Aug 01, 2025
SOP54v1_TGD_GenotypingSubmissionforCollaborators
- Varsha Rajesh1
- 1Stanford University
Protocol Citation: Varsha Rajesh 2025. SOP54v1_TGD_GenotypingSubmissionforCollaborators. protocols.io https://dx.doi.org/10.17504/protocols.io.e6nvwk8jzvmk/v1
License: This is an open access protocol distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
We use this protocol and it's working
Created: May 01, 2022
Last Modified: August 01, 2025
Protocol Integer ID: 61762
Keywords: sop54v1-tgd-genotypingsubmissionforcollaborator, collaborator sample, sample, protocol
Abstract
This is the protocol to submit samples for genotyping for collaborator samples.
Troubleshooting
Before start
QC Template: 
Genotyping QC Template.xlsx
Genotyping QC Template.xlsx Go to Stanford ilabs: https://stanford.ilabsolutions.com/landing/7
Log in with your credentials, then select Core Facilities in the left hand side menu.
Select Stanford Genomics. Then select Request Services.
Select "Whole Genome Genotyping Assay Service Request (Genotyping)" in their list of services.
Fill out the first part of the form like so:
Fill out the second part of the form like so:
In Project Title, write the correct batch number of this genotyping batch.
Upload the Genotyping QC file for the batch of samples you are submitting, in the "QC Results File" section. The template for this is here: Genotyping QC Template.xlsx
Genotyping QC Template.xlsx Fill out the sample information form - you can download an excel template and then reupload to make it easier.
In the payment section, fill out the PTA information. You will need to know the PTA breakdown and distribution for each sample type (each collaborator might require a different grant be used). Have that reflected here.
Click submit request to core.
Prepare your samples in a 96 well plate. Remember to indicate which sample went where in your QC spreadsheet, in plate layout.
Dilute samples to 50 ng/uL in 15 uL of elution buffer. If samples are very low in concentration (below 10 ng/uL), provide the entire sample in a tube to the Stanford Genomics core, and indicate that it needs speed vacuuming in the QC spreadsheet.