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Managing Samples in caNanoLab | caNanoLab User's Guide| Managing Sample Characterizations
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If you have read-only permissions, see Accessing the Sample Composition Summary. If you are a curator with appropriate security permissions, you can perform all the tasks described in this chapter. |
This chapter describes how to manage the samples' information accessible from the Navigation Tree. Topics in this chapter include
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Sample composition records information associated with the way a sample is made, especially in terms of its different parts, its constituents. Composition for a sample in caNanoLab consists of information categorized by nanomaterial entity, functionalizing entity, and chemical association(s). You can also add files relevant to the sample composition or derivation of its data.
- Nanomaterial Entity composition describes the component of a sample that is a nanoparticle.
- Functionalizing Entity composition describes the substance, physical or biological factor, etc. of the sample that produces a specific effect.
- Chemical Association composition annotations describes the chemical association(s) of the nanoparticle/functionalizing entities of the sample.
- Composition File enables you to add files relevant to the sample independently of the entity or chemical associations.
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If you have read-only access, you can review the sample composition summary.
To access characterization functions in the Navigation Tree
- Click Samples and Search Existing Samples.
- Fill in criteria, and click Search.
- Click Edit in the search results.
- The Navigation Tree appears on the left sidebar and comprises functions which you can use to add annotations to the sample.
Include Page Understanding the Navigation Tree Abrev Understanding the Navigation Tree Abrev Click Composition.
The All tab displays compositions already added to the sample by category. Additional tabs show items added to the sample for each subcategory.
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To add a nanomaterial entity
- Access a sample and composition.
Click the Nanomaterial Entity tab or the All tab and click Add next to Nanomaterial Entity.
Both tabs provide customizations based on your Nanomaterial Entity Type* selection.
Include Page Other options Other options Follow these steps to fill in the composition. Links are provided for additional details.
Anchor AddNanoMaterialEntity AddNanoMaterialEntity
Step... | What to Do.. |
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Nanomaterial Entity Type* | Select the entity type (required) and add a Description for the entity. Note: Entity types are described in the caNanoLab Glossary. |
Nanomaterial Properties | If you select one of the following entity types, you need to fill in additional Properties.
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Composing Elements | Add information regarding the elements that compose the nanomaterial entity of the sample. |
Composition File | Click Add to expand the page to add one or more files whose data is relevant to the nanomaterial entity or the derivation of its data. |
Copy to other samples with the same primary organization? | Select samples in the list to which you want this physico-chemical data transferred. This option copies files and data to one or more selected samples "owned" by the same point of contact. |
When you finish, click Submit to save the data to the sample.
Defining Nanomaterial Entity Properties
If you selected one of the Nanomaterial Entity Types listed in the following table, the Properties section opens, and you must fill in additional information.
Nanomaterial Entity Type | Properties to Complete | ||||||
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Biopolymer |
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Carbon Nanotube |
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Dendrimer |
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Emulsion |
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Fullerene |
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Liposome |
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Polymer |
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Defining Nanomaterial Composing Elements
Define the following composing elements for the nanomaterial entity.
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Composing Element Type* | Select the type of composing element comprising this nanomaterial (required).
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Chemical Name* | Enter the chemical name given to the atomic or molecular structure that composes the center of the nanoparticle (required). | ||||||
Crosslink Degree | Enter the percentage level of covalent linkage in the polymer. | ||||||
PubChem Data Source/PubChem ID |
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Amount/Amount Unit |
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Molecular Formula Type |
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Molecular Formula | Enter the chemical formula of the nanoparticle. | ||||||
Description | Enter a description for the composing element. | ||||||
Inherent Function | Inherent function is the characteristic behavior of a sample that results from the chemical and physical composition and properties of the entity. Click Add to expand the page where you can enter this information. | ||||||
Function Type |
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Description | Enter any additional function information for the nanomaterial entity that the form does not already include. |
Once you add the composing element, click Save or Cancel to close the window.
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To add a functionalizing entity
- Access a sample and composition.
- Click the Functionalizing Entity tab or the All tab and click Add next to Functionalizing Entity.
Both tabs provide customizations based on your Functionalizing Entity Type* selection.
