Submit samples for analysis to Pre-Pilot-Plant (PPP)

Benchling has replaced one of its modules (“Requests”) with another new module (“Workflow”). To discover how to submit samples for analysis to the Pre-Pilot-Plant (PPP) team using Workflows, follow this guide.

Grant access to the PPP team to your Project

Add Pre-Pilot Plant (PPP) Translational Benchling Team to the list of collaborators in your Project to enable the analysts to access the samples you are going to register.

  1. Navigate to your Benchling Project settings ⚙️

  2. Add the Pre-Pilot Plant (PPP) Translational Benchling Team to the list of collaborators (with “WRITE” access)

grant access to PPP team

Save edits to the settings by clicking “Done”.

grant access to PPP team

→ How to add a user or a Team as collaborator in your project

Register samples directly in your Notebook Entry

In order to register samples to submit to PPP, you can follow a Sub-template created by LIMS support for this purpose.

Follow this video to learn how to do it:

Summary of the steps:

  1. Navigate to your experiment Notebook Entry

  2. Insert the sub-template “PPP Sample Submission” in the Entry

    → You can choose between different samples storage options: Plate, Box, single Vials.

  3. Fill-in the registration and inventory tables that appeared in your Notebook Entry with the required metadata.

    Note

    When moving samples in a Box or a Plate, please do so row-wise (A1, A2, A3…) as showed in the video.

  4. Copy (Command+C / CTRL+C) the newly-registered samples entities from the last table

Create a Workflow

In order to submit your newly-registered samples for analysis to the PPP team, you need to create a Workflow and attach the samples within it.

Note

In order to submit your newly-registered samples for analysis to the PPP team, you need to create a Workflow and attach the samples within it. The Workflow to submit samples to the PPP team is labelled with “PPP”.

Follow this video to learn how to do it:

VERY IMPORTANT!!

When creating a workflow, paste all the samples in one single cell in the “PPP Samples” column (as showed in the screenshot downbelow, and in the video). If you have sample-level metadata, please add them in the previous step (when you are registering the samples in your Notebook entry).

Paste samples in one cell

You can achieve it by using the “Paste special” button:

Use Paste Special to paste all samples in one cell

Summary of the steps:

  1. Create a Workflow of the relevant type, based on the analysis your are interested in.

  2. Select “Table” format for your Task table

create a Workflow

  1. Paste the samples entities in a single PPP Samples column cell

Use Paste Special to paste all samples in one cell

  1. Fill-in the remaining metadata fields.

→ Remember to specify the correct “Project number” and to save the Workflow in the relevant Project folder (the video’s Project number and Project folder are used as examples).

  1. Click on “Create”. The analyst will receive an email and therefore will be informed about your submission.

List of available Workflows

This is the available list of Workflows (currently only one for the PPP Team):

create a Workflow



If you have any question, don’t hesitate to contact us at lims_support@biosustain.dtu.dk.