The following article applies to academic users.
If you're an enterprise user, please contact Benchling directly.
Create your Bioregistry
Click here to create your organization’s bioregistry. You’ll be asked to set up an organization (if you don’t have one) and assign initials for your team.
Set Up Your Bioregistry
Next, navigate to the Registry Settings
Here you will see a list of Schemas. Schemas allow you to define structured information you wish to capture about the different biological types in your lab. You can use schemas to model just about anything, but lets start with the basics.
Schemas for Bacteria Strain and Yeast Strain are included by default, and each have a set of Entity Fields associated to them.
Configure Entity Fields
Clicking into the Bacterial Strain schema will take you to the schema's configuration page.
For the Bacterial Strain schema below, all members in your organization will be required to include information about the host strain, embedded plasmid, resistance marker, and box location for every new bacterial strain.
Components of the File Field page
Icon: Your schema icon will appear throughout your registry and file listings.
Prefix: Schema prefixes help quickly identify sample types. For example, each new registered bacterial strains will have a “b” in its ID prefix (e.g. bNN001, bNN002, bNN003….). My yeast strains will have a y in its ID prefix (e.g. yNN001, yNN002, yNN003…). We recommend that prefixes are lowercase.
Name: The schema name will appear in filtering and file creation options.
Entity Type: This is the type of file that can use your schema.
- DNA Sequence: Entities that contain DNA, like plasmids and oligos.
- AA Sequence: Entities that contain single amino acid components, like heavy chain and light chains.
- Custom Entity: File type for data outside proteins and sequences, like strains, antibodies, mice, and more.
Field Format: All entities with this schema will receive these fields and their respective formats. Possible formats are:
- Text: A text field ideal for short text (e.g. DH10B)
- Long Text: A text field ideal for longer text, genotype description.
- Integer and Floating Point: For numerical values.
- Date: Users will be able to select a date from a calendar.
- Dropdowns: These allow picking a value from a list. Dropdown values can be created in the “Dropdowns” section below (ex. a list of antibiotic resistances).
- Links: These allow linking to other files in Benchling. DNA and Protein links allow searching for files of those types, and Schema links allow searching for a file matching the selected schema. (ex. a “Gene” field might have a “DNA Sequence Link” format and a “Parent Strain” field might have a “Schema Link / Strain” format)
Use dropdowns to keep the lab standardized on spelling and naming conventions, especially for important metadata like resistance markers.
- Access dropdowns from the Bioregistry Settings page. We’ve set you up with two default dropdowns, but you can create your own by selecting Create.
- Assign dropdowns to a File Field by clicking into the schema and selecting Dropdown/[Dropdown Name] from the format column. See the Schema Field section above.