作者
Reza Mirzazadeh, Zaneta Andrusivova, Ludvig Larsson, Phillip T Newton, Leire Alonso Galicia, Xesús M Abalo, Mahtab Avijgan, Linda Kvastad, Alexandre Denadai-Souza, Nathalie Stakenborg, Alexandra B Firsova, Alia Shamikh, Aleksandra Jurek, Niklas Schultz, Monica Nistér, Christos Samakovlis, Guy Boeckxstaens, Joakim Lundeberg
发表日期
2023/1/31
期刊
Nature Communications
卷号
14
期号
1
页码范围
509
出版商
Nature Publishing Group UK
简介
Spatially resolved transcriptomics has enabled precise genome-wide mRNA expression profiling within tissue sections. The performance of methods targeting the polyA tails of mRNA relies on the availability of specimens with high RNA quality. Moreover, the high cost of currently available spatial resolved transcriptomics assays requires a careful sample screening process to increase the chance of obtaining high-quality data. Indeed, the upfront analysis of RNA quality can show considerable variability due to sample handling, storage, and/or intrinsic factors. We present RNA-Rescue Spatial Transcriptomics (RRST), a workflow designed to improve mRNA recovery from fresh frozen specimens with moderate to low RNA quality. First, we provide a benchmark of RRST against the standard Visium spatial gene expression protocol on high RNA quality samples represented by mouse brain and prostate cancer samples …
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