CDD Vault Update (October 2020): Create Links Between Batches, Even Batches in Different Vaults

CDD Vault Update Logo
October 12, 2020

New Field Type for Linking Batches/Lots in CDD Vault

Given the increasing popularity of storing entities other than small molecules in CDD Vault, CDD now provides a new “Batch Link” field type that allows linking Batch records to other entities stored in the same or across separate CDD Vaults (if the Link Across Vaults feature is enabled for your CDD Account). This new field type is available under Settings > Vault > Batch Fields.

Scenario Use-Case 1

Derived cell lines are registered in order to associate assay test results. The Batch Link feature tracks parent-child relationships between Batches across Vaults.

Two commercial entities were purchased and registered in their respective vaults. The Plasmid DNA was transfected into the parent cell line, producing a derived child cell line expressing GFP. For each derived cell line entity, we are referencing the parent cell line obtained from commercial sources as well as the plasmid DNA that was transfected into the commercial cell line. Both the commercial parent cell line and the plasmid DNA are registered in CDD Vaults and therefore can be linked to using our new Batch Link data field feature.

Here, in the Cell Vault, CEL-07 was registered with two external links referencing entities stored in separate CDD Vaults:

  1. CEL-06 in the Cell Vault is the parent cell line
  2. DNA-01 is the DNA plasmid from the Plasmid Vault

cell vault example

Noteworthy Tips

  1. After clicking through on the CEL-06 entity ID, note the new “Links” sub-tab which lists all other entities that have referenced CEL-06. In this manner, each component is automatically updated with a forward link to the derived entity, found on the entity page.

Scenario Use-Case 2

A soil sample is collected and registered in CDD Vault. The sample is cultured and the culture is registered as an entity in CDD Vault. A bacterial colony is isolated and also registered as an entity in CDD Vault. Finally, a protein is purified from the isolated bacteria and registered as an entity in CDD Vault. This endpoint sample’s lineage is easily traced and represented across a series of Batch Link data fields created within multiple CDD Vaults.

soil sample example

In the above CDD Vault search results report, we:

  1. start with a soil sample collected from the field [TST-1012],
  2. culture a field sample [SJS-0671] to grow bacterial colonies,
  3. isolate a colony of interest [SJS-0669], and
  4. finally purify a protein from that bacterial strain [PRO-01].

Noteworthy Tips

  1. To easily trace lineage, add a picklist (or free-text) “Stage” Batch field to all relevant CDD Vaults. This field will identify your specific workflow steps. You can then “search across your Vaults” and sort your search results report by this lineage Stage chronology. An alternate strategy would involve using Projects to represent your lineage stages and you can simply include the Project Name in the search results table.
  2. Keep consistent naming of Batch Link fields across your multiple CDD Vaults.

To enable cross linking, the Vault Administrator should create one or more new Batch Link data field(s):

  1. Navigate to the Settings > Vault > Batch Fields page
  2. Click the “Add/Edit Batch Fields” pencil icon
  3. Scroll down to the bottom of the existing Batch fields
  4. Click the “Add a batch field” button
  5. Enter the new Batch field name
  6. Select the “Batch Link” option from the Data Type drop-down
  7. Optionally select if the value must be optional or required
  8. Click the green “Update batch fields” button

new batch link field type

This new field will store a link referencing a specific batch of another entity. When manually creating or editing a Batch to populate a Batch Link data field, users may use the CDD Vault “look-up” feature that searches for entities already registered in your CDD Vault(s).

search for entities registered in your vault

Batch Link data fields can also be populated using the Import Data wizard. Your import data file should contain a field or column of molecule-batch IDs which can be mapped directly into the new Batch Link data field.

Noteworthy Tips

  1. To insert Batch Links to entities stored in separate CDD Vaults, the Link Across Vaults feature must be enabled for your Account. To enable this feature, the Vault Administrator must email Support and request that the feature be activated.
  2. The “Show” page displayed when clicking on a specific Entity/Molecule ID now contains a new “Links” sub-tab. This page will display any ELN entry or Molecule-Batch that references this Entity, organized by Vault.

new “Links” sub-tab

Mapping Values into Molecule-Level Fields

CDD Vault allows users to populate data fields created at the Molecule level using the Data Import wizard. Generally, these data fields are designed to contain information relevant to the parent compound (as opposed to data relevant to a specific Batch of a Molecule).

Previously, in the Import Data wizard, these Molecule-level data fields were available for mapping in a drop-down window within a sub-menu of the Molecule Fields section.

sub-menu drop-down panel

With this release, this sub-menu drop-down panel has been removed and all available Molecule fields are listed in the Molecule Fields section of the Import Data wizard.

Molecule Fields section of the Import Data wizard