carboxyl_group |
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I | J | K | L | M | N |
Material Type | Material Type Term Accession Number | Material Type Term Source REF | Material Chemical Name | Material Chemical Name Term Accession Number | Material Chemical Name Term Source REF |
nanoparticle sample; dendrimer | NPO_1404;NPO_735 | NPO;NPO | |||
dendrimer core molecule | NPO_803 | NPO | diaminobutane | ||
dendrimer branch | NPO_776 | NPO | poly(amidoamine) | 53199 | CHEBI |
terminal group | NPO_695 | NPO | carboxyl group | 46883 | CHEBI |
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O | P | Q | R | S | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="1e4cd3ef-d1d8-41a3-955f-11c558061ab3"><ac:plain-text-body><![CDATA[ | Material Characteristic [dendrimer generation] | Material Characteristic [molecular weight] | Material Characteristic [molecular weight] Unit | Material Characteristic [molecular weight] Unit Term Accession | Material Characteristic[molecular weight] Unit Term Source REF | ]]></ac:plain-text-body></ac:structured-macro> |
4.5 | 27 | kDa | UO_0000222 | UO | ||
Material Relationship
The MATERIAL RELATIONSHIP section is used to record the name and types of relationships between materials including material parts and material linkages. Material parts represent the components within a material. Material linkages represent association between materials (e.g. encapsulation, attachment, entrapment). TABLE 19 illustrates an example of the MATERIAL RELATIONSHIP section. The concepts used for describing the relationship are given below.
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The material file section allows for the association of any files (e.g. image files) to the ISA-TAB-Nano material file.TABLE Table 20 illustrates an example of the a MATERIAL FILE section.
Material file name--- The name of files (e.g. Image, Structures file) containing information about the material sample. There can be only one file name per cell. .
Material file type--- The name that defines the type of the material file (e.g. image, graph).
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Material file description--- A textual description providing additional information on the material file.
Table 20. Example Material File section of the Material File
Z | AA | AB | AC | AD | AE |
Material File Name | Material File Type | Material File Type Term Accession | Material File Type Term Source REF | Material File Version | Material File Description |
magnevist_jpg | image | v. 1.0 | molecular structure of magnevist | ||
