Spatial Transcriptomics for OCT using 10x Genomics Visium
Andrew Houston, Siqi Chen, Feng Chen
Abstract
To detect gene expression spatially mapped across a fresh-frozen tissue sample adapted from 10x Genomics Visium protocol.
Steps
Visium Fresh-Frozen
Start here
If performing OCT tissue embedding for the first time be sure to consult pgs.5-9
If utilizing a new tissue type for the first time be sure to utilize the Tissue Optimization Guide which can be found here
RNA extraction and assessment is outlined in the above guide but not always necessary
Most OCT blocks have preserved RNA quality well due to their preservation/storage
Perform all fixation/H&E staining/imaging steps on the Visium Spatial Gene Expression Slide (PN-2000233)
Utilize the guide here
Typically it is not necessary to utilize a coverslip while imaging
Immediately proceed to the Visium Library Construction
Start on pg. 35 using this guide here
Sequence the libraries according to the requirements on pg. 59 of CG000239