Include Page Other options Other options Follow these steps to fill in the composition. Links are provided for additional details.
Anchor AddFunctionalizedEntity AddFunctionalizedEntity
Step... | Description... |
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Functionalizing Entity | Select the Entity Type and complete the entity information. Note: Entity types are described in the caNanoLab Glossary. |
Functionalizing Entity Properties | If you selected one of the following entity types, you need to fill in additional properties.
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Inherent Function Information | Add information about the functionalizing elements of the sample. |
Composition File | Add one or more files containing data that is relevant to the functionalizing entity or the derivation of its data. |
Copy to other samples with the same primary organization? | Select one or more samples in the list to which you want this composition data transferred. This option copies files and data to one or more selected samples "owned" by the same point of contact. |
When you finish, click Submit to save the data to the sample.
Defining a Functionalizing Entity
Fill in the following functionalized entity information.
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Entity Type | Select the functionalizing entity type. Note: Entity types are described in the caNanoLab Glossary. | ||||||
Chemical Name | Enter the chemical name for the functionalizing entity whose type you just selected. | ||||||
PubChem Data Source/PubChem ID |
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Amount/Amount Unit |
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Molecular Formula Type |
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Molecular Formula | Enter the chemical formula of the functionalizing entity. | ||||||
Activation Method | Select the method used to activate the functionality of the sample from the list.
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Activation Effect | Enter the functional effect of the entity. | ||||||
Description | Enter any additional composition information that the form does not include. |
Once you add the inherent function, click Save or Cancel to close the window.
Defining Functionalizing Entity Properties
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If you selected one of the Functionalizing Entity Types listed in the following table, the Properties section opens, and you must fill in additional information.
For Entity Type | Complete the Properties... | ||||||
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Antibody | |||||||
Biopolymer |
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Small Molecule | Add an Alternate Name for the Small Molecule. |
Defining Function Information
Fill in the following inherent function information for the functionalizing entity.
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Function Type |
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Description | Enter any additional composition information that the form does not include. |
When you are done, click Save or Cancel to close the window.
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In the Navigation Tree, a hyperlink for the new Composition characterization is added under the Functionalizing Entity. |
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You can enter basic annotation information describing the chemical association(s) of the sample and/or functionalizing entities of the sample.
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To enter chemical association information, you must enter at least two composing elements and/or at least one functionalizing entity to the sample entity. |
To add a chemical association
Click the Chemical Association tab or the All tab and click Add next to Chemical Association.
Both tabs provide customizations based on your Association Type* selection.
Follow these steps to fill in the association. Links are provided for additional details.
Anchor AddFunctionalizedEntity AddFunctionalizedEntity Complete... How to... Association Type* Select a chemical association type (required).
- Association
- Encapsulation
- Entrapment
- Intercallation
Description Enter any additional information that describes the chemical association of the two elements.
Elements Information In the Elements Information section, both Element boxes list the nanomaterial or functionalizing entities you defined while annotating the sample.
Each time you select an option, a list displays entities relating to your previous selection.
Select an option from each list.
The arrow between the Element text boxes symbolizes the association between the two.
Composition File Click Add to expand the page where you can add one or more files whose data is relevant to the functionalizing entity or the derivation of its data.
When you are finished, click Submit to save the association to the sample.
Adding Composition Files
You can add results in the form of supporting documents, such as a graphic, spreadsheet or images, to a sample or files relevant to the sample independent of the entity or chemical associations that you defined.
To add files to a sample
To add a file, click the Composition File tab or the All tab and scroll to the File section.
Click Add next to File.
- Upload, browse, and select the file or enter the file's URL where the document is located.
- Complete the following.
- Select the File Type (required), Document, Graph, Image, Movie, or Spreadsheet.
- Enter the File Title (required).
- Specify Keywords to associate with the file
- Enter a Description of additional information of the file.
Click Submit to add the file(s) to the sample.
Tip title Editing and Deleting a File Once you add a composition file, you can remove the file or edit the composition file information.
To delete a file, click Edit and on the Edit Composition File page, click Delete.
To update the file information, click Edit and on the Edit Composition File page, make the changes and click Update. The list of files is updated.