Aug 11, 2023
10x Protocols: Visium Fresh Frozen Tissue Optimization -- University of Minnesota TMCs (CG000238 Rev E)
- 10x Genomics1,
- Laura J Niedernhofer2,
- David A Bernlohr2
- 110x Genomics, [email protected];
- 2University of Minnesota, Minneapolis, MN USA
- Cellular Senescence Network (SenNet) Method Development Community
Protocol Citation: 10x Genomics, Laura J Niedernhofer, David A Bernlohr 2023. 10x Protocols: Visium Fresh Frozen Tissue Optimization -- University of Minnesota TMCs (CG000238 Rev E). protocols.io https://dx.doi.org/10.17504/protocols.io.bp2l69qxrlqe/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 03, 2023
Last Modified: August 11, 2023
Protocol Integer ID: 81372
Keywords: 10x Genomics, Visium, Fresh Frozen, OCT, UMN, UMinnesota, University of Minnesota, Spatial, Human, Niedernhofer, protocols from 10x genomic, visium spatial gene expression on fresh frozen, visium spatial gene expression, 10x protocol for tissue preparation guideline, visium fresh frozen tissue optimization, 10x genomic, 10x protocol for imaging guideline, tissue through visium, tissue optimization, 10x protocol cg000238, tissue preparation guideline, 10x protocol, genomic, gene expression, visium, 10x, gene, imaging guideline
Funders Acknowledgements:
NIH
Grant ID: 1U54AG07041-01
NIH
Grant ID: 1U54AG079754-01
Abstract
Protocols from 10x Genomics for Visium Spatial Gene Expression on Fresh Frozen / OCT samples. Completed without CytAssist component.
1. Version of protocol used:
10x protocol CG000238, Revision E -- Tissue optimization required prior to taking tissue through Visium
2. Additional protocols added for guidance:
10x protocol for imaging guidelines (CG000241, Rev D)
10x protocol for tissue preparation guidelines (CG000240, Rev D)
Please note that these protocols may not be the current version offered by 10x Genomics but were used to produce the specific datasets connected to them.
Troubleshooting
10x protocol CG000238, Revision E (Tissue Optimization):
10x FF Visium Spatial Tissue Optimization.pdf For adipose: Determined Tissue permeabilization time = 15 minutes
Additional protocols/guidelines
10x FF Visium Imaging Guidelines .pdf CG000241, Rev D10x FF Visium Spatial Tissue Preparation Guide.pdf CG000240, Rev D